Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 105 of 187
Found at i:31045421 original size:12 final size:13
Alignment explanation
Indices: 31045394--31045437 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
31045384 TGTAATGATA
31045394 TTATTGTACTATAT
1 TTATTGTA-TATAT
31045408 TTATTGTA-ATAT
1 TTATTGTATATAT
31045420 TTATTGTATTATAT
1 TTATTGTA-TATAT
31045434 TTAT
1 TTAT
31045438 GTGTTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.43
14 16 0.57
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (13 bp):
TTATTGTATATAT
Found at i:31045426 original size:26 final size:28
Alignment explanation
Indices: 31045383--31045437 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
31045373 TTTAGTTTTT
31045383 TTGTAATGATATTATTGTACTATATTTA
1 TTGTAATGATATTATTGTACTATATTTA
*
31045411 TTGTAAT-AT-TTATTGTATTATATTTA
1 TTGTAATGATATTATTGTACTATATTTA
31045437 T
1 T
31045438 GTGTTTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 17 0.65
27 2 0.08
28 7 0.27
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (28 bp):
TTGTAATGATATTATTGTACTATATTTA
Found at i:31051531 original size:3 final size:3
Alignment explanation
Indices: 31051514--31051614 Score: 150
Period size: 3 Copynumber: 33.7 Consensus size: 3
31051504 GTGCGTCCAT
* * *
31051514 TTC TTC TCC TCC TTC TTC TTC TTC TTC TTC TTC TTA TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
31051562 TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC -TC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
31051607 TTC TTC TT
1 TTC TTC TT
31051615 TGTCGGTCTA
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 2 0.02
3 86 0.96
4 2 0.02
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:31055037 original size:24 final size:23
Alignment explanation
Indices: 31054992--31055058 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
31054982 CGTTGTGGTT
*
31054992 AAAACC-ACCGATAACAATATACAG
1 AAAACCTACCAATAA-AA-ATACAG
31055016 AAAATCCTACCAATAAAAATACAG
1 AAAA-CCTACCAATAAAAATACAG
* * *
31055040 ACAAGCTGCCAATAAAAAT
1 AAAACCTACCAATAAAAAT
31055059 GAGATAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 13 0.35
24 13 0.35
25 4 0.11
26 7 0.19
ACGTcount: A:0.55, C:0.22, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAACCTACCAATAAAAATACAG
Found at i:31059724 original size:19 final size:19
Alignment explanation
Indices: 31059696--31059737 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
31059686 TTTCATGCAC
* *
31059696 ACACAGTTCCACTAATCAG
1 ACACAATTCCACTAATCAA
31059715 ACACAATTCCACTAATCAA
1 ACACAATTCCACTAATCAA
31059734 ACAC
1 ACAC
31059738 CATTAACGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.33, G:0.05, T:0.19
Consensus pattern (19 bp):
ACACAATTCCACTAATCAA
Found at i:31066341 original size:9 final size:9
Alignment explanation
Indices: 31066327--31066357 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
31066317 GTTAAACGAA
31066327 TCGAGTTAT
1 TCGAGTTAT
*
31066336 TCGAGTTAA
1 TCGAGTTAT
31066345 TCGAGTTAT
1 TCGAGTTAT
31066354 TCGA
1 TCGA
31066358 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:31076976 original size:21 final size:21
Alignment explanation
Indices: 31076951--31076990 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31076941 GTCGTTGTTC
*
31076951 CTACTTCCATTTTTACTATTT
1 CTACTTCCATTTCTACTATTT
*
31076972 CTACTTTCATTTCTACTAT
1 CTACTTCCATTTCTACTAT
31076991 CCTTATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (21 bp):
CTACTTCCATTTCTACTATTT
Found at i:31077517 original size:44 final size:44
Alignment explanation
Indices: 31077441--31077911 Score: 285
Period size: 44 Copynumber: 10.5 Consensus size: 44
31077431 TAACCTACTA
* * *
31077441 CAACTTCAGGG-GTATAGGAATT-GTAGTTTTAATCTACTCCACTG
1 CAACTTCAGGGAG-ATAAG-ATTCGTAGCTTTAATCGACTCCACTG
** * *
31077485 CAACTTTTGGGAGATAAGATTCGTAGCTTTAATCGATTCCGCTG
1 CAACTTCAGGGAGATAAGATTCGTAGCTTTAATCGACTCCACTG
** * * *
31077529 CAACTTCAGGGAGATAAGACTCGCTACGGTAAATTTAATTTGA--GCATCTA
1 CAACTTCAGGGAGATAAGA-T---T-C-GTAGCTTTAA-TCGACTCCA-CTG
** ** * * * * * *
31077579 CAACTTC--GGAGGTATGGGATTTATCGCTTCAATCTAGTCTATTG
1 CAACTTCAGGGA-G-ATAAGATTCGTAGCTTTAATCGACTCCACTG
** * *
31077623 CAACTTCAATGAGATAAGATTTGTAGCTTCAATCTG-CTCCACTG
1 CAACTTCAGGGAGATAAGATTCGTAGCTTTAATC-GACTCCACTG
* * * * * * *
31077667 CAACTTGAAGGAGATAAGATTTGCTATCTTCAATCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTCG-TAGCTTTAATCGACTCCACTG
* * *
31077712 CAACTTCAGGGAGATAAGATTTGTAGTTTTAATCTGA-TCCACTA
1 CAACTTCAGGGAGATAAGATTCGTAGCTTTAATC-GACTCCACTG
* * * *
31077756 CAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTG-CTTCACTA
1 CAACTTCAGGGAGATAAGATTCGTAGCTTTAATC-GACTCCACTG
* * * *
31077800 CAACTTCAGGGAGATATGATTTGTGGCTTTAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTCGTAGCTTTAATCGACTCCACTG
* * * * *
31077844 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTAATCCACTA
1 CAACTTCAGGGAGATAAGATTCGTAGCTTTAATCGACTCCACTG
*
31077888 CAACTTTAGGGAGATAAGATTCGT
1 CAACTTCAGGGAGATAAGATTCGT
31077912 TATGATGACT
Statistics
Matches: 342, Mismatches: 63, Indels: 44
0.76 0.14 0.10
Matches are distributed among these distances:
43 5 0.01
44 259 0.76
45 43 0.13
46 3 0.01
48 4 0.01
49 4 0.01
50 21 0.06
51 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTCGTAGCTTTAATCGACTCCACTG
Found at i:31077831 original size:88 final size:88
Alignment explanation
Indices: 31077437--31077908 Score: 407
Period size: 88 Copynumber: 5.3 Consensus size: 88
31077427 ATTTTAACCT
* * * **
31077437 ACTACAACTTCAGGG-GTATAGGAATTGTAGTTTTAATCT-ACTCCACTGCAACTTTTGGGAGAT
1 ACTACAACTTCAGGGAG-ATAAGATTTGTAGCTTTAATCTGA-TCCACTGCAACTTCAGGGAGAT
* * * *
31077500 AAGATTCGTAGCTTTAATCGATTCC
64 AAGATTTGTAGCTTCAATCTACTCC
* * * ** * * *
31077525 GCTGCAACTTCAGGGAGATAAGACTCGCTACGGTAAATTTAATTTGA-GCATCTACAACTTC--G
1 ACTACAACTTCAGGGAGATAAGA-T---T--TGTAGCTTTAATCTGATCCA-CTGCAACTTCAGG
** * * * *
31077587 GAGGTATGGGATTTATCGCTTCAATCTAGTCT
59 GA-G-ATAAGATTTGTAGCTTCAATCTACTCC
* * ** * * * *
31077619 ATTGCAACTTCAATGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTGAAGGAGATAA
1 ACTACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGATAA
*
31077684 GATTTGCTATCTTCAATCTACTCC
66 GATTTG-TAGCTTCAATCTACTCC
* *
31077708 ACTACAACTTCAGGGAGATAAGATTTGTAGTTTTAATCTGATCCACTACAACTTCAGGGAGATAA
1 ACTACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGATAA
* * * *
31077773 GATTTGTGGCTTTAATCTGCTTC
66 GATTTGTAGCTTCAATCTACTCC
* *
31077796 ACTACAACTTCAGGGAGATATGATTTGTGGCTTTAATCT-ACTCCACTGCAACTTCAGGGAGATA
1 ACTACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGA-TCCACTGCAACTTCAGGGAGATA
*
31077860 AGATTTGTAGCTTCAATCTAATCC
65 AGATTTGTAGCTTCAATCTACTCC
*
31077884 ACTACAACTTTAGGGAGATAAGATT
1 ACTACAACTTCAGGGAGATAAGATT
31077909 CGTTATGATG
Statistics
Matches: 302, Mismatches: 66, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
87 1 0.00
88 155 0.51
89 78 0.26
90 4 0.01
92 4 0.01
93 4 0.01
94 55 0.18
95 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (88 bp):
ACTACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGATAA
GATTTGTAGCTTCAATCTACTCC
Found at i:31077884 original size:132 final size:133
Alignment explanation
Indices: 31077604--31077908 Score: 414
Period size: 132 Copynumber: 2.3 Consensus size: 133
31077594 GGGATTTATC
* * * * ** *
31077604 GCTTCAATCTAGTCTATTGCAACTTCAATGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
1 GCTTCAATCTAATCCACTACAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACA
* *
31077669 ACTTGAAGGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
66 ACTTCAAGGAGATAAGATTTGCTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
31077734 GTA
131 GTA
* * * * * *
31077737 GTTTTAATCTGATCCACTACAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTTCACTACA
1 GCTTCAATCTAATCCACTACAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACA
* * * * *
31077802 ACTTCAGGGAGATATGATTTG-TGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
66 ACTTCAAGGAGATAAGATTTGCTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
31077866 GTA
131 GTA
*
31077869 GCTTCAATCTAATCCACTACAACTTTAGGGAGATAAGATT
1 GCTTCAATCTAATCCACTACAACTTCAGGGAGATAAGATT
31077909 CGTTATGATG
Statistics
Matches: 148, Mismatches: 24, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
132 78 0.53
133 70 0.47
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (133 bp):
GCTTCAATCTAATCCACTACAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACA
ACTTCAAGGAGATAAGATTTGCTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
GTA
Found at i:31077903 original size:221 final size:223
Alignment explanation
Indices: 31077471--31077908 Score: 519
Period size: 221 Copynumber: 2.0 Consensus size: 223
31077461 TTGTAGTTTT
* ** * *
31077471 AATCTACTCCACTGCAACTTTTGGGAGATAAGATTCGTAGCTTTAATCGATTCCGCTGCAACTTC
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTCGTAGCTTTAATCGATTCCACTACAACTTC
* *
31077536 AGGGAGATAAGACTCGCTACGGTAAATTTAATTTGAGCATCTACAACTTCGGAGGTATGGGATTT
66 AGGGAGATAAGACTCGCTA-GG--AATTTAATCTGAGCATCTACAACTTCGGAGATAT-GGATTT
* * * * **
31077601 ATCGCTTCAATCTAGTCTATTGCAACTTCAATGAGATAAGATTTGTAGCTTCAATCTGCTCCACT
127 ATCGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTAATCCACT
*
31077666 GCAACTTGAAGGAGATAAGATTTGCTATCTTC
192 ACAACTTGAAGGAGATAAGATTTGCTATCTTC
* *
31077698 AATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTAGTTTTAATCTGA-TCCACTACAACTT
1 AATCTACTCCACTACAACTTCAGGGAGATAAGATTCGTAGCTTTAATC-GATTCCACTACAACTT
* * * **
31077762 CAGGGAGATAAGATTTG-T-GG-CTTTAATCTGCTTCA-CTACAACTTCAGGGAGATAT-GATTT
65 CAGGGAGATAAGACTCGCTAGGAATTTAATCTG-AGCATCTACAACTTC--GGAGATATGGATTT
* * * *
31077822 GTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTAATCCACT
127 ATCGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTAATCCACT
* *
31077887 ACAACTTTAGGGAGATAAGATT
192 ACAACTTGAAGGAGATAAGATT
31077909 CGTTATGATG
Statistics
Matches: 180, Mismatches: 27, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
221 97 0.54
222 2 0.01
223 7 0.04
224 2 0.01
226 1 0.01
227 69 0.38
228 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (223 bp):
AATCTACTCCACTACAACTTCAGGGAGATAAGATTCGTAGCTTTAATCGATTCCACTACAACTTC
AGGGAGATAAGACTCGCTAGGAATTTAATCTGAGCATCTACAACTTCGGAGATATGGATTTATCG
CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTAATCCACTACAA
CTTGAAGGAGATAAGATTTGCTATCTTC
Found at i:31085876 original size:19 final size:20
Alignment explanation
Indices: 31085852--31085902 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
31085842 GTCTTTTTTT
*
31085852 ATGAAATTTAATGC-ATATG-
1 ATGAAATGTAATGCTA-ATGA
31085871 ATGAAATGTAATGCTAATGA
1 ATGAAATGTAATGCTAATGA
31085891 ATGAAATG-AATG
1 ATGAAATGTAATG
31085903 AAAAAAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGAAATGTAATGCTAATGA
Found at i:31085975 original size:19 final size:20
Alignment explanation
Indices: 31085945--31085992 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
31085935 TTAGAACAAC
*
31085945 TTTACTATAAAACAAATCT-T
1 TTTAC-ATAAAACAAATATAT
31085965 TTTACATAAAACAAATATAT
1 TTTACATAAAACAAATATAT
31085985 TTTACATA
1 TTTACATA
31085993 TGCAATCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTACATAAAACAAATATAT
Found at i:31090785 original size:21 final size:21
Alignment explanation
Indices: 31090755--31090795 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31090745 TATTTTGTCG
*
31090755 CTATTCCTGCTTCTGTTTCTA
1 CTATTCCTGCTTCTATTTCTA
*
31090776 CTATTTCTGCTTCTATTTCT
1 CTATTCCTGCTTCTATTTCT
31090796 GCTGTCCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.27, G:0.07, T:0.56
Consensus pattern (21 bp):
CTATTCCTGCTTCTATTTCTA
Found at i:31093504 original size:40 final size:38
Alignment explanation
Indices: 31093458--31093588 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 38
31093448 AAATAGACTT
*
31093458 TTAGCGGCGTTTGGATAAAAAACGCCACTAAAAATAATCA
1 TTAGCGGCGTTT--ATAAAAAACGCCGCTAAAAATAATCA
* *
31093498 TTAGCGGCGCTTTAAAAAAAACGCCGCTAAAGATCAAGT-A
1 TTAGCGGCG-TTTATAAAAAACGCCGCTAAAAAT-AA-TCA
* * ** *
31093538 TTAGCGGCACTTTTTGGAAAACGCCGCTAAAAATAAGCA
1 TTAGCGGC-GTTTATAAAAAACGCCGCTAAAAATAATCA
31093577 TTAGCGGCGTTT
1 TTAGCGGCGTTT
31093589 TCCAATAAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.04
39 29 0.39
40 39 0.52
41 4 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (38 bp):
TTAGCGGCGTTTATAAAAAACGCCGCTAAAAATAATCA
Found at i:31093702 original size:41 final size:40
Alignment explanation
Indices: 31093640--31093909 Score: 314
Period size: 41 Copynumber: 6.7 Consensus size: 40
31093630 GTTTTCGAGG
* * *
31093640 CTTTAGTGGC-TTTTTTAAAAAGCGTCGCTAATGCTCGGCT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGG-T
*
31093680 CTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCGTGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCG-GT
* * * * *
31093721 CTTTAGCGCCGTTTTTGGAAAATCGCCGCTAGTGCTCAGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-GGT
* * **
31093762 CGTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
*
31093802 -TTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTCAGGG
1 CTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTC-GGT
* **
31093842 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCTAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
31093882 -TTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
31093910 AAAAAAATTT
Statistics
Matches: 194, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.01
39 58 0.30
40 8 0.04
41 122 0.63
42 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGT
Found at i:31093848 original size:80 final size:80
Alignment explanation
Indices: 31093641--31093909 Score: 364
Period size: 80 Copynumber: 3.4 Consensus size: 80
31093631 TTTTCGAGGC
* * * * *
31093641 TTTAGTGGC-TTTTTTAAAAAGCGTCGCTAATGCTC-GGCTCTTTAGCGGTGTTTTTGAAAAAGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGG-GCTTTAGCGGCGTTTTTGAAAAAGC
*
31093704 GCCGCTAATGCTCGTGT
65 GCCGCTAATGCTC-TAT
* * * * * *
31093721 CTTTAGCGCCGTTTTTGGAAAATCGCCGCTAGTGCTCAGGGCGTTAGCGGCGTTTTTGAAGAAGC
1 -TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAAGC
31093786 GCCGCTAATGCTCTAT
65 GCCGCTAATGCTCTAT
*
31093802 TTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAATAAGC
1 TTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAAGC
31093866 GCCGCTAATGCTCTAT
65 GCCGCTAATGCTCTAT
31093882 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
31093910 AAAAAAATTT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.01
80 95 0.57
81 12 0.07
82 55 0.33
83 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (80 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAAGCG
CCGCTAATGCTCTAT
Found at i:31094373 original size:7 final size:7
Alignment explanation
Indices: 31094361--31094404 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
31094351 TTATGTGCTA
31094361 AGGGTTT
1 AGGGTTT
31094368 AGGGTTTT
1 AGGG-TTT
31094376 AGGGTTT
1 AGGGTTT
31094383 A-GGTTT
1 AGGGTTT
*
31094389 ATGGTTT
1 AGGGTTT
31094396 AGGGTTT
1 AGGGTTT
31094403 AG
1 AG
31094405 ATAAACTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
6 6 0.18
7 21 0.62
8 7 0.21
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
AGGGTTT
Found at i:31094401 original size:14 final size:14
Alignment explanation
Indices: 31094361--31094404 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
31094351 TTATGTGCTA
31094361 AGGGTTTAGGGTTTT
1 AGGGTTTAGGG-TTT
31094376 AGGGTTTA-GGTTT
1 AGGGTTTAGGGTTT
*
31094389 ATGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
31094403 AG
1 AG
31094405 ATAAACTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 10 0.38
14 8 0.31
15 8 0.31
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
AGGGTTTAGGGTTT
Found at i:31095107 original size:13 final size:15
Alignment explanation
Indices: 31095079--31095110 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
31095069 CTCGTATTAT
31095079 TATTAATTTAATATA
1 TATTAATTTAATATA
31095094 TATTAA-TT-ATATA
1 TATTAATTTAATATA
31095107 TATT
1 TATT
31095111 TTCCATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATTTAATATA
Found at i:31098124 original size:33 final size:33
Alignment explanation
Indices: 31098085--31098153 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
31098075 ATTTTTATTC
31098085 TATAGTTAAGTTAAGTTGCTAATTTTATTTTCT
1 TATAGTTAAGTTAAGTTGCTAATTTTATTTTCT
31098118 TATAGTTAAGTTAAGTTGCTAATTTTATTTTCT
1 TATAGTTAAGTTAAGTTGCTAATTTTATTTTCT
31098151 TAT
1 TAT
31098154 CTACCTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.55
Consensus pattern (33 bp):
TATAGTTAAGTTAAGTTGCTAATTTTATTTTCT
Found at i:31098964 original size:43 final size:43
Alignment explanation
Indices: 31098857--31099087 Score: 292
Period size: 43 Copynumber: 5.4 Consensus size: 43
31098847 TTTAAAGATA
31098857 TGTT-TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTC-
1 TGTTCTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCT
* * *
31098898 TGATATTTAGCGGCGTTTGTAG-GAAAAGCGCCGCTAAAGGTCA
1 TGTTCTTTAGCGGCGTTTGT-GTGAAAAGCGCCGCTAAAGGTCT
* *
31098941 TGATCTTTAGCGGCGTTTGTAG-GAAAAGTGCCGCTAAAGGTCT
1 TGTTCTTTAGCGGCGTTTGT-GTGAAAAGCGCCGCTAAAGGTCT
* * * *
31098984 TGTTCTATAACGGCGTTTGTGTAAAAAGTGCCGCTAAAGGTCT
1 TGTTCTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCT
*
31099027 TGTTCTATT-GCGGCGTTTGTGTGAAATGCGCCGCTAAAGGTCT
1 TGTTCT-TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCT
* *
31099070 TGTTCTATAGCGGGGTTT
1 TGTTCTTTAGCGGCGTTT
31099088 ATTGCTAAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
41 3 0.02
42 37 0.22
43 128 0.76
44 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (43 bp):
TGTTCTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCT
Found at i:31100639 original size:19 final size:19
Alignment explanation
Indices: 31100615--31100651 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31100605 TGATGAAAAT
*
31100615 AGGAACTACACTATTTTAA
1 AGGAACAACACTATTTTAA
*
31100634 AGGAACAACGCTATTTTA
1 AGGAACAACACTATTTTA
31100652 GAGTGACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (19 bp):
AGGAACAACACTATTTTAA
Found at i:31101970 original size:101 final size:102
Alignment explanation
Indices: 31101855--31102039 Score: 313
Period size: 101 Copynumber: 1.8 Consensus size: 102
31101845 AAAGTGATGG
*
31101855 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-AGA-A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-ATAGTGAT-GGTCACATGTGTAG
31101917 TACTATGTGCAGGCTACTATGCAAACTGGATAGCTTTGA
64 TACTATGTGCAGGCTACTATGCAAACTGGATAGCTTTGA
*
31101956 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTGTAGTA
31102021 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
31102040 TGAACCGATA
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
101 39 0.49
102 36 0.46
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCAAACTGGATAGCTTTGA
Found at i:31101985 original size:51 final size:49
Alignment explanation
Indices: 31101847--31102039 Score: 169
Period size: 51 Copynumber: 3.8 Consensus size: 49
31101837 TAAAAGTGAA
* * * *
31101847 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTG-TACCAGA-
1 AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTA--TGAAACGA-AT
* * *
31101897 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCAAACTGGAT
1 AGTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATG-AAAC-GAAT
* * * *
31101948 AGCT-TTGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAT
1 AG-TGATGATCACATGTGTAGTACTATGTGCAGGCTACTA--TGAAACGAAT
*
31101999 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATG
31102040 TGAACCGATA
Statistics
Matches: 118, Mismatches: 15, Indels: 21
0.77 0.10 0.14
Matches are distributed among these distances:
48 2 0.02
49 6 0.05
50 36 0.31
51 68 0.58
52 3 0.03
53 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
AGTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGAAACGAAT
Found at i:31102041 original size:26 final size:26
Alignment explanation
Indices: 31101961--31102041 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
31101951 TTTGATCACG
31101961 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
31101987 CGTGTA-T-CGAATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
31102012 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
31102038 TGTG
1 TGTG
31102042 AACCGATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:31102284 original size:16 final size:16
Alignment explanation
Indices: 31102263--31102294 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31102253 TGATTGAAAG
*
31102263 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
31102279 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
31102295 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:31104873 original size:29 final size:31
Alignment explanation
Indices: 31104800--31104877 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
31104790 TTAATTTTTG
* * *
31104800 AAAAGTAAAGGGACTAAAATTTATCAATTTA
1 AAAAGTACAGGGACTAAAATTGATCAATATA
*
31104831 AAAAGTACAAGGACTAAAATTGATCAA-AT-
1 AAAAGTACAGGGACTAAAATTGATCAATATA
31104860 AAAAGTACAGGGACTAAA
1 AAAAGTACAGGGACTAAA
31104878 TTTGTAACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 17 0.40
30 1 0.02
31 24 0.57
ACGTcount: A:0.54, C:0.09, G:0.15, T:0.22
Consensus pattern (31 bp):
AAAAGTACAGGGACTAAAATTGATCAATATA
Found at i:31119192 original size:9 final size:9
Alignment explanation
Indices: 31119178--31119226 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
31119168 AACATCACCA
31119178 TCCTCATCG
1 TCCTCATCG
31119187 TCCTCATCG
1 TCCTCATCG
* *
31119196 TCGTCGTCG
1 TCCTCATCG
*
31119205 TCCTCACCG
1 TCCTCATCG
31119214 TCCTCATCG
1 TCCTCATCG
31119223 TCCT
1 TCCT
31119227 TTTTGCAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.08, C:0.45, G:0.14, T:0.33
Consensus pattern (9 bp):
TCCTCATCG
Found at i:31119207 original size:18 final size:18
Alignment explanation
Indices: 31119172--31119226 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
31119162 CAAAGAAACA
*
31119172 TCACCATCCTCATCGTCC
1 TCACCGTCCTCATCGTCC
* * *
31119190 TCATCGTCGTCGTCGTCC
1 TCACCGTCCTCATCGTCC
31119208 TCACCGTCCTCATCGTCC
1 TCACCGTCCTCATCGTCC
31119226 T
1 T
31119227 TTTTGCAACC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.11, C:0.45, G:0.13, T:0.31
Consensus pattern (18 bp):
TCACCGTCCTCATCGTCC
Found at i:31121684 original size:13 final size:13
Alignment explanation
Indices: 31121666--31121759 Score: 107
Period size: 13 Copynumber: 7.1 Consensus size: 13
31121656 ATTAAAAGTC
*
31121666 AAAACATTATATT
1 AAAACAGTATATT
31121679 AAAACAGTATATTT
1 AAAACAGTATA-TT
* * *
31121693 ATAATAGTGTATT
1 AAAACAGTATATT
*
31121706 AAAACAATATATT
1 AAAACAGTATATT
*
31121719 AAAAAAGTATATTT
1 AAAACAGTATA-TT
*
31121733 ATAACAGTATATT
1 AAAACAGTATATT
31121746 AAAACAGTATATT
1 AAAACAGTATATT
31121759 A
1 A
31121760 CATTAAAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
13 45 0.68
14 21 0.32
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.36
Consensus pattern (13 bp):
AAAACAGTATATT
Found at i:31121721 original size:40 final size:40
Alignment explanation
Indices: 31121666--31121759 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
31121656 ATTAAAAGTC
* * * *
31121666 AAAACATTATATTAAAACAGTATATTTATAATAGTGTATT
1 AAAACAATATATTAAAAAAGTATATTTATAACAGTATATT
31121706 AAAACAATATATTAAAAAAGTATATTTATAACAGTATATT
1 AAAACAATATATTAAAAAAGTATATTTATAACAGTATATT
*
31121746 AAAACAGTATATTA
1 AAAACAATATATTA
31121760 CATTAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.36
Consensus pattern (40 bp):
AAAACAATATATTAAAAAAGTATATTTATAACAGTATATT
Found at i:31127308 original size:13 final size:13
Alignment explanation
Indices: 31127290--31127314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31127280 TTGATTTGAT
31127290 TTGATTATGTAAA
1 TTGATTATGTAAA
31127303 TTGATTATGTAA
1 TTGATTATGTAA
31127315 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:31128687 original size:13 final size:13
Alignment explanation
Indices: 31128669--31128698 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31128659 AGCCCAAACT
31128669 CAATTACCCAACC
1 CAATTACCCAACC
31128682 CAATTACCCAACC
1 CAATTACCCAACC
31128695 CAAT
1 CAAT
31128699 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:31128851 original size:9 final size:9
Alignment explanation
Indices: 31128839--31128906 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
31128829 AAATAAAAAA
31128839 AATTCGGGT
1 AATTCGGGT
31128848 AATTCGGGT
1 AATTCGGGT
*
31128857 ATTTTTC-GGT
1 A--ATTCGGGT
*
31128867 AATTCGGTT
1 AATTCGGGT
*
31128876 AATTCGGTT
1 AATTCGGGT
31128885 AATTCGGGT
1 AATTCGGGT
31128894 AATTCGGGT
1 AATTCGGGT
31128903 AATT
1 AATT
31128907 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
8 3 0.06
9 42 0.81
10 4 0.08
11 3 0.06
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:31132930 original size:57 final size:59
Alignment explanation
Indices: 31132827--31132967 Score: 182
Period size: 57 Copynumber: 2.4 Consensus size: 59
31132817 GGTAAAAAGG
31132827 ATCTAGCCCGGACGGGTGATCCTTTCCTGATATAGCCCTCCCGAAGAATATGTGTGAAAAAT
1 ATCTAGCCCGGACGGGTGATCC-TT-CTGATATAGCCCTCCCGAAGAATATGTG-GAAAAAT
*
31132889 ATCTAGCCCGGATGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG-AAAAT
1 ATCTAGCCCGGACGGGTGATCCTTCTGATATAGCCCTCCCGAAGAATATGTGGAAAAAT
* *
31132944 GGATTTAGCCCGGACGGGTAATCC
1 --ATCTAGCCCGGACGGGTGATCC
31132968 GAATTAGGGT
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
55 5 0.07
56 1 0.01
57 44 0.61
58 1 0.01
59 1 0.01
61 1 0.01
62 19 0.26
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (59 bp):
ATCTAGCCCGGACGGGTGATCCTTCTGATATAGCCCTCCCGAAGAATATGTGGAAAAAT
Found at i:31134443 original size:172 final size:172
Alignment explanation
Indices: 31134157--31134501 Score: 618
Period size: 172 Copynumber: 2.0 Consensus size: 172
31134147 CTACTTGCGC
*
31134157 AGTCTTCACTAGAATGATCAAAACTTGAGCTCCTGAACTCAAAATCAAGTTATTCAAAGTTAATT
1 AGTCTTCACTAGAATGATCAAAACTTGAGCTCCTGAACTCAAAATCAAGTTATTCAAAGTGAATT
* * *
31134222 TTGAAGCTAAAATATAGATATTCGAACTCTACGAAGACATCTCAACCCAGAAATGTCAAGATCCC
66 TTGAAGCTAAAAGATAGACATTCGAACTCCACGAAGACATCTCAACCCAGAAATGTCAAGATCCC
31134287 ATCCAAAACGTCATCACAATTCTACTGATTTTCCAAGCTTAA
131 ATCCAAAACGTCATCACAATTCTACTGATTTTCCAAGCTTAA
*
31134329 AGTCTTCACTAGAATGATCATAACTTGAGCTCCTGAACTCAAAATCAAGTTATTCAAAGTGAATT
1 AGTCTTCACTAGAATGATCAAAACTTGAGCTCCTGAACTCAAAATCAAGTTATTCAAAGTGAATT
* * *
31134394 TTGAAGCTAAAAGATAGACCTTCGAACTCCATGAAGACATTTCAACCCAGAAATGTCAAGATCCC
66 TTGAAGCTAAAAGATAGACATTCGAACTCCACGAAGACATCTCAACCCAGAAATGTCAAGATCCC
31134459 ATCCAAAACGTCATCACAATTCTACTGATTTTCCAAGCTTAA
131 ATCCAAAACGTCATCACAATTCTACTGATTTTCCAAGCTTAA
31134501 A
1 A
31134502 AATTGGTAGC
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
172 165 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (172 bp):
AGTCTTCACTAGAATGATCAAAACTTGAGCTCCTGAACTCAAAATCAAGTTATTCAAAGTGAATT
TTGAAGCTAAAAGATAGACATTCGAACTCCACGAAGACATCTCAACCCAGAAATGTCAAGATCCC
ATCCAAAACGTCATCACAATTCTACTGATTTTCCAAGCTTAA
Found at i:31144677 original size:18 final size:18
Alignment explanation
Indices: 31144655--31144690 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31144645 TGAACGAACA
31144655 AAAAAGAAAAACCGAAAGT
1 AAAAA-AAAAACCGAAAGT
*
31144674 AAAAAAAAAAGCGAAAG
1 AAAAAAAAAACCGAAAG
31144691 ATGCAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.72, C:0.08, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAACCGAAAGT
Found at i:31144848 original size:22 final size:25
Alignment explanation
Indices: 31144818--31144872 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
31144808 AAAAAATGTA
31144818 TTTCGTTTTT-CT-CTTATTT-TCTT
1 TTTCGTTTTTGCTGC-TATTTCTCTT
31144841 TTTC-TTTTTGCTGCTATTTCTCTTT
1 TTTCGTTTTTGCTGCTATTTCTC-TT
31144866 TTTCGTT
1 TTTCGTT
31144873 CGTTCGTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 5 0.19
23 11 0.41
24 3 0.11
25 6 0.22
26 2 0.07
ACGTcount: A:0.04, C:0.18, G:0.07, T:0.71
Consensus pattern (25 bp):
TTTCGTTTTTGCTGCTATTTCTCTT
Found at i:31148684 original size:23 final size:23
Alignment explanation
Indices: 31148638--31148684 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31148628 TAAACTATAT
*
31148638 TAAATTTATTTTATAATTTTATA
1 TAAATTTATTTTATAATTTAATA
*
31148661 TAAATTTACTTTTATGA-TTAATA
1 TAAATTTA-TTTTATAATTTAATA
31148684 T
1 T
31148685 TATAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TAAATTTATTTTATAATTTAATA
Found at i:31149641 original size:29 final size:29
Alignment explanation
Indices: 31149596--31149651 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
31149586 TGGTCTAATG
*
31149596 TGTAATTTTATACATGA-ATTTTGATTTTA
1 TGTAATTATATACATGATA-TTTGATTTTA
*
31149625 TGTAATTATATATATGATATTTGATTT
1 TGTAATTATATACATGATATTTGATTT
31149652 GATTCAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (29 bp):
TGTAATTATATACATGATATTTGATTTTA
Found at i:31152637 original size:14 final size:15
Alignment explanation
Indices: 31152618--31152650 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
31152608 TCTACTTAAT
31152618 AATATTTTAATA-AA
1 AATATTTTAATAGAA
31152632 AATATTTTAATAGAA
1 AATATTTTAATAGAA
31152647 AATA
1 AATA
31152651 GAAGTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
AATATTTTAATAGAA
Found at i:31155820 original size:53 final size:53
Alignment explanation
Indices: 31155757--31155860 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
31155747 AGTGGATTTT
* *
31155757 AAAAACCACAATAAATGATAGGGAAAAAATGAAAAAAGAGACCGAGAGAGATC
1 AAAAACCACAAAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGATC
31155810 AAAAACCACAAAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 AAAAACCACAAAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
31155861 GAATCGGTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.61, C:0.12, G:0.21, T:0.07
Consensus pattern (53 bp):
AAAAACCACAAAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGATC
Found at i:31166442 original size:2 final size:2
Alignment explanation
Indices: 31166435--31166487 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
31166425 TGTTAAGTTA
31166435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31166477 AT AT AT AT AT A
1 AT AT AT AT AT A
31166488 GTANNNNNNN
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31174014 original size:2 final size:2
Alignment explanation
Indices: 31174007--31174089 Score: 141
Period size: 2 Copynumber: 42.0 Consensus size: 2
31173997 NNNNNNNNNN
* *
31174007 TA TA TA TA TA TA T- TA TA TA TA TC TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31174048 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31174090 GCATTGAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31182684 original size:3 final size:3
Alignment explanation
Indices: 31182676--31182715 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
31182666 GTCATTGCCA
31182676 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
31182716 GACAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:31183995 original size:98 final size:99
Alignment explanation
Indices: 31183841--31184042 Score: 388
Period size: 98 Copynumber: 2.1 Consensus size: 99
31183831 ATGAATATAA
31183841 ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
1 ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
*
31183906 -TTTTTTAAAAAAAGAATAAATATCCATATGGAT
66 TTTTTTTAAAAAAAGAATAAATATCCACATGGAT
31183939 ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
1 ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
31184004 TTTTTTTAAAAAAAGAATAAATATCCACATGGAT
66 TTTTTTTAAAAAAAGAATAAATATCCACATGGAT
31184038 ATAAA
1 ATAAA
31184043 CAAAACATTT
Statistics
Matches: 102, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
98 65 0.64
99 37 0.36
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.33
Consensus pattern (99 bp):
ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
TTTTTTTAAAAAAAGAATAAATATCCACATGGAT
Found at i:31184774 original size:19 final size:21
Alignment explanation
Indices: 31184736--31184774 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
31184726 CCTTTTTTAA
*
31184736 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
31184757 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
31184775 AAACAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:31184999 original size:19 final size:19
Alignment explanation
Indices: 31184975--31185049 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
31184965 AATCATATCT
31184975 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
31184994 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
31185015 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
31185034 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
31185050 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:31185012 original size:21 final size:21
Alignment explanation
Indices: 31184986--31185048 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
31184976 CTAAGATTAC
31184986 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
31185007 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
31185026 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
31185047 AT
1 AT
31185049 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:31187893 original size:3 final size:3
Alignment explanation
Indices: 31187887--31187913 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31187877 ATAATAATAA
31187887 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
31187914 GAGAGTGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31188927 original size:546 final size:540
Alignment explanation
Indices: 31187896--31189569 Score: 2164
Period size: 530 Copynumber: 3.1 Consensus size: 540
31187886 ATATTATTAT
* * * * * * * * *
31187896 TATTATTATTATTATTATGAGAGTGCTATAAACCCATTGCGTCATCTTGTAATTTGATTAAGGAT
1 TATTATTATTTTTATCATGAAACTGTTGTAAACCCATTGTGCCATCTTGTAATTTGCTTAAGGA-
* *
31187961 TTATAATTAGAACTTAATTTTAAGGGGTTAAATAGTAATTATACCCAAAATATATATATGACTGG
65 TTATAATTAGAACTTAATTTAAAGGGGTTAAATAGTAATTATA-CC-TAATATATATATG-CTGG
* * **
31188026 TTATTGAAGTAT-GTATGTTATATTATAAAACATTAGTAATGAAAATTAAAAAAGGAAATTTTAA
127 TTATTGAAGTATAGTATGTTATATTATAAAAC-TTAGTAATTAAAATTATAAAATAAAATTTTAA
*
31188090 TTAAATAGAACATAAGTGATAATGGGAATAGTAGGCAAAAACAAAAACATTTCCATCTTTTTTTC
191 TTAAATAGAACATAAGTGATAATGGGAATAGT-GGCAAAAACAAAAACATTTCCATCCTTTTTTC
31188155 GTGCAAACCGAACCAAGGGAG--AGAAGAGACGAACATTCGACTTTAAGGGTGTAACGCCCCAAA
255 GTGCAAACCGAACCAAGGGAGAAAGAAGAGACGAACATTCGACTTTAAGGGTGTAACGCCCCAAA
* * * *
31188218 AATTTTTCTTTTTGCAAA-TGTTAAAACATGTCAATGGTGTAACGTTTGACTTTGTAAATATTTT
320 AATTTTTATTTTTG-AAATTGTTAAAACATGTCAAGGGTGTAACGTTTGGCTTTGAAAATATTTT
* * *
31188282 TTTATAG-GAGAAACTGCCGCCTGATTCGACGGTTTCATCCATTATGTTGTCTTATTATAAAAAT
384 TTTAT-GTGAGAAACTGCCGCCTGATTCGACGGTTTCACCCATTGTGTCGTCTTATTATAAAAAT
* * *
31188346 ATTATTATTTTTATCATGATATTGTTTCGGAGGCAATTTTAACAAAAAAAACTAATACAACAG-T
448 ATTATTA-TTTTATCATGAAATTGTTGCAGAGGCAATTTTAACAAAAAAAACTAATACAACAGAT
31188410 TTCACCCATTGTGTCATCTTGTTATAAAA
512 TTCACCCATTGTGTCATCTTGTTATAAAA
*
31188439 TATTATTATTTTTATCATGAAACTGTTGTAAACCCATTGTGCCATCTTATAATTTGCTTAAGGAT
1 TATTATTATTTTTATCATGAAACTGTTGTAAACCCATTGTGCCATCTTGTAATTTGCTTAAGGAT
** * *
31188504 TATAATTAGATTTTAATTGAAAGGGGCTAAATAGTAATTATACCTAATATATATATGGCTGGTTA
66 TATAATTAGAACTTAATTTAAAGGGGTTAAATAGTAATTATACCTAATATATATAT-GCTGGTTA
31188569 TTGAAGTAAGTAAGTATGTTATATTATAAAACGTTAGTAATTAAAATTATAAAATAAAATTTTAA
130 TTGAAGT-A-T-AGTATGTTATATTATAAAAC-TTAGTAATTAAAATTATAAAATAAAATTTTAA
*
31188634 TTAAATAGAACATAAATGATAATGGGAATAGCTGGCAAAAACAAAAACATTTCCATCCTTTTTTC
191 TTAAATAGAACATAAGTGATAATGGGAATAG-TGGCAAAAACAAAAACATTTCCATCCTTTTTTC
* * *
31188699 GTGCAAACCGAACAAAGGGAGAAAGAAGAGACGAACAATC-ATCTTTAAAGGTGTAACGCCCCAA
255 GTGCAAACCGAACCAAGGGAGAAAGAAGAGACGAACATTCGA-CTTTAAGGGTGTAACGCCCCAA
* * * * * *
31188763 AAAATTTTGTTCTTGGAATTGTTAAAACTTGTCAAGGGTGTAATGTTTGGCTTTGAAAATATTTT
319 AAATTTTTATTTTTGAAATTGTTAAAACATGTCAAGGGTGTAACGTTTGGCTTTGAAAATATTTT
* * * *
31188828 TTTATGTAAGAAACTGCTGCCTGATTTGACGGTTTCACCCATTGTGTCGTTTTATTATAAAAATA
384 TTTATGTGAGAAACTGCCGCCTGATTCGACGGTTTCACCCATTGTGTCGTCTTATTATAAAAATA
* **
31188893 TTATTATTATTATCATGAAATTGTTGCAGAGGCAATTTTAACAAAAAAAA-AAATTGATACGACG
449 TTATTATT-TTATCATGAAATTGTTGCAGAGGCAATTTTAACAAAAAAAACTAATACA-AC-A-G
*
31188957 ATTTCACCCATTTTGTCATCTTGTT-TAAAA
510 ATTTCACCCATTGTGTCATCTTGTTATAAAA
* * * * *
31188987 TATTATTATTTTTATCATGGAACTCTTGTAATA-TCATTGTGTCATCTTGTAATTTGCTTAAGAA
1 TATTATTATTTTTATCATGAAACTGTTGTAA-ACCCATTGTGCCATCTTGTAATTTGCTTAAGGA
* *
31189051 TGTATAATTAGAACTTATTTTAAAGGGGTTAAATAGAAATTATACCTAGA-ATATATAT-CTGG-
65 T-TATAATTAGAACTTAATTTAAAGGGGTTAAATAGTAATTATACCTA-ATATATATATGCTGGT
* * **
31189113 --TCG--GT-TA--ATG--A-AGT-TAGTA-TTAGTAATTAAAATTATAAAATGAAAA-TTTAAT
128 TATTGAAGTATAGTATGTTATATTATAAAACTTAGTAATTAAAATTATAAAAT-AAAATTTTAAT
* *
31189165 TAAATAGAACATAAGTGATAATGGGAATAGGTGGTAAAAACAAAAATATTTCCAT-CTTTTCTTC
192 TAAATAGAACATAAGTGATAATGGGAATA-GTGGCAAAAACAAAAACATTTCCATCCTTTT-TTC
* * *
31189229 GTGCATACCGAACCAAGGGAGAAAGAAGAGA-GAAACATTCGACTTTTAGGGTGTAACGCCCCTA
255 GTGCAAACCGAACCAAGGGAGAAAGAAGAGACG-AACATTCGACTTTAAGGGTGTAACGCCCCAA
* * *
31189293 AAGTTTTTATTTTTGAAATTGTTAAAACATGTCAAGGGTGTAACGTTCGGCTTTAAAAATATTTT
319 AAATTTTTATTTTTGAAATTGTTAAAACATGTCAAGGGTGTAACGTTTGGCTTTGAAAATATTTT
* * *
31189358 TTTATATGAGAAACTGCCACCTGATACGACGGTTTCACCCATTGTGTCGTCTTATTATAAAAATA
384 TTTATGTGAGAAACTGCCGCCTGATTCGACGGTTTCACCCATTGTGTCGTCTTATTATAAAAATA
* * ** * *
31189423 TTATTCCTTTTATCATGAAATTCTTGTTGAGGCAATTTTAACAAAAAAAAAACTGATACGAC-GA
449 TTATT-ATTTTATCATGAAATTGTTGCAGAGGCAATTTTAAC--AAAAAAAACTAATACAACAGA
*
31189487 TTTCACCCATTGTATCATCTTGTTATAAAA
511 TTTCACCCATTGTGTCATCTTGTTATAAAA
*
31189517 TATTATTATTTTTATCATGAAACTGTTGTAAACCTATTGTGCCATCTTGTAAT
1 TATTATTATTTTTATCATGAAACTGTTGTAAACCCATTGTGCCATCTTGTAAT
31189570 CACTACACCA
Statistics
Matches: 995, Mismatches: 106, Indels: 73
0.85 0.09 0.06
Matches are distributed among these distances:
529 31 0.03
530 335 0.34
531 8 0.01
532 13 0.01
533 4 0.00
534 1 0.00
536 3 0.00
538 1 0.00
539 1 0.00
540 25 0.03
541 4 0.00
542 41 0.04
543 54 0.05
544 130 0.13
545 11 0.01
546 192 0.19
547 5 0.01
548 63 0.06
549 72 0.07
550 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (540 bp):
TATTATTATTTTTATCATGAAACTGTTGTAAACCCATTGTGCCATCTTGTAATTTGCTTAAGGAT
TATAATTAGAACTTAATTTAAAGGGGTTAAATAGTAATTATACCTAATATATATATGCTGGTTAT
TGAAGTATAGTATGTTATATTATAAAACTTAGTAATTAAAATTATAAAATAAAATTTTAATTAAA
TAGAACATAAGTGATAATGGGAATAGTGGCAAAAACAAAAACATTTCCATCCTTTTTTCGTGCAA
ACCGAACCAAGGGAGAAAGAAGAGACGAACATTCGACTTTAAGGGTGTAACGCCCCAAAAATTTT
TATTTTTGAAATTGTTAAAACATGTCAAGGGTGTAACGTTTGGCTTTGAAAATATTTTTTTATGT
GAGAAACTGCCGCCTGATTCGACGGTTTCACCCATTGTGTCGTCTTATTATAAAAATATTATTAT
TTTATCATGAAATTGTTGCAGAGGCAATTTTAACAAAAAAAACTAATACAACAGATTTCACCCAT
TGTGTCATCTTGTTATAAAA
Found at i:31189801 original size:41 final size:41
Alignment explanation
Indices: 31189742--31190043 Score: 412
Period size: 41 Copynumber: 7.4 Consensus size: 41
31189732 ACGTCCTTTT
* *
31189742 GGGGCTTTAGCGGGGTTTTTGGAAAAGCGCCACTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
31189783 GGGGCTTTAGCGGCGTTTTT-GAGAAAGTGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGA-AAAGCGCCGCTAATGCTC
* *
31189824 TGGGCTTTAGCGGCCTTTTTGGAAATA-CGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAA-AGCGCCGCTAATGCTC
* *
31189865 GGGGCTTTAGCGGCGTTTTTGG-GAAGCGTCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* ** *
31189905 GGGGCTTTAGCGGCGTTTTTAGAAAAGCAACTCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
31189946 GGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
31189987 GGGGCTTTAGCGACGTTTTTGGGAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * *
31190028 TGGGATTTAGCAGCGT
1 GGGGCTTTAGCGGCGT
31190044 GTTTATAAAA
Statistics
Matches: 231, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.00
40 37 0.16
41 190 0.82
42 3 0.01
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.29
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
Found at i:31190020 original size:163 final size:163
Alignment explanation
Indices: 31189742--31190043 Score: 462
Period size: 163 Copynumber: 1.9 Consensus size: 163
31189732 ACGTCCTTTT
* * **
31189742 GGGGCTTTAGCGGGGTTTTTGGAAAAGCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAGA
1 GGGGCTTTAGCGGCGTTTTTAGAAAAGCAACACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAGA
* * * *
31189807 AAGTGCCGCTAATGCTCTGGGCTTTAGCGGCCTTTTTGGAAATACGCCGCTAATGCTCGGGGCTT
66 AAGCGCCGCTAATGCTCGGGGCTTTAGCGACCTTTTTGGAAATACGCCGCTAATGCTCGGGGATT
*
31189872 TAGCGGCGTTTTTGGGAAGCGTCGCTAATGCTC
131 TAGCAGCGTTTTTGGGAAGCGTCGCTAATGCTC
* *
31189905 GGGGCTTTAGCGGCGTTTTTAGAAAAGCAACTCTAATGCTCGGGGCTTTAGCGGCGTTTTTGGGA
1 GGGGCTTTAGCGGCGTTTTTAGAAAAGCAACACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAGA
* * *
31189970 AAGCGCCGCTAATGCTCGGGGCTTTAGCGACGTTTTTGGGAAA-GCGCCGCTAATGCTCTGGGAT
66 AAGCGCCGCTAATGCTCGGGGCTTTAGCGACCTTTTT-GGAAATACGCCGCTAATGCTCGGGGAT
31190034 TTAGCAGCGT
130 TTAGCAGCGT
31190044 GTTTATAAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
163 119 0.96
164 5 0.04
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.29
Consensus pattern (163 bp):
GGGGCTTTAGCGGCGTTTTTAGAAAAGCAACACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAGA
AAGCGCCGCTAATGCTCGGGGCTTTAGCGACCTTTTTGGAAATACGCCGCTAATGCTCGGGGATT
TAGCAGCGTTTTTGGGAAGCGTCGCTAATGCTC
Found at i:31190498 original size:14 final size:14
Alignment explanation
Indices: 31190481--31190513 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
31190471 GTTTAGGGGC
31190481 TAGGGGTT-AGACGT
1 TAGGGGTTAAGA-GT
31190495 TAGGGGTTAAGAGT
1 TAGGGGTTAAGAGT
31190509 TAGGG
1 TAGGG
31190514 ATTGAGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.24, C:0.03, G:0.45, T:0.27
Consensus pattern (14 bp):
TAGGGGTTAAGAGT
Found at i:31190752 original size:15 final size:14
Alignment explanation
Indices: 31190700--31190748 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
31190690 ACTATTTTAA
**
31190700 GGTTTAGGGGGTAT
1 GGTTTAGGGATTAT
31190714 GGATTTAGGGATTAT
1 GG-TTTAGGGATTAT
*
31190729 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
31190743 GGTTTA
1 GGTTTA
31190749 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:31191492 original size:14 final size:14
Alignment explanation
Indices: 31191475--31191512 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
31191465 ATAAAAATCC
31191475 AGTTTATAAAAAAT
1 AGTTTATAAAAAAT
31191489 AG-TTATAAAAAAT
1 AGTTTATAAAAAAT
*
31191502 ATTTTATAAAA
1 AGTTTATAAAA
31191513 TCACATAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (14 bp):
AGTTTATAAAAAAT
Found at i:31195153 original size:45 final size:42
Alignment explanation
Indices: 31195080--31195178 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 42
31195070 TGCGAGAAGT
*
31195080 GCCGCTAAAGGTTTGTTCTATAGCGGCGTTTGTGATAAAAAAGC
1 GCCGCTAAAGGTATGTTCTATAGCGGCGTTTGTGAT--AAAAGC
* * *
31195124 GCTGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGATAAAAGC
1 GCCGCTAAAGGT-ATGTTCTATAGCGGCGTTTGTGATAAAAGC
31195167 GCCGCTAAAGGT
1 GCCGCTAAAGGT
31195179 TGTGATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 17 0.35
44 11 0.22
45 21 0.43
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (42 bp):
GCCGCTAAAGGTATGTTCTATAGCGGCGTTTGTGATAAAAGC
Found at i:31195186 original size:24 final size:24
Alignment explanation
Indices: 31195154--31195202 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
31195144 TTAGCGGCGT
31195154 TTGTGATAAAAGCGCCGCTAAAGG
1 TTGTGATAAAAGCGCCGCTAAAGG
31195178 TTGTGATAAAAGCGCCGCTAAAGG
1 TTGTGATAAAAGCGCCGCTAAAGG
31195202 T
1 T
31195203 CATGAGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (24 bp):
TTGTGATAAAAGCGCCGCTAAAGG
Found at i:31195202 original size:67 final size:68
Alignment explanation
Indices: 31195109--31195244 Score: 220
Period size: 67 Copynumber: 2.0 Consensus size: 68
31195099 ATAGCGGCGT
* ***
31195109 TTGTGATAAAAAAGCGCTGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGATAAAAGCGCCGCTA
1 TTGTGAT-AAAAAGCGCCGCTAAAGGTCATGAGCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTA
31195174 AAGG
65 AAGG
31195178 TTGTGAT-AAAAGCGCCGCTAAAGGTCATGAGCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAA
1 TTGTGATAAAAAGCGCCGCTAAAGGTCATGAGCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAA
31195242 AGG
66 AGG
31195245 CCATGATCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 56 0.89
69 7 0.11
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (68 bp):
TTGTGATAAAAAGCGCCGCTAAAGGTCATGAGCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAA
AGG
Found at i:31195239 original size:43 final size:43
Alignment explanation
Indices: 31195178--31195264 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
31195168 CCGCTAAAGG
*
31195178 TTGTGATAAAAGCGCCGCTAAAGGTCATGAGCTTTAGCGGCGT
1 TTGTGATAAAAGCGCCGCTAAAGGCCATGAGCTTTAGCGGCGT
* *
31195221 TTGTGATAAAAGCGCCGCTAAAGGCCATGATCTTTAGTGGCGT
1 TTGTGATAAAAGCGCCGCTAAAGGCCATGAGCTTTAGCGGCGT
31195264 T
1 T
31195265 GTCTATAGCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TTGTGATAAAAGCGCCGCTAAAGGCCATGAGCTTTAGCGGCGT
Found at i:31197360 original size:545 final size:546
Alignment explanation
Indices: 31196186--31198334 Score: 2630
Period size: 547 Copynumber: 3.9 Consensus size: 546
31196176 CGACAGTTAC
* * * *
31196186 ACCCATTGTGTCATCTTGTAATTTGCTTAAGAATTTATAATTAGAACTGAATTTTAAGGGGTTAA
1 ACCCATTGTGCCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAA
* *
31196251 ATAGTAATTATACCTAGAATATTTATGGCCGGTTATT---G-AAGTATGTATGTTATATTGTAAA
66 ATAGTAATTATACCTAGAATATATATGGCCGGTTATTGAAGTAAGTATGTATGTTATATTATAAA
* *
31196312 ACATTAGTAATGAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATA
131 ACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTAATAATGGGAATA
** *
31196377 GTAGTAAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCAAACCAAGCGAGAAATAAGAG
196 GT-GGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCAAACCAAGGGAGAAATAAGAG
* * * *
31196442 AGGAACGTTTGGCTTTAAGGGTGT-A-G-CGCAATAATTTTTATTTTTTTGCAAATGTTAAAACA
260 AGGAACGTTTGGCTTTAAGGGTGTAACGCCCCAA-AAATTTT-TGTTTTTGGAAATGTTAAAACA
* * * * **
31196504 TGTCAAAGGCGTAACGTTTGGCTTTGAAAATATATTTTTATATGAGAAACTGCCACTTGATTTGA
323 TGTCAAAGGTGTAACGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACTGCCACCTGATACGA
* * * *
31196569 CGGTTTCTCCCATTGTGTCGTCCTATTATAAAATTATTATTATTATTATTT-TCATGAACTTGCT
388 CGGTTTCACCCATTCTGTCGTCTTATTATAAAA--A-TATTATTATT-TTTATCATGAAATTG-T
* * * * * *
31196633 ATAGAGGCAATTTTAACAAAAAAAAATTGATACAACGGTTTCACCCATTGTGTCATCTTGTTAT-
448 TTGGAGGAAATTTTAACAAAAAAAAACTGATACGACAGTTTCACCCATTGTGTCATCTTGTTATA
*
31196697 AAA-A-TATTATTTTTATCATAAAACTGCTGTAA
513 AAATATTATTATTTTTATCATGAAACTGCTGTAA
** *
31196729 ACCCATTGT-CTCATCTTGTGTTTTGATTAAGGATTTAT-ATCTAGAACTTAATTTAAAGGGGTT
1 ACCCATTGTGC-CATCTTGTAATTTGCTTAAGGATTTATAAT-TAGAACTTAATTTAAAGGGGTT
* * * *
31196792 AAATAGTAATTATACCAAG-A-ATATATGGCCTGTTATTGAAGAAAGTATGTATGTTATATTAAA
64 AAATAGTAATTATACCTAGAATATATATGGCCGGTTATTGAAGTAAGTATGTATGTTATATTATA
* * *
31196855 AAACATTATTAATTTAAATTATAAAATGAAAATTTAATTAAATAAAACATAAGTAATAATGGGAA
129 AAACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTAATAATGGGAA
*
31196920 TACGTGGCAAAAACAAAAACATTTCCATTTTTTCTTCGTGCAAACCAAACCAAGGGAGAAATAAG
194 TA-GTGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCAAACCAAGGGAGAAATAAG
* *
31196985 AGAGGAACGTTTGGCTTTAAGGGTGTAACGCCCCAAAAACTTTTGTTTTTGGAAATGTTAAAACT
258 AGAGGAACGTTTGGCTTTAAGGGTGTAACGCCCCAAAAATTTTTGTTTTTGGAAATGTTAAAACA
* * * *
31197050 TGTCAACGGTGTAATGTTTGACTTTGAAAATATTTTTTTATATGAGAAACTGCCACCTGATACGA
323 TGTCAAAGGTGTAACGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACTGCCACCTGATACGA
* * * * * * *
31197115 TGATGTCACCTATTCTGTCATCTTATTATAAAAATATTATTATTTTTATCATGATATTATTTCGG
388 CGGTTTCACCCATTCTGTCGTCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTT-GG
* * * *
31197180 A-GACAATTTTAACAAAAAAAAACTAATACGATAGTTTCACCCGTTGTGTCATCTTGCTATAAAA
452 AGGA-AATTTTAACAAAAAAAAACTGATACGACAGTTTCACCCATTGTGTCATCTTGTTATAAAA
* *
31197244 TATTATTATTTTTATCATGAAATTGTTGTAA
516 TATTATTATTTTTATCATGAAACTGCTGTAA
* * *
31197275 ACCCATTGTGCCATCTTGTAATTTGCTTAAGGATTTATAATTAGATCTTAATTGAAAGGGGCTAA
1 ACCCATTGTGCCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAA
*
31197340 ATAGTAATTAT-CCTAGAATATATATGGCGGGTTATTGAAGTAAGTATGTATGTTATATTATAAA
66 ATAGTAATTATACCTAGAATATATATGGCCGGTTATTGAAGTAAGTATGTATGTTATATTATAAA
** * *
31197404 ATGTTAGTAATTAAAATTATAAAATGAAATTTTAATTAAATAGAACATAAGTGATAATGGGAATA
131 ACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTAATAATGGGAATA
* * * * * * ** * *
31197469 GATGTCAAAAGCAAAAACACTTCCATCTTTTTTTTCGTGTAAACCGAATAAAAGGAGAAAGAAGA
196 G-TGGCAAAAACAAAAACATTTCCATC-TTTTCTTCGTGCAAACCAAACCAAGGGAGAAATAAGA
* * * * * * * * *
31197534 GACGAACATTCGGCTTTAAGGGTGTAACACCCCAAAAGTTTTTGTTCTTGTAATTGTTAAAACTT
259 GAGGAACGTTTGGCTTTAAGGGTGTAACGCCCCAAAAATTTTTGTTTTTGGAAATGTTAAAACAT
* * * * * * * * *
31197599 GTTAAGGGTGTAACATTCGGGTTTG-AAATATTTTTTTATATGAGAATCTACCACTTCATACGAT
324 GTCAAAGGTGTAACGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACTGCCACCTGATACGAC
* * * * *
31197663 GGTTACACCCACTGTGTCGTCTTATTATAAAAATATTATTCTTTTTATCATGAAATTGTTGCGGA
389 GGTTTCACCCATTCTGTCGTCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTT-TGGA
* * * * *
31197728 GGAAATTTTAATATAAAAAAACTGATACAAC-GATTTCACCCATTGTATCATCTTATTATAAAAT
453 GGAAATTTTAACAAAAAAAAACTGATACGACAG-TTTCACCCATTGTGTCATCTTGTTATAAAAT
* * *
31197792 ATTGTTATTTTTATCATGGAACTACTGTAA
517 ATTATTATTTTTATCATGAAACTGCTGTAA
* * * * * *
31197822 ACCCATTGCGTCATCTTATAATTTACTTAAGGATTTAAAATTAGAACTTAAGTTAAAAGGGGTTA
1 ACCCATTGTGCCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAA-TTTAAAGGGGTTA
* * * * * * *
31197887 AATAGTCATTCTACCGAGAATATATATATGGCTGATTACTGAAGTAAGTATGTATGCTATATTAT
65 AATAGTAATTATACCTAG-A-ATATATATGGCCGGTTATTGAAGTAAGTATGTATGTTATATTAT
* *
31197952 AAAACATTAGTAA-TAAAATTATAATATGAAATTTTAATTAAATAGAACATAAGTAATAATGGGA
128 AAAACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTAATAATGGGA
* * *
31198016 ATAGGTGGCAAAAACAAAAACATTTCCATCTTTTCTTGGTGCAAACAAAACCAAGTGAGAAATAA
193 ATA-GTGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCAAACCAAGGGAGAAATAA
* * * * * *
31198081 GAGAGGAACGTTGGGCTTTAAGGGTGTAACGCCGCAAAAATTCTTGTTTTAGGAAAAGCTAAAAC
257 GAGAGGAACGTTTGGCTTTAAGGGTGTAACGCCCCAAAAATTTTTGTTTTTGGAAATGTTAAAAC
* * * *
31198146 ATGTCAAAGGTGTAATGTTCGGCTTTGAAAATATTTTTTTTATAAGAGAAACTGCCACCTAATTC
322 ATGTCAAAGGTGTAACGTTCGGCTTTGAAAATA-TTTTTTTATATGAGAAACTGCCACCTGATAC
*
31198211 GACGGTTTCACCCATTGC-GTCGTCTTATTATAAAAATATTATTATTATTATCATGAAATTGTTG
386 GACGGTTTCACCCATT-CTGTCGTCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTT-
* * * * *
31198275 TGGAGGAAATTTTAACGAAAAAAAATTGATACGACGGTTTCGCTCATTGTGTCATCTTGT
449 TGGAGGAAATTTTAACAAAAAAAAACTGATACGACAGTTTCACCCATTGTGTCATCTTGT
31198335 AATTTACTTA
Statistics
Matches: 1366, Mismatches: 206, Indels: 60
0.84 0.13 0.04
Matches are distributed among these distances:
541 15 0.01
542 9 0.01
543 139 0.10
544 5 0.00
545 168 0.12
546 197 0.14
547 337 0.25
548 131 0.10
549 102 0.07
550 80 0.06
551 182 0.13
552 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (546 bp):
ACCCATTGTGCCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAA
ATAGTAATTATACCTAGAATATATATGGCCGGTTATTGAAGTAAGTATGTATGTTATATTATAAA
ACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTAATAATGGGAATA
GTGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCAAACCAAGGGAGAAATAAGAGA
GGAACGTTTGGCTTTAAGGGTGTAACGCCCCAAAAATTTTTGTTTTTGGAAATGTTAAAACATGT
CAAAGGTGTAACGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACTGCCACCTGATACGACGG
TTTCACCCATTCTGTCGTCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTTGGAGGA
AATTTTAACAAAAAAAAACTGATACGACAGTTTCACCCATTGTGTCATCTTGTTATAAAATATTA
TTATTTTTATCATGAAACTGCTGTAA
Found at i:31200195 original size:15 final size:16
Alignment explanation
Indices: 31200177--31200206 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31200167 ATTAGTAATT
31200177 AAATTT-ATTAAATAA
1 AAATTTAATTAAATAA
31200192 AAATTTAATTAAATA
1 AAATTTAATTAAATA
31200207 GAACATAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTTAATTAAATAA
Found at i:31201694 original size:101 final size:102
Alignment explanation
Indices: 31201573--31201757 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
31201563 AAAGTGATGG
*
31201573 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGG--A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGGATAGTGAT-GGTCACATGTGTAG
* *
31201635 TACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCAA
64 TACAATGTGAAGGCTACTATGCGTACCGAATAGCTTCAA
**
31201674 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGATAGTGATGGTCACATGTGTAGTA
31201739 CAATGTGAAGGCTACTATG
66 CAATGTGAAGGCTACTATG
31201758 TGAACCGATA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 37 0.49
102 33 0.43
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGATAGTGATGGTCACATGTGTAGTA
CAATGTGAAGGCTACTATGCGTACCGAATAGCTTCAA
Found at i:31201703 original size:51 final size:50
Alignment explanation
Indices: 31201573--31201755 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 50
31201563 AAAGTGATGG
* * *
31201573 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGGATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
* * * *
31201623 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCA-A
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAT-G-AT-AGA
* *** *
31201674 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGA-A-TGATAGA
* * *
31201725 TCACATGTGTAGTACAATGTGAAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
31201756 TGTGAACCGA
Statistics
Matches: 108, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 3 0.03
50 36 0.33
51 62 0.57
52 4 0.04
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
Found at i:31201834 original size:46 final size:43
Alignment explanation
Indices: 31201761--31201853 Score: 107
Period size: 46 Copynumber: 2.1 Consensus size: 43
31201751 TACTATGTGA
*
31201761 ACCGATATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* * *
31201804 ACCGAATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAATCC
1 ACCG-ATATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
31201850 ACCG
1 ACCG
31201854 TGTATCTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.10
44 12 0.29
45 2 0.05
46 22 0.52
47 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
ACCGATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:31202004 original size:16 final size:16
Alignment explanation
Indices: 31201983--31202014 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31201973 TGATTGAAAG
*
31201983 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
31201999 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
31202015 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:31205400 original size:18 final size:18
Alignment explanation
Indices: 31205377--31205411 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31205367 TTTGGAGTCT
31205377 TTTTTGCTATTTT-TTTTA
1 TTTTTGCT-TTTTATTTTA
31205395 TTTTTGCTTTTTATTTT
1 TTTTTGCTTTTTATTTT
31205412 TGCTTCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTTTGCTTTTTATTTTA
Found at i:31205405 original size:13 final size:13
Alignment explanation
Indices: 31205389--31205416 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31205379 TTTGCTATTT
31205389 TTTTTATTTTTGC
1 TTTTTATTTTTGC
31205402 TTTTTATTTTTGC
1 TTTTTATTTTTGC
31205415 TT
1 TT
31205417 CTTGGCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTGC
Found at i:31205650 original size:29 final size:30
Alignment explanation
Indices: 31205605--31205746 Score: 146
Period size: 29 Copynumber: 4.8 Consensus size: 30
31205595 GTGAGAAACT
* *
31205605 TTTG-GGGTTAAAGTATAATTTTAGGAAAA
1 TTTGAGGGTCAAAATATAATTTTAGGAAAA
* * *
31205634 TTTG-GGGTCGATATATAATTTTAGG-AAG
1 TTTGAGGGTCAAAATATAATTTTAGGAAAA
* * * *
31205662 TTAGAGGGTCAAAATGTAATTTTAAGAAAG
1 TTTGAGGGTCAAAATATAATTTTAGGAAAA
31205692 TTTGGAGGGTCAAAATATAATTTTAGGAAAA
1 TTT-GAGGGTCAAAATATAATTTTAGGAAAA
* * *
31205723 ATAGAGGGTCAAAATGTAATTTTA
1 TTTGAGGGTCAAAATATAATTTTA
31205747 AATTTTGTAT
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
28 5 0.05
29 38 0.41
30 25 0.27
31 25 0.27
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTGAGGGTCAAAATATAATTTTAGGAAAA
Found at i:31205703 original size:31 final size:30
Alignment explanation
Indices: 31205649--31205747 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
31205639 GGTCGATATA
*
31205649 TAATTTT-AGGAAGTTAGAGGGTCAAAATG
1 TAATTTTAAGAAAGTTAGAGGGTCAAAATG
* *
31205678 TAATTTTAAGAAAGTTTGGAGGGTCAAAATA
1 TAATTTTAAGAAAG-TTAGAGGGTCAAAATG
* **
31205709 TAATTTTAGGAAAAATAGAGGGTCAAAATG
1 TAATTTTAAGAAAGTTAGAGGGTCAAAATG
31205739 TAATTTTAA
1 TAATTTTAA
31205748 ATTTTGTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 7 0.12
30 26 0.44
31 26 0.44
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
TAATTTTAAGAAAGTTAGAGGGTCAAAATG
Found at i:31205795 original size:6 final size:5
Alignment explanation
Indices: 31205759--31205791 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
31205749 TTTTGTATTT
31205759 TTTTA TTTTA TTTTA TTTTA TTTTA TTATTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TT
31205792 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:31206170 original size:75 final size:75
Alignment explanation
Indices: 31206045--31206579 Score: 689
Period size: 75 Copynumber: 7.1 Consensus size: 75
31206035 GTCCAATCTT
* * ** * * * * *
31206045 TTTTTGAAAAACAAAAATCAAAAATAGCTCGGCGTGTGACCTGAAGCTCAACTCACCTCTCGAAT
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
31206110 TATGAGTTGA
66 TATGAGTTGA
* * * * * * *
31206120 TCTTTGAAAAACATAGATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGGAT
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
31206185 TATGAGTTGA
66 TATGAGTTGA
* * * * *
31206195 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTTAACCCATCTTTCGGAT
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
31206260 TATGAGTTGA
66 TATGAGTTGA
* * * * *
31206270 TTTTTGAAAAATAGAAATTGAAAACACCTCAGCGTGCGACCCGAGGCTTAACCCATCTCTCGGAT
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
31206335 TATGAGTTGA
66 TATGAGTTGA
* * * *
31206345 TTTTTGAAAAATAGAAATTGAAAATATCTCAGTGTGCGACCCGAGGCTCAACTCACCTATTGGAA
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCT-CTCGAA
31206410 -TATGAGTTGA
65 TTATGAGTTGA
* ** * *
31206420 TTTTTGAAAAATAGAAATTAAAAATACCTCAGCGTGCG-CTTGAGGCTCAACTCACCTATCGAAA
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
31206484 TATGAGTTGA
66 TATGAGTTGA
* **
31206494 TTTTTGAAAAATAGAAATTGAAAGTACCTCAGCGTATGACCCGAGGCTCAACTCACCTCTCGGAA
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTC-GAA
31206559 -TATGAGTTGA
65 TTATGAGTTGA
31206569 TTTTTGAAAAA
1 TTTTTGAAAAA
31206580 CAAAATAGGA
Statistics
Matches: 410, Mismatches: 46, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
73 4 0.01
74 61 0.15
75 339 0.83
76 6 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (75 bp):
TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
TATGAGTTGA
Found at i:31206908 original size:20 final size:21
Alignment explanation
Indices: 31206857--31206908 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 21
31206847 GCATTCATTG
*
31206857 TCTC-AGTCCTTG-ACTTTTC
1 TCTCAAGTTCTTGTACTTTTC
*
31206876 TCTCAGGTT-TTGTACTTTTC
1 TCTCAAGTTCTTGTACTTTTC
31206896 -CTCAAGTTCTTGT
1 TCTCAAGTTCTTGT
31206909 GATTAACCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.12, C:0.25, G:0.13, T:0.50
Consensus pattern (21 bp):
TCTCAAGTTCTTGTACTTTTC
Found at i:31218027 original size:27 final size:28
Alignment explanation
Indices: 31217994--31218047 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
31217984 TGCTGCTAGA
*
31217994 TGGGTTGCTGCTGTTGGGCC-GGAGTGC
1 TGGGTTGCTGCTGTTAGGCCGGGAGTGC
31218021 TGGGTTGCTGCTGTTAGGCCGGGAGTG
1 TGGGTTGCTGCTGTTAGGCCGGGAGTG
31218048 GACCGGCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.06, C:0.17, G:0.48, T:0.30
Consensus pattern (28 bp):
TGGGTTGCTGCTGTTAGGCCGGGAGTGC
Found at i:31218182 original size:15 final size:15
Alignment explanation
Indices: 31218139--31218185 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
31218129 CCGACTGTTC
*
31218139 TATTTTCTATTTTTTT
1 TATTTT-TATTTCTTT
*
31218155 TATTTTTTCTTTCTTT
1 TA-TTTTTATTTCTTT
31218171 TATTTTTATTTCTTT
1 TATTTTTATTTCTTT
31218186 CTTTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 12 0.44
16 11 0.41
17 4 0.15
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (15 bp):
TATTTTTATTTCTTT
Found at i:31218182 original size:19 final size:18
Alignment explanation
Indices: 31218160--31218195 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
31218150 TTTTTTATTT
31218160 TTTCTTTCTTTTATTTTTA
1 TTTCTTTC-TTTATTTTTA
31218179 TTTCTTTCTTTATTTTT
1 TTTCTTTCTTTATTTTT
31218196 CTTCTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTCTTTCTTTATTTTTA
Found at i:31218205 original size:19 final size:17
Alignment explanation
Indices: 31218148--31218204 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
31218138 CTATTTTCTA
31218148 TTTTTTTTA-TTTTTTC
1 TTTTTTTTATTTTTTTC
*
31218164 TTTCTTTTATTTTTATT-
1 TTTTTTTTATTTTT-TTC
*
31218181 TCTTTCTTTATTTTTCTTC
1 T-TTTTTTTATTTTT-TTC
31218200 TTTTT
1 TTTTT
31218205 CCTTTCTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.25
17 5 0.16
18 18 0.56
19 1 0.03
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTATTTTTTTC
Found at i:31218217 original size:15 final size:15
Alignment explanation
Indices: 31218157--31218223 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
31218147 ATTTTTTTTA
31218157 TTTTTTCTTTCTTT-
1 TTTTTTCTTTCTTTC
*
31218171 TATTTTTATTTCTTTC
1 T-TTTTTCTTTCTTTC
*
31218187 TTTATT-TTTC-TTC
1 TTTTTTCTTTCTTTC
*
31218200 TTTTTCCTTTCTTTC
1 TTTTTTCTTTCTTTC
31218215 TTTTTTCTT
1 TTTTTTCTT
31218224 CTTCTCAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 7 0.16
14 9 0.20
15 27 0.61
16 1 0.02
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTCTTTCTTTC
Found at i:31221578 original size:541 final size:542
Alignment explanation
Indices: 31220380--31221878 Score: 1847
Period size: 547 Copynumber: 2.8 Consensus size: 542
31220370 ATTATTATTT
* * * * * *
31220380 TATATGGTCGGTTAATGAAGCAAGTATGTATGTTATATCATAAAGCATTAGTAATTAGAATTATA
1 TATATGGTCTGTTATTGAAGTAAGTATGTATGTTATATTATAAAACATTAGTAATTAAAATTATA
* * * *
31220445 AAATAAAATTTTAATTAAATAGAACATAAGTGATATTGGAAATAGATGGCAAAAATAAAAACATT
66 AAATAAAA-TTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTGGCAAAAACAAAAACATT
* * ** *
31220510 TCCATATTTTCTTCGGGCAAACTGAACTTAGGGAGAAAGAAGAGAGGAACGCTCGGCTTTAAGGG
130 TCCATCTTTTCTTC-AGCAAACTGAACCAAGGGAGAAAGAAGAGAGGAACGTTCGGCTTTAAGGG
* * * ** *
31220575 TGTAACGCCCCAAAAATTTTTGTTTTTGGAAATGTTAAAACATGTCAAAGGTGTAATAATCGACT
194 TGTAACGCCCCAAAAAATTTTATTTTT-GAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCT
* * * * *
31220640 TTGAAATTTTTTTTTATATGAGAAACTGCCACATGATTCGACGGTTTCACCCATTGTGTCGTCTT
258 TTGAAA-ATATTTTTATATGAGAAACTGCCACATAATACGACAGTTTCACCCATTGTGTCGTCTT
** * *
31220705 ATTATAAAAATATTATTATTTTTATTGTGAAATTATTCTGAAGACAATTTTAACAAAAAAAAATT
322 ATTATAAAAATATTATTATTTTTATCATGAAATTATTCTGAAGACAAATTTAAC-AAAAAAAACT
***
31220770 GATACGACAGTTTCACCCATTGTGCCATCTTGTTATAGAATATTATTATTTTTACCATGAATTTG
386 GATACGACAGTTTCACCCATTGTGCCATCTTGTTATAGAATATTATTATTTTTACCATGAAACCG
* *
31220835 TTGTAAATCCATTGTGTCATCTTATAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGG
451 TTGTAAACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTACAATTAGAACTTAATTTAAAGG
31220900 GATTAAATAGTAATTATACCAATAATA
516 GATTAAATAGTAATTATACCAATAATA
*
31220927 TATATGG-CTGGTTATTGAAGTAAGTATGTATGTTATATTATAAAACATTAGCAATTAAAATTAT
1 TATATGGTCT-GTTATTGAAGTAAGTATGTATGTTATATTATAAAACATTAGTAATTAAAATTAT
31220991 AAAATTAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTGGCAAAAACAAAAACAT
65 AAAA-TAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTGGCAAAAACAAAAACAT
* * *
31221056 TTCCATCTTTTCTTCATGCAAATTGAACCAAGGGAGAAAGAAGAGAGGAACGTTTGCCTTTTAAG
129 TTCCATCTTTTCTTCA-GCAAACTGAACCAAGGGAGAAAGAAGAGAGGAACGTTCGGC-TTTAAG
* ** * *
31221121 GGTGTAACACCCCAAAAAAAATTATTTTTGAAACTGTTAAAACATGTCAAGGGCT-TAACGTTTG
192 GGTGTAACGCCCCAAAAAATTTTATTTTTGAAA-TGTTAAAACATGTCAAGGG-TGTAATGTTCG
* * * * *
31221185 GCTTTGAAAATATTTTTATACGAGAAACTGCCACCTAATACGATAGTTTCACCTATTGTGTTGTC
255 GCTTTGAAAATATTTTTATATGAGAAACTGCCACATAATACGACAGTTTCACCCATTGTGTCGTC
* * * **
31221250 TTATTAT-AAAA-A-TATTATTTTTATCATGAAATTGTTGTGGAGGTAAATTTAAC-AAAAAAAC
320 TTATTATAAAAATATTATTATTTTTATCATGAAATTATTCTGAAGACAAATTTAACAAAAAAAAC
* * *
31221311 TGATACGACGGTTTCACCCATTGTGTCATCTTGTTATA-AA-ATT-TTATTTTTATCATGAAACC
385 TGATACGACAGTTTCACCCATTGTGCCATCTTGTTATAGAATATTATTATTTTTACCATGAAACC
* * * * *
31221373 GTTGTCAACCCATTGTGTCATCTTGTAATTTTCTTAAGGATTTACGATTAGAACTTAATTTATAG
450 GTTGTAAACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTACAATTAGAACTTAATTTAAAG
*
31221438 GGGTTAAATAGTAATTATACCTAGA-ATATA
515 GGATTAAATAGTAATTATACC-A-ATA-ATA
* *
31221468 TATATGGTCTGTTATTGAAGTAACTATGTATGCTATATTATAAAACATTAGTAATTAAAATTATA
1 TATATGGTCTGTTATTGAAGTAAGTATGTATGTTATATTATAAAACATTAGTAATTAAAATTATA
* ** * *
31221533 AAATGAAAATTTATTTAAATAGAACGGAAGTGATAATGGGAATAGGTGGCAAAAAGAGAAACATT
66 AAAT-AAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTGGCAAAAACAAAAACATT
* * *
31221598 TCCACCTTTTCTTCGAGCAAACTGAACCAAGGGGGAAAGAAGAGAGGAATGTTCGGCTTTAAGGG
130 TCCATCTTTTCTTC-AGCAAACTGAACCAAGGGAGAAAGAAGAGAGGAACGTTCGGCTTTAAGGG
* * *
31221663 TGTAACGCCCTC-AAAAGTTTTGCTTTTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGC
194 TGTAACGCCC-CAAAAAATTTT-ATTTTTGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGC
* *
31221727 TTTGAAAATATTTTTTATATGACAAACTG-----TCAT--G--A-TTTCACCCATTGTGTCGTCT
257 TTTGAAAATA-TTTTTATATGAGAAACTGCCACATAATACGACAGTTTCACCCATTGTGTCGTCT
* * * **** *
31221782 TATTGTAAAAATATTATTATTTTTATCATAAAATTATTGC-GGAGAC-AATTTTTTTAAAAAAAT
321 TATTATAAAAATATTATTATTTTTATCATGAAATTATT-CTGAAGACAAATTTAACAAAAAAAAC
* * * *
31221845 TGATACTATAGTTTCACCCATTGTGTCATATTGT
385 TGATACGACAGTTTCACCCATTGTGCCATCTTGT
31221879 AATTAAATAG
Statistics
Matches: 827, Mismatches: 104, Indels: 55
0.84 0.11 0.06
Matches are distributed among these distances:
531 23 0.03
532 5 0.01
533 6 0.01
534 64 0.08
536 3 0.00
539 94 0.11
540 67 0.08
541 197 0.24
542 46 0.06
544 33 0.04
545 1 0.00
546 5 0.01
547 216 0.26
548 66 0.08
549 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (542 bp):
TATATGGTCTGTTATTGAAGTAAGTATGTATGTTATATTATAAAACATTAGTAATTAAAATTATA
AAATAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTGGCAAAAACAAAAACATTT
CCATCTTTTCTTCAGCAAACTGAACCAAGGGAGAAAGAAGAGAGGAACGTTCGGCTTTAAGGGTG
TAACGCCCCAAAAAATTTTATTTTTGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTG
AAAATATTTTTATATGAGAAACTGCCACATAATACGACAGTTTCACCCATTGTGTCGTCTTATTA
TAAAAATATTATTATTTTTATCATGAAATTATTCTGAAGACAAATTTAACAAAAAAAACTGATAC
GACAGTTTCACCCATTGTGCCATCTTGTTATAGAATATTATTATTTTTACCATGAAACCGTTGTA
AACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTACAATTAGAACTTAATTTAAAGGGATTA
AATAGTAATTATACCAATAATA
Found at i:31224539 original size:2 final size:2
Alignment explanation
Indices: 31224532--31224577 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
31224522 TCTACCTAGA
31224532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31224574 AT AT
1 AT AT
31224578 GGCAGGTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31225121 original size:578 final size:577
Alignment explanation
Indices: 31224011--31225121 Score: 1457
Period size: 578 Copynumber: 1.9 Consensus size: 577
31224001 CCGACTATTG
* *
31224011 AAGTATGTATGTTATATTATAAAACATCAGTAATTAAAATTATACAATGAAAATTTAATTAAATA
1 AAGTATGTATGCTATATTATAAAACATCAGTAATTAAAATTATAAAATGAAAATTTAATTAAATA
* * ** *
31224076 CAATATATGTGATAATGGGAATTGGTGGCAAAAACAAAGACATGTCCATCTTTTCTTCGTACAAA
66 CAACATATGTGATAATGAGAAGAGGTGGCAAAAACAAAGACATGTCCATCTTTTCTTCCTACAAA
* * *
31224141 CCGAAACAAGCGACAAGGAAGTGAGGAATGTTCGGCTTTAAGGGTGTAATGCCCCAAAAAAAATT
131 CCGAAACAAGCGACAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCCAAAAAAAATT
* * *** *
31224206 GTTTTTGGAGGTGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTGAAAAGATTTTTTTATATG
196 ATTTTTAGAAACGTTAAAACATGTCAAGGGTGTAATGTTCAGCTTTGAAAAGATTTTTTTATATG
* * * * * * *
31224271 AGAAATTGTCACCTGATACGACGGTTCCACGCATTTTGTCGTCTTGTTATAAAATTATTATTATT
261 AGAAACTGCCACCTGATACAACGGTTCCACCCATTGTGTCGTCTTATTAAAAAATTATTATTATT
*
31224336 ATAATGAAATTGTTGCGGTGGCAATTTTAACAAAAAAAAACTGATACGACGGTTTCACCCATTGT
326 ATAATGAAATTATTGCGGTGGCAATTTTAACAAAAAAAAACTGATACGACGGTTT---CCATTGT
* * * * *
31224401 GCCAGCTTGTTATAAAATATTATTATTATTATCATGAAACTGTTGTAGACTCATTGTATCATCTT
388 --CA-CTTGTTATAAAACATTATTATTATTATCATGAAACTGCTATAAACTCATTGTACCATCTT
* * *
31224466 GTAATTTGCTCAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAAATAGTACTTCTACCTAG
450 GTAATTTGCTCAAGAATTTATAATTAGAACTTAATTTAAAGGGGTTAAATAGTACTTATACCAAG
31224531 AATATATATATATATATATATATATATATATATATATATATATATATGGCAGGTTATTGAAGT
515 AATATATATATATATATATATATATATATATATATATATATATATATGGCAGGTTATTGAAGT
* *
31224594 AAGTATGTATGCTATATTATAAAACATTAGTAATTAAAATTATAAAATGAAAATTTTATTAAATA
1 AAGTATGTATGCTATATTATAAAACATCAGTAATTAAAATTATAAAATGAAAATTTAATTAAATA
* * * * *
31224659 GAACATATGTGATAATGAGAAGAGGTGGTAAAAACAAAATACATTTCCATCTTTTCTTCCTGCAA
66 CAACATATGTGATAATGAGAAGAGGTGGCAAAAAC-AAAGACATGTCCATCTTTTCTTCCTACAA
* * * * * * *
31224724 ATCGAACCAAGGGACAAAGAAGAGAGGAATGTTCTGCTTTAAGGGTGTAACGCCTCAAAATATAT
130 ACCGAAACAAGCGACAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCCAAAAAAAAT
* *
31224789 ATATATTTTAGAAACGTTAAAACATGTCAAGGGTGTAATGTTTAGCTTTGAAAATATTTTTTTAT
195 -TAT-TTTTAGAAACGTTAAAACATGTCAAGGGTGTAATGTTCAGCTTTGAAAAGATTTTTTTAT
** * *
31224854 ATGAGAAACTGCCGTCTGATACAATGGTTGCACCCATTGTGTCGTCTTAATATAAAAATATTATT
258 ATGAGAAACTGCCACCTGATACAACGGTTCCACCCATTGTGTCGTCTT-AT-TAAAAA-ATTATT
* * * * *
31224919 CTTTTTATCATGAAATTATTGCTGG-GGCAATTTT-A-ATAAAAAAATTGATACGACGGTTT-CA
320 ATTATTATAATGAAATTATTGC-GGTGGCAATTTTAACAAAAAAAAACTGATACGACGGTTTCCA
* *
31224980 TT-T-A-TTGTGTATAAAACATTATTATTATTATCATGCAACTGCTATAAAC-CTATTGTGCCAT
384 TTGTCACTTGT-TATAAAACATTATTATTATTATCATGAAACTGCTATAAACTC-ATTGTACCAT
* * *
31225041 CTTGTAATTTGGTTAAGAATTTATAATTAGAACTTAATTTAAAGGGGTTAAATATTTA-TTATAC
447 CTTGTAATTTGCTCAAGAATTTATAATTAGAACTTAATTTAAAGGGGTTAAATA-GTACTTATAC
31225105 CAAGAATATATATATAT
511 CAAGAATATATATATAT
31225122 GGCTGGTTAA
Statistics
Matches: 456, Mismatches: 62, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
577 5 0.01
578 115 0.25
579 3 0.01
582 1 0.00
583 94 0.21
584 80 0.18
585 2 0.00
586 92 0.20
587 23 0.05
588 6 0.01
589 33 0.07
590 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (577 bp):
AAGTATGTATGCTATATTATAAAACATCAGTAATTAAAATTATAAAATGAAAATTTAATTAAATA
CAACATATGTGATAATGAGAAGAGGTGGCAAAAACAAAGACATGTCCATCTTTTCTTCCTACAAA
CCGAAACAAGCGACAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCCAAAAAAAATT
ATTTTTAGAAACGTTAAAACATGTCAAGGGTGTAATGTTCAGCTTTGAAAAGATTTTTTTATATG
AGAAACTGCCACCTGATACAACGGTTCCACCCATTGTGTCGTCTTATTAAAAAATTATTATTATT
ATAATGAAATTATTGCGGTGGCAATTTTAACAAAAAAAAACTGATACGACGGTTTCCATTGTCAC
TTGTTATAAAACATTATTATTATTATCATGAAACTGCTATAAACTCATTGTACCATCTTGTAATT
TGCTCAAGAATTTATAATTAGAACTTAATTTAAAGGGGTTAAATAGTACTTATACCAAGAATATA
TATATATATATATATATATATATATATATATATATATATATGGCAGGTTATTGAAGT
Found at i:31257175 original size:45 final size:47
Alignment explanation
Indices: 31257124--31257212 Score: 121
Period size: 45 Copynumber: 1.9 Consensus size: 47
31257114 CCCTGATAAT
*
31257124 AACTCTTCA-GAGTTACCTGTTA-AGCTC-AATGAGCTTCCTGTTTTA
1 AACTCTT-ATGAGTTACCTGTTATAGCTCGAATAAGCTTCCTGTTTTA
* *
31257169 AACTCTTATGAGTTTCCTGTTATAGCTCGGATAAGCTTCCTGTT
1 AACTCTTATGAGTTACCTGTTATAGCTCGAATAAGCTTCCTGTT
31257213 ACATGGCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 1 0.03
45 19 0.50
46 5 0.13
47 13 0.34
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (47 bp):
AACTCTTATGAGTTACCTGTTATAGCTCGAATAAGCTTCCTGTTTTA
Found at i:31258848 original size:20 final size:20
Alignment explanation
Indices: 31258823--31258866 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
31258813 CCATGCCATT
*
31258823 ATATAATTTGTGATAGTGTG
1 ATATAATTTGTGATACTGTG
31258843 ATATAATTTGTGATACTGTG
1 ATATAATTTGTGATACTGTG
31258863 ATAT
1 ATAT
31258867 CTCCTGACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (20 bp):
ATATAATTTGTGATACTGTG
Found at i:31262234 original size:6 final size:6
Alignment explanation
Indices: 31262225--31262257 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
31262215 TAAGTCTAAG
31262225 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
31262258 CAAATAGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:31263844 original size:29 final size:29
Alignment explanation
Indices: 31263769--31263851 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 29
31263759 TGAATAAACA
*
31263769 AGAATAAATAAAGAAATAA-ATAA-AATT
1 AGAATAAATAAAGAAATAATAAAATAATT
*
31263796 AGTAA-AACTAATA-AAA-AATAAAATAATT
1 AG-AATAAATAA-AGAAATAATAAAATAATT
*
31263824 AGAATAAATAAAGAAATAATAATATAAT
1 AGAATAAATAAAGAAATAATAAAATAAT
31263852 AATAAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
26 2 0.04
27 16 0.36
28 17 0.38
29 10 0.22
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (29 bp):
AGAATAAATAAAGAAATAATAAAATAATT
Found at i:31268444 original size:17 final size:17
Alignment explanation
Indices: 31268395--31268452 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
31268385 CGACAGCCCA
* **
31268395 TGTGGCTCACACGGGCA
1 TGTGGCCCACACGGGTG
*
31268412 TTTGGCCCACACGGGTG
1 TGTGGCCCACACGGGTG
31268429 TGTGGCCCACACGGGTG
1 TGTGGCCCACACGGGTG
31268446 TGTGGCC
1 TGTGGCC
31268453 AACCCATGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.12, C:0.29, G:0.38, T:0.21
Consensus pattern (17 bp):
TGTGGCCCACACGGGTG
Found at i:31276740 original size:25 final size:25
Alignment explanation
Indices: 31276706--31276779 Score: 107
Period size: 24 Copynumber: 3.0 Consensus size: 25
31276696 TCATTCTGTG
31276706 GCAAAGGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTGACGGTAAAAT
* *
31276731 GCAAAGGATGAATTAACGGT-ATAT
1 GCAAAGGATGAATTGACGGTAAAAT
*
31276755 GCAAAGGATGAATTGACAG-AAAAT
1 GCAAAGGATGAATTGACGGTAAAAT
31276779 G
1 G
31276780 TACCCAAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 24 0.56
25 19 0.44
ACGTcount: A:0.45, C:0.08, G:0.27, T:0.20
Consensus pattern (25 bp):
GCAAAGGATGAATTGACGGTAAAAT
Found at i:31276761 original size:24 final size:25
Alignment explanation
Indices: 31276706--31276768 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
31276696 TCATTCTGTG
*
31276706 GCAAAGGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTAACGGTAAAAT
*
31276731 GCAAAGGATGAATTAACGGT-ATAT
1 GCAAAGGATGAATTAACGGTAAAAT
31276755 GCAAAGGATGAATT
1 GCAAAGGATGAATT
31276769 GACAGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (25 bp):
GCAAAGGATGAATTAACGGTAAAAT
Found at i:31276892 original size:20 final size:19
Alignment explanation
Indices: 31276864--31276936 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 19
31276854 TGTTGACTCA
* *
31276864 TATGAGTTCTGTTTAACCC
1 TATGGGTTCTGATTAACCC
*
31276883 TTATGGGTTCTCGATTAGCTCC
1 -TATGGGTTCT-GATTAAC-CC
* *
31276905 TACGAGCTTCTGATTAACCCC
1 TATG-GGTTCTGATTAA-CCC
31276926 TATGGGTTCTG
1 TATGGGTTCTG
31276937 TTTAGCACTT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 15 0.37
21 18 0.44
22 8 0.20
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (19 bp):
TATGGGTTCTGATTAACCC
Found at i:31284425 original size:25 final size:24
Alignment explanation
Indices: 31284397--31284464 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
31284387 TCGTTCTGTG
*
31284397 GCAAAGGATGAATTGATGGTAAAAT
1 GCAAAGGATGAATTGACGGT-AAAT
*
31284422 GCAAAGGATGAATTGACGGTATAT
1 GCAAAGGATGAATTGACGGTAAAT
*
31284446 GAAAAGGATGAATTGACGG
1 GCAAAGGATGAATTGACGG
31284465 GGAATATACC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.41, C:0.06, G:0.31, T:0.22
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGGTAAAT
Found at i:31286924 original size:23 final size:23
Alignment explanation
Indices: 31286880--31286927 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
31286870 TAGCAGTAGG
* * *
31286880 ATCTGAATCTTTATTTGATATGC
1 ATCTGAATATGTATCTGATATGC
*
31286903 ATCTGAATATGTATCTGCTATGC
1 ATCTGAATATGTATCTGATATGC
31286926 AT
1 AT
31286928 TGATGTCTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (23 bp):
ATCTGAATATGTATCTGATATGC
Found at i:31301275 original size:19 final size:19
Alignment explanation
Indices: 31301239--31301279 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
31301229 TCATACCGTT
*
31301239 GGACTGTTTCGGACTTTTG
1 GGACTGTTTCAGACTTTTG
* *
31301258 GGACTGTTTTAGATTTTTG
1 GGACTGTTTCAGACTTTTG
31301277 GGA
1 GGA
31301280 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.32, T:0.44
Consensus pattern (19 bp):
GGACTGTTTCAGACTTTTG
Found at i:31303081 original size:35 final size:35
Alignment explanation
Indices: 31303019--31303086 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
31303009 CAGTAAAATA
*
31303019 TTTTCCGTAAAATGATTTCGGGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTCGGGAAAAATATTTTAC
* *
31303054 TTTTCTGTAAAATGATTTACTGG-AAAATATTTT
1 TTTTCCGTAAAATGATTT-CGGGAAAAATATTTT
31303087 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.90
36 3 0.10
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTCGGGAAAAATATTTTAC
Found at i:31306090 original size:17 final size:17
Alignment explanation
Indices: 31306055--31306092 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
31306045 CGTTTTGCTT
*
31306055 AAAAATATTTTTATTTC
1 AAAAATATTTTTATATC
31306072 AAAAATATTTTT-TAATC
1 AAAAATATTTTTAT-ATC
31306089 AAAA
1 AAAA
31306093 GTGCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAATATTTTTATATC
Found at i:31311370 original size:20 final size:20
Alignment explanation
Indices: 31311326--31311370 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
31311316 TTAGCAATGA
* *
31311326 TTTTATTATTATTTTTAAAT
1 TTTTTTTATTATTTTGAAAT
* *
31311346 ATTTTTTATTATTTTGGAAT
1 TTTTTTTATTATTTTGAAAT
31311366 TTTTT
1 TTTTT
31311371 GTAAGTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTTTATTATTTTGAAAT
Found at i:31314647 original size:143 final size:144
Alignment explanation
Indices: 31314258--31316549 Score: 2507
Period size: 143 Copynumber: 16.1 Consensus size: 144
31314248 CGAGGTAAAT
* * * * *
31314258 TTCTTATGTCTTATGACTTTTTTTTTCAATTCCATTTTTAAATAATGAAACTCGAATTTTGAGGC
1 TTCTCATGTCTTATGA--TTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
* *
31314323 GCAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAA-GGAAATTTGCCAT
64 GAAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCAT
* * *
31314387 GTGATGCGTACCAAAG
129 GTGATGCATAGCGAAG
* * * *
31314403 TTCTTATGTCTTGTGATT-TTTTTAAATTTAATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* ** * * *
31314467 AATTGGTTACAGAATCAAAAATAAAGTATAAACTTTTAACAGGTTAAAATGGAAATTTACCATGT
66 AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
31314532 GATGCA-AG-GAAAG
131 GATGCATAGCG-AAG
* * * * * *
31314545 TTCTCATGTCTTATGATTCTTTTT-AATTTCATTGTTAAAATATTGAAGCTCGAATTTTAAAGTG
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATT-TTTAAATATTAAAACTCGAATTTTGAGGCG
* * * * ** *
31314609 AAGCCCGTTATAGAA-CTAAAGATAAAGTATACATTTTTAAGAGGTTACAATAAAAATTTATCAT
65 AAGTCCGTTACAGAATC-AAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCAT
31314673 GTGATGCATAGCGAAG
129 GTGATGCATAGCGAAG
* * * * * * * *
31314689 TTCTTATGTCTTATAATT-TTTTTCAATTTCATTTTTAAATATTAAAACTTGGACTTCGAAGCAA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * * * * *
31314753 AG-CCTTTACGGAATAAAAAATAAAGTATAAATTTTGAAGAGGTAAAAATGGAAATTTA-C----
66 AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
31314812 -ATG--T---GAAG
131 GATGCATAGCGAAG
* * * *
31314820 TTCTTATGTCTTATGATTGTTTTTCAAATTT--TTTTTAAATATTGAAACTCGAATTTTGAGGCA
1 TTCTCATGTCTTATGATTCTTTTTC-AATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
** * *
31314883 AAGTCCGTTATGGAATCAAAGATAAAATATAAATTTTTAAGCA-GTTAAAATGGAAATTTAACAT
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAG-AGGTTAAAATGGAAATTTACCAT
31314947 GTGATGCATAGCGAAG
129 GTGATGCATAGCGAAG
* * * *
31314963 TTCTTC-TGTCTTATGATT-TTTTTAAATTTCATTTTTAAATATT-AAGCTCAAATTTTGGGGTC
1 TTC-TCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG-C
* * * *
31315025 GAAG-CCGTTACGGAATCAACGACTCAAGTAT-AA-TTTTAA-AGGTTAAAATGGAAATTTACAA
64 GAAGTCCGTTACAGAATCAAAGA-TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCA
31315086 TGTGATGCATAGCGAAG
128 TGTGATGCATAGCGAAG
* * * * *
31315103 TTCTCGTGTCTTATGATT-TTTTTCAATTTCATTTTTAAATATTGACACTCAAATTTTGAGACGA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * * * *
31315167 AGTCTGTTAC-GAAATCAAAAATAAAATATAAATTATTAAGAGGTTAAAAAGGAAATTTACCATG
66 AGTCCGTTACAG-AATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
31315231 TGATGCATAGCGAAG
130 TGATGCATAGCGAAG
*
31315246 TTCTTATGTCTTATGATGT-TTTTT-AATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
1 TTCTCATGTCTTATGAT-TCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
* * * *
31315309 AAGTCAGTTACAGAATCAAAGATATATTATAAAATTTTAAGAGGTTAAAATGGAAATTTACCATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
* * *
31315374 TGATGCACAACCAAG
130 TGATGCATAGCGAAG
* * * * * * *
31315389 TTCTCGTGTCTTATGATGCCTTTT-AATTTCAATTTTAAATATTAAAATTCAAATTTCGAGGCGA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * *
31315453 AGT-CGATTACAAAATCTAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATG
66 AGTCCG-TTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
31315517 TGATGCATAGCGAAG
130 TGATGCATAGCGAAG
* * * ** * * *
31315532 TTCTCGTATCTTATAATTCTTACT-AATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCCA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * * *
31315596 AGTTCGTTACGGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAAGGGAAATTTACCATCT
66 AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
31315661 GATGCATAGCGAAG
131 GATGCATAGCGAAG
* *
31315675 TTC-CTATGTCTTATGA-TATTTTT-AATTTCATTTTTTAAATATTAAAACTTGAATTTTGAGGC
1 TTCTC-ATGTCTTATGATTCTTTTTCAATTTCA-TTTTTAAATATTAAAACTCGAATTTTGAGGC
** * * * * *
31315737 GAAGTTGGTTACAAAAACAAAGATATATTATAAAATTTTAAGAGGTTAAAATGGAAATTTACCAT
64 GAAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCAT
* *
31315802 GTGATGCACAACGAAG
129 GTGATGCATAGCGAAG
* * * * * *
31315818 TTCTCAAGTCGTATGATTCTTTTT-AATTTCAATTTTAAATATTAAAATTTGAATTTCT-AGTCG
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTT-TGAGGCG
* * * *
31315881 AAGTCGGTTATAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATAGAAATTTACAATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
*
31315946 TGATGAATAGCGAAG
130 TGATGCATAGCGAAG
* * * * *
31315961 TTCTCGTGTCTTATGATTCTTATT-AATTGCGTTTTTAAATATTAAAACTCAAATTTTGAGGAC-
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG-CG
* **
31316024 AAGTCTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAATTTGGAAATTTACCATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
31316089 TGATGCATAGCGAAG
130 TGATGCATAGCGAAG
* * * * * * * * * *
31316104 TTTTTATGTCATATGAATTTTTTTTCAATTTCATTTTTAGATATTGAGACTCAAATTTTGAGACA
1 TTCTCATGTCTTATG-ATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
* * * * *
31316169 AAGTCTGTTACGGTATCAAAAATAAAGTA-AATATTTTTAAGAGATTAAAATGGAAATTTACCAT
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAA-ATTTTTAAGAGGTTAAAATGGAAATTTACCAT
* *
31316233 GTGATGCACATG-AAAG
129 GTGATGCATA-GCGAAG
* * * *
31316249 TTCTTATGTCGTATGATTTTTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGTG
1 TTCTCATGTCTTATGA-TTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
* * * * * *
31316314 AAGTCAGTTACAGAATGAAAGATATAGTATAAACTTTTAAGAGGTTAAAATGAAAATTAACCATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
*
31316379 TGATGCATAGAGAAG
130 TGATGCATAGCGAAG
* * *
31316394 TTCTCGTGTCTTATGATTCTTTTT-TATTTCATTTTTAAATATTGAAACTCGAATTTTGAGGCGA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * * * * *
31316458 AGTCTGTTACGGAATCAAAGATAAAATATATATTTTTAAGAGGTTAAAATGGAAACTTACCTTGT
66 AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
**
31316523 GATGCATAATGAAG
131 GATGCATAGCGAAG
* *
31316537 TTCTTATATCTTA
1 TTCTCATGTCTTA
31316550 GCATTGTAAA
Statistics
Matches: 1817, Mismatches: 273, Indels: 116
0.82 0.12 0.05
Matches are distributed among these distances:
131 50 0.03
132 53 0.03
133 7 0.00
134 1 0.00
136 3 0.00
138 3 0.00
139 3 0.00
140 87 0.05
141 40 0.02
142 212 0.12
143 1036 0.57
144 75 0.04
145 244 0.13
146 3 0.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (144 bp):
TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
GATGCATAGCGAAG
Found at i:31314855 original size:131 final size:132
Alignment explanation
Indices: 31314685--31314950 Score: 342
Period size: 132 Copynumber: 2.0 Consensus size: 132
31314675 GATGCATAGC
* *
31314685 GAAGTTCTTATGTCTTATAATTTTTTTCAATTTCATTTTTAAATATTAAAACTTGGACTTCGAAG
1 GAAGTTCTTATGTCTTATAATTTTTTTCAATTT-ATTTTTAAATATTAAAACTCGAACTTCGAAG
* *
31314750 CAAAG-CCTTTACGGAATAAAAAATAAAGTATAAATTTTGAAG-AGGTAAAAATGGAAATTT-AC
65 CAAAGTCCGTTACGGAATAAAAAATAAAATATAAATTTTGAAGCA-GTAAAAATGGAAATTTAAC
31314812 ATGT
129 ATGT
* * * * *
31314816 GAAGTTCTTATGTCTTATGATTGTTTTTCAAATTT-TTTTTAAATATTGAAACTCGAATTTTGAG
1 GAAGTTCTTATGTCTTATAATT-TTTTTC-AATTTATTTTTAAATATTAAAACTCGAACTTCGAA
* * * * *
31314880 GCAAAGTCCGTTATGGAATCAAAGATAAAATATAAATTTTTAAGCAGTTAAAATGGAAATTTAAC
64 GCAAAGTCCGTTACGGAATAAAAAATAAAATATAAATTTTGAAGCAGTAAAAATGGAAATTTAAC
31314945 ATGT
129 ATGT
31314949 GA
1 GA
31314951 TGCATAGCGA
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
131 50 0.43
132 52 0.45
133 14 0.12
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (132 bp):
GAAGTTCTTATGTCTTATAATTTTTTTCAATTTATTTTTAAATATTAAAACTCGAACTTCGAAGC
AAAGTCCGTTACGGAATAAAAAATAAAATATAAATTTTGAAGCAGTAAAAATGGAAATTTAACAT
GT
Found at i:31316723 original size:181 final size:180
Alignment explanation
Indices: 31316400--31316724 Score: 494
Period size: 181 Copynumber: 1.8 Consensus size: 180
31316390 GAAGTTCTCG
* **
31316400 TGTCTTATGATTCTTTTTTATTTCATTTTTAAATATTGAAACTCGAATTTTGAGGCGAAGTCTGT
1 TGTCTTATGATTCTTTTTTATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCGAAGTCCAT
** *
31316465 TACGGAATCAAAGATAAAATATATATTTTTAAGAGGTTAAAATGGAAACTTACCTTGTGATGCAT
66 TACGGAATCAAAGATAAAATATATATTTTTAAGAGGTTAAAAAAGAAACTTACCTTGTAATGCAT
31316530 AATGAAGTTCTTATATCTTAGCATTGTAAAAAAAAAAAAAAGTTCTTATA
131 AATGAAGTTCTTATATCTTAGCATTGTAAAAAAAAAAAAAAGTTCTTATA
*
31316580 TGTCTTATGATT-TTTTTTCAATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCGCAGTCC
1 TGTCTTATGATTCTTTTTT--ATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCGAAGTCC
* *
31316644 ATTACGGAATCAAAGATAAAGTATA-ATTTTTTAAGAGGTTAAAAAAGAAATTTA-CTATGTAAT
64 ATTACGGAATCAAAGATAAAATATATA-TTTTTAAGAGGTTAAAAAAGAAACTTACCT-TGTAAT
* *
31316707 GTATACTGAAGTTCTTAT
127 GCATAATGAAGTTCTTAT
31316725 GATACATGCA
Statistics
Matches: 130, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
179 6 0.05
180 15 0.12
181 109 0.84
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (180 bp):
TGTCTTATGATTCTTTTTTATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCGAAGTCCAT
TACGGAATCAAAGATAAAATATATATTTTTAAGAGGTTAAAAAAGAAACTTACCTTGTAATGCAT
AATGAAGTTCTTATATCTTAGCATTGTAAAAAAAAAAAAAAGTTCTTATA
Found at i:31318396 original size:143 final size:142
Alignment explanation
Indices: 31318138--31320730 Score: 1768
Period size: 143 Copynumber: 18.1 Consensus size: 142
31318128 TAACAGATTC
* * * * * *
31318138 ATGTGATGCATGGCAAACTTCTCGTGTTTTATGATTATTTTTAATTTCATTTTTAAATATTAAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * ** * * * *
31318203 TTCAAATTTTGAGGCGAAATTCGGTACGGAATCAAATATAAAGTATAAATTTTTAATAGGTTAAA
66 CTCGAATTTTGAGGCGAAGCT-GTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
*
31318268 ATAGAAATTTACA
130 ATGGAAATTTACA
* *
31318281 ATGTGATGCAGAGCGAAGTTCTTGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * *
31318346 CTTGAATTTTGAGGCGAAGCTGTTACGGAATCAAAGATAAAGTATAAAATTTATT--GAGGTTAC
66 CTCGAATTTTGAGGCGAAGCTGTTACAGAATCAAAGATAAAGTAT-AAATTT-TTAAGAGGTTAA
* * *
31318409 AATCGATATTTACC
129 AATGGAAATTTACA
* ** *
31318423 ATGTGATGCATAGTGAAGTTCTTATGTCTTATGATAT-TTTTTAAAATTTCATTTTTAAATATTA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTT--AATTTCATTTTTAAATATTG
* * * * * * * *
31318487 AAACTCGAATTTAT-AGGCAAATTCGGCTACAGAAATCATAGATATAGTATAAAGTTTTATGAGG
63 AAACTCGAATTT-TGAGGCGAA-GCTGTTACAG-AATCAAAGATAAAGTATAAATTTTTAAGAGG
* *
31318551 TTAAAATTGAAATTTACC
125 TTAAAATGGAAATTTACA
* * * ** *
31318569 ATTTGATGCATAGTGAAGTTCTCGTGTTTTATGA-TAATTTT--TTT-ATTTTTAAATATTAAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * * * *
31318630 TTCAAATTTCGAGGCAAAGTCAGTTATAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTGAA
66 CTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
*
31318695 ATGGTAATTTACA
130 ATGGAAATTTACA
* *
31318708 ATGTGATGCTTAGTGAAGTTCTCGTGTCTTATG----------A-TTC-TTTTTAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * * * *
31318761 CTC-AATTTTGAGGCACAATCCGTCACAGAATTAAAGATAAAATATAAATTTTTAAGAGGTTGAA
66 CTCGAATTTTGAGGC-GAAGCTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
*
31318825 ATGGTAATTTACA
130 ATGGAAATTTACA
* *
31318838 ATGTGATGCTTAGTGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * ** ** * * * * *
31318903 CTCAAACTTTAAGGCTAAGTCCATTATGGAATTAAAGTTAAAATATAAAGTGTTAAGAGGTTAAA
66 CTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
* *
31318968 GTGGTAATTTACA
130 ATGGAAATTTACA
* * * *
31318981 ATGTGATGCGTAGTGAAGTTCTCATGTCTTATGATTCTTTTTAATTTTA-TTTTAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * *
31319045 CTCGAACTTTGAGGCGAAGTTCATTAC-GAAATTAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
66 CTCGAATTTTGAGGCGAAGCT-GTTACAG-AATCAAAGATAAAGTATAAATTTTTAAGAGGTTAA
* * *
31319109 ATTGGAAATATACC
129 AATGGAAATTTACA
* * * * * * * * *
31319123 ATGTAATGCATAGC-AGACTTCTCATGTTTTCTAATTTTTTTTAATTTCGTTTTTAAATATTAAA
1 ATGTGATGCATAGCGA-AGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAA
* * * * * *
31319187 ATTTGAATTTTGAGGCGAAGTCGGTTACAAAATCAAAGATAAAGTATAAACTTTTAAAAGGTTAA
65 ACTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAA
31319252 AATGGAAATTTACA
129 AATGGAAATTTACA
* * * * *
31319266 ATGTGATGTAGAGCGAAGCTCTCGTGTCTTATGATAT-TTTTTAATTTTCATTTCTAAATATTAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTTAA-TTTCATTTTTAAATATTGA
* * *
31319330 AACTCGAATTTTGTGGCGAAG-TCGATTACAGAATCAAAGATAAAGTATAAAATTTTGAGAGGTT
64 AACTCGAATTTTGAGGCGAAGCT-G-TTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTT
* *
31319394 CAAATGGAAATTTACC
127 AAAATGGAAATTTACA
* * * * * *
31319410 ATGTGATGCATAGCGAAGCTCTCATGTCTTATGATTCTTTTTAATTTAAATATTAAATATTAAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * * *** * **
31319475 TTTAC-AATATGATGCATAGCAAAGTTCTCGTGTAATATGAATC--TTTTTAA-T-TTCA-TTTT
66 -CT-CGAAT-T-TTG-A-GGCGAAG--CT-GT-T-ACA-GAATCAAAGATAAAGTATAAATTTTT
* * * *
31319534 ATATA--TTGAAACTAGAATTTTGAGACA
119 A-AGAGGTT-AAAATGGAAATTT---ACA
* * * * * * *** ** *** *
31319561 AAGT-CTG-TTA-CGAAATTATAGATGAAGTAT-A-AATTTTTAA----AAGGTTAAA-ATGGAA
1 ATGTGATGCATAGCGAAGTTCTCG-TGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAA
* * ** * * * ** ** * * *
31319616 ATTTACCATATGATGCATAGCAAACTTCTCGGGTTTTATTGTTCTTCTTAAGATATAGTGTAAAT
65 A-CT-CGA-ATTTTG-A-GGCGAA--GCT---G--TTACAG--AATC-AAAGATAAAGTATAAAT
*
31319681 TTTTAATAGGTTAAAATGGAAATTTACA
115 TTTTAAGAGGTTAAAATGGAAATTTACA
* * *
31319709 ATGTGATGCATAGAGAAGTGCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAACATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * * * * *
31319774 CTCGAATTTTAAGGCAAATTCCGTTACGGAATTATAGATAAATTATAAATTTTTAAGAGGTTAAA
66 CTCGAATTTTGAGGCGAA-GCTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
* *
31319839 ATAGAAATTTACC
130 ATGGAAATTTACA
* * * * * *
31319852 ATGTGATGCATAGCAAACTTCTCGTGTTTTATGTTTTTTTATTTAATTTCATTTTTAAATATTAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATG-ATTCTT-TTTAATTTCATTTTTAAATATTGA
* * ** * * * * * * * *
31319917 AATTCAAATTTCAAGACTAAGTCGGGTACAAAAT--AATATAAAGTATAATTTTTTAAAAGGTTA
64 AACTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTA
**
31319980 AAACAGAAATTTACCA
128 AAATGGAAATTTA-CA
** * * * * * *
31319996 A-GTGACACATAACAAACTTCTCTTGTCTTATGATTCTTTTTAATTTCATTTTTCACTATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * *
31320060 CTCGAATTTTGCGGCGAA-CTCCGTTACAAAATGAATGATAAAGTATAAATTTTTAAGAGGTTAA
66 CTCGAATTTTGAGGCGAAGCT--GTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAA
*
31320124 AATGGAAATTTACC
129 AATGGAAATTTACA
* * * * *
31320138 ATGTGATGCATAGCAAACTTCTAGTGTTTTATGATAT-TTTTAAATTTCATTTTTAAATA-TGAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTTAATTTCATTTTTAAATATTG-A
* * * * * * * * **
31320201 AATTTGAATTTCGAGGCAAAGTCGGTTACAAAATCAAAGATACAGTATAAATTTTTGACTGGTTA
64 AACTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTA
*
31320266 AAATGGAAATTTAAA
128 AAATGGAAATTTACA
* * * * * * *
31320281 ATGTGATGCATAGCAAAGTTCTTGTGTCTTTTGATTGTTTTAAAGTT-ATTTATAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * *
31320345 CTCGAATTTTGAGGCGAA-CTCCGTTACGGAATTAAAGATAAAGTATAAATTTTTAAGTGGTTAA
66 CTCGAATTTTGAGGCGAAGCT--GTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAA
*
31320409 AATGGAAATTTACC
129 AATGGAAATTTACA
* ** * * *
31320423 ATGTGATGCATGGAAAACTTCTCGTGT-TATATGAATCTTTTTAATTTCATTTTTAAATATTAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCT-TATGATTCTTTTTAATTTCATTTTTAAATATTGAA
* * * * * *
31320487 ACTCAAATTTCGTGGCGAAG-TCGATTACAGATTCAAAGATAAAGTATAAACTTTTAAAAGGTTA
65 ACTCGAATTTTGAGGCGAAGCT-G-TTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTA
*
31320551 AAATGAAAATTTACA
128 AAATGGAAATTTACA
* * * * *
31320566 ATGTGAAGTAGAGCGAAGTTCTTGTGTCTTATGATAT-TTTTTAATTTTCATTTCTAAATATTGA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTTAA-TTTCATTTTTAAATATTGA
* * * ** * *
31320630 AACTCGAATTTTGTGGCGAAGTCGGTTACAAAATCAAAGATAAAGTATAAAACTTTGAGAGGTTC
64 AACTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTA
*
31320695 AAATGGAAATTTACC
128 AAATGGAAATTTACA
*
31320710 ATGTGATGCATAGCTAAGTTC
1 ATGTGATGCATAGCGAAGTTC
31320731 AAAGATAAAG
Statistics
Matches: 1954, Mismatches: 382, Indels: 227
0.76 0.15 0.09
Matches are distributed among these distances:
130 96 0.05
131 21 0.01
139 72 0.04
140 39 0.02
141 52 0.03
142 357 0.18
143 744 0.38
144 284 0.15
145 68 0.03
146 71 0.04
147 9 0.00
148 34 0.02
149 14 0.01
150 16 0.01
151 37 0.02
152 16 0.01
153 6 0.00
154 3 0.00
155 2 0.00
156 7 0.00
157 6 0.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (142 bp):
ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
CTCGAATTTTGAGGCGAAGCTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAA
TGGAAATTTACA
Found at i:31318714 original size:285 final size:283
Alignment explanation
Indices: 31318138--31320730 Score: 1600
Period size: 285 Copynumber: 9.1 Consensus size: 283
31318128 TAACAGATTC
* ** * * *
31318138 ATGTGATGCATGGCAAACTTCTCGTGTTTTATGATTATTTTTAATTTCATTTTTAAATATTAAAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAA
* * * * * * *
31318203 TTCAAATTTTGAGGCGAAATTCG-GTACGGAATCAAATATAAAGTATAAATTTTTAATAGGTTAA
65 CTCGAATTTTGAGGC-AAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
* * * *
31318267 AATAGAAATTTACAATGTGATGCAGAGCGAAGTTCTTGTGTCTTATGATTCTTTTTAATTTCATT
129 AATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTT-ATTTCATT
* * * *
31318332 TTTAAATATTGAAACTT-GAATTTTGAGGCGAAG-CTGTTACGGAATCAAAGATAAAGTATAAAA
193 TTTAAATATT-AAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTAT-AAA
* *
31318395 TTTATT--GAGGTTACAATCG-ATATTTACC
256 TTT-TTAAGAGGTTA-AATGGTA-ATTTACA
*
31318423 ATGTGATGCATAGTGAAGTTCTTATGTCTTATGATATTTTTTAAAATTTCATTTTTAAATATTAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGAT-TTTTTT--AATTTCATTTTTAAATATTAA
* * * *
31318488 AACTCGAATTTAT-AGGCAAATTCGGCTACAGAAATCATAGATATAGTATAAAGTTTTATGAGGT
63 AACTCGAATTT-TGAGGCAAATTCGACTACAG-AATCAAAGATAAAGTATAAAGTTTTAAGAGGT
* * * * **
31318552 TAAAATTGAAATTTACCATTTGATGCATAGTGAAGTTCTCGTGTTTTATGA-TAATTTT-TTT-A
126 TAAAATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTATTTCA
* * *
31318614 TTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTCAGTTATAGAATCAAAGATAAAGTATAAA
191 TTTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAA
31318679 TTTTTAAGAGGTTGAAATGGTAATTTACA
256 TTTTTAAGAGGTT-AAATGGTAATTTACA
* * *
31318708 ATGTGATGCTTAGTGAAGTTCTCGTGTCTTATG---------A-TTC-TTTTTAAATATTGAAAC
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGATTTTTTTAATTTCATTTTTAAATATTAAAAC
* * * * * *
31318762 TC-AATTTTGAGGCACAATCCGTC-ACAGAATTAAAGATAAAATATAAATTTTTAAGAGGTTGAA
66 TCGAATTTTGAGGCA-AATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAAA
* * * *
31318825 ATGGTAATTTACAATGTGATGCTTAGTGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTT
130 ATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTT-ATTTCATTT
* * * * * ** * * * *
31318890 TTAAATATTGAAACTCAAACTTTAAGGCTAAGTCCA-TTATGGAATTAAAGTTAAAATATAAAGT
194 TTAAATATTAAAATTCAAATTTTGAGGCGAAGT-CAGTTACAGAATCAAAGATAAAGTATAAATT
*
31318954 GTTAAGAGGTTAAAGTGGTAATTTACA
258 TTTAAGAGGTTAAA-TGGTAATTTACA
* * *
31318981 ATGTGATGCGTAGTGAAGTTCTCATGTCTTATGATTCTTTTTAATTTTA-TTTTAAATATTGAAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAA
* * * *
31319045 CTCGAACTTTGAGGCGAAGTTC-ATTAC-GAAATTAAAGATAAAGTATAAAGTTTTAAGAGGTTA
65 CTCGAATTTTGAGGC-AAATTCGACTACAG-AATCAAAGATAAAGTATAAAGTTTTAAGAGGTTA
* * * * * * * * * *
31319108 AATTGGAAATATACCATGTAATGCATAGC-AGACTTCTCATGTTTTCTAATTTTTTTTAATTTCG
128 AAATGGAAATTTACCATGTGATGCATAGCGA-AGTTCTCGTGTCTTATGATTCTTTTT-ATTTCA
** * *
31319172 TTTTTAAATATTAAAATTTGAATTTTGAGGCGAAGTCGGTTACAAAATCAAAGATAAAGTATAAA
191 TTTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAA
* * *
31319237 CTTTTAAAAGGTTAAAATGGAAATTTACA
256 TTTTTAAGAGGTT-AAATGGTAATTTACA
* * * * * *
31319266 ATGTGATGTAGAGCGAAGCTCTCGTGTCTTATGATATTTTTTAATTTTCATTTCTAAATATTAAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGAT-TTTTTTAA-TTTCATTTTTAAATATTAAA
* * * * * * *
31319331 ACTCGAATTTTGTGGCGAAGTCGATTACAGAATCAAAGATAAAGTATAAAATTTTGAGAGGTTCA
64 ACTCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
* * * *
31319396 AATGGAAATTTACCATGTGATGCATAGCGAAGCTCTCATGTCTTATGATTCTTTTTAATTTAAAT
129 AATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTT-ATTTCATT
* ** * * * * *** *
31319461 ATTAAATATTAAAATTTACAATATGATGCATAGCAAAGTTCTCGTGTAATATGAATC--TTTTTA
193 TTTAAATATTAAAA-TT-CAA-ATTTTG-A-GGCGAAG-TC-AGT-T-ACA-GAATCAAAGATAA
** * *
31319524 A-T-TTCA-TTTTATATA--TTGAAACTAG-AATTTTGAGACA
248 AGTATAAATTTTTA-AGAGGTT-AAA-TGGTAA-TTT---ACA
* * * * * * * *** ** *** *
31319561 AAGT-CTG-TTA-CGAAATTATAGATGAAGTAT-AAATTTTTAA----AAGGTTAAA-ATGGAAA
1 ATGTGATGCATAGTGAAGTTCT-CATGTCTTATGATTTTTTTAATTTCATTTTTAAATAT-TAAA
** * ** * ** ** ** * * * *
31319617 TTTACCATATGATGCATAGCAAACTTCTCGGGTTTTATTGTTCTTCTTAAGATATAGTGTAAATT
64 ACT-CGA-ATTTTG-A-GGCAAA--T-TC--G-ACTACAG--AATC-AAAGATAAAGTATAAAGT
* * * *
31319682 TTTAATAGGTTAAAATGGAAATTTACAATGTGATGCATAGAGAAGTGCTCGTGTCTTATGATTCT
116 TTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCT
* * * * * * * * * * *
31319747 TTTTAATTTCATTTTTAAACATTGAAACTCGAATTTTAAGGCAAATTCCGTTACGGAATTATAGA
181 TTTT-ATTTCATTTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGA
* * * *
31319812 TAAATTATAAATTTTTAAGAGGTTAAAATAGAAATTTACC
245 TAAAGTATAAATTTTTAAGAGGTT-AAATGGTAATTTACA
** * * * *
31319852 ATGTGATGCATAGCAAACTTCTCGTGTTTTATGTTTTTTTATTTAATTTCATTTTTAAATATTAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATG--ATTTT-TTTAATTTCATTTTTAAATATTAA
* * ** * * * ** * * ** *
31319917 AATTCAAATTTCAAGACTAAGTCGGGTACAAAAT--AATATAAAGTATAATTTTTTAAAAGGTTA
63 AACTCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTA
** * ** * * * *
31319980 AAACAGAAATTTACCAAGTGACACATAACAAACTTCTCTTGTCTTATGATTCTTTTTAATTTCAT
128 AAATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTT-ATTTCAT
* * * * * * * * * * *
31320045 TTTTCACTATTGAAACTCGAATTTTGCGGCGAACTCCGTTACAAAATGAATGATAAAGTATAAAT
192 TTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAAT
* *
31320110 TTTTAAGAGGTTAAAATGGAAATTTACC
257 TTTTAAGAGGTT-AAATGGTAATTTACA
** * * * *
31320138 ATGTGATGCATAGCAAACTTCT-AGTGTTTTATGATATTTTTAAATTTCATTTTTAAATATGAAA
1 ATGTGATGCATAGTGAAGTTCTCA-TGTCTTATGAT-TTTTTTAATTTCATTTTTAAATATTAAA
* * * * ** * * * * **
31320202 ATTTGAATTTCGAGGCAAAGTCGGTTACAAAATCAAAGATACAGTATAAATTTTTGACTGGTTAA
64 ACTCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
** * * * * * *
31320267 AATGGAAATTTAAAATGTGATGCATAGCAAAGTTCTTGTGTCTTTTGATTGTTTTAAAGTT-ATT
129 AATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTT-TATTTCATT
* * * * * * * *
31320331 TATAAATATTGAAACTCGAATTTTGAGGCGAACTCCGTTACGGAATTAAAGATAAAGTATAAATT
193 TTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAATT
* * *
31320396 TTTAAGTGGTTAAAATGGAAATTTACC
258 TTTAAGAGGTT-AAATGGTAATTTACA
* ** * * *
31320423 ATGTGATGCATGGAAAACTTCTCGTGT-TATATGAATCTTTTTAATTTCATTTTTAAATATTAAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCT-TATG-ATTTTTTTAATTTCATTTTTAAATATTAAA
* * * * * * * * *
31320487 ACTCAAATTTCGTGGCGAAGTCGATTACAGATTCAAAGATAAAGTATAAACTTTTAAAAGGTTAA
64 ACTCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
* * * * * *
31320552 AATGAAAATTTACAATGTGAAGTAGAGCGAAGTTCTTGTGTCTTATGATAT-TTTTTAATTTTCA
129 AATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTT-A-TTTCA
* * * * * * *
31320616 TTTCTAAATATTGAAACTCGAATTTTGTGGCGAAGTCGGTTACAAAATCAAAGATAAAGTATAAA
191 TTTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAA
** * * *
31320681 ACTTTGAGAGGTTCAAATGGAAATTTACC
256 TTTTTAAGAGGTT-AAATGGTAATTTACA
31320710 ATGTGATGCATAGCT-AAGTTC
1 ATGTGATGCATAG-TGAAGTTC
31320731 AAAGATAAAG
Statistics
Matches: 1821, Mismatches: 378, Indels: 216
0.75 0.16 0.09
Matches are distributed among these distances:
269 71 0.04
270 19 0.01
271 24 0.01
272 9 0.00
273 108 0.06
274 2 0.00
283 8 0.00
284 107 0.06
285 547 0.30
286 292 0.16
287 271 0.15
288 79 0.04
289 6 0.00
290 9 0.00
291 26 0.01
292 29 0.02
293 27 0.01
294 29 0.02
295 19 0.01
296 11 0.01
297 14 0.01
298 4 0.00
299 95 0.05
300 2 0.00
301 11 0.01
302 2 0.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (283 bp):
ATGTGATGCATAGTGAAGTTCTCATGTCTTATGATTTTTTTAATTTCATTTTTAAATATTAAAAC
TCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAAAA
TGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTATTTCATTTTT
AAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAATTTTT
AAGAGGTTAAATGGTAATTTACA
Found at i:31319632 original size:213 final size:212
Alignment explanation
Indices: 31319257--31319920 Score: 681
Period size: 229 Copynumber: 3.0 Consensus size: 212
31319247 GTTAAAATGG
* * * *
31319257 AAATTTACAATGTGATGTAGAGCGAAGCTCTCGTGTCTTATGATAT-TTTTTAATTTTCATTTCT
1 AAATTTACAATGTGATGCATAGCAAAGTTCTCGTGTCTTATGA-ATCTTTTTAA-TTTCATTT-T
* * * * * *
31319321 AAATATTAAAACTCGAATTTTGTGGCGAAGTCGATTAC-AGAATCAAAGATAAAGTATAAAATTT
63 AAATATTGAAACTCGAATTTTGAGGCAAAGTCG-TTACGA-AATTATAGATAAAGTATAAATTTT
* * * * *
31319385 TGAGAGGTTCAAATGGAAATTTACCATGTGATGCATAGCGAAGC-TCTCATGTCTTATGATTCTT
126 TAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGC-AAACTTCTCGTGTTTTATG-TTCTT
*
31319449 -TTTAATTTAAATATTAAATATTA
189 ATTTAATTTAAATTTTAAATATTA
* ** *
31319472 AAATTTACAATATGATGCATAGCAAAGTTCTCGTGTAATATGAATCTTTTTAATTTCATTTTATA
1 AAATTTACAATGTGATGCATAGCAAAGTTCTCGTGTCTTATGAATCTTTTTAATTTCATTTTAAA
* * * *
31319537 TATTGAAACTAGAATTTTGAGACAAAGTCTGTTACGAAATTATAGATGAAGTATAAATTTTTAAA
66 TATTGAAACTCGAATTTTGAGGCAAAGTC-GTTACGAAATTATAGATAAAGTATAAATTTTTAAG
* * *
31319602 AGGTTAAAATGGAAATTTACCATATGATGCATAGCAAACTTCTCGGGTTTTATTGTTCTTCTTAA
130 AGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTA-TGTTCTTATT--
* *
31319667 GATATAGTGTAAATTTTTAATAGGTTAAAA
192 --TA-A-TTTAAATTTTAAATA--TT---A
* *
31319697 TGGAAATTTACAATGTGATGCATAG-AGAAGTGCTCGTGTCTTATGATTCTTTTTAATTTCATTT
1 ---AAATTTACAATGTGATGCATAGCA-AAGTTCTCGTGTCTTATGAATCTTTTTAATTTCA-TT
* * * * *
31319761 TTAAACATTGAAACTCGAATTTTAAGGCAAATTCCGTTACGGAATTATAGATAAATTATAAATTT
61 TTAAATATTGAAACTCGAATTTTGAGGCAAAGT-CGTTACGAAATTATAGATAAAGTATAAATTT
* *
31319826 TTAAGAGGTTAAAATAGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGTTTTTT
125 TTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATG--TTCT
* *
31319891 TATTTAATTTCATTTTTAAATATTA
188 TATTTAATTTAAATTTTAAATATTA
31319916 AAATT
1 AAATT
31319921 CAAATTTCAA
Statistics
Matches: 372, Mismatches: 52, Indels: 49
0.79 0.11 0.10
Matches are distributed among these distances:
212 3 0.01
213 100 0.27
214 16 0.04
215 43 0.12
216 5 0.01
218 2 0.01
219 2 0.01
220 12 0.03
222 4 0.01
224 11 0.03
225 2 0.01
226 2 0.01
227 1 0.00
228 53 0.14
229 109 0.29
230 7 0.02
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (212 bp):
AAATTTACAATGTGATGCATAGCAAAGTTCTCGTGTCTTATGAATCTTTTTAATTTCATTTTAAA
TATTGAAACTCGAATTTTGAGGCAAAGTCGTTACGAAATTATAGATAAAGTATAAATTTTTAAGA
GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGTTCTTATTTAAT
TTAAATTTTAAATATTA
Found at i:31320757 original size:66 final size:66
Alignment explanation
Indices: 31320663--31320796 Score: 169
Period size: 66 Copynumber: 2.0 Consensus size: 66
31320653 GGTTACAAAA
* * * * * *
31320663 TCAAAGATAAAGTATAAAACTTTGAGAGGTTCAAATGGAAATTTACCATGTGATGCATAGCTAAG
1 TCAAAGATAAAGTATAAAACTTTAAGAGGCTAAAATGGAAATTTACAATGTGATGAATAGCGAAG
31320728 T
66 T
* ** * *
31320729 TCAAAGATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAG
1 TCAAAGATAAAGTATAAAACTTTAAGAGGCTAAAATGGAAATTTACAATGTGATGAATAGCGAAG
31320794 T
66 T
31320795 TC
1 TC
31320797 TCGTGTGTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (66 bp):
TCAAAGATAAAGTATAAAACTTTAAGAGGCTAAAATGGAAATTTACAATGTGATGAATAGCGAAG
T
Found at i:31320884 original size:143 final size:142
Alignment explanation
Indices: 31320729--31322619 Score: 751
Period size: 142 Copynumber: 13.0 Consensus size: 142
31320719 ATAGCTAAGT
* * * * * * * *
31320729 TCAAAGATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
31320794 TTCTCGTGTGTTATGATTCTTTTTAATCTAACTTTTT-AATATTAAAACTCGAATTTTGAAGGGA
66 TTCTCGTGTTTTATGATTCTTTTTAATTTAA-TTTTTAAATATTAAAACTCAAATTTTG-AGGCA
* *
31320858 AGTCTGTTATGGAA
129 AGTCGGTTATAGAA
* * * * *
31320872 TTAAAGAAAAAGTTTAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
31320937 TTCTCATGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAT
66 TTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAA-
31321001 GTCGGTTATAGAA
130 GTCGGTTATAGAA
* * * *
31321014 TCAAAGATAAAGTATAAATTTTTAA-AAGTTAAAATGAAAATTTA-TATGTGATGTATTGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
31321077 TTCTCGTGTTTTATGATTTTTTTTTAATTTAATTATTAAATATTAAAATTTAAATTTTGAGGTCA
66 TTCTCGTGTTTTATGA-TTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
*
31321142 AGTCGGTTATCGAA
129 AGTCGGTTATAGAA
* * * * * *
31321156 TCAAAGTTAAAGTATAAACTTTTAAGAGGTTAAAATGGAAATTTACAATATGATGCATAGCGAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * * *
31321221 TTCTCGTGTATTATGAATCTTTTTTACTTTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAA
66 TTCTCGTGTTTTATGATTC-TTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
*** **
31321286 AGTCCAATACGGAA
129 AGTCGGTTATAGAA
* * * *
31321300 TTATAA-ATAAAGTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
1 TCA-AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAA
* * * * ** * *
31321364 CTTCTCGGGTTTGATTATTCTTCTTAAGATATTCTAAATTTTTAAGACGTTAAAA-TGAAAATTT
65 CTTCTCGTGTTTTATGATTCTT-TT--TA-ATT-T-AATTTTTAA-ATATTAAAACTCAAATTTT
* *
31321428 -A--CAATGT-GATGCATAGAGA
123 GAGGCAA-GTCGGT-TATAGA-A
** * *** * * ** *** *
31321447 --AGTGGTCGTGTCTTATGATACTTTTTAACTTCATTTTTAAATATTG-AAACCCA-AATATTGA
1 TCAAAGATAAAG---TAT-A-AATTTTTAA---GA-GGTTAAA-A-TGAAAATTTACAAT-GTGA
* * * * ** * ** * ** *** *
31321508 GGCAAAGC--CCGTT-ACG-GAATAATAGATAAAGTATAAAATTTTAAGAGGTTAAA-ATGAAAA
54 TGCATAGCAAAC-TTCTCGTGTTTTAT-GAT--TCTTTTTAA-TTTAA-TTTTTAAATATTAAAA
* * * * * * * **
31321568 TTTACCATGTGATGCATAGCATACTTCTTGTGTTTTATGA
113 CTCA-AAT-T-TTG-A-GGCA-A-GTC--G-GTTATAGAA
****** ** ** ** * *
31321608 TTTTTTTTAAA-T-TTCATTTTTAA-ATATTAAAATTCAAATTT-CGAGACTAAGTCGGGTACAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTAC-A-A-T--GT--GATGCA-
* * **** * * ** * ** ** *
31321669 AATCAAA-TAT-AAAAG-TATA-CATT-TTTAAAAGGTTAAAATGAAAAT-TTGAAACTCAAATT
58 TAGCAAACT-TCTCGTGTTTTATGATTCTTTTTAA-TTTAATTTTTAAATATTAAAACTCAAATT
* * * *
31321728 TTGAGGTGAACTCCGTTA-CGAAA
121 TTGAGG-CAAGTCGGTTATAG-AA
* * * * ** *
31321751 TTAAAGATATAGTATAAATTTTTAAGAGTTTAAAAT-AGAAATATACCGTGTGATGCATAGCAAT
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGA-AAATTTACAATGTGATGCATAGCAAA
* * * *
31321815 CTTCTAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTTGAGGCAA
65 CTTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
** * *
31321880 AGTCAATTACATAA
129 AGTCGGTTATAGAA
* * * * * * *
31321894 TCAAAGATACAGTATAAATTTTTAACAAGTTAAAATGGAAATTTAAAATGTGATGTATAGCAAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * * * * * * *
31321959 TTCTCGTGTCTT-CGAATTGTTTTAAATTT-ATTTATAAATATTGAAATTCGAATTCTGAGCCGA
66 TTCTCGTGTTTTATG-ATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
* *
31322022 ACTCCGG-TATGGAA
129 AGT-CGGTTATAGAA
* * * * * * * * * *
31322036 TTAAAGATAAAGTATAAACTTTTAAGTGGTTAATATGGAAATTTACCATGTAACGCATGGAAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* ** * * * * * ** *
31322101 TTCTCATGTAATATAAATCTTTTTAATTTCATTTTTAAATATTTAAACTCGAACGTCGAGGCGAA
66 TTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-AA
* * *
31322166 GTCAGTTAAAAAA
130 GTCGGTTATAGAA
* * * * *
31322179 TCAAAGAAAAACTTAAAGTATATATTTTTAAGAGGTTAAAATGGAAATTTATAATTTGATGAATA
1 TCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATA
* * * * *
31322244 GCGAAGTTCTCGTG-TTAATGATTCTTTTTAATTTAATTTTTTAATATTAAAACTCGAATTTTGA
60 GCAAACTTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTG-
* ** *
31322308 AGGGAAGTCTATTATGGAA
124 AGGCAAGTCGGTTATAGAA
* * * * * *
31322327 TTAAAGAAAAAGTTTAAATATTTAAGAGTTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
31322392 TTCTCATGTTTTATGATTTTTTTTAATTTCATTTTTTTAAATATTAAAATTCAAATTTAGAGGCA
66 TTCTCGTGTTTTATGATTCTTTTTAATTT-A-ATTTTTAAATATTAAAACTCAAATTTTGAGGCA
31322457 ACGTCGGTTATAGAA
129 A-GTCGGTTATAGAA
* * * *
31322472 TCAAAGATAAAGTATAAAATTTTAAGAGGTTAAAATGGAAATTTA-TATGTGATGCATTGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * * ** *
31322536 TTCTTGTGTTTTATGTTTTTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGGTAA
66 TTCTCGTGTTTTATGATTCTTTTT-AATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
31322601 AGTCGGTTATCA-AA
129 AGTCGGTTAT-AGAA
31322615 TCAAA
1 TCAAA
31322620 ATCAAAATTT
Statistics
Matches: 1280, Mismatches: 364, Indels: 208
0.69 0.20 0.11
Matches are distributed among these distances:
139 5 0.00
140 38 0.03
141 33 0.03
142 306 0.24
143 305 0.24
144 194 0.15
145 93 0.07
146 22 0.02
147 7 0.01
148 60 0.05
149 77 0.06
150 23 0.02
151 16 0.01
152 20 0.02
153 18 0.01
154 12 0.01
155 16 0.01
156 14 0.01
157 4 0.00
158 6 0.00
159 4 0.00
161 1 0.00
162 3 0.00
163 3 0.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (142 bp):
TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
TTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAAG
TCGGTTATAGAA
Found at i:31321038 original size:142 final size:141
Alignment explanation
Indices: 31320729--31322619 Score: 723
Period size: 143 Copynumber: 13.0 Consensus size: 141
31320719 ATAGCTAAGT
* * * * * * * *
31320729 TCAAAGATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
31320794 TTCTCGTGTGTTATGATTCTTTTTAATCTAACTTTTT-AATATTAAAACTCGAATTTTGAAGGGA
66 TTCTCGTGTTTTATGATT-TTTTTAATTTAA-TTTTTAAATATTAAAACTCAAATTTTG-AGGCA
*
31320858 AGTCTGTTATGGAA
128 AGTCGGTTATGGAA
* * * * *
31320872 TTAAAGAAAAAGTTTAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
31320937 TTCTCATGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAATG
66 TTCTCGTGTTTTATGATTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAA-G
*
31321002 TCGGTTATAGAA
130 TCGGTTATGGAA
* * * *
31321014 TCAAAGATAAAGTATAAATTTTTAA-AAGTTAAAATGAAAATTTA-TATGTGATGTATTGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * *
31321077 TTCTCGTGTTTTATGATTTTTTTTTAATTTAATTATTAAATATTAAAATTTAAATTTTGAGGTCA
66 TTCTCGTGTTTTATGA--TTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
*
31321142 AGTCGGTTATCGAA
128 AGTCGGTTATGGAA
* * * * * *
31321156 TCAAAGTTAAAGTATAAACTTTTAAGAGGTTAAAATGGAAATTTACAATATGATGCATAGCGAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
31321221 TTCTCGTGTATTATGAATCTTTTTTACTTTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAA
66 TTCTCGTGTTTTATG-AT-TTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
*** *
31321286 AGTCCAATACGGAA
128 AGTCGGTTATGGAA
* * * *
31321300 TTATAA-ATAAAGTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
1 TCA-AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAA
* * * * ** * *
31321364 CTTCTCGGGTTTGATTATTCTTCTTAAGATATTCTAAATTTTTAAGACGTTAAAA-TGAAAATTT
65 CTTCTCGTGTTTTATGATT-TT-TT--TA-ATT-T-AATTTTTAA-ATATTAAAACTCAAATTTT
* *
31321428 -A--CAATGT-GATGCATAGAGAA
122 GAGGCAA-GTCGGT-TAT-G-GAA
**** **** * * ** *** * *
31321448 GTGGTCG-TGTCTTATGATACTTTTTAACTTCATTTTTAAATATTG-AAACCCA-AATATTGAGG
1 -TCAAAGATAAAGTAT-A-AATTTTTAA---GA-GGTTAAA-A-TGAAAATTTACAAT-GTGATG
* * * ** * * * ** *** * *
31321510 CAAAGC--CCGTT-ACG-GAATAATAGATAAAGTATAAAATTTTAAGAGGTTAAA-ATGAAAATT
56 CATAGCAAAC-TTCTCGTGTTTTAT-GAT---TTTTTTAA-TTTAA-TTTTTAAATATTAAAACT
* * * * * * ***
31321570 TACCATGTGATGCATAGCATACTTCTTGTGTTTTATGA
114 CA-AAT-T-TTG-A-GGCA-A-GTC--G-GTTATGGAA
****** ** ** ** * *
31321608 TTTTTTTTAAA-T-TTCATTTTTAA-ATATTAAAATTCAAATTT-CGAGACTAAGTCGGGTACAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTAC-A-A-T--GT--GATGCA-
* * **** * * ** * ** ** *
31321669 AATCAAA-TAT-AAAAG-TATA-CATTTTTAAAAGGTTAAAATGAAAAT-TTGAAACTCAAATTT
58 TAGCAAACT-TCTCGTGTTTTATGATTTTTTTAA-TTTAATTTTTAAATATTAAAACTCAAATTT
* * * * *
31321729 TGAGGTGAACTCCGTTACGAAA
121 TGAGG-CAAGTCGGTTATGGAA
* * * * ** *
31321751 TTAAAGATATAGTATAAATTTTTAAGAGTTTAAAAT-AGAAATATACCGTGTGATGCATAGCAAT
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGA-AAATTTACAATGTGATGCATAGCAAA
* * *
31321815 CTTCTAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTTGAGGCAA
65 CTTCTCGTGTTTTATGA-TTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
** ***
31321880 AGTCAATTACATAA
128 AGTCGGTTATGGAA
* * * * * * *
31321894 TCAAAGATACAGTATAAATTTTTAACAAGTTAAAATGGAAATTTAAAATGTGATGTATAGCAAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * * * * * *
31321959 TTCTCGTGTCTT-CGAATTGTTTTAAATTT-ATTTATAAATATTGAAATTCGAATTCTGAGCCGA
66 TTCTCGTGTTTTATG-ATT-TTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
*
31322022 ACTCCGG-TATGGAA
128 AGT-CGGTTATGGAA
* * * * * * * * * *
31322036 TTAAAGATAAAGTATAAACTTTTAAGTGGTTAATATGGAAATTTACCATGTAACGCATGGAAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* ** * * * * * ** *
31322101 TTCTCATGTAATATAAATCTTTTTAATTTCATTTTTAAATATTTAAACTCGAACGTCGAGGCGAA
66 TTCTCGTGTTTTAT-GATTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-AA
* ***
31322166 GTCAGTTAAAAAA
129 GTCGGTTATGGAA
* * * * *
31322179 TCAAAGAAAAACTTAAAGTATATATTTTTAAGAGGTTAAAATGGAAATTTATAATTTGATGAATA
1 TCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATA
* * * * *
31322244 GCGAAGTTCTCGTG-TTAATGATTCTTTTTAATTTAATTTTTTAATATTAAAACTCGAATTTTGA
60 GCAAACTTCTCGTGTTTTATGATT-TTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTG-
* **
31322308 AGGGAAGTCTATTATGGAA
123 AGGCAAGTCGGTTATGGAA
* * * * * *
31322327 TTAAAGAAAAAGTTTAAATATTTAAGAGTTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
31322392 TTCTCATGTTTTATGATTTTTTTTAATTTCATTTTTTTAAATATTAAAATTCAAATTTAGAGGCA
66 TTCTCGTGTTTTATGA-TTTTTTTAATTT-A-ATTTTTAAATATTAAAACTCAAATTTTGAGGCA
*
31322457 ACGTCGGTTATAGAA
128 A-GTCGGTTATGGAA
* * * *
31322472 TCAAAGATAAAGTATAAAATTTTAAGAGGTTAAAATGGAAATTTA-TATGTGATGCATTGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * ** *
31322536 TTCTTGTGTTTTATGTTTTTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGGTAA
66 TTCTCGTGTTTTATG-ATTTTTTT-AATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
**
31322601 AGTCGGTTATCAAA
128 AGTCGGTTATGGAA
31322615 TCAAA
1 TCAAA
31322620 ATCAAAATTT
Statistics
Matches: 1279, Mismatches: 362, Indels: 214
0.69 0.20 0.12
Matches are distributed among these distances:
139 5 0.00
140 38 0.03
141 31 0.02
142 307 0.24
143 308 0.24
144 191 0.15
145 91 0.07
146 20 0.02
147 9 0.01
148 61 0.05
149 78 0.06
150 23 0.02
151 16 0.01
152 20 0.02
153 18 0.01
154 12 0.01
155 16 0.01
156 14 0.01
157 4 0.00
158 6 0.00
159 6 0.00
160 2 0.00
162 2 0.00
163 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (141 bp):
TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
TTCTCGTGTTTTATGATTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAAGT
CGGTTATGGAA
Found at i:31321277 original size:144 final size:143
Alignment explanation
Indices: 31320729--31321375 Score: 691
Period size: 144 Copynumber: 4.5 Consensus size: 143
31320719 ATAGCTAAGT
* * * * * * * * *
31320729 TCAAAGATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAG
1 TCAAAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
31320794 TTCTCGTGTGTTATGATTC-TTTTTAATCTAACTTTTT-AATATTAAAACTCGAATTTTGAAGGG
66 TTCTCGTGTTTTATGAATCTTTTTTAATTTAA-TTTTTAAATATTAAAACTCAAATTTTG-AGGC
* *
31320857 AAGTCTGTTATGGAA
129 AAGTCGGTTATCGAA
* * * *
31320872 TTAAAGAAAAAGTTTAAA-TATTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
1 TCAAAGATAAAGTATAAACT-TTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAA
* * * *
31320936 CTTCTCATGTTTTATG-AT-TTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCA
65 CTTCTCGTGTTTTATGAATCTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCA
*
31320999 ATGTCGGTTATAGAA
130 A-GTCGGTTATCGAA
* * * * *
31321014 TCAAAGATAAAGTATAAATTTTTAA-AAGTTAAAATGAAAATTTA-TATGTGATGTATTGCAAAC
1 TCAAAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
31321077 TTCTCGTGTTTTATGATTTTTTTTTAATTTAATTATTAAATATTAAAATTTAAATTTTGAGGTCA
66 TTCTCGTGTTTTATGAATCTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
31321142 AGTCGGTTATCGAA
130 AGTCGGTTATCGAA
* * * * *
31321156 TCAAAGTTAAAGTATAAACTTTTAAGAGGTTAAAATGGAAATTTACAATATGATGCATAGCGAAG
1 TCAAAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
31321221 TTCTCGTGTATTATGAATCTTTTTTACTTTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAA
66 TTCTCGTGTTTTATGAATCTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
***
31321286 AGTCCAATA-CGGAA
130 AGTCGGTTATC-GAA
* * *
31321300 TTATAA-ATAAAGTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
1 TCA-AAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAA
*
31321364 CTTCTCGGGTTT
65 CTTCTCGTGTTT
31321376 GATTATTCTT
Statistics
Matches: 421, Mismatches: 70, Indels: 25
0.82 0.14 0.05
Matches are distributed among these distances:
140 30 0.07
141 29 0.07
142 135 0.32
143 87 0.21
144 138 0.33
145 2 0.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (143 bp):
TCAAAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
TTCTCGTGTTTTATGAATCTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAA
GTCGGTTATCGAA
Found at i:31321312 original size:637 final size:640
Alignment explanation
Indices: 31320096--31321715 Score: 1757
Period size: 638 Copynumber: 2.5 Consensus size: 640
31320086 CAAAATGAAT
* * * *
31320096 GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTA
1 GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGCGAAGTTCTC
* * * * * * *
31320161 GTGTTTTATGATAT-TTTTAAAT-TTCATTTTTAAATATGAAAATTTGAATTTCGAGGCAAAGTC
66 GTGTCTTATGAT-TCTTTTTAATCTAC-TTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC
* ** * * * * ** * **
31320224 GGTTACAAAATCAAAGATACAGTATAAATTTTTGACTGGTTAAAATGGAAATTTAAAATGTGATG
129 CGTTACGGAATTAAAGATAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATG
* * * * * * *
31320289 CATAGCAAAGTTCTTGTGTCTTT-TGATTGTTTTAAAGTT-ATTTATAAATATTGAAACTCGAAT
194 CATAGCAAACTTCTTGTGT-TTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAATTCAAAT
* * * * * ** *
31320352 TTTGAGGCGAACTCCGTTACGGAATTAAAGATAAAGTATAAATTTTTAAGTGGTTAAAATGGAAA
257 TTCGAGGCGAAGTCGGTTACAGAATCAAAGATAAAGTATAAATTTTTAA-AAGTTAAAATGAAAA
* *
31320417 TTTACCATGTGATGCATGGAAAACTTCTCGTGTTATATGAATCTTTTTAATTTCATTTTTAAATA
321 TTTACCATGTGATGCATGGAAAACTTCTCGTGTTATATGAATCTTTTTAATTTAATTATTAAATA
* *
31320482 TTAAAACTCAAATTTCGTGGCGAAGTCGATTACAGATTCAAAGATAAAGTATAAACTTTTAAAAG
386 TTAAAACTCAAATTTCGAGGCGAAGTCGATTACAGAATCAAAGATAAAGTATAAACTTTTAAAAG
* * * *
31320547 GTTAAAATGAAAATTTACAATGTGAAGTAGAGCGAAGTTCTTGTGTCTTATGATATTTTTTAATT
451 GTTAAAATGAAAATTTACAATATGAAGCAGAGCGAAGTTCTCGTGTATTATGATATTTTTTAATT
* * ***
31320612 TTCATTTCTAAATATTGAAACTCGAATTTTGTGGCGAAGTCGGTTACAAAATCAAAGATAAAGTA
516 TTCATTTCTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACAAAATCAAAGATAAAGTA
* * * * *
31320677 TAAAAC-TTTGAGAGGTTCAAATGGAAATTTACCATGTGATGCATAGCTAA-GT-TC-AAA
581 T-AAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAACGTCTCGAAA
* * * * *
31320734 GATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAGTTCTC
1 GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGCGAAGTTCTC
* *
31320799 GTGTGTTATGATTCTTTTTAATCTAACTTTTT-AATATTAAAACTCGAATTTTGAAGG-GAAGTC
66 GTGTCTTATGATTCTTTTTAATCT-ACTTTTTAAATATTAAAACTCGAATTTTG-AGGCAAAGTC
* * * *
31320862 TGTTATGGAATTAAAGAAAAAGTTTAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATG
129 CGTTACGGAATTAAAGATAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATG
**
31320927 CATAGCAAACTTCTCATGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTT
194 CATAGCAAACTTCTTGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTT
*
31320992 CGAGGC-AATGTCGGTTATAGAATCAAAGATAAAGTATAAATTTTTAAAAGTTAAAATGAAAATT
259 CGAGGCGAA-GTCGGTTACAGAATCAAAGATAAAGTATAAATTTTTAAAAGTTAAAATGAAAATT
* * * * * * *
31321056 TA-TATGTGATGTATTGCAAACTTCTCGTGTTTTATGATTTTTTTTTAATTTAATTATTAAATAT
323 TACCATGTGATGCATGGAAAACTTCTCGTGTTATATGA-ATCTTTTTAATTTAATTATTAAATAT
* * * * * *
31321120 TAAAATTTAAATTTTGAGGTC-AAGTCGGTTATC-GAATCAAAGTTAAAGTATAAACTTTTAAGA
387 TAAAACTCAAATTTCGAGG-CGAAGTCGATTA-CAGAATCAAAGATAAAGTATAAACTTTTAAAA
* * * * *
31321183 GGTTAAAATGGAAATTTACAATATGATGCATAGCGAAGTTCTCGTGTATTATGAATCTTTTTTAC
450 GGTTAAAATGAAAATTTACAATATGAAGCAGAGCGAAGTTCTCGTGTATTATG-ATATTTTTTAA
* ** *
31321248 TTTT-ATTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACGGAATTATAA-ATAAA
514 TTTTCATTTCTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACAAAATCA-AAGATAAA
* ***
31321311 GTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAACTTCTCGGGTTT
578 GTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAACGTCTC--GAAA
* *
31321376 GATTATTCTTCTTAAGATATTCTAAATTTTTAAGACGTTAAAATGAAAATTTACAATGTGATGCA
1 GA-TA--------AAG-TA---TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCA
* ** * * * * * *
31321441 TAGAGAAGTGGTCGTGTCTTATGATACTTTTTAA-CTTCATTTTTAAATATTGAAACCCAAATAT
53 TAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATCTAC-TTTTTAAATATTAAAACTCGAATTT
*
31321505 TGAGGCAAAGCCCGTTACGGAA-TAATAGATAAAGTATAAA-ATTTTAAGAGGTTAAAATGAAAA
117 TGAGGCAAAGTCCGTTACGGAATTAA-AGATAAAGTATAAATA-TTTAAGAGGTTAAAATGAAAA
*
31321568 TTTACCATGTGATGCATAGCATACTTCTTGTGTTTTATGATTTTTTTTAAATTTCATTTTTAAAT
180 TTTACCATGTGATGCATAGCAAACTTCTTGTGTTTTATGA-TTTTTTT-AATTTCATTTTTAAAT
* * * * *
31321633 ATTAAAATTCAAATTTCGAGACTAAGTCGGGTACAGAATCAAATATAAAAGTATACATTTTTAAA
243 ATTAAAATTCAAATTTCGAGGCGAAGTCGGTTACAGAATCAAAGAT-AAAGTATAAATTTTTAAA
31321698 AGGTTAAAATGAAAATTT
307 A-GTTAAAATGAAAATTT
31321716 GAAACTCAAA
Statistics
Matches: 816, Mismatches: 125, Indels: 61
0.81 0.12 0.06
Matches are distributed among these distances:
636 34 0.04
637 239 0.29
638 245 0.30
639 11 0.01
640 1 0.00
642 2 0.00
643 2 0.00
651 3 0.00
652 2 0.00
653 1 0.00
654 14 0.02
655 164 0.20
656 7 0.01
657 55 0.07
658 20 0.02
659 16 0.02
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (640 bp):
GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGCGAAGTTCTC
GTGTCTTATGATTCTTTTTAATCTACTTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTCCG
TTACGGAATTAAAGATAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCA
TAGCAAACTTCTTGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCG
AGGCGAAGTCGGTTACAGAATCAAAGATAAAGTATAAATTTTTAAAAGTTAAAATGAAAATTTAC
CATGTGATGCATGGAAAACTTCTCGTGTTATATGAATCTTTTTAATTTAATTATTAAATATTAAA
ACTCAAATTTCGAGGCGAAGTCGATTACAGAATCAAAGATAAAGTATAAACTTTTAAAAGGTTAA
AATGAAAATTTACAATATGAAGCAGAGCGAAGTTCTCGTGTATTATGATATTTTTTAATTTTCAT
TTCTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACAAAATCAAAGATAAAGTATAAAC
TTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAACGTCTCGAAA
Found at i:31321571 original size:227 final size:228
Alignment explanation
Indices: 31321170--31321595 Score: 640
Period size: 227 Copynumber: 1.9 Consensus size: 228
31321160 AGTTAAAGTA
* * * *
31321170 TAAACTTTTAAGAGGTTAAAATGGAAATTTACAATATGATGCATAGCGAAGTTCTCGTGTATTAT
1 TAAACTTTTAAGACGTTAAAATGAAAATTTACAATATGATGCATAGAGAAGTGCTCGTGTATTAT
* * * * * *
31321235 GAATCTTTTTTACTTTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACGGAA
66 GAATCTTTTTAACTTTCATTTTTAAATATTGAAACCCAAATATTGAGGCAAAGCCCAATACGGAA
* *
31321300 TTATAAATAAAGTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
131 TAATAAATAAAGTATAAAATTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
31321365 TTCTCGGGTTTGATTATTCTTCTTAAGATATTC
196 TTCTCGGGTTTGATTATTCTTCTTAAGATATTC
* * * *
31321398 TAAATTTTTAAGACGTTAAAATGAAAATTTACAATGTGATGCATAGAGAAGTGGTCGTGTCTTAT
1 TAAACTTTTAAGACGTTAAAATGAAAATTTACAATATGATGCATAGAGAAGTGCTCGTGTATTAT
**
31321463 G-ATACTTTTTAAC-TTCATTTTTAAATATTGAAACCCAAATATTGAGGCAAAGCCCGTTACGGA
66 GAAT-CTTTTTAACTTTCATTTTTAAATATTGAAACCCAAATATTGAGGCAAAGCCCAATACGGA
* * *
31321526 ATAATAGATAAAGTATAAAATTTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGCATA
130 ATAATAAATAAAGTATAAAATTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
31321591 CTTCT
195 CTTCT
31321596 TGTGTTTTAT
Statistics
Matches: 176, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
227 110 0.62
228 66 0.38
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (228 bp):
TAAACTTTTAAGACGTTAAAATGAAAATTTACAATATGATGCATAGAGAAGTGCTCGTGTATTAT
GAATCTTTTTAACTTTCATTTTTAAATATTGAAACCCAAATATTGAGGCAAAGCCCAATACGGAA
TAATAAATAAAGTATAAAATTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
TTCTCGGGTTTGATTATTCTTCTTAAGATATTC
Found at i:31321786 original size:224 final size:222
Alignment explanation
Indices: 31321485--31321937 Score: 601
Period size: 224 Copynumber: 2.0 Consensus size: 222
31321475 CTTCATTTTT
*
31321485 AAATATTGAAACCCAAATATTGAGGCAAAGCCCGTTACGGAATAATAGATAAAGTATAAAATTTT
1 AAAT-TTGAAACCCAAATATTGAGGCAAAGCCCGTTACGAAATAATAGATAAAGTATAAAATTTT
* *
31321550 AAGAGGTTAAAAT-GAAAATTTACCATGTGATGCATAGC-ATACTTCTTGTGTTTTATGATTTTT
65 AAGAGGTTAAAATAG-AAATATACCATGTGATGCATAGCAAT-CTTCTAGTGTTTTATGATTTTT
* ** *
31321613 TTTAAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGACTAAGTCGGGTACAGAATCAAATA
128 TTT-AATTTCATTTTTAAATATTAAAATTCAAATTTCGAGACAAAGTCAAGTACAGAATCAAAGA
*
31321678 TAAAAGTATACATTTTTAA-AAGGTTAAAATGA
192 T-AAAGTATAAATTTTTAACAA-GTTAAAATGA
* * ** * *
31321710 AAATTTGAAACTCAAATTTTGAGGTGAA-CTCCGTTACGAAATTAA-AGATATAGTATAAATTTT
1 AAATTTGAAACCCAAATATTGAGGCAAAGC-CCGTTACGAAA-TAATAGATAAAGTATAAAATTT
* *
31321773 TAAGAGTTTAAAATAGAAATATACCGTGTGATGCATAGCAATCTTCTAGTGTTTTATGATTTTTT
64 TAAGAGGTTAAAATAGAAATATACCATGTGATGCATAGCAATCTTCTAGTGTTTTATGATTTTTT
* * * *
31321838 TTAATTTCATTTTTAAATATTAAAATTCAAATTTTGAGGCAAAGTCAATTACATAATCAAAGATA
129 TTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGACAAAGTCAAGTACAGAATCAAAGATA
* *
31321903 CAGTATAAATTTTTAACAAGTTAAAATGG
194 AAGTATAAATTTTTAACAAGTTAAAATGA
31321932 AAATTT
1 AAATTT
31321938 AAAATGTGAT
Statistics
Matches: 201, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
222 30 0.15
223 57 0.28
224 104 0.52
225 10 0.05
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.36
Consensus pattern (222 bp):
AAATTTGAAACCCAAATATTGAGGCAAAGCCCGTTACGAAATAATAGATAAAGTATAAAATTTTA
AGAGGTTAAAATAGAAATATACCATGTGATGCATAGCAATCTTCTAGTGTTTTATGATTTTTTTT
AATTTCATTTTTAAATATTAAAATTCAAATTTCGAGACAAAGTCAAGTACAGAATCAAAGATAAA
GTATAAATTTTTAACAAGTTAAAATGA
Found at i:31322329 original size:291 final size:285
Alignment explanation
Indices: 31321749--31322592 Score: 763
Period size: 291 Copynumber: 2.9 Consensus size: 285
31321739 TCCGTTACGA
* * * * * * * * *
31321749 AATTAAAGATATAGTATAAATTTTTAAGAGTTTAAAAT-AGAAATATACCGTGTGATGCATAGCA
1 AATTAAAGAAAAAGTATAAATATTTAAGAGGTTAAAATGA-AAATTTACCATGTAACGCATAGAA
* ** * * * * ** *
31321813 ATCTTCT-AGTGTTTTATGATTTTTTTTAATTTCA-TTTTTAAATATTAAAATTCAAATTTTGAG
65 AACTTCTCA-TGTAATATAAATCTTTTTAATTTCATTTTTTAAATATTAAAACTCAAACGTAGAG
* * * * * * * *
31321876 GCAAAGTCAATTACATAATCAAAGATACAGTATAAATTTTTAACAAGTTAAAATGGAAATTTAAA
129 GCAACGTCAGTTAAAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTATA
* * * * *
31321941 ATGTGATGTATAGCAAAGTTCTCGTGTCT-TCGAATTGTTTTAAATTT-ATTTATAAATATTGAA
194 ATGTGATGAATAGCAAAGTTCTCGTGT-TAT-G-ATTCTTTTTAATTTAATTTTTAAATATTAAA
* *
31322004 ATTCGAATTCTGAGCCGAACTCCGGTATGG
256 ATTCGAATTTTGAGCCGAACTCCAGTATGG
* * * * *
31322034 AATTAAAGATAAAGTATAAACT-TTTAAGTGGTTAATATGGAAATTTACCATGTAACGCATGGAA
1 AATTAAAGAAAAAGTATAAA-TATTTAAGAGGTTAAAATGAAAATTTACCATGTAACGCATAGAA
* * *
31322098 AACTTCTCATGTAATATAAATCTTTTTAATTTCA-TTTTTAAATATTTAAACTCGAACGTCGAGG
65 AACTTCTCATGTAATATAAATCTTTTTAATTTCATTTTTTAAATATTAAAACTCAAACGTAGAGG
*
31322162 CGAA-GTCAGTTAAAAAATCAAAGAAAAACTTAAAGTATATATTTTTAAGAGGTTAAAATGGAAA
130 C-AACGTCAGTTAAAAAATCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAA
* * *
31322226 TTTATAATTTGATGAATAGCGAAGTTCTCGTGTTAATGATTCTTTTTAATTTAATTTTTTAATAT
188 TTTATAATGTGATGAATAGCAAAGTTCTCGTGTT-ATGATTCTTTTTAATTTAATTTTTAAATAT
* * * * *
31322291 TAAAACTCGAATTTTGAAG-GGAAGTCTATTATGG
252 TAAAATTCGAATTTTG-AGCCGAACTCCAGTATGG
* * * * *
31322325 AATTAAAGAAAAAGTTTAAATATTTAAGAGTTTAAAATGAAAATTTACCATGTGATGCATAGCAA
1 AATTAAAGAAAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTAACGCATAGAAA
** * * * * **
31322390 ACTTCTCATGTTTTATGATTTTTTTTAATTTCATTTTTTTAAATATTAAAATTCAAATTTAGAGG
66 ACTTCTCATGTAATATAAATCTTTTTAATTTCA-TTTTTTAAATATTAAAACTCAAACGTAGAGG
* * * *
31322455 CAACGTCGGTTATAGAATCAAAGATAAAGTATAAAATTTTAAGAGGTTAAAATGGAAATTTAT-A
130 CAACGTCAGTTAAAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTATAA
* * * * * * *
31322519 TGTGATGCATTGCAAACTTCTTGTGTTTTATGTTTTTTTTTAAATTTAATTATTAAATATTAAAA
195 TGTGATGAATAGCAAAGTTCTCGTG--TTATGATTCTTTTT-AATTTAATTTTTAAATATTAAAA
*
31322584 TTCAAATTT
257 TTCGAATTT
31322593 CAAGGTAAAG
Statistics
Matches: 454, Mismatches: 84, Indels: 39
0.79 0.15 0.07
Matches are distributed among these distances:
285 117 0.26
286 24 0.05
287 47 0.10
288 30 0.07
289 2 0.00
290 14 0.03
291 174 0.38
292 5 0.01
293 41 0.09
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (285 bp):
AATTAAAGAAAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTAACGCATAGAAA
ACTTCTCATGTAATATAAATCTTTTTAATTTCATTTTTTAAATATTAAAACTCAAACGTAGAGGC
AACGTCAGTTAAAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTATAAT
GTGATGAATAGCAAAGTTCTCGTGTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAATTCG
AATTTTGAGCCGAACTCCAGTATGG
Found at i:31322864 original size:86 final size:86
Alignment explanation
Indices: 31322707--31322878 Score: 213
Period size: 86 Copynumber: 2.0 Consensus size: 86
31322697 CAGAATTATT
* * * *
31322707 GATAAAGTATAAATTCTTAAAAGGTTAAAGTGGAAATTTACCATGTGATGCATGGTAAACTTCTC
1 GATAAAGTATAAATTCTTAAAAGGTTAAAATAGAAATTTACAATGTGATGCATAGTAAACTTCTC
*
31322772 GGGTCTTATTATTCTTCTTAA
66 GGGTCTTATGATTCTTCTTAA
* * * *
31322793 GATATAGTGTAAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATGCATAG-AGAA-TTGC
1 GATAAAGTATAAATTCTTAAAAGGTTAAAATAGAAATTTACAATGTGATGCATAGTA-AACTT-C
* *
31322856 TCGTGTCTTATGATTCTTTTTAA
64 TCGGGTCTTATGATTCTTCTTAA
31322879 CTTCATTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 3 0.04
86 70 0.96
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (86 bp):
GATAAAGTATAAATTCTTAAAAGGTTAAAATAGAAATTTACAATGTGATGCATAGTAAACTTCTC
GGGTCTTATGATTCTTCTTAA
Found at i:31323253 original size:142 final size:143
Alignment explanation
Indices: 31322791--31324448 Score: 1400
Period size: 142 Copynumber: 11.6 Consensus size: 143
31322781 TATTCTTCTT
* * * *
31322791 AAGATATAGTGTAAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATGCATAG-AGAA-TT
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA-AACTT
* * *
31322854 GCTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAACTATTGAAACTCGAATTTTGAGGCAAAG
65 -CTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAG
31322919 TCCGTTAC-AGAATTA
129 TCCGTTACGA-AATTA
* * * * *
31322934 TAGATAAAATATAAATTTTTAAGAGGTTAAAAAGGAAATTTACCATGTAATGCATAGCACACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * * *
31322999 TCGTGAT-TTATGATT-TTTTTAATTTCATTTTT-AATATTAAAATTTGCATTTCGAGACTAAGT
66 TCGTG-TCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT
** * *
31323061 TGGATAC-AGAATCA
130 CCGTTACGA-AATTA
* * * *
31323075 AATATAAAGTATACATTTTTAAAAGGTTAAAATGGAAATTTACCATGTGATGCATAGGAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * *
31323140 TTGTATCTTATGATTCTTTTTAATTTCATTTTTAACTATTGAAACTCGAATTTTGAGGC-AACTC
66 TCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC
31323204 CGTTACGAAATTA
131 CGTTACGAAATTA
* * *
31323217 AAGATAAAGTATAAACTTTTAAGA-GTTAAAAATGGAAAATTACCGTGTGATGCATAGCAAACTT
1 AAGATAAAGTATAAATTTTTAAGAGGTT-AAAATGGAAATTTACCATGTGATGCATAGCAAACTT
* * * * * * *
31323281 CTAGTGTTTTATGATT-TTTTTAATTTCGTTTTTAAATATTAAAATTTGAATTTCGAGACAAAGT
65 CTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT
* *
31323345 CAGTTAC-AGAATCA
130 CCGTTACGA-AATTA
* * * * ** * * *
31323359 AAGATACAGAATAGATTTTTAACAGGTTAAAATGGAAATTTAGAATGTGATGCATAGAAAAGTTA
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * * * *
31323424 TCGTGTCTTCTGATTGC-TTTAAATTT-ATTTATAAATATTGAAACTTGAATTTTGAGGCGAACT
66 TCGTGTCTTATGATT-CTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT
** * *
31323487 CTATTATGGAATTA
130 CCGTTACGAAATTA
* * * * *
31323501 AAGATAAAGTATAAATTTTTAAGTGGTTAAAATGGAAATTTAACATGTGATGCATAGAAAAGTTA
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * * *
31323566 TCGTGTCTTCTGATT-TTTTTAAATTT--TTTTATGAATATTGAAACTCAAATTTTGAGGCGAAC
66 TCGTGTCTTATGATTCTTTTT-AATTTCATTTT-TAAATATTAAAACTCGAATTTTGAGGCAAAG
*
31323628 TCCATTACTG-AATTA
129 TCCGTTAC-GAAATTA
* * * * *
31323643 AAGATATAGTACAAAATTTTAAGTGGTTAAAATGGAAATTTACCATGTGATGCAT-GAAAAACTT
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAG-CAAACTT
* * * *
31323707 CTCGTGT-TATATGAATCTTTTTAATTTCATTTTTAAATATTAAAACTTGAATTTCGAGGCGAAG
65 CTCGTGTCT-TATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAG
* *
31323771 TCAGTTAC-AGAATCA
129 TCCGTTACGA-AATTA
* * ** * **
31323786 AAGAAAAACTTAATGTATATATTTTTAAGAGGTTAAAATGGAAATTTATAATTTGATTAATTA-C
1 AAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCA-TAGC
* * * * * * * * * *
31323850 GAAGTTCTCATGTGTAATGAATCTATTTAATTTAATTTTTTAATATTAAAACTCGATTTTTGAAG
59 AAACTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTG-AG
* * * *
31323915 G-AATGTCTGTTATGGAATTA
123 GCAAAGTCCGTTACGAAATTA
* * * * *
31323935 AAGAAAAAGTTTAAATATTAAAGAGGTTAAAATGGAAATTTACCATGTGATGTATAGCAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * * * * *
31324000 TCGTGTTTTATGATT-TTTTTAATTTAATTTTTAAATATTAACATTTGAATTTCGAGGCAACGTT
66 TCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC
* * *
31324064 GGTTA-TAGAATCA
131 CGTTACGA-AATTA
* *
31324077 AAGATACAA-TATAAATTTTTAAGAGGTTAAAATGGAAATTTA-TATGTGATGCATTGCAAACTT
1 AAGATA-AAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTT
* * * * * * * * ** * *
31324140 CGCATGTTTTATGATT-TTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGGCCAATT
65 CTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT
* * *
31324204 CGGTTAGCG-GATCA
130 CCGTTA-CGAAATTA
* * * * * *
31324218 AA-ATTAAAGT-TAAAATTTTTAAGAGTTTAAAATGGGAATTTACAATGTGATGCAGAACAAAGT
1 AAGA-TAAAGTAT-AAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACT
* * * * * *
31324281 TCTCGTGTATTATGAATCTTTTTAATTTCATTTTCAATTATTGAAACTAGAATTTTGAGGCAAAG
64 TCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAG
*
31324346 TCCGTTATGAAATTA
129 TCCGTTACGAAATTA
* * *
31324361 TAGATAAAGTATAAATTTTTGCA-AGGTTAAAAAGGAAATTTACCATGTGATGCATAGCAAACTT
1 AAGATAAAGTATAAATTTTT-AAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTT
* * *
31324425 CTTAG-GTCTTATTATTCTTCTTAA
65 C-TCGTGTCTTATGATTCTTTTTAA
31324449 GATATAGTGT
Statistics
Matches: 1217, Mismatches: 246, Indels: 104
0.78 0.16 0.07
Matches are distributed among these distances:
140 5 0.00
141 263 0.22
142 521 0.43
143 304 0.25
144 13 0.01
145 1 0.00
147 1 0.00
149 104 0.09
150 5 0.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (143 bp):
AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
TCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC
CGTTACGAAATTA
Found at i:31324642 original size:233 final size:233
Alignment explanation
Indices: 31324235--31324660 Score: 649
Period size: 233 Copynumber: 1.8 Consensus size: 233
31324225 AGTTAAAATT
* * * *
31324235 TTTAAGAGTTTAAAATGGGAATTTACAATGTGATGCAGAACAAAGTTCTCGTGTATTATGAATCT
1 TTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCACAACAAAGTGCTCGTGTATTATGAATCT
* * *
31324300 TTTTAATTTCATTTTCAATTATTGAAACTAGAATTTTGAGGCAAAGTCCGTTATGAAATTATAGA
66 TTTTAACTTCATTTTCAAATATTGAAACTAGAATTTTGAGGCAAAGCCCGTTATGAAATTATAGA
* *
31324365 TAAAGTATAAATTTTTGCAAGGTTAAAAAGGAAATTTACCATGTGATGCATAGCAAACTTCTTAG
131 TAAAGTATAAATTTTTGAAAGGTTAAAAAGAAAATTTACCATGTGATGCATAGCAAACTTCTTAG
31324430 GTCTTATTATTCTTCTTAAGATATAGTGTAAATTTTTA
196 GTCTTATTATTCTTCTTAAGATATAGTGTAAATTTTTA
* * * *
31324468 TTTAAGAGGTTAAAATGGAAATTTACATTGTGATGCACAGA-GAAGTGCTCGTGTCTTATGATTC
1 TTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCACA-ACAAAGTGCTCGTGTATTATGAATC
* * *
31324532 TTTTTAACTTCATTTTTAAATATTGAAACTTGAATTTTGAGGCAAAGCCCGTTATGGAATTATAG
65 TTTTTAACTTCATTTTCAAATATTGAAACTAGAATTTTGAGGCAAAGCCCGTTATGAAATTATAG
* * *
31324597 ATAAAGTATAAATTTTT-AAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGGACACTTCTT
130 ATAAAGTATAAATTTTTGAA-AGGTTAAAAAGAAAATTTACCATGTGATGCATAGCAAACTTCTT
31324661 GTGTTTTATG
Statistics
Matches: 172, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
232 1 0.01
233 170 0.99
234 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (233 bp):
TTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCACAACAAAGTGCTCGTGTATTATGAATCT
TTTTAACTTCATTTTCAAATATTGAAACTAGAATTTTGAGGCAAAGCCCGTTATGAAATTATAGA
TAAAGTATAAATTTTTGAAAGGTTAAAAAGAAAATTTACCATGTGATGCATAGCAAACTTCTTAG
GTCTTATTATTCTTCTTAAGATATAGTGTAAATTTTTA
Found at i:31324932 original size:520 final size:515
Alignment explanation
Indices: 31323950--31324945 Score: 1245
Period size: 520 Copynumber: 1.9 Consensus size: 515
31323940 AAAGTTTAAA
* * * *
31323950 TATTAAAGAGGTTAAAATGGAAATTTACCATGTGATGTATAGCAAACTTCTCGTGTTTTATGATT
1 TATTAAAGAGGTTAAAATGGAAATTTACCATGTGATGCACAGCAAACTGCTCGTGTCTTATGATT
* * * ***
31324015 TTTTTAATTTAATTTTTAAATATTAACATTTGAATTTCGAGGCAACGTTGGTTATAGAATCAAAG
66 TTTTTAACTTAATTTTTAAATATTAACACTTGAATTTCGAGGCAAAGCCCGTTATAGAATCAAAG
* * *
31324080 ATACAATATAAATTTTTAAGAGGTTAAAATGGAAATTTATATGTGATGCATTGCAAACTTCGCAT
131 ATACAATATAAATTTTTAAGAGGTTAAAATGAAAATTTACATGTGATGCATAGCAAACTTCGCAT
* * *
31324145 GTTTTATGATTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGGCCAATTCGGTTA
196 GTTTTATGATTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGACCAAGTCGGGTA
* * * *
31324210 GCGGATCAAAATTAAAGTTAAAATTTTTAAGAGTTTAAAATGGGAATTTACAATGTGATGCAGAA
261 GCGAATCAAAATTAAAGTTAAAATTTTTAAAAGGTTAAAATGGAAATTTACAATGTGATGCAGAA
* * *
31324275 CAAAGTTCTCGTGTATTATGAATCTTTTTAATTTCATTTTCAATTATTGAAACTAGAATTTTGAG
326 CAAACTTCTCGTATATTATGAATCTTTTTAATTTCATTTTCAACTATTGAAACTAGAATTTTGAG
* * * * *
31324340 GCAAAGTCCGTTATGAAATTATAGATAAAGTATAAATTTTTGCAAGGTTAAAAAGGAAATTTACC
391 GCAAACTCCGTTACGAAATGAAAGATAAAGTATAAACTTTT-CAAGGTTAAAAAGGAAATTTACC
31324405 ATGTGATGCATAGCAAACTTCTTAGGTCTTATTATTCTTCTTAAGATATAGTGTAAATTTT
455 ATGTGATGCATAGCAAACTTCTTAGGTCTTATTATTCTTCTTAAGATATAGTGTAAATTTT
* *
31324466 TATTTAAGAGGTTAAAATGGAAATTTA-CATTGTGATGCACAG-AGAAGTGCTCGTGTCTTATGA
1 TATTAAAGAGGTTAAAATGGAAATTTACCA-TGTGATGCACAGCA-AACTGCTCGTGTCTTATGA
* * * *
31324529 TTCTTTTTAACTTCATTTTTAAATATTGAA-ACTTGAATTTTGAGGCAAAGCCCGTTATGGAATT
64 TT-TTTTTAACTTAATTTTTAAATATT-AACACTTGAATTTCGAGGCAAAGCCCGTTATAGAATC
* * *
31324593 ATAGATA-AAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGGACACT
127 AAAGATACAA-TATAAATTTTTAAGAGGTTAAAATGAAAATTTA-CATGTGATGCATAGCAAACT
*** * * * ** * *
31324657 TCTTGTGTTTTATGATTTTTTTTTAATTTCATTTTTAAATATTAAAATTTGAATTTCGAGACTAA
190 TCGCATGTTTTATGA--TTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGACCAA
* * *
31324722 GTCGGGTA-CATAATC-AAATATAAAG-TATACATTTTTAAAAGGTTAAAA-GGAAAATTTACCA
253 GTCGGGTAGC-GAATCAAAAT-TAAAGTTA-AAATTTTTAAAAGGTTAAAATGG-AAATTTACAA
* ** * * * *
31324783 TGTGATGCATAGGAAACTTCTCGTATCTTTTGATTCTTTTTAATTTCATTTTTAACTATTGAAAC
314 TGTGATGCAGAACAAACTTCTCGTATATTATGAATCTTTTTAATTTCATTTTCAACTATTGAAAC
* *
31324848 TCGAATTTTGAGGCGAACTCCGTTACGAAATGAAAGATAAAGTATAAACTTTT-AAGGGTGTAAA
379 TAGAATTTTGAGGCAAACTCCGTTACGAAATGAAAGATAAAGTATAAACTTTTCAA-GGT-TAAA
* *
31324912 ATGGAAATTTACCTTGTGATGCATAGCAAACTTC
442 AAGGAAATTTACCATGTGATGCATAGCAAACTTC
31324946 CAGTGTTTTA
Statistics
Matches: 405, Mismatches: 61, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
515 3 0.01
516 56 0.14
517 86 0.21
518 32 0.08
519 12 0.03
520 216 0.53
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (515 bp):
TATTAAAGAGGTTAAAATGGAAATTTACCATGTGATGCACAGCAAACTGCTCGTGTCTTATGATT
TTTTTAACTTAATTTTTAAATATTAACACTTGAATTTCGAGGCAAAGCCCGTTATAGAATCAAAG
ATACAATATAAATTTTTAAGAGGTTAAAATGAAAATTTACATGTGATGCATAGCAAACTTCGCAT
GTTTTATGATTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGACCAAGTCGGGTA
GCGAATCAAAATTAAAGTTAAAATTTTTAAAAGGTTAAAATGGAAATTTACAATGTGATGCAGAA
CAAACTTCTCGTATATTATGAATCTTTTTAATTTCATTTTCAACTATTGAAACTAGAATTTTGAG
GCAAACTCCGTTACGAAATGAAAGATAAAGTATAAACTTTTCAAGGTTAAAAAGGAAATTTACCA
TGTGATGCATAGCAAACTTCTTAGGTCTTATTATTCTTCTTAAGATATAGTGTAAATTTT
Found at i:31325043 original size:142 final size:140
Alignment explanation
Indices: 31324468--31325963 Score: 1241
Period size: 142 Copynumber: 10.5 Consensus size: 140
31324458 TAAATTTTTA
* * * *
31324468 TTTAAGAGGTTAAAATGGAAATTTA-CATTGTGATGCACAG-AGAAGTGCTCGTGTCTTATGATT
1 TTTAAG-GGTTAAAATGGAAATTTACCA-TGTGATGCATAGCA-AACTTCTCGTGTTTTATGATT
* * * * ** * *
31324531 CTTTTTAACTTCATTTTTAAATATTGAAACTTGAATTTTGAGGCAAAGCCCGTTATGGAATTATA
63 -TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAG-TCGTTACAGAATCAAA
31324596 GATAAAGTATAAATT
126 GATAAAGTATAAATT
* * * *
31324611 TTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGGACACTTCTTGTGTTTTATGATTTT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGA--TT
* * * * * * * *
31324676 TTTTTAATTTCATTTTTAAATATTAAAATTTGAATTTCGAGACTAAGTCGGGTACATAATCAAAT
63 TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC-GTTACAGAATCAAAG
*
31324741 ATAAAGTATACATT
127 ATAAAGTATAAATT
* * *
31324755 TTTAAAAGGTTAAAA-GGAAAATTTACCATGTGATGCATAGGAAACTTCTCGTATCTTT-TGATT
1 TTT-AAGGGTTAAAATGG-AAATTTACCATGTGATGCATAGCAAACTTCTCGTGT-TTTATGATT
* * * * *
31324818 CTTTTTAATTTCATTTTTAACTATTGAAACTCGAATTTTGAGGCGAACTCCGTTAC-GAAATGAA
63 -TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT-CGTTACAG-AATCAA
*
31324882 AGATAAAGTATAAACT
125 AGATAAAGTATAAATT
*
31324898 TTTAAGGGTGTAAAATGGAAATTTACCTTGTGATGCATAGCAAACTTC-CAGTGTTTTATGATTT
1 TTTAAGGGT-TAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTC-GTGTTTTATGATTT
* * * * * *
31324962 TTTTAATTTCGTTTTTAAATATTAAAATTTGAATTTCGAGACAAAGTCGATTACAAAATCAAAGA
64 TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTCG-TTACAGAATCAAAGA
*
31325027 TACAGTATAAATT
128 TAAAGTATAAATT
** * ** * * * * *
31325040 TTTAACAAGTTAGAATGGAAATTTAAAATGTGATGCATAGAAAAGTTATCGTGTCTTCTGATTTT
1 TTTAA-GGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATTTT
* * * * * * ** *
31325105 TTTAAATTT--TTTTATGAATATTGAAACTCAAATTTTGAGGCGAACTCCATTATTGAATTAAAG
65 TTT-AATTTCATTTT-TAAATATTAAAACTCGAATTTTGAGGCAAAGT-CGTTACAGAATCAAAG
*
31325168 ATAAAGTATAAAAT
127 ATAAAGTATAAATT
* * *
31325182 TTTAAGTGGTTAAAATGGAAATTTACCATGTGATGCAT-GAAAAACTTCTCGTGTTATATGAATC
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAG-CAAACTTCTCGTGTTTTATG-ATT
*
31325246 TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTCGAGGCAAAGTCGGTTACAGAATCAAAG
63 TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC-GTTACAGAATCAAAG
* *
31325311 AAAAACTTAATGTATATATT
127 ----A--TAAAGTATAAATT
* ** * * * * * * *
31325331 TTTAAGAGGAT-AAATGGAAATTTATAATTTGATGAATATCGAAGTTCTCGTGTGTTATGAATCT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATG-ATTT
* * * * * * ** *
31325395 ATTTAATTTAATTTTTTAATATTAAAACTCGAGTTTTGAAGG-GATGTCTGTTATGGAATTAAAG
64 TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTG-AGGCAAAGTC-GTTACAGAATCAAAG
* * *
31325459 AAAAAGTTTAAATA
127 ATAAAGTATAAATT
* *
31325473 TTAAAGAGGTTAAAATGGAAATTTACCATGTGATGTATAGCAAACTTCTCGTGTTTTATGATTTT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATTTT
* * * * * * *
31325538 TTTAATTTAATTTTTAAATATTAACATTTGAATTTCGA-GCAATGTCTGTTATAGAATCAAAGAT
65 TTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC-GTTACAGAATCAAAGAT
** *
31325602 ACTGTATTAA-T
129 AAAGTATAAATT
* * * *
31325613 TTTAAGAGGTTAAAATGAAAATTTA-TATGTGATGCATTGCAAACTTCTCATGTTTTATGATTTT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATTTT
* * * * * * * * *
31325677 TTTAATTTAATTATTAAATAGTAAAATTCAAATTTAGAGGCCAATTCGGTTAGCGGAA-CAATAG
65 TTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC-GTTA-CAGAATCAA-AG
31325741 -TAAAGTATAAATT
127 ATAAAGTATAAATT
* * * * * *
31325754 TTTAAGAGTTTAAAATGGAAATTTACAATGTGATGCAGAGCAAAGTTCTCGTGTATTATGAATCT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATG-ATTT
* * * *
31325819 TTTTAATTTCATTTTT-AA-A-T-AAACTAGAATTTTGAGGCAAAGTCCGTTACAAAATTATAGA
64 TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT-CGTTACAGAATCAAAGA
*
31325880 TAAAGTAAAAAATT
128 TAAAGT-ATAAATT
* * * * * *
31325894 TTAAAAGGTTAAAATGGAAATGTACCATGTGATGCATAGCAAACTTCTCGAGTCTTATTATTCTT
1 TTTAAGGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATT-TT
31325959 TTTAA
65 TTTAA
31325964 GATATAGTGT
Statistics
Matches: 1086, Mismatches: 218, Indels: 102
0.77 0.16 0.07
Matches are distributed among these distances:
138 7 0.01
139 147 0.14
140 56 0.05
141 64 0.06
142 304 0.28
143 267 0.25
144 120 0.11
145 7 0.01
147 1 0.00
148 91 0.08
149 22 0.02
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (140 bp):
TTTAAGGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATTTTT
TTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTCGTTACAGAATCAAAGATAA
AGTATAAATT
Found at i:31326035 original size:86 final size:86
Alignment explanation
Indices: 31325892--31326049 Score: 239
Period size: 86 Copynumber: 1.8 Consensus size: 86
31325882 AAGTAAAAAA
* *
31325892 TTTTAAAAGGTTAAAATGGAAATGTACCATGTGATGCATAGCAAACTTCTCGAGTCTTATTATTC
1 TTTTAAAAGGTTAAAATGGAAATGTACAATGTGATGCATAGCAAACTTCTCGAGTCTTATGATTC
31325957 TTTTTAAGATATAGTGTAAAT
66 TTTTTAAGATATAGTGTAAAT
* * *
31325978 TTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAG-AGAA-TTGCTCGTGTCTTATGAT
1 TTTTAAAAGGTTAAAATGGAAATGTACAATGTGATGCATAGCA-AACTT-CTCGAGTCTTATGAT
31326041 TCTTTTTAA
64 TCTTTTTAA
31326050 CTTCATTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 3 0.05
86 62 0.95
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (86 bp):
TTTTAAAAGGTTAAAATGGAAATGTACAATGTGATGCATAGCAAACTTCTCGAGTCTTATGATTC
TTTTTAAGATATAGTGTAAAT
Found at i:31326168 original size:229 final size:225
Alignment explanation
Indices: 31325748--31326192 Score: 615
Period size: 229 Copynumber: 2.0 Consensus size: 225
31325738 TAGTAAAGTA
*
31325748 TAAATTTTTAAGAGTTTAAAATGGAAATTTACAATGTGATGCAGAGCAAAGTTCTCGTGTATTAT
1 TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCAGAGCAAAGTTCTCGTGTATTAT
* *
31325813 GAATCTTTTTAATTTCATTTTTAAATAAACTAGAATTTTGAGGCAAAGTCCGTTACAAAATTATA
66 GAATCTTTTTAACTTCATTTTTAAATAAACTAGAATTTTAAGGCAAAGTCCGTTACAAAATTATA
* *
31325878 GATAAAGTAAAAAATTTTAAAAGGTTAAAATGGAAATGTACCATGTGATGCATAGCAAACTTCTC
131 GATAAAGTAAAAAATTTTAAAAGGTTAAAATGGAAATGTACCATGTGATACATAACAAACTTCTC
*
31325943 GAGTCTTATTATTCTTTTTAAGATATAGTG
196 GAGTCTTATGATTCTTTTTAAGATATAGTG
* *
31325973 TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAG-AGAA-TTGCTCGTGTCTT
1 TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCAGAGCA-AAGTT-CTCGTGTATT
* * ***
31326036 ATGATTCTTTTTAACTTCATTTTTAAAGATTGAAACTAGAATTTTAAGGCAAAGTTCGTTATGGA
64 ATGAATCTTTTTAACTTCATTTTT-AA-A-T-AAACTAGAATTTTAAGGCAAAGTCCGTTACAAA
* * * * * *
31326101 ATTATAGATAAAGTACACATTTTTAAGAGGTTAAAATGGAAGTTTACCATGTGATACATAACAAA
125 ATTATAGATAAAGTAAAAAATTTTAAAAGGTTAAAATGGAAATGTACCATGTGATACATAACAAA
* * * *
31326166 CTTGTCGTGTTTTATGATTTTTTTTAA
190 CTTCTCGAGTCTTATGATTCTTTTTAA
31326193 AAATTTCATT
Statistics
Matches: 191, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
224 3 0.02
225 77 0.40
226 2 0.01
227 1 0.01
228 1 0.01
229 107 0.56
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (225 bp):
TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCAGAGCAAAGTTCTCGTGTATTAT
GAATCTTTTTAACTTCATTTTTAAATAAACTAGAATTTTAAGGCAAAGTCCGTTACAAAATTATA
GATAAAGTAAAAAATTTTAAAAGGTTAAAATGGAAATGTACCATGTGATACATAACAAACTTCTC
GAGTCTTATGATTCTTTTTAAGATATAGTG
Found at i:31326639 original size:142 final size:142
Alignment explanation
Indices: 31326232--31327872 Score: 1463
Period size: 143 Copynumber: 11.6 Consensus size: 142
31326222 AGTCGGGTAC
* * * * *
31326232 AAATCAAATATAAAGTACAAATTTTTTAA-AGGTTAAAACGGAAATTTACCATGTAATGCATAGG
1 AAATCAAAGATAAAGTATAAA-TTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGC
* * * * * * * *
31326296 AAACTTCTCGTATCTTATGGTTCCTTTTAGTTTCATTTGTAACTATTGAAACTCGAATTTTGAGG
65 AAACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG
* * *
31326361 CGAACTCCATTACG
129 CAAAGTCCGTTACG
* * *
31326375 AAATGAAAGATAAAGTATAAATTTTTAAGAGCTTAAAATGGAAATTTACAATGTGATGCATAG-A
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* ** * * * * *
31326439 GAAGTGGTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAAATGTTGAAACTCAAATTTTGAGG
66 -AACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG
*
31326504 TAAAGTCCGTTACG
129 CAAAGTCCGTTACG
* * * * *
31326518 GAATTATAGATAAAGTATAAA-TTTTAAGAGGTTAAAATGGAAGTTTACCATGTGATACATAGCA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * * * * * *
31326582 AACTTGTCATGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAAATTCGAGACT
66 AACTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCA
* *
31326647 AAGTCGGGTAC-
131 AAGTCCGTTACG
* * * *
31326658 AAATCAAATATAAAGTACACATTTTTCAA-ATGTTAAAATGGAAATTTACCATGTGATGCATAGC
1 AAATCAAAGATAAAGTATAAATTTTT-AAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGC
* * *
31326722 AAACTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAACTATTAAAACTCAAATTTTGAGG
65 AAACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG
* * * *
31326787 CGAACTCC-ATATG
129 CAAAGTCCGTTACG
* * *
31326800 AAATGAAAGATAAAGTATAAATTTTTAAGAGGTTAGAATGGAAATTTACCATGTGATGCATAACA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * * **
31326865 AACTTCTAGTGTTGTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCAAGGC
66 AACTTCTCGTGTTTTATGA-TTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
*
31326930 AAAGT-CGTTTACA
130 AAAGTCCG-TTACG
* * ** *
31326943 AAATCAAAGATACAGTATAAATTTTTAACAGGTTAAAATGGAAATTTAAAATGTGATGCATAGTA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * * * * *
31327008 AAGTTCTCGTGTCTTCTGATTATTTTAAAGTT-ATTTATAAATATTGAAACTCGAATTTTGAGGC
66 AACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
* *
31327072 GAACTCCGTTACG
130 AAAGTCCGTTACG
* * * * * * * *
31327085 GAATTAAAGATAAAGTATACATTTTTAAGTGGTTAAAATGAAAATTTACCACGTGATGCATGGAA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * * * *
31327150 AACTTCTTGTGTTATATGAATCTTTTTAATTTCATTTTTAAATATTAAAACTCAAATTTCGTGGC
66 AACTTCTCGTGTTTTATG-ATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
* ** *
31327215 GAAGTTGGTTACA
130 AAAGTCCGTTACG
* * * ** *
31327228 AAATCAAAGAAAAAGTTAAAGTATACATTTTTAAGATGTTAAAATGAAAATTTATAATTTGATGC
1 AAATCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGC
* * * * * *
31327293 ATAGCAAAGTTCTTGTGTGTTATGATTCTTATTAATTTAATTTTTTAATATTAAAACTCGAATTT
60 ATAGCAAACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTT
* * ** *
31327358 TGAAGG-GATGTCTATTATG
124 TG-AGGCAAAGTCCGTTACG
* * * * *
31327377 GAATTAAAGATAAAGTTTAAATATTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGAA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * *
31327442 AACTTGTCGCGTTTTATGATTTTATTTAATTTTATTTTTAAATATTAAAATTCGAATTTTGAGG-
66 AACTTCTCGTGTTTTATGATTTT-TTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
* *
31327506 AAACGTCGGTTACA
130 AAA-GTCCGTTACG
* * * * *
31327520 AAATCAAAGATAAATTATAAATTTTTAAGAGATTGAAATGGAAATTTA-TATGTGATGCATTGCA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * ** * *
31327584 AACTTGTCGTGTTTTATGA--TTTTTAATTTAATTATTAAATATTAAAGTTCGAATTTCGAGACC
66 AACTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAG-GC
* *
31327647 AAA-TCGGTTATTG
130 AAAGTCCGTTA-CG
* * * *
31327660 --ATCAAA-ATTAAGGTACAAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATGCATAGC
1 AAATCAAAGA-TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGC
* * * *
31327722 GAAGTTCTC----------A---TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTTAGAC
65 AAACTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
*
31327774 AAAGTCCATTACG
130 AAAGTCCGTTACG
* * * * *
31327787 GAATTATAGATAAAGTATAAATTTTTAA-ATGGTTAAAATAGAAATTTACCATGTAATGCATAGC
1 AAATCAAAGATAAAGTATAAATTTTTAAGA-GGTTAAAATGGAAATTTACCATGTGATGCATAGC
* *
31327851 AAACTTCTCGGGTCTTATGATT
65 AAACTTCTCGTGTTTTATGATT
31327873 CTTCGTAAGA
Statistics
Matches: 1213, Mismatches: 238, Indels: 96
0.78 0.15 0.06
Matches are distributed among these distances:
127 5 0.00
128 40 0.03
129 60 0.05
130 1 0.00
137 1 0.00
138 38 0.03
139 62 0.05
140 17 0.01
141 107 0.09
142 365 0.30
143 401 0.33
145 1 0.00
147 1 0.00
148 2 0.00
149 110 0.09
150 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (142 bp):
AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
AACTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCA
AAGTCCGTTACG
Found at i:31327096 original size:285 final size:285
Alignment explanation
Indices: 31325962--31327875 Score: 1555
Period size: 285 Copynumber: 6.8 Consensus size: 285
31325952 TATTCTTTTT
* * * *
31325962 AAGATATAGTGTAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGAGAA-TTG
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA-AAAACTT-
* * * * * * * **
31326026 CTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAAAGATTGAAACT-AGAATTTTAAGGCAAAG
64 CTAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCA-AATTTCGAGGCAAAG
*** * * * * * **
31326090 TTC-GTTATGGAATTATAGATAAAGTACACATTTTTAAGAGGTTAAAATGGAAGTTTACCATGTG
128 -TCGGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTG
* * * * * * * *
31326154 ATACATAACAAACTTGTCGTGTTTTATGATTTTTTTTAAAAATTTCATTTCTAAACATT-----T
192 ATGCATAGCAAAGTTCTCGTGTCTTATGATTCTTTTT---AATTTCATTTTTAAATATTAAAACT
* * * * ** *
31326214 CG-A----GA--CTAAGTCGGGTA-CAAATCA
254 CGAATTTTGAGGCGAACTCCGTTATGGAATTA
* * * * *
31326238 AATATAAAGTACAAATTTTTTAA-AGGTTAAAACGGAAATTTACCATGTAATGCATAGGAAACTT
1 AAGATAAAGTATAAA-TTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA-AAAACTT
* * * * ** * * * * * * * * *
31326302 CTCGTATCTTATGGTTCCTTTTAGTTTCATTTGTAACTATTGAAACTCGAATTTTGAGGCGAACT
64 CTAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGT
** * * * *
31326367 CCATTACGAAATGAAAGATAAAGTATAAATTTTTAAGAGCTTAAAATGGAAATTTACAATGTGAT
129 CGGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTGAT
** * * * *
31326432 GCATAG-AGAAGTGGTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAAATGTTGAAACTCAAA
194 GCATAGCA-AAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAA
** * *
31326496 TTTTGAGGTAAAGTCCGTTACGGAATTA
258 TTTTGAGGCGAACTCCGTTATGGAATTA
* * * * *
31326524 TAGATAAAGTATAAA-TTTTAAGAGGTTAAAATGGAAGTTTACCATGTGATACATAGCAAACTTG
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA-AAAACTTC
* * *
31326588 TCA-TGTTTTATGA-TTTTTTTAATTTCATTTTTAAATATTAAAATTCAAAATTCGAGACTAAGT
65 T-AGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGT
* * * * * **
31326651 CGGGTAC-AAATCAAATATAAAGTACACATTTTTCAA-ATGTTAAAATGGAAATTTACCATGTGA
129 CGGTTACAAAATCAAAGATAAAGTATAAATTTTT-AAGAGGTTAAAATGGAAATTTAAAATGTGA
* * *
31326714 TGCATAGCAAACTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAACTATTAAAACTCAAA
193 TGCATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAA
* * *
31326779 TTTTGAGGCGAACTCC-ATATGAAATGA
258 TTTTGAGGCGAACTCCGTTATGGAATTA
*
31326806 AAGATAAAGTATAAATTTTTAAGAGGTTAGAATGGAAATTTACCATGTGATGCATAACAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAA-AAACTTC
* *
31326871 TAGTGTTGTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCAAGGCAAAGTC
65 TAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTC
* * *
31326936 GTTTACAAAATCAAAGATACAGTATAAATTTTTAACAGGTTAAAATGGAAATTTAAAATGTGATG
130 GGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTGATG
* * * * * * *
31327001 CATAGTAAAGTTCTCGTGTCTTCTGATTATTTTAAAGTT-ATTTATAAATATTGAAACTCGAATT
195 CATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATT
*
31327065 TTGAGGCGAACTCCGTTACGGAATTA
260 TTGAGGCGAACTCCGTTATGGAATTA
* * * * *
31327091 AAGATAAAGTATACATTTTTAAGTGGTTAAAATGAAAATTTACCACGTGATGCATGGAAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCAT-AAAAACTTC
* * * * * * * *
31327156 TTGTGTTATATGAATCTTTTTAATTTCATTTTTAAATATTAAAACTCAAATTTCGTGGCGAAGTT
65 TAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTC
* * * *
31327221 GGTTACAAAATCAAAGAAAAAGTTAAAGTATACATTTTTAAGATGTTAAAATGAAAATTTATAAT
130 GGTTACAAAATCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAAT
* * * * * *
31327286 TTGATGCATAGCAAAGTTCTTGTGTGTTATGATTCTTATTAATTTAATTTTTTAATATTAAAACT
189 GTGATGCATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACT
** **
31327351 CGAATTTTGAAGG-GATGTCTATTATGGAATTA
254 CGAATTTTG-AGGCGAACTCCGTTATGGAATTA
* * *
31327383 AAGATAAAGTTTAAATATTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGAAAACTTG
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA-AAAACTTC
* * * * * *
31327448 TCGCGTTTTATGATTTTATTTAATTTTATTTTTAAATATTAAAATTCGAATTTTGAGG-AAACGT
65 TAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAA-GT
* * * *
31327512 CGGTTACAAAATCAAAGATAAATTATAAATTTTTAAGAGATTGAAATGGAAATTT-ATATGTGAT
129 CGGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTGAT
* * * * * * **
31327576 GCATTGCAAACTTGTCGTGTTTTATGA---TTTTTAATTTAATTATTAAATATTAAAGTTCGAAT
194 GCATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAAT
* * * * * * *
31327638 TTCGAGACCAAATCGGTTATTG-ATCA
259 TTTGAGGCGAACTCCGTTATGGAATTA
* * * * *
31327664 AA-ATTAAGGTACAAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATGCAT----A--GC
1 AAGA-TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAAAAACTTC
* * * * * * ** *
31327722 GA-AG--TTCTCA----TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTTAGACAAAGTC
65 TAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTC
** ** * * * ** *
31327780 CATTACGGAATTATAGATAAAGTATAAATTTTTAA-ATGGTTAAAATAGAAATTTACCATGTAAT
130 GGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGA-GGTTAAAATGGAAATTTAAAATGTGAT
* *
31327844 GCATAGCAAACTTCTCGGGTCTTATGATTCTT
194 GCATAGCAAAGTTCTCGTGTCTTATGATTCTT
31327876 CGTAAGATAT
Statistics
Matches: 1334, Mismatches: 256, Indels: 101
0.79 0.15 0.06
Matches are distributed among these distances:
266 1 0.00
267 81 0.06
268 32 0.02
271 6 0.00
273 16 0.01
275 3 0.00
276 176 0.13
277 9 0.01
278 2 0.00
279 1 0.00
280 1 0.00
281 52 0.04
282 63 0.05
283 170 0.13
284 138 0.10
285 296 0.22
286 48 0.04
288 1 0.00
289 1 0.00
291 74 0.06
292 160 0.12
293 3 0.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (285 bp):
AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAAAAACTTCT
AGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTCG
GTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTGATGC
ATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTT
TGAGGCGAACTCCGTTATGGAATTA
Found at i:31327767 original size:128 final size:129
Alignment explanation
Indices: 31327604--31327859 Score: 295
Period size: 129 Copynumber: 2.0 Consensus size: 129
31327594 GTTTTATGAT
** ** **
31327604 TTTTAATTTAATTATTAAATATTAAAGTTCGAATTTCGAGACCAAA-TCGGTTATTG-ATCA-AA
1 TTTTAATTTAATTATTAAATATTAAAACTCGAATTTCGAGA-CAAAGTCCATTACGGAATCATAA
* * * *
31327666 ATTAAGGTACAAATTTTTAAGA-GGTTAAAATAGAAATTTACAATGTGATGCATAGCGAAGTTCT
65 A-TAAAGTACAAATTTTTAA-ATGGTTAAAATAGAAATTTACAATGTAATGCATAGCAAACTTCT
31327730 CA
128 CA
* * ** * *
31327732 TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTTAGACAAAGTCCATTACGGAATTATAGA
1 TTTTAATTTAATTATTAAATATTAAAACTCGAATTTCGAGACAAAGTCCATTACGGAATCATAAA
* *
31327797 TAAAGTATAAATTTTTAAATGGTTAAAATAGAAATTTACCATGTAATGCATAGCAAACTTCTC
66 TAAAGTACAAATTTTTAAATGGTTAAAATAGAAATTTACAATGTAATGCATAGCAAACTTCTC
31327860 GGGTCTTATG
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
127 4 0.04
128 42 0.40
129 58 0.55
130 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (129 bp):
TTTTAATTTAATTATTAAATATTAAAACTCGAATTTCGAGACAAAGTCCATTACGGAATCATAAA
TAAAGTACAAATTTTTAAATGGTTAAAATAGAAATTTACAATGTAATGCATAGCAAACTTCTCA
Done.