Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 63 of 97
Found at i:25430327 original size:44 final size:44
Alignment explanation
Indices: 25430272--25430359 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
25430262 GCTTGAACTT
25430272 ATGTACTTACATAAATAATATCAT-TACTTGAGAA-TGAAATGTTC
1 ATGTACTTACATAAA-AATATCATGT-CTTGAGAATTGAAATGTTC
* ** *
25430316 ATGTGCTTACATTGAAATATCATGTCTTGAGAATTTAAATGTTC
1 ATGTACTTACATAAAAATATCATGTCTTGAGAATTGAAATGTTC
25430360 CAATGCTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 16 0.42
44 22 0.58
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (44 bp):
ATGTACTTACATAAAAATATCATGTCTTGAGAATTGAAATGTTC
Found at i:25434864 original size:18 final size:18
Alignment explanation
Indices: 25434841--25434885 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
25434831 TTAAAATAGA
25434841 TTATTTTAATTAATATTT
1 TTATTTTAATTAATATTT
* *
25434859 TTATTTTATTTTATTATTT
1 TTATTTTA-ATTAATATTT
25434878 TT-TTTTAA
1 TTATTTTAA
25434886 AAAAGAGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTTTAATTAATATTT
Found at i:25437053 original size:27 final size:27
Alignment explanation
Indices: 25437015--25437241 Score: 188
Period size: 27 Copynumber: 8.3 Consensus size: 27
25437005 TATGGCTTGG
25437015 CATGTAACAACTAAATTTTTCAACATGA
1 CATGTAACAACTAAA-TTTTCAACATGA
* *
25437043 CATGT-ACAACTAAATCTTCAACATAA
1 CATGTAACAACTAAATTTTCAACATGA
* * * *
25437069 CATGTAACAACTACATTTTTAAATATGG
1 CATGTAACAACTA-AATTTTCAACATGA
** * * *
25437097 TGTTTAGCAACTAAATCTTCAACATGA
1 CATGTAACAACTAAATTTTCAACATGA
*
25437124 CTTGTAACAACTAAATTTTCAACATGA
1 CATGTAACAACTAAATTTTCAACATGA
* * * *
25437151 CGTGTAGCAATTAAATCTTCAACAT-A
1 CATGTAACAACTAAATTTTCAACATGA
* *
25437177 GCATGTAACAACTACATTTTTCAACATGG
1 -CATGTAACAACTA-AATTTTCAACATGA
** * * *
25437206 TGTGTGACAACTAAATTTTCAATATGG
1 CATGTAACAACTAAATTTTCAACATGA
*
25437233 CATGCAACA
1 CATGTAACA
25437242 CCACATTTTT
Statistics
Matches: 153, Mismatches: 41, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
26 16 0.10
27 95 0.62
28 42 0.27
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
CATGTAACAACTAAATTTTCAACATGA
Found at i:25437130 original size:55 final size:54
Alignment explanation
Indices: 25437015--25437254 Score: 254
Period size: 54 Copynumber: 4.4 Consensus size: 54
25437005 TATGGCTTGG
* ***
25437015 CATGTAACAACTAAATTTTTCAACATGACATGTA-CAACTAAATCTTCAACATAA
1 CATGTAACAACTACATTTTTCAACATGGTGTGTAGCAACTAAATCTTCAACAT-A
* * *
25437069 CATGTAACAACTACATTTTTAAATATGGTGTTTAGCAACTAAATCTTCAACATGA
1 CATGTAACAACTACATTTTTCAACATGGTGTGTAGCAACTAAATCTTCAACAT-A
* * ** *
25437124 CTTGTAACAACTA-AATTTTCAACATGACGTGTAGCAATTAAATCTTCAACATA
1 CATGTAACAACTACATTTTTCAACATGGTGTGTAGCAACTAAATCTTCAACATA
* * *
25437177 GCATGTAACAACTACATTTTTCAACATGGTGTGT-GACAACTAAATTTTCAATATGG
1 -CATGTAACAACTACATTTTTCAACATGGTGTGTAG-CAACTAAATCTTCAACAT-A
* *
25437233 CATGCAAC-ACCACATTTTTCAA
1 CATGTAACAACTACATTTTTCAA
25437255 AGCTGCCATG
Statistics
Matches: 155, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 85 0.55
55 69 0.45
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
CATGTAACAACTACATTTTTCAACATGGTGTGTAGCAACTAAATCTTCAACATA
Found at i:25437200 original size:82 final size:80
Alignment explanation
Indices: 25437014--25437227 Score: 209
Period size: 82 Copynumber: 2.6 Consensus size: 80
25437004 TTATGGCTTG
* *
25437014 GCATGTAACAACTAAATTTTTCAACATGACATGTACAACTAAATCTTCAACATAACATGTAACAA
1 GCATGTAACAACT-AATTTTTCAACATGACTTGTACAACTAAATTTTCAACATAACATGTAACAA
* * *
25437079 CTACATTTTTAAATAT
65 CTAAATCTTCAAATAT
* * * * * * *
25437095 G-GTGTTTAGCAACTAAATCTTCAACATGACTTGTAACAACTAAATTTTCAACATGACGTGTAGC
1 GCATG--TAACAACTAATTTTTCAACATGACTTGT-ACAACTAAATTTTCAACATAACATGTAAC
*
25437159 AATTAAATCTTCAACATA-
63 AACTAAATCTTCAA-ATAT
*
25437177 GCATGTAACAACTACATTTTTCAACATG-GTGTGTGACAACTAAATTTTCAA
1 GCATGTAACAACTA-ATTTTTCAACATGACT-TGT-ACAACTAAATTTTCAA
25437228 TATGGCATGC
Statistics
Matches: 107, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
80 2 0.02
81 27 0.25
82 73 0.68
83 5 0.05
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (80 bp):
GCATGTAACAACTAATTTTTCAACATGACTTGTACAACTAAATTTTCAACATAACATGTAACAAC
TAAATCTTCAAATAT
Found at i:25437208 original size:109 final size:109
Alignment explanation
Indices: 25437017--25437227 Score: 327
Period size: 109 Copynumber: 1.9 Consensus size: 109
25437007 TGGCTTGGCA
25437017 TGTAACAACTAAATTTTTCAACATGACATGTACAACTAAATCTTCAACATAACATGTAACAACTA
1 TGTAACAACTAAATTTTTCAACATGACATGTACAACTAAATCTTCAACATAACATGTAACAACTA
* *
25437082 CATTTTTAAATATGGTGT-TTAGCAACTAAATCTTCAACATGACT
66 CATTTTTAAACATGGTGTGTGA-CAACTAAATCTTCAACATGACT
* * *
25437126 TGTAACAACTAAA-TTTTCAACATGACGTGTAGCAATTAAATCTTCAACATAGCATGTAACAACT
1 TGTAACAACTAAATTTTTCAACATGACATGTA-CAACTAAATCTTCAACATAACATGTAACAACT
* *
25437190 ACATTTTTCAACATGGTGTGTGACAACTAAATTTTCAA
65 ACATTTTTAAACATGGTGTGTGACAACTAAATCTTCAA
25437228 TATGGCATGC
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
108 17 0.18
109 74 0.80
110 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (109 bp):
TGTAACAACTAAATTTTTCAACATGACATGTACAACTAAATCTTCAACATAACATGTAACAACTA
CATTTTTAAACATGGTGTGTGACAACTAAATCTTCAACATGACT
Found at i:25437252 original size:109 final size:108
Alignment explanation
Indices: 25437028--25437254 Score: 296
Period size: 109 Copynumber: 2.1 Consensus size: 108
25437018 GTAACAACTA
*
25437028 AATTTTTCAACATGACATGTACAACTAAATCTTCAACATAACATGTAACAACTACATTTTTAAAT
1 AATTTTTCAACATGACATGTACAACTAAATCTTCAACATAACATGTAACAACTACATTTTTAAAC
* * * *
25437093 ATGGTGTTTAGCAACTAAATCTTCAACATGACTTGTAACAACT
66 ATGGTGTTGAGCAACTAAATCTTCAACATGACATGCAACAACC
* * * * *
25437136 AAATTTTCAACATGACGTGTAGCAATTAAATCTTCAACATAGCATGTAACAACTACATTTTTCAA
1 AATTTTTCAACATGACATGTA-CAACTAAATCTTCAACATAACATGTAACAACTACATTTTTAAA
* * *
25437201 CATGGTGTGTGA-CAACTAAATTTTCAATATGGCATGCAAC-ACC
65 CATGGTGT-TGAGCAACTAAATCTTCAACATGACATGCAACAACC
25437244 ACATTTTTCAA
1 A-ATTTTTCAA
25437255 AGCTGCCATG
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
108 22 0.22
109 78 0.76
110 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (108 bp):
AATTTTTCAACATGACATGTACAACTAAATCTTCAACATAACATGTAACAACTACATTTTTAAAC
ATGGTGTTGAGCAACTAAATCTTCAACATGACATGCAACAACC
Found at i:25437396 original size:20 final size:20
Alignment explanation
Indices: 25437371--25437418 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
25437361 TGATTGTTAC
25437371 AATTGAAACGCTCGGCCCTT
1 AATTGAAACGCTCGGCCCTT
*
25437391 AATTGAAACGCTTGGCCCTT
1 AATTGAAACGCTCGGCCCTT
25437411 AATTGAAA
1 AATTGAAA
25437419 TGTGCCCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (20 bp):
AATTGAAACGCTCGGCCCTT
Found at i:25437543 original size:22 final size:23
Alignment explanation
Indices: 25437510--25437553 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
25437500 ATAACATATT
25437510 TTTATTTTATATCTCAT-CTATAA
1 TTTATTTTATATCT-ATACTATAA
25437533 TTTA-TTTATATCTATACTATA
1 TTTATTTTATATCTATACTATA
25437554 TCTATACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 14 0.70
23 4 0.20
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATTTTATATCTATACTATAA
Found at i:25441715 original size:50 final size:50
Alignment explanation
Indices: 25441594--25441732 Score: 188
Period size: 50 Copynumber: 2.8 Consensus size: 50
25441584 TTATTTTTCA
* * *
25441594 AAAGTTGCAGAGCCTTCAAAATAGAAGTTAATTATTTTTCAAATTTATTT
1 AAAGTTGCAGAGCCTTCAAAAGAGGAGTTATTTATTTTTCAAATTTATTT
** * *
25441644 AAAGTTGTGGAGCTTTTAAAAGAGGAGTTATTTATTTTTCAAATTTATTT
1 AAAGTTGCAGAGCCTTCAAAAGAGGAGTTATTTATTTTTCAAATTTATTT
* * *
25441694 AAAGTTGCAGAACCTTCAAAAGAGGAGTTTTTTTTTTTT
1 AAAGTTGCAGAGCCTTCAAAAGAGGAGTTATTTATTTTT
25441733 AATTTTTGAC
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (50 bp):
AAAGTTGCAGAGCCTTCAAAAGAGGAGTTATTTATTTTTCAAATTTATTT
Found at i:25453961 original size:28 final size:29
Alignment explanation
Indices: 25453913--25453976 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
25453903 GTAAATTTTT
** *
25453913 AAAAATTACACTTTTACCCCCGTAAAGTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
**
25453942 AAAAATTACA-TTTTTGCCCCAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
25453970 AAAAATT
1 AAAAATT
25453977 GCCCATAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 20 0.67
29 10 0.33
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTG
Found at i:25459476 original size:64 final size:64
Alignment explanation
Indices: 25459399--25459591 Score: 341
Period size: 64 Copynumber: 3.0 Consensus size: 64
25459389 AGATAAATAT
25459399 AAACATTGATTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGTTGTA
1 AAACATTGATTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGTTGTA
* * *
25459463 AAACATTGGTTTTAATCAAAAGATAAATACCATCTTCTAAAGTTATAATGCCCATATGGTTGTA
1 AAACATTGATTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGTTGTA
* *
25459527 AAACATCGATTTTAATCAAAATATAACTACCATCTTCTAAAGTTATAATGCTCATATGGTTGTA
1 AAACATTGATTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGTTGTA
25459591 A
1 A
25459592 TTATTATGAA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 121 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (64 bp):
AAACATTGATTTTAATCAAAATATAAATACCATCTTCTAAAGTTATAATGCTCATATGGTTGTA
Found at i:25470372 original size:24 final size:24
Alignment explanation
Indices: 25470345--25470484 Score: 174
Period size: 24 Copynumber: 5.8 Consensus size: 24
25470335 TGTTTTTACT
*
25470345 ATGTACAGAAACATGTGACACGTC
1 ATGTACAGAAACATGTGACACGCC
*
25470369 ATGTACA-AAACCATGTGACACGCT
1 ATGTACAGAAA-CATGTGACACGCC
* *
25470393 ATGTACAGAAATATGTAACACGCC
1 ATGTACAGAAACATGTGACACGCC
* *
25470417 ATGTAAAGGAACATGTGACACGCC
1 ATGTACAGAAACATGTGACACGCC
* * *
25470441 ATATATAGAAACATGTGACACACC
1 ATGTACAGAAACATGTGACACGCC
*
25470465 ATGTACAAAAACATGTGACA
1 ATGTACAGAAACATGTGACA
25470485 AGTCATGGTT
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
23 3 0.03
24 92 0.94
25 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (24 bp):
ATGTACAGAAACATGTGACACGCC
Found at i:25470583 original size:26 final size:24
Alignment explanation
Indices: 25470528--25470602 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 24
25470518 AAAAAATACT
25470528 GTTGTTACACGCCATG-TACAAAAA
1 GTTGTTACACGCCATGTTA-AAAAA
**
25470552 CATGTTACACGCCATGGTTAAAAAA
1 GTTGTTACACGCCAT-GTTAAAAAA
25470577 GGTTGTTACACGCCATGTTGAAAAAA
1 -GTTGTTACACGCCATGTT-AAAAAA
25470603 AAATATTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
24 13 0.30
25 9 0.21
26 21 0.49
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
GTTGTTACACGCCATGTTAAAAAA
Found at i:25470601 original size:81 final size:77
Alignment explanation
Indices: 25470458--25470626 Score: 223
Period size: 76 Copynumber: 2.1 Consensus size: 77
25470448 GAAACATGTG
* *
25470458 ACACACCATGTACAAAAACATGTGACAAGTCATGGTTAGGTTGTTACACGCCATGTTG-AAAAAA
1 ACACGCCATGTACAAAAACATGTGACAAGCCATGGTTAGGTTGTTACACGCCATGTTGAAAAAAA
* *
25470522 AATACTGTTGTT
66 AATACTATCGTT
* *
25470534 ACACGCCATGTACAAAAACATGTTACACGCCATGGTTAAAAAAGGTTGTTACACGCCATGTTGAA
1 ACACGCCATGTACAAAAACATGTGACAAGCCATGGTT-----AGGTTGTTACACGCCATGTTGAA
*
25470599 AAAAAAATATTATCGTT
61 AAAAAAATACTATCGTT
25470616 ACACGCCATGT
1 ACACGCCATGT
25470627 TGAAAAAATA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
76 33 0.41
81 21 0.26
82 26 0.32
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (77 bp):
ACACGCCATGTACAAAAACATGTGACAAGCCATGGTTAGGTTGTTACACGCCATGTTGAAAAAAA
AATACTATCGTT
Found at i:25470670 original size:27 final size:27
Alignment explanation
Indices: 25470630--25470721 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
25470620 GCCATGTTGA
*
25470630 AAAAATATTGTTGTTACACGACATATTC
1 AAAAACATT-TTGTTACACGACATATTC
* *
25470658 AAAAACATTTTGTTACACAAAATATTC
1 AAAAACATTTTGTTACACGACATATTC
* * *
25470685 AAAAACATTTTATTACATGACATATTG
1 AAAAACATTTTGTTACACGACATATTC
25470712 AAATAACATT
1 AAA-AACATT
25470722 ATGCTCAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 41 0.75
28 14 0.25
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.35
Consensus pattern (27 bp):
AAAAACATTTTGTTACACGACATATTC
Found at i:25470881 original size:15 final size:15
Alignment explanation
Indices: 25470861--25470890 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25470851 GGGAATAAAA
25470861 ACCAAAAATTGCAAC
1 ACCAAAAATTGCAAC
25470876 ACCAAAAATTGCAAC
1 ACCAAAAATTGCAAC
25470891 TAAACACGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.27, G:0.07, T:0.13
Consensus pattern (15 bp):
ACCAAAAATTGCAAC
Found at i:25480347 original size:49 final size:49
Alignment explanation
Indices: 25480277--25480388 Score: 163
Period size: 49 Copynumber: 2.3 Consensus size: 49
25480267 GTCATAGCCA
* ** *
25480277 GGTCGTCATCATCATTGGCTTATGCGCACTCCCTACTTGTACATAGCTG
1 GGTCATCATCATCATCAGCTTATGCGCACTCCCTACTTGCACATAGCTG
25480326 GGTCATCATCATCATCAGCTTATGCGCACTCCCTACTTGCACATAGCTG
1 GGTCATCATCATCATCAGCTTATGCGCACTCCCTACTTGCACATAGCTG
*
25480375 GATCAAT-ATCATCA
1 GGTC-ATCATCATCA
25480389 CACAACATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 55 0.96
50 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (49 bp):
GGTCATCATCATCATCAGCTTATGCGCACTCCCTACTTGCACATAGCTG
Found at i:25491704 original size:2 final size:2
Alignment explanation
Indices: 25491697--25491766 Score: 106
Period size: 2 Copynumber: 34.5 Consensus size: 2
25491687 TACCTCTTAA
*
25491697 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -T CT TT NCT ACT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT -CT
25491740 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
25491767 ATTTTTTTTG
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.94
3 3 0.05
ACGTcount: A:0.01, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25497344 original size:23 final size:23
Alignment explanation
Indices: 25497314--25497358 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
25497304 GTGCAAAATT
*
25497314 TTTAGAATTGTTATAATGCTATC
1 TTTAGAATTGTTACAATGCTATC
25497337 TTTAGAATTGTTACAATGCTAT
1 TTTAGAATTGTTACAATGCTAT
25497359 TTGGGTTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (23 bp):
TTTAGAATTGTTACAATGCTATC
Found at i:25508159 original size:21 final size:21
Alignment explanation
Indices: 25508133--25508200 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
25508123 CATCTCCCCA
25508133 CATCGTGCACATAGCCGGCGC
1 CATCGTGCACATAGCCGGCGC
** * *
25508154 CATCGTGTGCAT--CC-CCCC
1 CATCGTGCACATAGCCGGCGC
25508172 ACATCGTGCACATAGCCGGCGC
1 -CATCGTGCACATAGCCGGCGC
25508194 CATCGTG
1 CATCGTG
25508201 TGCATCCCCC
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
21 19 0.54
22 2 0.06
ACGTcount: A:0.18, C:0.40, G:0.25, T:0.18
Consensus pattern (21 bp):
CATCGTGCACATAGCCGGCGC
Found at i:25508163 original size:40 final size:40
Alignment explanation
Indices: 25508119--25508257 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 40
25508109 ACCCGGCTCA
*
25508119 TGTGCATCTCCCCACATCGTGCACATAGCCGGCGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCCGGCGCCATCG
25508159 TGTGCATCCCCCCACATCGTGCACATAGCCGGCGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCCGGCGCCATCG
* * * * *
25508199 TGTGCATCCCCCCACATTGTGTACA-A-TCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCCGGCGCCATCG
*
25508237 TGTACATCCCCCCACATCGTG
1 TGTGCATCCCCCCACATCGTG
25508258 TACACGGGCA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 28 0.31
39 1 0.01
40 62 0.68
ACGTcount: A:0.19, C:0.40, G:0.20, T:0.22
Consensus pattern (40 bp):
TGTGCATCCCCCCACATCGTGCACATAGCCGGCGCCATCG
Found at i:25508178 original size:19 final size:19
Alignment explanation
Indices: 25508154--25508261 Score: 76
Period size: 19 Copynumber: 5.6 Consensus size: 19
25508144 TAGCCGGCGC
*
25508154 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* * *
25508173 CATCGTGCACATAGCCGGCGC-
1 CATCGTGTACAT--CC-CCCCA
*
25508194 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
25508213 CATTGTGTACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
25508232 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
25508251 CATCGTGTACA
1 CATCGTGTACA
25508262 CGGGCACTAT
Statistics
Matches: 64, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
18 6 0.09
19 40 0.62
20 4 0.06
21 12 0.19
22 2 0.03
ACGTcount: A:0.20, C:0.39, G:0.19, T:0.22
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:25531278 original size:15 final size:16
Alignment explanation
Indices: 25531246--25531278 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25531236 AAGGGTGAAC
25531246 TGCTTTTATGGCATGA
1 TGCTTTTATGGCATGA
*
25531262 TGCTTTTTTGG-ATGA
1 TGCTTTTATGGCATGA
25531277 TG
1 TG
25531279 AGCCATTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.27, T:0.48
Consensus pattern (16 bp):
TGCTTTTATGGCATGA
Found at i:25541027 original size:40 final size:42
Alignment explanation
Indices: 25540963--25541055 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 42
25540953 AGTTAAAGCA
**
25540963 TTAATAATTTAGTAATAATTTATT-ATA-GAAAAAATAATTT
1 TTAATAATTTAGTAATAAAATATTAATATGAAAAAATAATTT
***
25541003 TTAATAATTTA-TAATTAAAATATTAATATTTTAAAATAATTT
1 TTAATAATTTAGTAA-TAAAATATTAATATGAAAAAATAATTT
*
25541045 TTTATAATTTA
1 TTAATAATTTA
25541056 CTGAGACCNT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 3 0.07
40 18 0.41
41 3 0.07
42 20 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (42 bp):
TTAATAATTTAGTAATAAAATATTAATATGAAAAAATAATTT
Found at i:25545059 original size:23 final size:24
Alignment explanation
Indices: 25545033--25545078 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
25545023 TCTCTATCTC
25545033 CCCTTTAAA-ACCTCTGAAAAAGG
1 CCCTTTAAATACCTCTGAAAAAGG
*
25545056 CCCTTTAAATACTTCTGAAAAAG
1 CCCTTTAAATACCTCTGAAAAAG
25545079 CCTTAGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (24 bp):
CCCTTTAAATACCTCTGAAAAAGG
Found at i:25561205 original size:63 final size:63
Alignment explanation
Indices: 25561028--25561218 Score: 199
Period size: 63 Copynumber: 3.0 Consensus size: 63
25561018 AGCATTAATA
* * * *
25561028 TCTCAAGAATGCAAAAAT-GATT-TTCAAAACATAGAATTCTTCAAAGACAAGAAGAATTGACT
1 TCTCAAGAAAGCAAAGATCGATTCTT-AAAAAATAGAATGCTTCAAAGACAAGAAGAATTGACT
* * * *
25561090 TCTCAGGAAAGCAAAGATCGATTCTTAAAAAACAGAATGC-TCTAGAGGCAAGAAGAATTGACT
1 TCTCAAGAAAGCAAAGATCGATTCTTAAAAAATAGAATGCTTC-AAAGACAAGAAGAATTGACT
* * ** * * * *
25561153 TTTCAAGAATGCACTGATCGATTCTTACAAGATAGAATGCTTCAAACACAAGAAGAATTGATT
1 TCTCAAGAAAGCAAAGATCGATTCTTAAAAAATAGAATGCTTCAAAGACAAGAAGAATTGACT
25561216 TCT
1 TCT
25561219 TGAGAAGAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
62 17 0.16
63 83 0.80
64 4 0.04
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (63 bp):
TCTCAAGAAAGCAAAGATCGATTCTTAAAAAATAGAATGCTTCAAAGACAAGAAGAATTGACT
Found at i:25567844 original size:2 final size:2
Alignment explanation
Indices: 25567837--25567872 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25567827 GTAAAATTAC
25567837 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
25567873 TATTTTACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25581063 original size:11 final size:11
Alignment explanation
Indices: 25581046--25581089 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
25581036 TATGGCCGGC
25581046 CAAAGGAA-AA
1 CAAAGGAAGAA
25581056 CAAAAGGAAGAA
1 C-AAAGGAAGAA
25581068 CAAAGGAAG-A
1 CAAAGGAAGAA
25581078 -AAA-GAAGAA
1 CAAAGGAAGAA
25581087 CAA
1 CAA
25581090 GAACCCTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 4 0.13
11 15 0.50
12 3 0.10
ACGTcount: A:0.68, C:0.09, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:25588525 original size:11 final size:11
Alignment explanation
Indices: 25588508--25588540 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
25588498 TATGGCCGGC
25588508 CAAAGGAA-AA
1 CAAAGGAAGAA
25588518 CAAAAGGAAGAA
1 C-AAAGGAAGAA
25588530 CAAAGGAAGAA
1 CAAAGGAAGAA
25588541 AATAAGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 17 0.81
12 3 0.14
ACGTcount: A:0.67, C:0.09, G:0.24, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:25595749 original size:16 final size:16
Alignment explanation
Indices: 25595728--25595777 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
25595718 TTGAAATTTT
25595728 ATTTATGTTTGATGTA
1 ATTTATGTTTGATGTA
*
25595744 ATTTA--TTTGCT-T-
1 ATTTATGTTTGATGTA
*
25595756 ATTTATGTTTGGTGTA
1 ATTTATGTTTGATGTA
25595772 ATTTAT
1 ATTTAT
25595778 TTGTTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 5 0.18
13 1 0.04
14 10 0.36
15 1 0.04
16 11 0.39
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (16 bp):
ATTTATGTTTGATGTA
Found at i:25595758 original size:28 final size:28
Alignment explanation
Indices: 25595726--25595780 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
25595716 AATTGAAATT
25595726 TTATTTATGTTTGATGTAATTTATTTGC
1 TTATTTATGTTTGATGTAATTTATTTGC
*
25595754 TTATTTATGTTTGGTGTAATTTATTTG
1 TTATTTATGTTTGATGTAATTTATTTG
25595781 TTTGTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.62
Consensus pattern (28 bp):
TTATTTATGTTTGATGTAATTTATTTGC
Found at i:25602860 original size:2 final size:2
Alignment explanation
Indices: 25602848--25602877 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
25602838 CGTGGAAGAC
25602848 AG AG AG A- AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25602878 CCTCGAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25604315 original size:2 final size:2
Alignment explanation
Indices: 25604308--25604348 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
25604298 TTCTAACTAA
25604308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25604349 AACTTGGGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25604563 original size:2 final size:2
Alignment explanation
Indices: 25604556--25604596 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
25604546 ATATNTAATA
25604556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25604597 AACTTGGGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25604605 original size:248 final size:247
Alignment explanation
Indices: 25604307--25604798 Score: 975
Period size: 248 Copynumber: 2.0 Consensus size: 247
25604297 ATTCTAACTA
25604307 AATATATATATATATATATATATATATATATATATATATATAAACTTGGGGCGGAGCTGCATTCT
1 AATATATATATATATATATATATATATATATATATATATATAAACTTGGGGCGGAGCTGCATTCT
25604372 GTAGATTTCCCCTCTCATTTTTAGAAAATAAGCGTCATAGAGAGCAATTTTATTAACTTCCTCTG
66 GTAGATTTCCCCTCTCATTTTTAGAAAATAAGCGTCATAGAGAGCAATTTTATTAACTTCCTCTG
25604437 TCAGAATGCCATCAGCAAGTCTCTGCAGAAGAGTTTTTTGGCCATAAAATATCTGACATGGGCGA
131 TCAGAATGCCATCAGCAAGTCTCTGCAGAAGAGTTTTTTGGCCATAAAATATCTGACATGGGCGA
25604502 GATAAAGCCTGCACAACTACAAAAGCTAGTCACTGCTCAGAAGGATATNTAAT
196 GATAAAGCCTGCACAACTACAAAAGCTAGTCACTGCTCAGAAGGATAT-TAAT
25604555 AATATATATATATATATATATATATATATATATATATATATAAACTTGGGGCGGAGCTGCATTCT
1 AATATATATATATATATATATATATATATATATATATATATAAACTTGGGGCGGAGCTGCATTCT
25604620 GTAGATTTCCCCTCTCATTTTTAGAAAATAAGCGTCATAGAGAGCAATTTTATTAACTTCCTCTG
66 GTAGATTTCCCCTCTCATTTTTAGAAAATAAGCGTCATAGAGAGCAATTTTATTAACTTCCTCTG
25604685 TCAGAATGCCATCAGCAAGTCTCTGCAGAAGAGTTTTTTGGCCATAAAATATCTGACATGGGCGA
131 TCAGAATGCCATCAGCAAGTCTCTGCAGAAGAGTTTTTTGGCCATAAAATATCTGACATGGGCGA
25604750 GATAAAGCCTGCACAACTACAAAAGCTAGTCACTGCTCAGAAGGATATT
196 GATAAAGCCTGCACAACTACAAAAGCTAGTCACTGCTCAGAAGGATATT
25604799 GACCACATAC
Statistics
Matches: 244, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
247 1 0.00
248 243 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (247 bp):
AATATATATATATATATATATATATATATATATATATATATAAACTTGGGGCGGAGCTGCATTCT
GTAGATTTCCCCTCTCATTTTTAGAAAATAAGCGTCATAGAGAGCAATTTTATTAACTTCCTCTG
TCAGAATGCCATCAGCAAGTCTCTGCAGAAGAGTTTTTTGGCCATAAAATATCTGACATGGGCGA
GATAAAGCCTGCACAACTACAAAAGCTAGTCACTGCTCAGAAGGATATTAAT
Found at i:25615893 original size:28 final size:27
Alignment explanation
Indices: 25615836--25615895 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
25615826 TCAAGTTCAC
* * *
25615836 ATGTTGAAAAAATTATTGTTACATGCT
1 ATGTTGAAAAAAATATTATTACACGCT
* *
25615863 ATGTTGAAAAAAAATATTATTATACGTT
1 ATGTTG-AAAAAAATATTATTACACGCT
25615891 ATGTT
1 ATGTT
25615896 CTTTTTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (27 bp):
ATGTTGAAAAAAATATTATTACACGCT
Found at i:25616382 original size:28 final size:28
Alignment explanation
Indices: 25616338--25616392 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
25616328 GATGTTACAT
25616338 ACTTCAGTAGAAGATGTTACACATCAAA
1 ACTTCAGTAGAAGATGTTACACATCAAA
*
25616366 ACTTCAGTAGCAA-ATGTTATACATCAA
1 ACTTCAGTAG-AAGATGTTACACATCAA
25616393 GATCGAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (28 bp):
ACTTCAGTAGAAGATGTTACACATCAAA
Found at i:25618302 original size:94 final size:97
Alignment explanation
Indices: 25618190--25618383 Score: 277
Period size: 100 Copynumber: 2.0 Consensus size: 97
25618180 GAAAACCCTA
25618190 TTCTTTTGCTTGTTG-TT-TTTTTGTTTTCTTTTGCAATACTGTGTT-ATTTTTGCTTGGAATTG
1 TTCTTTTGCTTGTTGTTTGTTTTTGTTTTCTTTTGCAATACTGTGTTGATTTTTGCTTGGAATTG
* *
25618252 AAAGTGGGAATGAGACACCATAAGGCTTAAGG
66 AAAGTGGGAATGACACACCACAAGGCTTAAGG
* *
25618284 TTCTTTTGCTTGTTGTTTTTTGTTTTTTTTTTCTTTTGCAATACTTTGTTGATTTTTGCTTGGAA
1 TTCTTTTGCTTGTTG---TTTGTTTTTGTTTTCTTTTGCAATACTGTGTTGATTTTTGCTTGGAA
* * *
25618349 TTGGAAGTGGGAATGACACCCCACGAGGCTTAAGG
63 TTGAAAGTGGGAATGACACACCACAAGGCTTAAGG
25618384 GGTTGAACTT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
94 15 0.17
98 2 0.02
99 26 0.30
100 44 0.51
ACGTcount: A:0.18, C:0.12, G:0.22, T:0.48
Consensus pattern (97 bp):
TTCTTTTGCTTGTTGTTTGTTTTTGTTTTCTTTTGCAATACTGTGTTGATTTTTGCTTGGAATTG
AAAGTGGGAATGACACACCACAAGGCTTAAGG
Found at i:25618416 original size:100 final size:98
Alignment explanation
Indices: 25618213--25618416 Score: 223
Period size: 100 Copynumber: 2.1 Consensus size: 98
25618203 TGTTTTTTTG
* *
25618213 TTTTCTTTTGCAATACTGTGTTATTTTTGCTTGGAATTGAAAGTGGGAATGAGACACCATAAGGC
1 TTTTCTTTTGCAATACTGTGTTATTTTTGCTTGGAATTGAAAGTGGGAATGACACACCACAAGGC
* *** * **
25618278 TTAAGGTTCTTTTGCTTGTTGTTTTTTGTTTTTT
66 TTAAGGTGCTTGAACTTG-TGTTTTTTGCTTTCC
* * * *
25618312 TTTTCTTTTGCAATACTTTGTTGATTTTTGCTTGGAATTGGAAGTGGGAATGACACCCCACGAGG
1 TTTTCTTTTGCAATACTGTGTT-ATTTTTGCTTGGAATTGAAAGTGGGAATGACACACCACAAGG
*
25618377 CTTAAGG-GGTTGAACTTG-GTTTTATTGCACTTTCC
65 CTTAAGGTGCTTGAACTTGTGTTTT-TTG--CTTTCC
25618412 TTTTC
1 TTTTC
25618417 GCTCATCTCA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
97 5 0.06
98 3 0.03
99 27 0.31
100 52 0.60
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.46
Consensus pattern (98 bp):
TTTTCTTTTGCAATACTGTGTTATTTTTGCTTGGAATTGAAAGTGGGAATGACACACCACAAGGC
TTAAGGTGCTTGAACTTGTGTTTTTTGCTTTCC
Found at i:25626173 original size:954 final size:954
Alignment explanation
Indices: 25624325--25626238 Score: 3648
Period size: 954 Copynumber: 2.0 Consensus size: 954
25624315 TATACCGTCA
25624325 AAGAATATTTCGATGGATTATTCCGTCATCGATAGAGTGGACATTACCGATGAGGTTATTTCTGA
1 AAGAATATTTCGATGGATTATTCCGTCATCGATAGAGTGGACATTACCGATGAGGTTATTTCTGA
25624390 ATTGCTCTGTAGGATAGTAGGGCGAATGAGGGATTGATTACTTTACTGCAAGCTTAGTAAGTCAG
66 ATTGCTCTGTAGGATAGTAGGGCGAATGAGGGATTGATTACTTTACTGCAAGCTTAGTAAGTCAG
*
25624455 TTTCATACTGAAAGTCTAAAGGTTTTATTCCTTAGGGATATGGGATCGGCCCTACGGCCCGTGCG
131 TTTCATACTGAAAGTCTAAAGGTTTTATTCCTTAGGGATATGGGATCGGCCCTACAGCCCGTGCG
25624520 TGGCTCTAATGCTCCTATTCTGCCTTGGTCTGAGGGTCTTTATTCATTGGACTCTATCTTGCCCT
196 TGGCTCTAATGCTCCTATTCTGCCTTGGTCTGAGGGTCTTTATTCATTGGACTCTATCTTGCCCT
*
25624585 TTTTTTGTCTTTATCAATATATGTATTGAGGTGTTGCCTCTGTGCCAGATCTTGATTCTGTTGTT
261 TTTTTTGTCTTTATCAATATATGTATTGAGGTGTTGCCTCTGTGCCAGATCTTGATTCCGTTGTT
*
25624650 ACTTTGTTGGAAAGAATAGGTTAAAATGAGAGTTTATCTTTTCATAATCTGTTACACCACCAGAG
326 ACTTTGTTGGAAAGAATAGGTTAAAATGAGAGTTTATCTTTTCATAATCTGTTACACCAACAGAG
*
25624715 TTGCCGAAGAGACTGCCTCTGCGACGGGCAGTTGATCATAAAATAGAGTTAGAGTCGGGGGCCAA
391 TTGCCGAAGAGACTGCCTCTGCGACGGGCAGTTGATCATAAAATAGAGTTAGAGTCAGGGGCCAA
*
25624780 ACCGCCAAAGTGTGGAGGTCCACCCAGAAGTAGAGGTCAAATTGAGGCTTGTCTAGTCTAGGTCA
456 ACCGCCAAAGTGTGGAGGTCCACCCAGAAATAGAGGTCAAATTGAGGCTTGTCTAGTCTAGGTCA
25624845 GTGCTTTCTTTTGCTAGAGAATATGTTGTTGTCGGCGTAAGCGGTGGTTGTGTGTTTGCGACTCT
521 GTGCTTTCTTTTGCTAGAGAATATGTTGTTGTCGGCGTAAGCGGTGGTTGTGTGTTTGCGACTCT
* *
25624910 AAAAGAGTTGTTGATGCGCTAGTAAGGAGTTAGGGGACTCAAACTACAGATGATTCGTGAATGAA
586 AAAAGAGTTGCTGATGCGCCAGTAAGGAGTTAGGGGACTCAAACTACAGATGATTCGTGAATGAA
25624975 GGAAGGCGTACGATCTGGGCTGTTTCCCTCTCGACTTTGGATCTTAGCACCCCAAAAGTCTATTT
651 GGAAGGCGTACGATCTGGGCTGTTTCCCTCTCGACTTTGGATCTTAGCACCCCAAAAGTCTATTT
25625040 AGTTATTATCCGCCCTTGCTTGCGAGCCTAGGAGCAGCTTCACTGAAAGTCTACTAATCACTGCT
716 AGTTATTATCCGCCCTTGCTTGCGAGCCTAGGAGCAGCTTCACTGAAAGTCTACTAATCACTGCT
25625105 AAAAAGCTAGTGACCCGTAATCCGATGATACCACCAGACTGGCCCCCTGAGTTGAGTCTGTAGAA
781 AAAAAGCTAGTGACCCGTAATCCGATGATACCACCAGACTGGCCCCCTGAGTTGAGTCTGTAGAA
25625170 GCTAGTGAGGAGTGGATTTGGAATAGGGAAAAAAGTCACAAGACCAAGCCTTCGTTTAACTGTCT
846 GCTAGTGAGGAGTGGATTTGGAATAGGGAAAAAAGTCACAAGACCAAGCCTTCGTTTAACTGTCT
* ** *
25625235 ATTTTCTTTCGACCGGCTTCTATTGCTTGAAACGGCATCGACTT
911 ATTTTCTTTCCACCGGCTTCTACCGCTTGAAACGCCATCGACTT
*
25625279 AAGAATATTTCGATGGATTATTCCGTCATCGATAGAGTGGACATTACTGATGAGGTTATTTCTGA
1 AAGAATATTTCGATGGATTATTCCGTCATCGATAGAGTGGACATTACCGATGAGGTTATTTCTGA
*
25625344 ATTGCTCTGTAGGATAGTAGGGCGAATGAGGGATTGATTACTTTACTGCAAGTTTAGTAAGTCAG
66 ATTGCTCTGTAGGATAGTAGGGCGAATGAGGGATTGATTACTTTACTGCAAGCTTAGTAAGTCAG
25625409 TTTCATACTGAAAGTCTAAAGGTTTTATTCCTTAGGGATATGGGATCGGCCCTACAGCCCGTGCG
131 TTTCATACTGAAAGTCTAAAGGTTTTATTCCTTAGGGATATGGGATCGGCCCTACAGCCCGTGCG
* *
25625474 TGGCTCTAATGCTCTTATTCTGCCTTGGTCTGAGGGTCTTTATTCATTGGACTCTGTCTTGCCCT
196 TGGCTCTAATGCTCCTATTCTGCCTTGGTCTGAGGGTCTTTATTCATTGGACTCTATCTTGCCCT
25625539 TTTTTTGTCTTTATCAATATATGTATTGAGGTGTTGCCTCTGTGCCAGATCTTGATTCCGTTGTT
261 TTTTTTGTCTTTATCAATATATGTATTGAGGTGTTGCCTCTGTGCCAGATCTTGATTCCGTTGTT
25625604 ACTTTGTTGGAAAGAATAGGTTAAAATGAGAGTTTATCTTTTCATAATCTGTTACACCAACAGAG
326 ACTTTGTTGGAAAGAATAGGTTAAAATGAGAGTTTATCTTTTCATAATCTGTTACACCAACAGAG
*
25625669 TTGCCGAAGAGACTGCCTTTGCGACGGGCAGTTGATCATAAAATAGAGTTAGAGTCAGGGGCCAA
391 TTGCCGAAGAGACTGCCTCTGCGACGGGCAGTTGATCATAAAATAGAGTTAGAGTCAGGGGCCAA
*
25625734 ACCGCCAAAGTGTGGAGGTCCACCGAGAAATAGAGGTCAAATTGAGGCTTGTCTAGTCTAGGTCA
456 ACCGCCAAAGTGTGGAGGTCCACCCAGAAATAGAGGTCAAATTGAGGCTTGTCTAGTCTAGGTCA
25625799 GTGCTTTCTTTTGCTAGAGAATATGTTGTTGTCGGCGTAAGCGGTGGTTGTGTGTTTGCGACTCT
521 GTGCTTTCTTTTGCTAGAGAATATGTTGTTGTCGGCGTAAGCGGTGGTTGTGTGTTTGCGACTCT
25625864 AAAAGAGTTGCTGATGCGCCAGTAAGGAGTTAGGGGACTCAAACTACAGATGATTCGTGAATGAA
586 AAAAGAGTTGCTGATGCGCCAGTAAGGAGTTAGGGGACTCAAACTACAGATGATTCGTGAATGAA
25625929 GGAAGGCGTACGATCTGGGCTGTTTCCCTCTCGACTTTGGATCTTAGCACCCCAAAAGTCTATTT
651 GGAAGGCGTACGATCTGGGCTGTTTCCCTCTCGACTTTGGATCTTAGCACCCCAAAAGTCTATTT
*
25625994 AGTTATTATCCGCCCTTGCTTGCGAGCCTAGGAGCAGCTTCACTGAAAGTCTACTAATCGCTGCT
716 AGTTATTATCCGCCCTTGCTTGCGAGCCTAGGAGCAGCTTCACTGAAAGTCTACTAATCACTGCT
25626059 AAAAAGCTAGTGACCCGTAATCCGATGATACCACCAGACTGGCCCCCTGAGTTGAGTCTGTAGAA
781 AAAAAGCTAGTGACCCGTAATCCGATGATACCACCAGACTGGCCCCCTGAGTTGAGTCTGTAGAA
25626124 GCTAGTGAGGAGTGGATTTGGAATAGGGAAAAAAGTCACAAGACCAAGCCTTCGTTTAACTGTCT
846 GCTAGTGAGGAGTGGATTTGGAATAGGGAAAAAAGTCACAAGACCAAGCCTTCGTTTAACTGTCT
* *
25626189 GTTTTCTTTCCACCGGCTTCTACCGCTTGAAACGCCCTCGACTT
911 ATTTTCTTTCCACCGGCTTCTACCGCTTGAAACGCCATCGACTT
25626233 AAGAAT
1 AAGAAT
25626239 CAAGAAGATT
Statistics
Matches: 940, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
954 940 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (954 bp):
AAGAATATTTCGATGGATTATTCCGTCATCGATAGAGTGGACATTACCGATGAGGTTATTTCTGA
ATTGCTCTGTAGGATAGTAGGGCGAATGAGGGATTGATTACTTTACTGCAAGCTTAGTAAGTCAG
TTTCATACTGAAAGTCTAAAGGTTTTATTCCTTAGGGATATGGGATCGGCCCTACAGCCCGTGCG
TGGCTCTAATGCTCCTATTCTGCCTTGGTCTGAGGGTCTTTATTCATTGGACTCTATCTTGCCCT
TTTTTTGTCTTTATCAATATATGTATTGAGGTGTTGCCTCTGTGCCAGATCTTGATTCCGTTGTT
ACTTTGTTGGAAAGAATAGGTTAAAATGAGAGTTTATCTTTTCATAATCTGTTACACCAACAGAG
TTGCCGAAGAGACTGCCTCTGCGACGGGCAGTTGATCATAAAATAGAGTTAGAGTCAGGGGCCAA
ACCGCCAAAGTGTGGAGGTCCACCCAGAAATAGAGGTCAAATTGAGGCTTGTCTAGTCTAGGTCA
GTGCTTTCTTTTGCTAGAGAATATGTTGTTGTCGGCGTAAGCGGTGGTTGTGTGTTTGCGACTCT
AAAAGAGTTGCTGATGCGCCAGTAAGGAGTTAGGGGACTCAAACTACAGATGATTCGTGAATGAA
GGAAGGCGTACGATCTGGGCTGTTTCCCTCTCGACTTTGGATCTTAGCACCCCAAAAGTCTATTT
AGTTATTATCCGCCCTTGCTTGCGAGCCTAGGAGCAGCTTCACTGAAAGTCTACTAATCACTGCT
AAAAAGCTAGTGACCCGTAATCCGATGATACCACCAGACTGGCCCCCTGAGTTGAGTCTGTAGAA
GCTAGTGAGGAGTGGATTTGGAATAGGGAAAAAAGTCACAAGACCAAGCCTTCGTTTAACTGTCT
ATTTTCTTTCCACCGGCTTCTACCGCTTGAAACGCCATCGACTT
Found at i:25628399 original size:6 final size:6
Alignment explanation
Indices: 25628388--25628425 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
25628378 ATTTAGAGTT
25628388 GCACAC GCACAC GCACAC GCACAC GCACAC GCACAC GC
1 GCACAC GCACAC GCACAC GCACAC GCACAC GCACAC GC
25628426 CATTTGTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.50, G:0.18, T:0.00
Consensus pattern (6 bp):
GCACAC
Found at i:25631244 original size:29 final size:29
Alignment explanation
Indices: 25631199--25631272 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
25631189 AAAAGAGGTA
*
25631199 TACGTGAAAAGGCACAAGAAAAGAAGCTG
1 TACGTGAATAGGCACAAGAAAAGAAGCTG
* * *
25631228 TACGTGAATAGGTACAAGAGAAGAAGGTG
1 TACGTGAATAGGCACAAGAAAAGAAGCTG
* *
25631257 CATGTGAATAGGCACA
1 TACGTGAATAGGCACA
25631273 CAAGAACATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.43, C:0.12, G:0.30, T:0.15
Consensus pattern (29 bp):
TACGTGAATAGGCACAAGAAAAGAAGCTG
Found at i:25633309 original size:2 final size:2
Alignment explanation
Indices: 25633225--25633296 Score: 110
Period size: 2 Copynumber: 36.0 Consensus size: 2
25633215 ATTTATATAT
* *
25633225 AG AG AG AG AG AG AG AG AG AG AG AG AG AG CG AG AG CTG -G AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG AG AG AG
25633267 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
25633297 GTTTTGAGAG
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
1 1 0.02
2 63 0.97
3 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.50, T:0.01
Consensus pattern (2 bp):
AG
Found at i:25643859 original size:30 final size:29
Alignment explanation
Indices: 25643804--25643861 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
25643794 TCCTCCTTGA
*
25643804 TTTTTATATTTTCTTTCTTTGTTCTCTTT
1 TTTTTATATTTTATTTCTTTGTTCTCTTT
25643833 TTTTTATATTATTATTTCTATT-TTCTCTT
1 TTTTTATATT-TTATTTCT-TTGTTCTCTT
25643862 AACATCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.38
30 14 0.54
31 2 0.08
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (29 bp):
TTTTTATATTTTATTTCTTTGTTCTCTTT
Found at i:25652527 original size:10 final size:10
Alignment explanation
Indices: 25652486--25652549 Score: 58
Period size: 10 Copynumber: 6.4 Consensus size: 10
25652476 TGAATTAGGC
*
25652486 TTTTTTTTGT
1 TTTTTTTTAT
25652496 TTTTTTTTA-
1 TTTTTTTTAT
* * **
25652505 CTCTTTTCCT
1 TTTTTTTTAT
25652515 TTTTTTTTAT
1 TTTTTTTTAT
*
25652525 TTTATTTTAT
1 TTTTTTTTAT
25652535 TTTTTTTGTAT
1 TTTTTTT-TAT
25652546 TTTT
1 TTTT
25652550 CAATAATTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
9 5 0.12
10 29 0.71
11 7 0.17
ACGTcount: A:0.08, C:0.06, G:0.03, T:0.83
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:25652952 original size:15 final size:16
Alignment explanation
Indices: 25652931--25652967 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
25652921 GAACTATAGC
*
25652931 GAAAAAAA-GAAAATA
1 GAAAAAAATAAAAATA
25652946 -AAAAAAATAAAAATA
1 GAAAAAAATAAAAATA
25652961 GAAAAAA
1 GAAAAAA
25652968 TGAACCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 6 0.32
16 6 0.32
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (16 bp):
GAAAAAAATAAAAATA
Found at i:25652968 original size:15 final size:16
Alignment explanation
Indices: 25652931--25652968 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
25652921 GAACTATAGC
25652931 GAAAAAA-AGAAAATA
1 GAAAAAATAGAAAATA
*
25652946 AAAAAAATA-AAAATA
1 GAAAAAATAGAAAATA
25652961 GAAAAAAT
1 GAAAAAAT
25652969 GAACCAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.11
Consensus pattern (16 bp):
GAAAAAATAGAAAATA
Found at i:25653186 original size:21 final size:20
Alignment explanation
Indices: 25653160--25653216 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
25653150 TTAGCACCAA
25653160 TTTTTTTCTTTCTTTTATCAT
1 TTTTTTTCTTT-TTTTATCAT
*
25653181 TTTTTTCTCTTTTTTTATTAT
1 TTTTTT-TCTTTTTTTATCAT
*
25653202 TTTATTTTATTTTTT
1 TTT-TTTTCTTTTTT
25653217 CTTTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTATCAT
Found at i:25656405 original size:22 final size:22
Alignment explanation
Indices: 25656380--25656423 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25656370 CCTTTTCTTC
25656380 CTTATACACCGTCTCAAAGTAA
1 CTTATACACCGTCTCAAAGTAA
25656402 CTTATACACCGTCTCAAAGTAA
1 CTTATACACCGTCTCAAAGTAA
25656424 TCTGCCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (22 bp):
CTTATACACCGTCTCAAAGTAA
Found at i:25661104 original size:13 final size:13
Alignment explanation
Indices: 25661086--25661111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25661076 TTTCAGAAAA
25661086 TTTATAAAATCAT
1 TTTATAAAATCAT
25661099 TTTATAAAATCAT
1 TTTATAAAATCAT
25661112 AATTTTTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:25664533 original size:2 final size:2
Alignment explanation
Indices: 25664526--25664559 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25664516 AAACTTTTAC
25664526 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
25664560 TCTGTCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25665559 original size:32 final size:29
Alignment explanation
Indices: 25665491--25665584 Score: 83
Period size: 32 Copynumber: 3.3 Consensus size: 29
25665481 TGATTATGTC
25665491 GTGTAACAACAATATTTTTCAACATGGCA
1 GTGTAACAACAATATTTTTCAACATGGCA
*
25665520 -TGCAACAACAATATTTTTTTTTCAACATGG-A
1 GTGTAACAACAATA----TTTTTCAACATGGCA
*
25665551 GTGTAACAAC-CT-TTTTT-AACCATGGC-
1 GTGTAACAACAATATTTTTCAA-CATGGCA
25665577 GTGTAACA
1 GTGTAACA
25665585 TATTTTTTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
25 2 0.04
26 18 0.33
28 12 0.22
31 2 0.04
32 21 0.38
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (29 bp):
GTGTAACAACAATATTTTTCAACATGGCA
Found at i:25665565 original size:24 final size:24
Alignment explanation
Indices: 25665538--25665617 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
25665528 CAATATTTTT
*
25665538 TTTTCAACATGGAGTGTAACAACC
1 TTTTCAACATGGCGTGTAACAACC
* *
25665562 TTTTTTAACCATGGCGTGTAACATA-T
1 -TTTTCAA-CATGGCGTGTAACA-ACC
**
25665588 TTTTTTACATGGCGTGTAACAACC
1 TTTTCAACATGGCGTGTAACAACC
*
25665612 TATTCA
1 TTTTCA
25665618 TGGCTTGTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
23 1 0.02
24 17 0.39
25 12 0.27
26 13 0.30
27 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (24 bp):
TTTTCAACATGGCGTGTAACAACC
Found at i:25665574 original size:26 final size:25
Alignment explanation
Indices: 25665536--25665612 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 25
25665526 AACAATATTT
*
25665536 TTTTTTCAACATGGAGTGTAACAACC
1 TTTTTT-AACATGGCGTGTAACAACC
25665562 TTTTTTAACCATGGCGTGTAACATA--
1 TTTTTTAA-CATGGCGTGTAACA-ACC
*
25665587 TTTTTTTACATGGCGTGTAACAACC
1 TTTTTTAACATGGCGTGTAACAACC
25665612 T
1 T
25665613 ATTCATGGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.02
24 14 0.31
25 10 0.22
26 19 0.42
27 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (25 bp):
TTTTTTAACATGGCGTGTAACAACC
Found at i:25665636 original size:45 final size:45
Alignment explanation
Indices: 25665587--25665680 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
25665577 GTGTAACATA
* * * *
25665587 TTTTTTTACATGGCGTGTAACAACCTATTCATGGCTTGTCACGGG
1 TTTTTATACATGGCGTGTAACAACCTAATCATAGCTTGTCACAGG
*
25665632 TTTTTATACATGGCGTGTAACAAGCTAATCATAGCTTGTCACAGG
1 TTTTTATACATGGCGTGTAACAACCTAATCATAGCTTGTCACAGG
25665677 TTTT
1 TTTT
25665681 GTACTTGGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (45 bp):
TTTTTATACATGGCGTGTAACAACCTAATCATAGCTTGTCACAGG
Found at i:25665763 original size:24 final size:24
Alignment explanation
Indices: 25665729--25665779 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
25665719 ACACGCTAAC
* *
25665729 CATGGCTTGTCACAGGTTTTTGTA
1 CATGGCGTGTCACAGATTTTTGTA
*
25665753 CATGGCGTGTCACATATTTTTGTA
1 CATGGCGTGTCACAGATTTTTGTA
25665777 CAT
1 CAT
25665780 AACGTGTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (24 bp):
CATGGCGTGTCACAGATTTTTGTA
Found at i:25665785 original size:24 final size:24
Alignment explanation
Indices: 25665736--25665786 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
25665726 AACCATGGCT
* **
25665736 TGTCACAGGTTTTTGTACATGGCG
1 TGTCACAGATTTTTGTACATAACG
*
25665760 TGTCACATATTTTTGTACATAACG
1 TGTCACAGATTTTTGTACATAACG
25665784 TGT
1 TGT
25665787 AGCACGCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (24 bp):
TGTCACAGATTTTTGTACATAACG
Found at i:25665786 original size:69 final size:69
Alignment explanation
Indices: 25665632--25666170 Score: 322
Period size: 69 Copynumber: 7.9 Consensus size: 69
25665622 TTGTCACGGG
* * * * * * *
25665632 TTTTTATACATGGCGTGTAACAAGCTAATCATAGCTTGTCACAGG-TTTTGTACTTGGCTTGTCA
1 TTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCA
25665696 CATA
66 CATA
25665700 TTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCA
1 TTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCA
25665765 CATA
66 CATA
* * * * *
25665769 TTTTTGTACATAACGTGTAGCACGCTAACCATGGCTTGTTACAGGTTTTTGTACTTGACGTGT-A
1 TTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCA
25665833 -ATA
66 CATA
*** * * * * * * * ** *
25665836 -AGCT-AACCATAGCTTGTCATAGGTTTTTATA-CATGGCTTGTCATATATTTTTGTACATGGCA
1 TTTTTGTA-CATAGCGTGTAACACG---CTA-ACCATGGCTTGTCACAGGTTTTTGTACATGGCG
*
25665898 TGTAACA-A
61 TGTCACATA
** * * * *** * * * *
25665906 --GCT-AACCAT-GACTTGTCACATATTTTTGTA-CATGGCGTGT-A-A----TATGCTAACCTT
1 TTTTTGTA-CATAG-CGTGT-A-ACA-CGCT-AACCATGGCTTGTCACAGGTTTTTG-T-A-CAT
* **
25665960 GGCTTGTCACAGG
57 GGCGTGTCACATA
* * * * *
25665973 TTTTTGTACATAGCGTGTAATATGCTAACCTTGGCTTGTCACAGGTTTTTATACATGACGTGTCA
1 TTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCA
25666038 CATA
66 CATA
* * * *
25666042 TATATTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAAGTTTTTGTACATGGCATGTT
1 T-TTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTC
25666107 ACATA
65 ACATA
* * * * *
25666112 TTTTTGTACATAGCGTATAACACGTTAACTATGGCTTATCACAGGTTTTTGTATATGGC
1 TTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGC
25666171 ATGTAATATC
Statistics
Matches: 370, Mismatches: 72, Indels: 57
0.74 0.14 0.11
Matches are distributed among these distances:
63 3 0.01
64 1 0.00
65 3 0.01
66 32 0.09
67 8 0.02
68 45 0.12
69 205 0.55
70 66 0.18
71 5 0.01
72 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (69 bp):
TTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCA
CATA
Found at i:25665841 original size:45 final size:45
Alignment explanation
Indices: 25665760--25665869 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
25665750 GTACATGGCG
** * * *
25665760 TGTCACATATTTTTGTACATAACGTGTAGCACGCTAACCATGGCT
1 TGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGCT
* * * *
25665805 TGTTACAGGTTTTTGTACTTGACGTGTAATAAGCTAACCATAGCT
1 TGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGCT
* *
25665850 TGTCATAGGTTTTTATACAT
1 TGTCACAGGTTTTTGTACAT
25665870 GGCTTGTCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (45 bp):
TGTCACAGGTTTTTGTACATAACGTGTAACAAGCTAACCATAGCT
Found at i:25665844 original size:114 final size:114
Alignment explanation
Indices: 25665686--25666178 Score: 406
Period size: 114 Copynumber: 4.3 Consensus size: 114
25665676 GTTTTGTACT
* *
25665686 TGGCTTGTCACATATTTTTGTACAT-AGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTT
1 TGGCTTGTCACATATTTTTGTACATGA-CGTGTAATAAGCTAACCATGGCTTGTCACAGGTTTTT
* * *
25665750 GTACATGGCGTGTCACATATTTTTGTACATAACGTGTAGCACGCTAACCA
65 GTACATGGCGTGTCACATATTTTTGTACATAACATGTAACAAGCTAACCA
* ** * * * *
25665800 TGGCTTGTTACAGGTTTTTGTACTTGACGTGTAATAAGCTAACCATAGCTTGTCATAGGTTTTTA
1 TGGCTTGTCACATATTTTTGTACATGACGTGTAATAAGCTAACCATGGCTTGTCACAGGTTTTTG
* * **
25665865 TACATGGCTTGTCATATATTTTTGTACATGGCATGTAACAAGCTAACCA
66 TACATGGCGTGTCACATATTTTTGTACATAACATGTAACAAGCTAACCA
* * * *
25665914 TGACTTGTCACATATTTTTGTACATGGCGTGTAATATGCTAACCTTGGCTTGTCACAGGTTTTTG
1 TGGCTTGTCACATATTTTTGTACATGACGTGTAATAAGCTAACCATGGCTTGTCACAGGTTTTTG
* ** * * ** * * * *
25665979 TACATAGCGTGT-A-ATA-TGCT-AACCTTGGCTTGTCACAGGTTTTTATA-CA
66 TACATGGCGTGTCACATATTTTTGTA-CATAACATGTAACAAG---CTA-ACCA
* * * * * *
25666028 TGACGTGTCACATATATATTGTACAT-AGCGTGTAACACGCTAACCATGGCTTGTCACAAGTTTT
1 TGGCTTGTCACATAT-TTTTGTACATGA-CGTGTAATAAGCTAACCATGGCTTGTCACAGGTTTT
* * * * * * * *
25666092 TGTACATGGCATGTTACATATTTTTGTACATAGCGTATAACACGTTAACTA
64 TGTACATGGCGTGTCACATATTTTTGTACATAACATGTAACAAGCTAACCA
* ** * * *
25666143 TGGCTTATCACAGGTTTTTGTATATGGCATGTAATA
1 TGGCTTGTCACATATTTTTGTACATGACGTGTAATA
25666179 TCATAGCGTG
Statistics
Matches: 299, Mismatches: 66, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
110 1 0.00
111 14 0.05
112 3 0.01
113 1 0.00
114 194 0.65
115 69 0.23
116 1 0.00
117 3 0.01
118 12 0.04
119 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (114 bp):
TGGCTTGTCACATATTTTTGTACATGACGTGTAATAAGCTAACCATGGCTTGTCACAGGTTTTTG
TACATGGCGTGTCACATATTTTTGTACATAACATGTAACAAGCTAACCA
Found at i:25665874 original size:24 final size:24
Alignment explanation
Indices: 25665847--25665896 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
25665837 GCTAACCATA
*
25665847 GCTTGTCATAGGTTTTTATACATG
1 GCTTGTCATAGATTTTTATACATG
* *
25665871 GCTTGTCATATATTTTTGTACATG
1 GCTTGTCATAGATTTTTATACATG
25665895 GC
1 GC
25665897 ATGTAACAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (24 bp):
GCTTGTCATAGATTTTTATACATG
Found at i:25665936 original size:45 final size:45
Alignment explanation
Indices: 25665867--25666035 Score: 212
Period size: 45 Copynumber: 3.8 Consensus size: 45
25665857 GGTTTTTATA
* * * * *
25665867 CATGGCTTGTCATATATTTTTGTACATGGCATGTAACAAGCTAAC
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAATATGCTAAC
* *
25665912 CATGACTTGTCACATATTTTTGTACATGGCGTGTAATATGCTAAC
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAATATGCTAAC
* * *
25665957 CTTGGCTTGTCACAGGTTTTTGTACATAGCGTGTAATATGCTAAC
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAATATGCTAAC
* * * *
25666002 CTTGGCTTGTCACAGGTTTTTATACATGACGTGT
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGT
25666036 CACATATATA
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (45 bp):
CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAATATGCTAAC
Found at i:25665977 original size:159 final size:160
Alignment explanation
Indices: 25665760--25666101 Score: 465
Period size: 159 Copynumber: 2.1 Consensus size: 160
25665750 GTACATGGCG
** * *
25665760 TGTCACATATTTTTGTACATAACGTGTAGCACGCTAACCATGGCTTGTTACAGGTTTTTGTAC-T
1 TGTCACATATTTTTGTACATGGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACAT
* * * * * *
25665824 TGACGTGTAATAAGCTAACCATAGCTTGTCATAGGTTTTTATACATGGCTTGTCATATAT-TTTT
66 AG-CGTGTAATAAGCTAACCATAGCTTGTCACAGGTTTTTATACATGACGTGTCACATATATATT
*
25665888 GTACATGGCATGTAACAAGCTAACCATGACT
130 GTACATAGCATGTAACAAGCTAACCATGACT
* * *
25665919 TGTCACATATTTTTGTACATGGCGTGTAATATGCTAACCTTGGCTTGTCACAGGTTTTTGTACAT
1 TGTCACATATTTTTGTACATGGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACAT
* * *
25665984 AGCGTGTAATATGCTAACCTTGGCTTGTCACAGGTTTTTATACATGACGTGTCACATATATATTG
66 AGCGTGTAATAAGCTAACCATAGCTTGTCACAGGTTTTTATACATGACGTGTCACATATATATTG
* * *
25666049 TACATAGCGTGTAACACGCTAACCATGGCT
131 TACATAGCATGTAACAAGCTAACCATGACT
25666079 TGTCACA-AGTTTTTGTACATGGC
1 TGTCACATA-TTTTTGTACATGGC
25666102 ATGTTACATA
Statistics
Matches: 160, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
159 107 0.67
160 53 0.33
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (160 bp):
TGTCACATATTTTTGTACATGGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTGTACAT
AGCGTGTAATAAGCTAACCATAGCTTGTCACAGGTTTTTATACATGACGTGTCACATATATATTG
TACATAGCATGTAACAAGCTAACCATGACT
Found at i:25666091 original size:70 final size:69
Alignment explanation
Indices: 25665976--25666161 Score: 246
Period size: 70 Copynumber: 2.7 Consensus size: 69
25665966 TCACAGGTTT
* * * *
25665976 TTGTACATAGCGTGTAATATGCTAACCTTGGCTTGTCACAGGTTTTTATACATGACGTGTCACAT
1 TTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTATACATGACATGTCACAT
25666041 ATATA
66 AT-TA
* * * *
25666046 TTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAAGTTTTTGTACATGGCATGTTACAT
1 TTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTATACATGACATGTCACAT
*
25666111 ATTT
66 ATTA
* * * *
25666115 TTGTACATAGCGTATAACACGTTAACTATGGCTTATCACAGGTTTTT
1 TTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTT
25666162 GTATATGGCA
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
69 43 0.42
70 59 0.58
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (69 bp):
TTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTATACATGACATGTCACAT
ATTA
Found at i:25671168 original size:2 final size:2
Alignment explanation
Indices: 25671155--25671189 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
25671145 TGTAATGTAA
* *
25671155 AT AT AT AA AT AT AT AT AT AA AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25671190 AGCTAAGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:25671172 original size:12 final size:12
Alignment explanation
Indices: 25671155--25671185 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
25671145 TGTAATGTAA
25671155 ATATATAAATAT
1 ATATATAAATAT
25671167 ATATATAAATAT
1 ATATATAAATAT
25671179 ATATATA
1 ATATATA
25671186 TATAAGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATAAATAT
Found at i:25671714 original size:18 final size:18
Alignment explanation
Indices: 25671691--25671748 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
25671681 CATCCTTATC
25671691 TTTCTTAGAAAATTTTCT
1 TTTCTTAGAAAATTTTCT
* *
25671709 TTTCTT----ATTTTTATT
1 TTTCTTAGAAAATTTT-CT
25671724 TTTCTTAGAAAATTTTCT
1 TTTCTTAGAAAATTTTCT
25671742 TTTCTTA
1 TTTCTTA
25671749 TTTTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
18 14 0.45
19 5 0.16
ACGTcount: A:0.22, C:0.10, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTCTTAGAAAATTTTCT
Found at i:25671728 original size:15 final size:15
Alignment explanation
Indices: 25671708--25671763 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
25671698 GAAAATTTTC
25671708 TTTTCTTATTTTTAT
1 TTTTCTTATTTTTAT
* *
25671723 TTTTCTTAGAAAATTTT-C
1 TTTTCTT----ATTTTTAT
25671741 TTTTCTTATTTTTAT
1 TTTTCTTATTTTTAT
25671756 TTTTCTTA
1 TTTTCTTA
25671764 GAAGAGACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
15 15 0.47
18 7 0.22
19 5 0.16
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTCTTATTTTTAT
Found at i:25671729 original size:33 final size:33
Alignment explanation
Indices: 25671686--25671766 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
25671676 CTTTTCATCC
*
25671686 TTATCTTTCTTAGAAAATTTTCTTTTCTTATTT
1 TTATTTTTCTTAGAAAATTTTCTTTTCTTATTT
25671719 TTATTTTTCTTAGAAAATTTTCTTTTCTTATTT
1 TTATTTTTCTTAGAAAATTTTCTTTTCTTATTT
25671752 TTATTTTTCTTAGAA
1 TTATTTTTCTTAGAA
25671767 GAGACAAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.22, C:0.10, G:0.04, T:0.64
Consensus pattern (33 bp):
TTATTTTTCTTAGAAAATTTTCTTTTCTTATTT
Found at i:25677399 original size:2 final size:2
Alignment explanation
Indices: 25677392--25677450 Score: 91
Period size: 2 Copynumber: 29.0 Consensus size: 2
25677382 TGCTCTTTAC
*
25677392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NAT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
*
25677435 AT AT AT CT AT AT AT AT
1 AT AT AT AT AT AT AT AT
25677451 TAGATAATTG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 50 0.96
3 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:25689061 original size:352 final size:343
Alignment explanation
Indices: 25688333--25689380 Score: 1348
Period size: 352 Copynumber: 3.0 Consensus size: 343
25688323 TATCTCAAAC
25688333 ATAATTAATAA-TTTATAAGTTATAATTTTTGTAATGTTAACACAAAATAGAAAGTAAATATGTT
1 ATAATTAATAATTTTATAAGTTATAATTTTTGTAATGTTAACACAAAATAGAAAGTAAATATGTT
* *
25688397 TATATTAAAATGT-ATATATAC--TAAAAGTATTTTAATATATTATATAATAGTAATTATATTTT
66 TATATTTAAA-GTAATATATACATTAAAAGTATTTT-ATATA-TATATAATAGTAATTATATTTC
* * * *
25688459 TTATAAATGAACCCAATGTATATACAGTATATATATTAAAAGACATTACAAGTCAATTAATAATC
128 TTATAAATGAA-CCAATATATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAATAATA
* * *
25688524 ATTGTTTCATTAATTAATTTAATTAACTATATGAGTTT-ATCCTTAATTACATGAAATT-AAAAA
192 ATAGTTTCATGAATTAATTTAATTAACTATATGAGTTTGAT-CTTAATTTCATGAAATTAAAAAA
* * * *
25688587 AAATAATTAGGTTTCAAAGCTATTCTAATCTCACAACTTCCCTTTACA-TTTATATGTTATAAGT
256 AAATAATTAGGTTTCAAAACTATTCTAATCTCAAAACTTCTCTTTA-AGTTTATATATTATAAGT
*
25688651 TTATATATACAAAGGTATATATATT
320 TTATATAAACAAA-GTATATATATT
*
25688676 GTAATTAATAATTTTATAAGTTATAATTTTTGTAATGTTAACACAAAATAGAAAGTAAATATGTT
1 ATAATTAATAATTTTATAAGTTATAATTTTTGTAATGTTAACACAAAATAGAAAGTAAATATGTT
* * *
25688741 TATATTTAAAGTACATACACACACACACACATTAAGAGTATTTTA-ATATATATAATAGTAATTA
66 TATATTTAAAGTA-AT--------ATATACATTAAAAGTATTTTATATATATATAATAGTAATTA
* * *
25688805 TATTCCTTATAAATGAATCTAATATATATAAAGTATATATATTAAAAGACACTACAAGTTAATTA
122 TATTTCTTATAAATGAA-CCAATATATATAAAGTATATATATTAAAAGACATTACAAGTTAATTA
* * * *
25688870 ATAATTATAGTTTCATGAATTAATTTAATTAACTATACGAGTTTGCTCTTAATTTCATAAAATTA
186 ATAATAATAGTTTCATGAATTAATTTAATTAACTATATGAGTTTGATCTTAATTTCATGAAATTA
* * * ***
25688935 AAAAAAAATAACTAGGTTTTAAAACTATTCTAATTTTTGAACTTCTCTTTAAGTTTATATATTAT
251 AAAAAAAATAATTAGGTTTCAAAACTATTCTAATCTCAAAACTTCTCTTTAAGTTTATATATTAT
*
25689000 AAGTTTATATAAACAAAGTTATATACATT
316 AAGTTTATATAAACAAAG-TATATATATT
* *
25689029 ATAATTAATAATTTTATAAGTTATAA-TTTTGTAATGTTAACACAAAATAAAAAGTAAATAAGTT
1 ATAATTAATAATTTTATAAGTTATAATTTTTGTAATGTTAACACAAAATAGAAAGTAAATATGTT
* * * *
25689093 CATATTTAAAG-AATATATATATTAAAAATATTTTAGTATATATATAATAGTAATTATTTTTCTT
66 TATATTTAAAGTAATATATACATTAAAAGTATTTTA-TATATATATAATAGTAATTATATTTCTT
* * * * *
25689157 ATAAATTAACCCA-ATATATAAACTATATATATTAAAAAACATTGCAAGTTAATTAATAATAATA
130 ATAAATGAACCAATATATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAATAATAATA
* * *
25689221 GTTTCTTGAATTAATTTGATTAACTATATG-GATTTGTTCTTAATTTCATGAAATTAAAAAAAAA
195 GTTTCATGAATTAATTTAATTAACTATATGAG-TTTGATCTTAATTTCATGAAATT-AAAAAAAA
* * *
25689285 ATAGTTAGGTTCCAAAACTATTCTAATCTCAAAAGCTT-TCTTTAAGTATATATATTATAAGTTT
258 ATAATTAGGTTTCAAAACTATTCTAATCTCAAAA-CTTCTCTTTAAGTTTATATATTATAAGTTT
25689349 ATATAAACAATAGTATATATATT
322 ATATAAACAA-AGTATATATATT
*
25689372 ATAAGTAAT
1 ATAATTAAT
25689381 GTTAACACAA
Statistics
Matches: 616, Mismatches: 66, Indels: 46
0.85 0.09 0.06
Matches are distributed among these distances:
341 1 0.00
342 110 0.18
343 100 0.16
344 100 0.16
345 2 0.00
350 2 0.00
351 1 0.00
352 176 0.29
353 112 0.18
354 1 0.00
355 11 0.02
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (343 bp):
ATAATTAATAATTTTATAAGTTATAATTTTTGTAATGTTAACACAAAATAGAAAGTAAATATGTT
TATATTTAAAGTAATATATACATTAAAAGTATTTTATATATATATAATAGTAATTATATTTCTTA
TAAATGAACCAATATATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAATAATAATAG
TTTCATGAATTAATTTAATTAACTATATGAGTTTGATCTTAATTTCATGAAATTAAAAAAAAATA
ATTAGGTTTCAAAACTATTCTAATCTCAAAACTTCTCTTTAAGTTTATATATTATAAGTTTATAT
AAACAAAGTATATATATT
Found at i:25696670 original size:8 final size:8
Alignment explanation
Indices: 25696645--25696703 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
25696635 CAAAAAAATA
25696645 AATAATTTT
1 AATAA-TTT
25696654 AATTAATTT
1 AA-TAATTT
25696663 AATAATTT
1 AATAATTT
25696671 AATATATTT
1 AATA-ATTT
* *
25696680 AATTATAT
1 AATAATTT
*
25696688 AA-GA-TT
1 AATAATTT
25696694 AATAATTT
1 AATAATTT
25696702 AA
1 AA
25696704 GTACCAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 19 0.46
9 14 0.34
10 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (8 bp):
AATAATTT
Found at i:25696673 original size:17 final size:18
Alignment explanation
Indices: 25696645--25696682 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
25696635 CAAAAAAATA
25696645 AATAATTTTAAT-TAATTT
1 AATAATTTTAATAT-ATTT
25696663 AATAA-TTTAATATATTT
1 AATAATTTTAATATATTT
25696680 AAT
1 AAT
25696683 TATATAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATAATTTTAATATATTT
Found at i:25696689 original size:22 final size:22
Alignment explanation
Indices: 25696656--25696703 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
25696646 ATAATTTTAA
*
25696656 TTAATTTAATAA-TTTAATATAT
1 TTAATTTAATAAGATTAATA-AT
25696678 TTAA-TTATATAAGATTAATAAT
1 TTAATTTA-ATAAGATTAATAAT
25696700 TTAA
1 TTAA
25696704 GTACCAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 14 0.61
23 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTTAATAAGATTAATAAT
Found at i:25696803 original size:25 final size:25
Alignment explanation
Indices: 25696775--25696827 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
25696765 ATAATTTTAA
*
25696775 TTTATAAATTAAATCAT-AAAATAAT
1 TTTAT-AATAAAATCATAAAAATAAT
* *
25696800 TTTATTATAAAATTATAAAAATAAT
1 TTTATAATAAAATCATAAAAATAAT
25696825 TTT
1 TTT
25696828 TTTGAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTATAATAAAATCATAAAAATAAT
Found at i:25702384 original size:2 final size:2
Alignment explanation
Indices: 25702377--25702409 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25702367 AAATACTCTT
25702377 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25702410 TCTATACAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25721500 original size:16 final size:16
Alignment explanation
Indices: 25721481--25721516 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
25721471 GTGTGTGTGT
25721481 GAGAGAGAAAGAGAGA
1 GAGAGAGAAAGAGAGA
*
25721497 GAGAGCGAAAGAGAGA
1 GAGAGAGAAAGAGAGA
25721513 GAGA
1 GAGA
25721517 TTACACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.44, T:0.00
Consensus pattern (16 bp):
GAGAGAGAAAGAGAGA
Found at i:25722760 original size:48 final size:48
Alignment explanation
Indices: 25722706--25722810 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
25722696 CATTAGGTGC
* * *
25722706 CTGAATATTTGTTGAGTATTGCGTGACTTGTTTATAGGTATTGCGTGA
1 CTGAATATTTGTTGAGCATTGCGTGACTTGTTTATAAGCATTGCGTGA
* *
25722754 CTGAATATTTGTTGAGCGTTGCGTGACTTGTTTATAAGCATTGTGTGA
1 CTGAATATTTGTTGAGCATTGCGTGACTTGTTTATAAGCATTGCGTGA
*
25722802 CAGAATATT
1 CTGAATATT
25722811 ACATGACTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.42
Consensus pattern (48 bp):
CTGAATATTTGTTGAGCATTGCGTGACTTGTTTATAAGCATTGCGTGA
Found at i:25722860 original size:22 final size:23
Alignment explanation
Indices: 25722822--25722865 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
25722812 CATGACTGAA
25722822 TATTTGTTAAGCATTGCATGACC
1 TATTTGTTAAGCATTGCATGACC
*
25722845 TATTTG-TAGGCATTGCATGAC
1 TATTTGTTAAGCATTGCATGAC
25722866 TTTATCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (23 bp):
TATTTGTTAAGCATTGCATGACC
Found at i:25724403 original size:22 final size:22
Alignment explanation
Indices: 25724378--25724427 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
25724368 TTTTTAAGGC
*
25724378 ATTGCGTGACTGGTTTTTATAT
1 ATTGCGTGACTGGTTGTTATAT
* *
25724400 ATTGCGTGACTTGTTGTTATGT
1 ATTGCGTGACTGGTTGTTATAT
25724422 ATTGCG
1 ATTGCG
25724428 AGAGTAGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.48
Consensus pattern (22 bp):
ATTGCGTGACTGGTTGTTATAT
Found at i:25724470 original size:120 final size:120
Alignment explanation
Indices: 25724203--25724468 Score: 354
Period size: 119 Copynumber: 2.2 Consensus size: 120
25724193 GGCGCGTGAC
* ** * * *
25724203 TGACTTATGCAATTCATTTGTTGTTTTGAGGCTTTTGTTTAATAGTTTTTTAGGCATTGCGTGAC
1 TGACTTGTGCAATTCACATATTGTTTTGAGACTTTTGTTTAATAGTTTTTAAGGCATTGCGTGAC
* * *
25724268 TGGTTTTTTATATATTGCGTTACCTGTTATTATGTATTGCGATAGTGGTGGCACA
66 TGGTTTTTTATATATTGCGTGACCTGTTATTATGTATTGCGAGAGTAGTGGCACA
** * *
25724323 TGACTTGTGCAATTCATGTGTTGTTTTGAGACTTTTGTTTAGTAGTTTTTAAGGCATTGCGTGAC
1 TGACTTGTGCAATTCACATATTGTTTTGAGACTTTTGTTTAATAGTTTTTAAGGCATTGCGTGAC
* * * *
25724388 TGG-TTTTTATATATTGCGTGACTTGTTGTTATGTATTGCGAGAGTAGTGGCGCG
66 TGGTTTTTTATATATTGCGTGACCTGTTATTATGTATTGCGAGAGTAGTGGCACA
* *
25724442 TGACTTGTGTAATTCGCATATTGTTTT
1 TGACTTGTGCAATTCACATATTGTTTT
25724469 TGGGTGTTTG
Statistics
Matches: 129, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
119 66 0.51
120 63 0.49
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (120 bp):
TGACTTGTGCAATTCACATATTGTTTTGAGACTTTTGTTTAATAGTTTTTAAGGCATTGCGTGAC
TGGTTTTTTATATATTGCGTGACCTGTTATTATGTATTGCGAGAGTAGTGGCACA
Found at i:25730535 original size:61 final size:61
Alignment explanation
Indices: 25730384--25730540 Score: 149
Period size: 61 Copynumber: 2.6 Consensus size: 61
25730374 ATACTGTTTC
* ** * *
25730384 TTTCATCTTCCAAGTATTCC-AATTTATATCGATAGCTTATAAATATATCGATAGCTTCCG
1 TTTCATCCTCCAACCATTCCAAATTTCTATCGATAGCTTATAAACATATCGATAGCTTCCG
* * * ** *
25730444 TTTCATCCTCCAAGCAATCAAAATAGCTATCGATA-CATTATAAACATATCGATAGCTGT-TG
1 TTTCATCCTCCAACCATTCCAAATTTCTATCGATAGC-TTATAAACATATCGATAGCT-TCCG
* * *
25730505 TTTGATCTTCGAACCATTCCAAATTTCTATCGATAG
1 TTTCATCCTCCAACCATTCCAAATTTCTATCGATAG
25730541 ATACCATTTC
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
60 17 0.22
61 58 0.76
62 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (61 bp):
TTTCATCCTCCAACCATTCCAAATTTCTATCGATAGCTTATAAACATATCGATAGCTTCCG
Found at i:25732401 original size:25 final size:23
Alignment explanation
Indices: 25732357--25732417 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 23
25732347 TAAGTGAGTG
25732357 ACGCGATCCCATATCATCTAGTC
1 ACGCGATCCCATATCATCTAGTC
25732380 ACGCGATCCCAAATATCATCTAGTC
1 ACGCGATCCC--ATATCATCTAGTC
* *
25732405 ACCCGATTCCATA
1 ACGCGATCCCATA
25732418 AGAATTGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 13 0.38
25 21 0.62
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.25
Consensus pattern (23 bp):
ACGCGATCCCATATCATCTAGTC
Found at i:25732470 original size:23 final size:22
Alignment explanation
Indices: 25732433--25732505 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
25732423 TGGTAACGCC
*
25732433 ACTCCATATATACTACTCATGCG
1 ACTCCATATA-ACTAGTCATGCG
* *
25732456 ACTCCATATCAACTAGTGATGCA
1 ACTCCATAT-AACTAGTCATGCG
* *
25732479 ATTCCATAATAACTAGTCACGCG
1 ACTCCAT-ATAACTAGTCATGCG
25732502 ACTC
1 ACTC
25732506 GATTTTTCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 37 0.93
24 3 0.08
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (22 bp):
ACTCCATATAACTAGTCATGCG
Found at i:25732589 original size:46 final size:46
Alignment explanation
Indices: 25732537--25732683 Score: 120
Period size: 46 Copynumber: 3.2 Consensus size: 46
25732527 TTAGAATAAA
25732537 TACTCACGCCATTCCATAATAACTAGTAATGCCACTCCATATATAT
1 TACTCACGCCATTCCATAATAACTAGTAATGCCACTCCATATATAT
* * * * * * * * *
25732583 TACTCACGCGAGTCAAT-ATCAACTAGTCATGCGC-TTCCACAAAAAC
1 TACTCACGCCATTCCATAAT-AACTAGTAATGC-CACTCCATATATAT
* ** * *
25732629 TAGTCACGCTTTTCCATAATAACTAGTAACGCCACTCCATATGT-T
1 TACTCACGCCATTCCATAATAACTAGTAATGCCACTCCATATATAT
25732674 CTACTCACGC
1 -TACTCACGC
25732684 GAGTCAGTAT
Statistics
Matches: 73, Mismatches: 23, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
45 3 0.04
46 67 0.92
47 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.28
Consensus pattern (46 bp):
TACTCACGCCATTCCATAATAACTAGTAATGCCACTCCATATATAT
Found at i:25732643 original size:23 final size:23
Alignment explanation
Indices: 25732603--25732660 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
25732593 AGTCAATATC
*
25732603 AACTAGTCATGCGCTTCCACAAA
1 AACTAGTCACGCGCTTCCACAAA
** * *
25732626 AACTAGTCACGCTTTTCCATAAT
1 AACTAGTCACGCGCTTCCACAAA
*
25732649 AACTAGTAACGC
1 AACTAGTCACGC
25732661 CACTCCATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (23 bp):
AACTAGTCACGCGCTTCCACAAA
Found at i:25733056 original size:23 final size:23
Alignment explanation
Indices: 25733024--25733084 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 23
25733014 TTATCACATG
*
25733024 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
25733048 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
25733074 AATGATACAAA
1 AATGATACAAA
25733085 ATAATGTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 7 0.21
24 4 0.12
26 22 0.67
ACGTcount: A:0.59, C:0.07, G:0.13, T:0.21
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:25733062 original size:26 final size:26
Alignment explanation
Indices: 25733031--25733083 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
25733021 ATGAATGAAT
*
25733031 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
25733057 ACAAAGAATAATATGGAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
25733083 A
1 A
25733084 AATAATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:25734917 original size:24 final size:24
Alignment explanation
Indices: 25734886--25734935 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
25734876 TGCTCAGCAT
25734886 GAGGGGCAGCACCT-GAAGCAAGAG
1 GAGGGGCAGCA-CTAGAAGCAAGAG
*
25734910 GAGGGGCAGCAGTAGAAGCAAGAG
1 GAGGGGCAGCACTAGAAGCAAGAG
25734934 GA
1 GA
25734936 AAGACAGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.36, C:0.16, G:0.44, T:0.04
Consensus pattern (24 bp):
GAGGGGCAGCACTAGAAGCAAGAG
Found at i:25734997 original size:24 final size:24
Alignment explanation
Indices: 25734969--25735022 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
25734959 GCAGCAGTAA
*
25734969 CAGGAGTAG-TAGCATGATGAGCAG
1 CAGGAGTAGCAAG-ATGATGAGCAG
25734993 CAGGAGTAGCAAGATGATGAGCAG
1 CAGGAGTAGCAAGATGATGAGCAG
*
25735017 TAGGAG
1 CAGGAG
25735023 AGGCACCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.35, C:0.11, G:0.39, T:0.15
Consensus pattern (24 bp):
CAGGAGTAGCAAGATGATGAGCAG
Found at i:25743297 original size:55 final size:55
Alignment explanation
Indices: 25743150--25743335 Score: 203
Period size: 55 Copynumber: 3.4 Consensus size: 55
25743140 GTTAGTGTTA
* *
25743150 TTTTAGCATGTCACAGTTGTTCCTGGCGTGTTGTGGGTTAACT-AGTTTTTTGGGT
1 TTTTAGCGTGTCACAGCTGTTCCTGGCGTGTTGTGGGTTAACTGA-TTTTTTGGGT
* * * * ** * * *
25743205 TCTTAGCGTGTTACAGCTGTTTCTGGAGTGTAATGGGTTAACTGAATTTATGAGT
1 TTTTAGCGTGTCACAGCTGTTCCTGGCGTGTTGTGGGTTAACTGATTTTTTGGGT
* * * *
25743260 TTTTGGCGTGTCACGGTTGTTCCTGGCGTGTTGTGGGTTAACTGGTTTTTTGGGT
1 TTTTAGCGTGTCACAGCTGTTCCTGGCGTGTTGTGGGTTAACTGATTTTTTGGGT
* *
25743315 GTTTAGCGTGTCACGGCTGTT
1 TTTTAGCGTGTCACAGCTGTT
25743336 GGTGTAACAA
Statistics
Matches: 103, Mismatches: 27, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
55 102 0.99
56 1 0.01
ACGTcount: A:0.13, C:0.13, G:0.31, T:0.43
Consensus pattern (55 bp):
TTTTAGCGTGTCACAGCTGTTCCTGGCGTGTTGTGGGTTAACTGATTTTTTGGGT
Found at i:25743418 original size:31 final size:31
Alignment explanation
Indices: 25743383--25743464 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
25743373 CATGACAGTG
**
25743383 ATGCATGGCATGTCATGACATTTGAC-TTGAT
1 ATGCATGGCATGTCACAACATTTGACGTT-AT
* * *
25743414 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCATGTCACAACATTTGACGTTAT
* *
25743445 ATGCATGGCGTGTAACAACA
1 ATGCATGGCATGTCACAACA
25743465 CGACTGACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (31 bp):
ATGCATGGCATGTCACAACATTTGACGTTAT
Found at i:25747654 original size:31 final size:31
Alignment explanation
Indices: 25747610--25747832 Score: 241
Period size: 31 Copynumber: 7.2 Consensus size: 31
25747600 AATAAGGAAT
* *
25747610 AAATG-TGAGACACGCCATGCAAAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
25747640 AAATGTTGTGACACGCCATGCATAAGAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
** *
25747671 AAACATTGTGACACGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* ** *
25747702 AAACGTTGTGACGTGCCATGCATAACAATTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
25747733 CATTGTTCTAACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
25747764 AATTGTTCTGACATGCCATGCATAACAATTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
25747795 AATTGTTCTGACCCGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
25747826 AAATGTT
1 AAATGTT
25747833 ATCACATGCT
Statistics
Matches: 164, Mismatches: 28, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
30 5 0.03
31 159 0.97
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:25748427 original size:19 final size:20
Alignment explanation
Indices: 25748386--25748432 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
25748376 TCTTGGTATC
25748386 AAATTAATTGTGTATAGGCAAAA
1 AAATTAATTGTGTAT--G-AAAA
25748409 AAATTAATTGTGTAT-AAAA
1 AAATTAATTGTGTATGAAAA
*
25748428 TAATT
1 AAATT
25748433 GTATGAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
23 15 0.65
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
AAATTAATTGTGTATGAAAA
Found at i:25748474 original size:51 final size:51
Alignment explanation
Indices: 25748381--25748511 Score: 138
Period size: 52 Copynumber: 2.5 Consensus size: 51
25748371 AAAATTCTTG
* * * *
25748381 GTATCAAATTAATTGTGTATAGGCAAAAAAATTAATTGTGTATAAAAT-AATT
1 GTATAAAATAAATTATGTATA--CAAAAAAATTAATTCTGTATAAAATGAATT
* * * * * *
25748433 GTATGAAGTATATTGTGTATATAAAAAGAATTAATTCTGTATACAATGAATT
1 GTATAAAATAAATTATGTATACAAAAA-AATTAATTCTGTATAAAATGAATT
25748485 GTATAAAATAAATTATGTATACAAAAA
1 GTATAAAATAAATTATGTATACAAAAA
25748512 TTTATGTATA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 5 0.08
51 17 0.26
52 43 0.66
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (51 bp):
GTATAAAATAAATTATGTATACAAAAAAATTAATTCTGTATAAAATGAATT
Found at i:25748489 original size:14 final size:16
Alignment explanation
Indices: 25748465--25748536 Score: 62
Period size: 16 Copynumber: 4.7 Consensus size: 16
25748455 AAAAAGAATT
* *
25748465 AATTCTGTATACAATG
1 AATTATGTATACAATA
*
25748481 AA-T-TGTATAAAATA
1 AATTATGTATACAATA
25748495 AATTATGTATACAA-A
1 AATTATGTATACAATA
*
25748510 AATTTATGTATA-AAAA
1 AA-TTATGTATACAATA
*
25748526 AATTTTGTATA
1 AATTATGTATA
25748537 TAAAAAGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
14 11 0.23
15 15 0.31
16 22 0.46
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (16 bp):
AATTATGTATACAATA
Found at i:25748503 original size:16 final size:15
Alignment explanation
Indices: 25748484--25748542 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 15
25748474 TACAATGAAT
25748484 TGTATAAAATAAATTA
1 TGTATAAAA-AAATTA
*
25748500 TGTATACAAAAATTTA
1 TGTATA-AAAAAATTA
*
25748516 TGTATAAAAAAATTT
1 TGTATAAAAAAATTA
25748531 TGTATATAAAAA
1 TGTATA-AAAAA
25748543 GATTGTACAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 13 0.34
16 22 0.58
17 3 0.08
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (15 bp):
TGTATAAAAAAATTA
Found at i:25750119 original size:31 final size:31
Alignment explanation
Indices: 25750081--25750378 Score: 321
Period size: 31 Copynumber: 9.6 Consensus size: 31
25750071 AACCATAAAC
* *
25750081 AGTAAAATGTTGTCACACGCCATGCAAAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
25750112 AGTAAAATTTTGTGACACACCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
25750143 AGTAAAATGTTGTGACATGCCATGCACAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* *
25750174 AGTTAAACGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* ** *
25750205 AGTTAAACATTGTGACACGCCATCCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * *
25750236 AG-AAAATTGTTATGACACGCCAAGGATAACA
1 AGTAAAA-TGTTGTGACACGCCATGCATAACA
* * * * *
25750267 AGCAAAATATTCTAACACGCCATGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * *
25750298 AATCAAACGTTGTGACACGCCATGAATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
*
25750329 AGTAAAATGTTCTGACACGCCATGCA-AATCA
1 AGTAAAATGTTGTGACACGCCATGCATAA-CA
* *
25750360 AGTCAAATGTTGTCACACG
1 AGTAAAATGTTGTGACACG
25750379 ATAAGGCTGA
Statistics
Matches: 220, Mismatches: 44, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
30 5 0.02
31 211 0.96
32 4 0.02
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (31 bp):
AGTAAAATGTTGTGACACGCCATGCATAACA
Found at i:25751240 original size:156 final size:156
Alignment explanation
Indices: 25750737--25751196 Score: 640
Period size: 153 Copynumber: 3.0 Consensus size: 156
25750727 CTGGGTCAAC
* * * *
25750737 TGCAATAACATATATAACTGTGTTATTCAATAATCATATATGGAATTATTGAACATTAATCGCTA
1 TGCAATTACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTA
* ** * * * * * *
25750802 CAACTTTAATATCCTAACCAACGACTCGTTAACAGTCTACGGTGGAGCCGGACCGATCGGTGCTT
66 CAACTTTAATATCCTTACCGTCGGCTCGTTAACTGTTTGCGGTTGAGCCGGACTGATCGGTGCTT
*
25750867 GAGGACCTGTCGTCGCTTCCGCAAAT
131 GAGGACCTGTCGTCGCTTCTGCAAAT
* * *
25750893 TGCAATTACATATGTAACTTTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTA
1 TGCAATTACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTA
* *
25750958 CAAC-TT--TATCCTTACCGTTGGCTCGTTAACTGTTTGCGGTTGAGCCGGACTGATTGGTGCTT
66 CAACTTTAATATCCTTACCGTCGGCTCGTTAACTGTTTGCGGTTGAGCCGGACTGATCGGTGCTT
* *
25751020 AAGGACCTATCGTCGCTT-TCGCAAAT
131 GAGGACCTGTCGTCGCTTCT-GCAAAT
* *
25751046 TGCAATTACATATATAATTGTGTTATTCAATGATCATATATGGAATTGTTGAACATTAACCGTTA
1 TGCAATTACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTA
* * *
25751111 CAACTTTAATATCCTTACCGTCGGCCCGTTAATTGTTTGCGGTTGAGCCGAACTGATCGGTGCTT
66 CAACTTTAATATCCTTACCGTCGGCTCGTTAACTGTTTGCGGTTGAGCCGGACTGATCGGTGCTT
*
25751176 GAGGACCTGTCATCGCTTCTG
131 GAGGACCTGTCGTCGCTTCTG
25751197 TAAACTACAA
Statistics
Matches: 265, Mismatches: 34, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
153 131 0.49
154 2 0.01
155 2 0.01
156 129 0.49
157 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (156 bp):
TGCAATTACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTA
CAACTTTAATATCCTTACCGTCGGCTCGTTAACTGTTTGCGGTTGAGCCGGACTGATCGGTGCTT
GAGGACCTGTCGTCGCTTCTGCAAAT
Found at i:25751263 original size:156 final size:153
Alignment explanation
Indices: 25750750--25751266 Score: 390
Period size: 156 Copynumber: 3.3 Consensus size: 153
25750740 AATAACATAT
* * * ** ** * *
25750750 ATAACTGTGTTATTCAATAATCATATATGGAATTATTGAACATTAATCGCTACAACTTTAATATC
1 ATAACTGTGTTACTCAATAAACATATATGGAATTGTAAAACACAAACCGTTACAAC-TT--TATC
* ** * * * * * * * * * * *
25750815 CTAACCAACGACTCGTTAACAGTCTACGGTGGAGCCGGACCGATCGGTGCTTGAGGACCTGTCGT
63 CTTACCGTCGGCCCGTTAACTGTTTGCGGTTGAGCCGAACTGATCGGTGCTTAAGGACCTATCAT
* * * * *
25750880 CGCTTCCGCAAATTGCAATTACATAT
128 CGCTTTCGCAAACTACAATTACAGAA
* * * * * ** **
25750906 GTAACTTTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTTATCCTT
1 ATAACTGTGTTACTCAATAAACATATATGGAATTGTAAAACACAAACCGTTACAACTTTATCCTT
* * * * *
25750971 ACCGTTGGCTCGTTAACTGTTTGCGGTTGAGCCGGACTGATTGGTGCTTAAGGACCTATCGTCGC
66 ACCGTCGGCCCGTTAACTGTTTGCGGTTGAGCCGAACTGATCGGTGCTTAAGGACCTATCATCGC
* * * *
25751036 TTTCGCAAATTGCAATTACATAT
131 TTTCGCAAACTACAATTACAGAA
* * * * ** **
25751059 ATAATTGTGTTATTCAATGATCATATATGGAATTGTTGAACATTAACCGTTACAACTTTAATATC
1 ATAACTGTGTTACTCAATAAACATATATGGAATTGTAAAACACAAACCGTTACAAC-TT--TATC
* * *
25751124 CTTACCGTCGGCCCGTTAATTGTTTGCGGTTGAGCCGAACTGATCGGTGCTTGAGGACCTGTCAT
63 CTTACCGTCGGCCCGTTAACTGTTTGCGGTTGAGCCGAACTGATCGGTGCTTAAGGACCTATCAT
* *
25751189 CGC-TTCTGTAAACTACAATTATAGAA
128 CGCTTTC-GCAAACTACAATTACAGAA
* * *
25751215 ATTACTGTGTTACTCGATAAACATATGTGGGAA-TGTAAAACACAAACCGTTA
1 ATAACTGTGTTACTCAATAAACATATAT-GGAATTGTAAAACACAAACCGTTA
25751267 TAACCGATCT
Statistics
Matches: 306, Mismatches: 50, Indels: 10
0.84 0.14 0.03
Matches are distributed among these distances:
153 132 0.43
154 2 0.01
155 5 0.02
156 163 0.53
157 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (153 bp):
ATAACTGTGTTACTCAATAAACATATATGGAATTGTAAAACACAAACCGTTACAACTTTATCCTT
ACCGTCGGCCCGTTAACTGTTTGCGGTTGAGCCGAACTGATCGGTGCTTAAGGACCTATCATCGC
TTTCGCAAACTACAATTACAGAA
Found at i:25753160 original size:31 final size:31
Alignment explanation
Indices: 25752868--25753151 Score: 388
Period size: 31 Copynumber: 9.2 Consensus size: 31
25752858 AATAAGGAAT
* *
25752868 AAATGTTGTGACACGCCATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
25752899 AAATGTTGTGACATGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
25752930 AAATGTTATGATACGCCATGCATAAAAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
25752961 AAATGTTGTTACACACTATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
25752992 AAACGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
25753023 AAATGTTGTGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
25753054 AAATGCTGTCACACACCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
25753085 AAATGCTGTGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
25753116 AAATGTTGTCACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
25753147 AAATG
1 AAATG
25753152 CTATCACACA
Statistics
Matches: 223, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 223 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:25753692 original size:53 final size:53
Alignment explanation
Indices: 25753634--25753753 Score: 150
Period size: 53 Copynumber: 2.3 Consensus size: 53
25753624 TCTATTTCAA
* * * * *
25753634 ACCATGACTTGTTAGCTGCTCAAGCACTGCCGTGTCACACACTCTAAACTATG
1 ACCATGACATGTCAGCTGCTCAAGCAATGCCATGTCACACACTCTAAACCATG
* ** *
25753687 ACCATGGCATGTCAGCTTTTCAAGCAATGTCATGTCACACACTCTAAACCATG
1 ACCATGACATGTCAGCTGCTCAAGCAATGCCATGTCACACACTCTAAACCATG
*
25753740 ACCATGGCATGTCA
1 ACCATGACATGTCA
25753754 CCAACTCTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (53 bp):
ACCATGACATGTCAGCTGCTCAAGCAATGCCATGTCACACACTCTAAACCATG
Found at i:25753810 original size:47 final size:47
Alignment explanation
Indices: 25753741--25754182 Score: 564
Period size: 47 Copynumber: 9.4 Consensus size: 47
25753731 TAAACCATGA
* * * * *
25753741 CCATGGCATGTCACCAACTCTGAACTTTGGGGTGTCACAGCTTTCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * *
25753788 CCATGGCATGTCACCAACTCTGAACTTTGGCGTGTTACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * * *
25753835 CCATGGCATCTCACGAACTCTGAACGCTGGCGTGTCACAGATTACCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * *
25753882 CCATTGCATGTCACCAACTCTTAACTCTGGCGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * *
25753929 CCATGGCGTGTCACCAACTCTTAACTCTAGCATGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * *
25753976 CCATGGTGTCTCACCAACTCTGAACGCTTGG-GTGTCACAGATTCCTT
1 CCATGGCGTGTCACCAACTCTGAACTC-TGGCGTGTCACAGATTCCCT
* *
25754023 CCATGTCGTGTCACCAACTCTTAACTCTGGCGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* *
25754070 CCATGGCGTTTCACCAACTCTGAACGT-TGGCGTGTCACAGATTCCCA
1 CCATGGCGTGTCACCAACTCTGAAC-TCTGGCGTGTCACAGATTCCCT
* * * *
25754117 CTATGGCGTGTCACCAACTCTTAACTCTCGCGTCTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
*
25754164 CCATGGCGTCTCACCAACT
1 CCATGGCGTGTCACCAACT
25754183 TTCAGTGGTG
Statistics
Matches: 346, Mismatches: 45, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
46 4 0.01
47 339 0.98
48 3 0.01
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.28
Consensus pattern (47 bp):
CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
Found at i:25754763 original size:19 final size:20
Alignment explanation
Indices: 25754731--25754769 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
25754721 AACTCAATTA
*
25754731 TAAATATTATTTTTA-ATAT
1 TAAATATTAGTTTTATATAT
*
25754750 TAAATTTTAGTTTTATATAT
1 TAAATATTAGTTTTATATAT
25754770 ATTATTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TAAATATTAGTTTTATATAT
Found at i:25755504 original size:17 final size:17
Alignment explanation
Indices: 25755469--25755504 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
25755459 TTGTTACAAT
25755469 AAATTTTATATTATGAA
1 AAATTTTATATTATGAA
25755486 AAATTGTTATATTAT-AA
1 AAATT-TTATATTATGAA
25755503 AA
1 AA
25755505 TTAAATGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AAATTTTATATTATGAA
Found at i:25759798 original size:23 final size:22
Alignment explanation
Indices: 25759772--25759912 Score: 97
Period size: 23 Copynumber: 6.2 Consensus size: 22
25759762 TGCTATACGT
25759772 CATGTTCAACAAAAGTTACACGC
1 CATGTTCAA-AAAAGTTACACGC
* *
25759795 CATGTTTAAAAAATGTTACACGT
1 CATGTTCAAAAAA-GTTACACGC
* *
25759818 CATGTTCAAAAATGTTACAC-A
1 CATGTTCAAAAAAGTTACACGC
* * *
25759839 CAAGTTTAAAAATTA-TTACACGT
1 CATGTTCAAAAA--AGTTACACGC
* * *
25759862 CATGTTCACAATATGTCACACGC
1 CATGTTCA-AAAAAGTTACACGC
* * *
25759885 CATGTTCACAATATGTCACACGC
1 CATGTTCA-AAAAAGTTACACGC
25759908 CATGT
1 CATGT
25759913 GCTAGCACAT
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
21 10 0.10
22 17 0.18
23 67 0.69
24 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (22 bp):
CATGTTCAAAAAAGTTACACGC
Found at i:25759851 original size:21 final size:22
Alignment explanation
Indices: 25759782--25759860 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
25759772 CATGTTCAAC
* *
25759782 AAAA-GTTACACGCCATGTTTAA
1 AAAATGTTACACGACAAGTTT-A
* * *
25759804 AAAATGTTACACGTCATGTTCA
1 AAAATGTTACACGACAAGTTTA
25759826 AAAATGTTACAC-ACAAGTTTA
1 AAAATGTTACACGACAAGTTTA
*
25759847 AAAATTATTACACG
1 AAAA-TGTTACACG
25759861 TCATGTTCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
21 10 0.21
22 24 0.50
23 14 0.29
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.29
Consensus pattern (22 bp):
AAAATGTTACACGACAAGTTTA
Found at i:25759858 original size:44 final size:46
Alignment explanation
Indices: 25759768--25759869 Score: 145
Period size: 44 Copynumber: 2.3 Consensus size: 46
25759758 ATGTTGCTAT
* * *
25759768 ACGTCATGTTCAACAAAAGTTACACGCCATGTTTAAAAAATGTTAC
1 ACGTCATGTTCAACAAAAGTTACACGACAAGTTTAAAAAATATTAC
* *
25759814 ACGTCATGTTCAA-AAATGTTACAC-ACAAGTTTAAAAATTATTAC
1 ACGTCATGTTCAACAAAAGTTACACGACAAGTTTAAAAAATATTAC
25759858 ACGTCATGTTCA
1 ACGTCATGTTCA
25759870 CAATATGTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 28 0.55
45 10 0.20
46 13 0.25
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (46 bp):
ACGTCATGTTCAACAAAAGTTACACGACAAGTTTAAAAAATATTAC
Found at i:25763094 original size:29 final size:29
Alignment explanation
Indices: 25763030--25763094 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
25763020 AAGATAATTA
*
25763030 ATAAAATATTTATATATTCTCTCATTTCT
1 ATAAAATATTTATATATTCTCTCATTACT
25763059 A-ATAAATATTTAT-T-TTCTCTCACTTACAT
1 ATA-AAATATTTATATATTCTCTCA-TTAC-T
25763088 ATAAAAT
1 ATAAAAT
25763095 TTCTATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
27 8 0.26
28 5 0.16
29 17 0.55
30 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (29 bp):
ATAAAATATTTATATATTCTCTCATTACT
Found at i:25763172 original size:23 final size:26
Alignment explanation
Indices: 25763146--25763196 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
25763136 TTATCAAGAT
*
25763146 ATTTTTTAA-TCA-ATA-AATTAATA
1 ATTTATTAATTCATATATAATTAATA
25763169 ATTTATTAATTCATATATTAATTAATA
1 ATTTATTAATTCATATA-TAATTAATA
25763196 A
1 A
25763197 AAAATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 8 0.35
24 3 0.13
25 3 0.13
27 9 0.39
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTATTAATTCATATATAATTAATA
Found at i:25766806 original size:34 final size:34
Alignment explanation
Indices: 25766742--25766840 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 34
25766732 TTGAGCCCAA
* *
25766742 GAAAAAGCATTGCTAAAGGGTTTCACTTGAT-CATGT
1 GAAAAAGCATTG-T-AAGGGTTTCGCTTGATGC-CGT
*
25766778 GAAAAAGCATTGTAAGGGTTTCGTTTGATGCCGT
1 GAAAAAGCATTGTAAGGGTTTCGCTTGATGCCGT
* *
25766812 -AAAAAGCTATTGTGAGGGTTTCGCGTGAT
1 GAAAAAGC-ATTGTAAGGGTTTCGCTTGAT
25766841 CTCATAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
33 7 0.13
34 34 0.62
35 2 0.04
36 12 0.22
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (34 bp):
GAAAAAGCATTGTAAGGGTTTCGCTTGATGCCGT
Found at i:25766849 original size:34 final size:33
Alignment explanation
Indices: 25766779--25766851 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
25766769 TGATCATGTG
** *
25766779 AAAAAGCATTGTAAGGGTTTCGTTTGATGCCGT
1 AAAAAGCATTGTAAGGGTTTCGCGTGATGCCAT
*
25766812 AAAAAGCTATTGTGAGGGTTTCGCGTGAT-CTCAT
1 AAAAAGC-ATTGTAAGGGTTTCGCGTGATGC-CAT
25766846 AAAAAG
1 AAAAAG
25766852 TTTATTTCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (33 bp):
AAAAAGCATTGTAAGGGTTTCGCGTGATGCCAT
Found at i:25767503 original size:22 final size:22
Alignment explanation
Indices: 25767451--25767504 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
25767441 AAAAAAATAT
* *
25767451 AAATAAAATGTTAATATTTAAA
1 AAATAAATTATTAATATTTAAA
** *
25767473 TTATCAATTATTAATATTTAAA
1 AAATAAATTATTAATATTTAAA
25767495 AAATAAATTA
1 AAATAAATTA
25767505 AACATATATA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATAAATTATTAATATTTAAA
Found at i:25767554 original size:38 final size:38
Alignment explanation
Indices: 25767484--25767672 Score: 93
Period size: 38 Copynumber: 4.7 Consensus size: 38
25767474 TATCAATTAT
**
25767484 TAATATTTAAAAAATAAATTAAACATA-T-ATAATCATAA
1 TAATATTTAAATTATAAA-TAAA-ATATTAATAATCATAA
*
25767522 TAATATTTAAATTATAAATAAAATATTAATAATTA-AA
1 TAATATTTAAATTATAAATAAAATATTAATAATCATAA
* * * *
25767559 TTATCAATTAGTAATATTTCTAAA-AAAAT-TGTAAATTATTCATATT
1 TAAT--ATT--TAA-A-TTATAAATAAAATAT-T-AA-TAATCATA-A
* * * *
25767605 TAAAATATAAATTAAATTAAATTAAAA-ATAAATAATTATAA
1 TAATATTTAAATT--A-TAAA-TAAAATATTAATAATCATAA
25767646 TAATATTTAAATTATAAATAAAATATT
1 TAATATTTAAATTATAAATAAAATATT
25767673 TTGTGGTGGG
Statistics
Matches: 112, Mismatches: 19, Indels: 40
0.65 0.11 0.23
Matches are distributed among these distances:
36 3 0.03
37 15 0.13
38 28 0.25
39 4 0.04
40 2 0.02
41 16 0.14
42 16 0.14
43 14 0.12
44 6 0.05
45 6 0.05
46 2 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.40
Consensus pattern (38 bp):
TAATATTTAAATTATAAATAAAATATTAATAATCATAA
Found at i:25767951 original size:34 final size:37
Alignment explanation
Indices: 25767913--25767990 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 37
25767903 TTAATATTTT
* *
25767913 AAATAAAGT-ATCAATTAT-TAATTTTTAAA-AAATA
1 AAATAAAATAATCAATTATATAATATTTAAATAAATA
*
25767947 AAATAAAATAATTAATTATAATAATATTTAAATTAAATA
1 AAATAAAATAATCAATTAT-ATAATATTTAAA-TAAATA
25767986 AAATA
1 AAATA
25767991 TTAATATTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 8 0.22
35 8 0.22
37 10 0.28
39 10 0.28
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (37 bp):
AAATAAAATAATCAATTATATAATATTTAAATAAATA
Found at i:25768032 original size:42 final size:40
Alignment explanation
Indices: 25767974--25768079 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 40
25767964 ATAATAATAT
*
25767974 TTAAATTA-AATAAAATATTAATATTGTAAAATATTAATGA
1 TTAAATTATAATAAAATATTAATATT-TAAAATATCAATGA
* *
25768014 TTAAATTATACATAAAATATTAATATTTAAATTATCAATTA
1 TTAAATTATA-ATAAAATATTAATATTTAAAATATCAATGA
* *
25768055 TTAATATTTTAAATAAATTATTAAT
1 TTAA-ATTAT-AATAAAATATTAAT
25768080 TATTAATATG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 8 0.14
41 16 0.28
42 32 0.56
43 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (40 bp):
TTAAATTATAATAAAATATTAATATTTAAAATATCAATGA
Found at i:25768057 original size:22 final size:20
Alignment explanation
Indices: 25767979--25768079 Score: 80
Period size: 22 Copynumber: 4.8 Consensus size: 20
25767969 AATATTTAAA
*
25767979 TTAAATAAAATATTAATATT
1 TTAAATAAATTATTAATATT
* *
25767999 GTAAAATATTAATGATTAA-ATT
1 -TTAAATA--AATTATTAATATT
* * *
25768021 ATACATAAAATATTAATA-T
1 TTAAATAAATTATTAATATT
25768040 TTAAATTATCAATTATTAATATT
1 TTAAA-TA--AATTATTAATATT
25768063 TTAAATAAATTATTAAT
1 TTAAATAAATTATTAAT
25768080 TATTAATATG
Statistics
Matches: 62, Mismatches: 11, Indels: 15
0.70 0.12 0.17
Matches are distributed among these distances:
19 11 0.18
20 13 0.21
21 10 0.16
22 15 0.24
23 13 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TTAAATAAATTATTAATATT
Found at i:25768538 original size:52 final size:52
Alignment explanation
Indices: 25768481--25768613 Score: 169
Period size: 52 Copynumber: 2.6 Consensus size: 52
25768471 TTTGACTTTC
* * * * *
25768481 AAAATATTTTACTTTAATTTGTTGTTTATGCTTTGCTTGCATTT-AGTTTAG
1 AAAATATTTTACCTTAATTTATTATTTATGCTTTGCTTGCATTTGACTTAAG
*
25768532 AAAAATATTTTACCTTGATTTATTATTTATGCTTTGCTTGCATTTGACTTAAG
1 -AAAATATTTTACCTTAATTTATTATTTATGCTTTGCTTGCATTTGACTTAAG
* * *
25768585 AAAATATTTTGCCTTGATTTATTCTTTAT
1 AAAATATTTTACCTTAATTTATTATTTAT
25768614 TAAAAACTGC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 67 0.93
53 5 0.07
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (52 bp):
AAAATATTTTACCTTAATTTATTATTTATGCTTTGCTTGCATTTGACTTAAG
Found at i:25769600 original size:48 final size:50
Alignment explanation
Indices: 25769515--25769609 Score: 133
Period size: 48 Copynumber: 1.9 Consensus size: 50
25769505 TTTTAGTTTT
25769515 TTAAAATTTTATAGAATTTCTTTAAAAAATAAAAATTATTTCTAATTCTA
1 TTAAAATTTTATAGAATTTCTTTAAAAAATAAAAATTATTTCTAATTCTA
** *
25769565 TTAATAATTTT-T-GAATTT-TTTAAAATCTAGAAATTATTTCTAATT
1 TTAA-AATTTTATAGAATTTCTTTAAAAAATAAAAATTATTTCTAATT
25769610 GTTTGAAGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
48 24 0.59
49 6 0.15
50 5 0.12
51 6 0.15
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (50 bp):
TTAAAATTTTATAGAATTTCTTTAAAAAATAAAAATTATTTCTAATTCTA
Done.