Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 95 of 253
Found at i:29758516 original size:27 final size:27
Alignment explanation
Indices: 29758486--29758634 Score: 124
Period size: 27 Copynumber: 5.6 Consensus size: 27
29758476 AAATTGTACA
* * *
29758486 GCACTAAGTGTGCGATTCGATTATGTT
1 GCACTAAGTGTGCGAATCGACTATGTG
** *
29758513 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATCGACTATG-TG
* *
29758540 GCACTAAGTGTGCGAAT-GACCATGCG
1 GCACTAAGTGTGCGAATCGACTATGTG
* *
29758566 GCACT-AGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAATC-GACTATGTG
* * * * *
29758593 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATCGACTATGTG
29758620 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
29758635 GTTGAGTGAA
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
25 11 0.11
26 10 0.10
27 66 0.68
28 10 0.10
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATCGACTATGTG
Found at i:29762355 original size:27 final size:27
Alignment explanation
Indices: 29762325--29762479 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
29762315 TGCTATTCAC
* *
29762325 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * *
29762352 TCAAATCGCAC-CTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
29762378 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
29762406 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
29762433 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
29762460 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
29762480 TGTACAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.14
27 74 0.71
28 15 0.14
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:29762388 original size:54 final size:55
Alignment explanation
Indices: 29762330--29762480 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
29762320 TTCACTCAAC
*
29762330 TCGCACACTTAGTGCCACGTAATCAAATCGCAC-CTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
29762384 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
29762438 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
29762481 GTACAATTTA
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
54 68 0.85
55 12 0.15
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:29766260 original size:28 final size:27
Alignment explanation
Indices: 29766193--29766262 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
29766183 AGAATATGAT
* *
29766193 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
29766220 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
29766248 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
29766263 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:29766278 original size:55 final size:53
Alignment explanation
Indices: 29766138--29766289 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
29766128 TAAATTGTAC
* *
29766138 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
29766191 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
29766246 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
29766290 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:29766294 original size:27 final size:27
Alignment explanation
Indices: 29766139--29766294 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
29766129 AAATTGTACA
* *
29766139 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
29766166 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
29766193 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
29766220 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
29766248 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
29766275 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
29766295 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:29774201 original size:46 final size:47
Alignment explanation
Indices: 29774134--29774258 Score: 184
Period size: 46 Copynumber: 2.7 Consensus size: 47
29774124 TGTAACCCGC
* *
29774134 CCATAAGCGAACT-CGAACTCAACTCAACGAGCTTAGG-TGTTCGCAT
1 CCATAAGTGAACTCCG-ACTCAACTCAACGAGCTTAGGACGTTCGCAT
*
29774180 CCATAAGTGAACTCCGACTCAACTCAACGAG-TTCGGACGTTCGCAT
1 CCATAAGTGAACTCCGACTCAACTCAACGAGCTTAGGACGTTCGCAT
*
29774226 CCATAAGTGAACTCAGACTCAACTCAACGAGCT
1 CCATAAGTGAACTCCGACTCAACTCAACGAGCT
29774259 CGGATGCCCA
Statistics
Matches: 72, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
45 4 0.06
46 65 0.90
47 3 0.04
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCCGACTCAACTCAACGAGCTTAGGACGTTCGCAT
Found at i:29778649 original size:28 final size:29
Alignment explanation
Indices: 29778617--29778731 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
29778607 TACCTGTATC
* * *
29778617 TGGCCCATTAAGCCC-AATGATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
29778645 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
29778674 TGGCCCATTAGGCCCAAATCAAATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
29778703 TGGCCCATTAGGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
29778731 T
1 T
29778732 TTATGCTCGC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 27 0.36
29 48 0.63
30 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:29778678 original size:57 final size:57
Alignment explanation
Indices: 29778608--29778723 Score: 171
Period size: 57 Copynumber: 2.0 Consensus size: 57
29778598 AAATTCACAT
* * *
29778608 ACCTGTATCTGGCCCATTAAGCCC-AATGATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCAAATTCATATGGCCCATTAGGCCC-AATC
* *
29778665 ACCTGTATATGGCCCATTAGGCCCAAATCAAATTTATATGGCCCATTAGGCCCAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCAAATTCATATGGCCCATTAGGCCCAATC
29778722 AC
1 AC
29778724 ATTCATATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 28 0.53
58 25 0.47
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCAAATTCATATGGCCCATTAGGCCCAATC
Found at i:29778963 original size:8 final size:8
Alignment explanation
Indices: 29778950--29778996 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
29778940 ACTTTTGGCT
29778950 TTTCAGCA
1 TTTCAGCA
29778958 TTTCAGCA
1 TTTCAGCA
*
29778966 TTTCGGCA
1 TTTCAGCA
*
29778974 TTTTAGCA
1 TTTCAGCA
*
29778982 TTTCGGCA
1 TTTCAGCA
29778990 TTTCAGC
1 TTTCAGC
29778997 TTTTACCGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (8 bp):
TTTCAGCA
Found at i:29778974 original size:16 final size:16
Alignment explanation
Indices: 29778950--29778996 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
29778940 ACTTTTGGCT
*
29778950 TTTCAGCATTTCAGCA
1 TTTCGGCATTTCAGCA
*
29778966 TTTCGGCATTTTAGCA
1 TTTCGGCATTTCAGCA
29778982 TTTCGGCATTTCAGC
1 TTTCGGCATTTCAGC
29778997 TTTTACCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (16 bp):
TTTCGGCATTTCAGCA
Found at i:29785398 original size:32 final size:33
Alignment explanation
Indices: 29785336--29785399 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
29785326 CTCACACAGT
* *
29785336 CACCAGACACTCCCGTGTGACCAGGCCGTGTGA
1 CACCAGACACGCCCATGTGACCAGGCCGTGTGA
*
29785369 CACCAGACACGCCCATGTTA-CAGGCCGTGTG
1 CACCAGACACGCCCATGTGACCAGGCCGTGTG
29785400 GACATTCGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.22, C:0.36, G:0.27, T:0.16
Consensus pattern (33 bp):
CACCAGACACGCCCATGTGACCAGGCCGTGTGA
Found at i:29786787 original size:122 final size:122
Alignment explanation
Indices: 29786588--29786876 Score: 358
Period size: 122 Copynumber: 2.4 Consensus size: 122
29786578 AGTGTCGTAC
* * * * * *
29786588 ATAGCTGAAGCCATCTCAA-ATCGCACACTAAA-TGCCATATATAGTCGAAGCTATCTCGATCTC
1 ATAGCCGAAGCTATCTCAATCTCGCACAC-AAAGTGCCATATATAGCCGAAGCTATCTCAACCTC
29786651 GCACACTCAATGCCATATAT-GGTCGAAGCTATCTC-AATCTCACACACAAAGTGCCATAT
65 GCACACTCAATGCCATATATAGG-CGAAGCTATCTCGAA--TCACACACAAAGTGCCATAT
* *
29786710 ATAGTCGAAGCTATGTCGAAT-T-GCACACAAAGTGCCATATATAGCCGAAGCTATCTCAACCTC
1 ATAGCCGAAGCTATCTC-AATCTCGCACACAAAGTGCCATATATAGCCGAAGCTATCTCAACCTC
* * * *
29786773 GCACACT-AAGTGCCATATATAGGGGAAGCTATGTCGAATCGCACACTAAGTGCCATAT
65 GCACACTCAA-TGCCATATATAGGCGAAGCTATCTCGAATCACACACAAAGTGCCATAT
*
29786831 ATAGCCGAAGCTATCTCAATCTCGCACACGAAGTGCCATATATAGC
1 ATAGCCGAAGCTATCTCAATCTCGCACACAAAGTGCCATATATAGC
29786877 TGATTTTTTG
Statistics
Matches: 145, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
120 3 0.02
121 39 0.27
122 96 0.66
123 7 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (122 bp):
ATAGCCGAAGCTATCTCAATCTCGCACACAAAGTGCCATATATAGCCGAAGCTATCTCAACCTCG
CACACTCAATGCCATATATAGGCGAAGCTATCTCGAATCACACACAAAGTGCCATAT
Found at i:29786876 original size:41 final size:41
Alignment explanation
Indices: 29786565--29786876 Score: 357
Period size: 41 Copynumber: 7.7 Consensus size: 41
29786555 AATACTTGAT
* * * * * *
29786565 ATCTCCCACACTAAGTGTCGTACATAGCTGAAGCCATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * * *
29786606 A-ATCGCACACTAAATGCCATATATAGTCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* *
29786646 ATCTCGCACACTCAA-TGCCATATATGGTCGAAGCTATCTCA
1 ATCTCGCACACT-AAGTGCCATATATAGCCGAAGCTATCTCA
* * * *
29786687 ATCTCACACACAAAGTGCCATATATAGTCGAAGCTATGTCGA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTC-A
*
29786729 AT-T-GCACACAAAGTGCCATATATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* ** *
29786768 ACCTCGCACACTAAGTGCCATATATAGGGGAAGCTATGTCGA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTC-A
29786810 A--TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
*
29786849 ATCTCGCACACGAAGTGCCATATATAGC
1 ATCTCGCACACTAAGTGCCATATATAGC
29786877 TGATTTTTTG
Statistics
Matches: 233, Mismatches: 29, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
39 4 0.02
40 99 0.42
41 123 0.53
42 7 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
Found at i:29786891 original size:81 final size:80
Alignment explanation
Indices: 29786571--29786875 Score: 382
Period size: 81 Copynumber: 3.8 Consensus size: 80
29786561 TGATATCTCC
* * * * * *
29786571 CACACTAAGTGTCGTACATAGCTGAAGCCATCTCAA-ATCGCACACTAAA-TGCCATATATAGTC
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGCACAC-AAAGTGCCATATATAGT-
* *
29786634 GAAGCTATCTCGATCTCG
64 GAAGCTATGTCGA-ATCG
* * *
29786652 CACACTCAA-TGCCATATATGGTCGAAGCTATCTCAATCTCACACACAAAGTGCCATATATAGTC
1 CACACT-AAGTGCCATATATAGCCGAAGCTATCTCAATCTCGCACACAAAGTGCCATATATAGT-
*
29786716 GAAGCTATGTCGAATTG
64 GAAGCTATGTCGAATCG
* * * *
29786733 CACACAAAGTGCCATATATAGCCGAAGCTATCTCAACCTCGCACACTAAGTGCCATATATAGGGG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGCACACAAAGTGCCATATATA-GTG
29786798 AAGCTATGTCGAATCG
65 AAGCTATGTCGAATCG
*
29786814 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGCACACGAAGTGCCATATATAG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGCACACAAAGTGCCATATATAG
29786876 CTGATTTTTT
Statistics
Matches: 196, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
80 3 0.02
81 157 0.80
82 36 0.18
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (80 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGCACACAAAGTGCCATATATAGTGA
AGCTATGTCGAATCG
Found at i:29794294 original size:41 final size:40
Alignment explanation
Indices: 29794197--29794327 Score: 140
Period size: 40 Copynumber: 3.2 Consensus size: 40
29794187 GATATTTCAT
* * * *
29794197 ACACTAAGTGCCGTACATAGCAGAAGCTATTACAAATTGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATTACAAATCGC
*
29794237 ACACTAAGTGCTATATATAGCCGAAGCTATCT-CAATATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTAT-TACAA-ATCGC
* * *
29794278 ACACTACGTGCCATATATAGCCAAAGCTATGT-CGAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTAT-TACAAATCGC
*
29794318 GCACTAAGTG
1 ACACTAAGTG
29794328 TGTAACGCGT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 42 0.55
41 35 0.45
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATTACAAATCGC
Found at i:29795418 original size:7 final size:7
Alignment explanation
Indices: 29795408--29795462 Score: 110
Period size: 7 Copynumber: 7.9 Consensus size: 7
29795398 AATGATGAAT
29795408 GATGAGG
1 GATGAGG
29795415 GATGAGG
1 GATGAGG
29795422 GATGAGG
1 GATGAGG
29795429 GATGAGG
1 GATGAGG
29795436 GATGAGG
1 GATGAGG
29795443 GATGAGG
1 GATGAGG
29795450 GATGAGG
1 GATGAGG
29795457 GATGAG
1 GATGAG
29795463 TAGAAATGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.29, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:29798858 original size:48 final size:48
Alignment explanation
Indices: 29798766--29799225 Score: 325
Period size: 48 Copynumber: 9.6 Consensus size: 48
29798756 TATGTGTGCC
* ** * * * * *
29798766 AGTGTAAGATCATGCCTGGGACATGGCATTGACCACGATATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGATATGAGAGCT
* * * * *
29798814 AGTGTAAAAACATGTTTGGAACATGGCATCGGCAATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGATATGAGAGCT
* * * * * * * *
29798862 AGTGTAAGACCATGTCTGGGATATTGTATCGGCATTGATATGTGTGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGATATGAGAGCT
* ** * ** *
29798910 AGTGTAAGACCATGTTTGGGACATATCATCGGCCACAATATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGATATGAGAGCT
* * * * *
29798958 AATGTAAGACCATGTTTGGAAAATGGCATCGGCAATGTTGTAAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGATATGAGAGCT
* * * * * *
29799006 AGCGTAAGACCATGTCTAGG-ACATGGCATTGGCATTGATATGTGTGCT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCGGCAATGATATGAGAGCT
** * * *
29799054 AGTGTAAGACCATGTTTCAAACATGGCATCGGCCA-CATCATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGAT-ATGAGAGCT
*** * *** * *
29799102 AGTGTAAGACCATGTTTGGGTTATTGCATCAAAAATGAGAAGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGATATGAGAGCT
* * * * * *
29799150 CGTGTAAGACCATGTATGGGACATGGCATCAGC-CTCGACT-TGTGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT-GA-TATGAGAGCT
29799198 AGTGTAAGACCATGTTTGGAACATGGCA
1 AGTGTAAGACCATGTTTGGAACATGGCA
29799226 ACGATAATTC
Statistics
Matches: 307, Mismatches: 99, Indels: 12
0.73 0.24 0.03
Matches are distributed among these distances:
47 4 0.01
48 299 0.97
49 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGATATGAGAGCT
Found at i:29799013 original size:144 final size:143
Alignment explanation
Indices: 29798753--29799225 Score: 502
Period size: 144 Copynumber: 3.3 Consensus size: 143
29798743 GAAATTTGGG
* * ** * * *
29798753 TGATATGTGTGCCAGTGTAAGATCATGCCTGGGACATGGCATTGACCACGATATGAGAGCTAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-ATATGAGAGCCAGTG
* * * * * *
29798818 TAAAAACATGTTTGGAACATGGCATCGGCAATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGA
65 TAAGACCATGTTTGGAAAATGGCATCGGCAATGTTGTAAGAGCCAGCGTAAGACCATGTCTAGGA
* * *
29798883 TATTGTATCGGCAT
130 CATGGCATCGGCAT
** *
29798897 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATATCATCGGCCACAATATGAGAGCCAATG
1 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-ATATGAGAGCCAGTG
*
29798962 TAAGACCATGTTTGGAAAATGGCATCGGCAATGTTGTAAGAGCTAGCGTAAGACCATGTCTAGGA
65 TAAGACCATGTTTGGAAAATGGCATCGGCAATGTTGTAAGAGCCAGCGTAAGACCATGTCTAGGA
*
29799027 CATGGCATTGGCAT
130 CATGGCATCGGCAT
***
29799041 TGATATGTGTGCTAGTGTAAGACCATGTTTCAAACATGGCATCGGCCACATCATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAT-ATGAGAGCCAGTG
*** * *** * * * * *
29799106 TAAGACCATGTTTGGGTTATTGCATCAAAAATG-AGAAGAGAGCTC-GTGTAAGACCATGTATGG
65 TAAGACCATGTTTGGAAAATGGCATCGGCAATGTTGTA-AGAGC-CAGCGTAAGACCATGTCTAG
* *
29799169 GACATGGCATCAGCCT
128 GACATGGCATCGGCAT
* * *
29799185 CGACT-TGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCA
1 TGA-TATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCA
29799226 ACGATAATTC
Statistics
Matches: 277, Mismatches: 48, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
143 4 0.01
144 272 0.98
145 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (143 bp):
TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATATGAGAGCCAGTGT
AAGACCATGTTTGGAAAATGGCATCGGCAATGTTGTAAGAGCCAGCGTAAGACCATGTCTAGGAC
ATGGCATCGGCAT
Found at i:29804158 original size:49 final size:49
Alignment explanation
Indices: 29804086--29804308 Score: 189
Period size: 49 Copynumber: 4.7 Consensus size: 49
29804076 GATAAGTTGC
*
29804086 CGATGCCATGTCCCAGACATGGTCTTACACTGACTAGCATCATCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCGAGGT
* * ** *
29804135 CGATGCCATGTCCCAGACATGGTCTTATACT-AGCTCTCAT-ATATACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCATCATCGAGGT
* *
29804183 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGAC-ACTCATC-TCTGCGCT
1 -C-GATGCCATGTCCCAGACATGGTCTTACACTGACTA-TCATCATC-GAGGT
* * * * * *
29804232 -GATGCCATGTCCTAGACATGGTCTTATACTGGC-ACTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTA-TCATCATCGAGGT
29804279 CGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
29804309 GCACACAAGA
Statistics
Matches: 141, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
46 14 0.10
47 28 0.20
48 42 0.30
49 53 0.38
50 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCGAGGT
Found at i:29804249 original size:96 final size:95
Alignment explanation
Indices: 29804084--29804308 Score: 296
Period size: 96 Copynumber: 2.3 Consensus size: 95
29804074 GGGATAAGTT
*
29804084 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAGCATCATCGAGGTCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTAGCATCATCGAGCTCGATGCCATGTCCC
*
29804149 AGACATGGTCTTATACTAGCTCTCATATATACGT-
64 AGACATGGTCTTATACTAGCACTCATA-AT--GTG
* * * *
29804183 GCTGATGCATGTCCCAGACATGTCTTACACTGAC-ACTCATC-TCTGCGCT-GATGCCATGTCCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTA-GCATCATC-GAGCTCGATGCCATGTCCC
*
29804245 AGACATGGTCTTATACTGGCACTCATAATGTG
64 AGACATGGTCTTATACTAGCACTCATAATGTG
29804277 GCCGATGCATGTCCCAGACATGTCTTACACTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTG
29804309 GCACACAAGA
Statistics
Matches: 115, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
93 2 0.02
94 31 0.27
95 2 0.02
96 40 0.35
97 20 0.17
98 14 0.12
99 6 0.05
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (95 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTAGCATCATCGAGCTCGATGCCATGTCCCAG
ACATGGTCTTATACTAGCACTCATAATGTG
Found at i:29808310 original size:12 final size:12
Alignment explanation
Indices: 29808293--29808321 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
29808283 GCCAAGAACT
29808293 AACTCGATACCA
1 AACTCGATACCA
29808305 AACTCGATACCA
1 AACTCGATACCA
29808317 AACTC
1 AACTC
29808322 AACTTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.17
Consensus pattern (12 bp):
AACTCGATACCA
Found at i:29811716 original size:28 final size:28
Alignment explanation
Indices: 29811684--29811768 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
29811674 AACTGTGATC
*
29811684 ACGTGTGTAGTACTAAGTGTAGGCTACT
1 ACGTGTATAGTACTAAGTGTAGGCTACT
*
29811712 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTAT-AGTACTAAGTGTAGGCTACT
*
29811734 ACGTGTATAGTACTAAGTGCAGGCTACT
1 ACGTGTATAGTACTAAGTGTAGGCTACT
29811762 ACGTGTA
1 ACGTGTA
29811769 CCGGATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.04
22 9 0.20
23 2 0.04
24 3 0.07
25 7 0.16
26 3 0.07
27 2 0.04
28 15 0.33
29 2 0.04
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (28 bp):
ACGTGTATAGTACTAAGTGTAGGCTACT
Found at i:29811758 original size:50 final size:49
Alignment explanation
Indices: 29811636--29811824 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 49
29811626 TGAGGTCGCA
* * * * * *
29811636 TGTGTAGTACTAAGTGCAGGTTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
29811687 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * * *
29811737 TGTATAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
29811786 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
29811825 GCTTTGGCTA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 40 0.35
50 43 0.38
51 31 0.27
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:29811823 original size:99 final size:101
Alignment explanation
Indices: 29811640--29811823 Score: 237
Period size: 99 Copynumber: 1.8 Consensus size: 101
29811630 GTCGCATGTG
* * * *
29811640 TAGTACTAAGTGCAGGTTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGTA
1 TAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAGTGCA
* *
29811705 GGCTACTACGTGTATCAGATGGTTAGGTCACGTGTA
66 GGCTACTACGCGTACCAGATGGTTAGGTCACGTGTA
* * * * * *
29811741 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCGCATGTGTAGTACTATGTGCA
1 TAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAGTGCA
*
29811804 GGCTACTATGCGTACCAGAT
66 GGCTACTACGCGTACCAGAT
29811824 AGCTTTGGCT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
99 38 0.54
100 1 0.01
101 31 0.44
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (101 bp):
TAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAGTGCA
GGCTACTACGCGTACCAGATGGTTAGGTCACGTGTA
Found at i:29814194 original size:47 final size:47
Alignment explanation
Indices: 29813964--29814283 Score: 228
Period size: 47 Copynumber: 6.8 Consensus size: 47
29813954 GGGATAAGTT
* *
29813964 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTA-GCATCATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATCATCGAG
* * * *
29814013 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATATATACGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CAT-CG-AG
* * * * *
29814064 -CTGATGCATGTCCCAGGCATGTCTTACACTAGCA--CAAC-TCTTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATC-GAG
* * * *
29814107 GCCGATGCGTGTCCTAGACACGTCTTACACTGGTTA-TCATCATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGG-CACTCATCATCGAG
* * *
29814154 GCCGATGCATGTCCCAGACATCTCTTACACTGGCACTCATC-TCTAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAG
** * * * *
29814200 GCCGATGCCATGTCCCAGATGTGGTCTTATACTAGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGAG
* *
29814248 GCCGATGCATGTCCCAAACATATCTTACACTGGCAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
29814284 ATAAGAAATC
Statistics
Matches: 213, Mismatches: 44, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 27 0.13
45 1 0.00
46 29 0.14
47 59 0.28
48 35 0.16
49 50 0.23
50 7 0.03
51 2 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAG
Found at i:29814252 original size:141 final size:140
Alignment explanation
Indices: 29813964--29814281 Score: 329
Period size: 141 Copynumber: 2.2 Consensus size: 140
29813954 GGGATAAGTT
*
29813964 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAAACA-CGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCC
* * * * *
29814029 AGACATGGTCTTATACTAGCTCTCATATATACGTACTGATGCATGTCCCAGGCATGTCTTACACT
64 AGACATGCTCTTACACTAGCACTCATATATAC-TACCGATGCATGTCCCAGACATGTCTTACACT
* *
29814094 AGCACAACTCTTA
128 AGCACAAATCGTA
* * * * *
29814107 GCCGATGCGTGTCCTAGACACGTCTTACACTGGTTATCATCATCGAGGCCGATG-CATGTCCCAG
1 GCCGATGCATGTCCCAAACACGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCCAG
* * * * ** *
29814171 ACAT-CTCTTACACTGGCACTCATCTCTA-TGCCGATGCCATGTCCCAGATGTGGTCTTATACTA
66 ACATGCTCTTACACTAGCACTCATATATACTACCGATG-CATGTCCCAGACAT-GTCTTACACTA
*
29814234 GCACTCATAAT-GTG
129 GCA--CA-AATCGTA
**
29814248 GCCGATGCATGTCCCAAACATATCTTACACTGGC
1 GCCGATGCATGTCCCAAACACGTCTTACACTGGC
29814282 ACATAAGAAA
Statistics
Matches: 143, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
137 6 0.04
138 11 0.08
139 31 0.22
140 14 0.10
141 62 0.43
142 12 0.08
143 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (140 bp):
GCCGATGCATGTCCCAAACACGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCCAG
ACATGCTCTTACACTAGCACTCATATATACTACCGATGCATGTCCCAGACATGTCTTACACTAGC
ACAAATCGTA
Found at i:29814261 original size:94 final size:92
Alignment explanation
Indices: 29813964--29814285 Score: 287
Period size: 94 Copynumber: 3.4 Consensus size: 92
29813954 GGGATAAGTT
* *
29813964 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGC-A-CATC-TCTATGCCGATGCCATGTCCC
*
29814029 AGACATGGTCTTATACTAGCTCTCATATATACGT-
61 AGA-ATGGTCTTATACTAGCACTCATA-AT-CGTG
* * ** * * * *
29814063 ACTGATGCATGTCCCAGGCATGTCTTACACTAGCACAACTCT-TAGCCGATG-CGTGTCCTAGAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCACATCTCTAT-GCCGATGCCATGTCCCAGA-
* * * * * *
29814126 A-CGTCTTACACTGGTTA-TCATCATCGAG
64 ATGGTCTTATACTAG-CACTCATAATCGTG
* *
29814154 GCCGATGCATGTCCCAGACATCTCTTACACTGGCACTCATCTCTATGCCGATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCA--CATCTCTATGCCGATGCCATGTCCCAGA
*
29814219 TGTGGTCTTATACTAGCACTCATAAT-GTG
64 -ATGGTCTTATACTAGCACTCATAATCGTG
*
29814248 GCCGATGCATGTCCCAAACATATCTTACACTGGCACAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCACAT
29814286 AAGAAATCCG
Statistics
Matches: 179, Mismatches: 35, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
90 2 0.01
91 32 0.18
92 17 0.09
93 24 0.13
94 55 0.31
95 19 0.11
96 1 0.01
97 12 0.07
98 12 0.07
99 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCACATCTCTATGCCGATGCCATGTCCCAGAAT
GGTCTTATACTAGCACTCATAATCGTG
Found at i:29820246 original size:46 final size:46
Alignment explanation
Indices: 29820193--29820367 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
29820183 TATTTGGGCA
29820193 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
29820239 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
29820284 CATCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
29820332 CCCG-AGTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29820368 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 31 0.29
46 32 0.30
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:29826023 original size:30 final size:30
Alignment explanation
Indices: 29825989--29826048 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29825979 TTCCCGAGCC
29825989 TAGGGG-AAAAAGCGTAATTATGCAAAAGTT
1 TAGGGGCAAAAA-CGTAATTATGCAAAAGTT
* * *
29826019 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAACGTAATTATGCAAAAGTT
29826049 CATATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAACGTAATTATGCAAAAGTT
Found at i:29826504 original size:20 final size:20
Alignment explanation
Indices: 29826481--29826549 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 20
29826471 AGTTCCGAAC
29826481 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
*
29826501 TCG-TGAGATGTAGCTAGGCATCCGAGC
1 TCGTTGAG-T-T-G--A-G--TCCGAGT
29826528 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
29826548 TC
1 TC
29826550 ACTTATGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 1 0.03
22 2 0.05
23 1 0.03
24 1 0.03
25 2 0.05
26 1 0.03
27 10 0.26
28 4 0.11
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.30
Consensus pattern (20 bp):
TCGTTGAGTTGAGTCCGAGT
Found at i:29831175 original size:144 final size:142
Alignment explanation
Indices: 29830915--29831384 Score: 591
Period size: 144 Copynumber: 3.3 Consensus size: 142
29830905 ACATTTGGGT
* * * *
29830915 GATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTACGATATGAGAGCCAATGT
1 GATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATTG-CCAC-ATATGAGAGCCAGTGT
* *
29830980 AAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTAGGAG
64 AAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGAC
*
29831045 ATGGCATCGGCATG
129 ATGGCATCGGCATC
*
29831059 GATATGTGTGCTAATGTAAGACCATGTTTGGGACATGGCATTAGCCACAATATGAGAGCCAGTGT
1 GATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATT-GCCAC-ATATGAGAGCCAGTGT
* * *
29831124 AAGACCATATTTGGAACATGGCATTGGTGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGAC
64 AAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGAC
*
29831189 ATGGCATCGGCATT
129 ATGGCATCGGCATC
* * * * *
29831203 GATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGGAATCGGTCACATCATGAGATCCAGTGT
1 GATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCAT-TGCCACAT-ATGAGAGCCAGTGT
* * * * * * * *
29831268 AAGACCATGTCTGGGACATTGCATCGACAATG-AGACGAGAGCTAGTGTAAGACCATGTCTGGGA
64 AAGACCATGTTTGGAACATGGCATCGGCGATGTTG-TGAGAGCCAGTGTAAGACCATGTCTGGGA
* *
29831332 CATGGCATCGACCTC
128 CATGGCATCGGCATC
* * * *
29831347 GACATGTGAGCTAGTGTAAGACCATTTTTGGAACATGG
1 GATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGG
29831385 AAATGACAAT
Statistics
Matches: 286, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
143 3 0.01
144 282 0.99
145 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (142 bp):
GATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATTGCCACATATGAGAGCCAGTGTAA
GACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACAT
GGCATCGGCATC
Found at i:29831383 original size:48 final size:48
Alignment explanation
Indices: 29830915--29831384 Score: 387
Period size: 48 Copynumber: 9.8 Consensus size: 48
29830905 ACATTTGGGT
* * * *
29830915 GATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGAC-TAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAT-C
* * *
29830963 GATATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCGAT-
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGAC-ATC
* * * * * * *
29831011 GTTGTGAGAGCCAGTGTAAGACCATGTCTAGGAGATGGCATCGGCATG
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * * * * *
29831059 GATATGTGTGCTAATGTAAGACCATGTTTGGGACATGGCATTAGCCA-C
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCA-TCGACATC
* * * * **
29831107 AATATGAGAGCCAGTGTAAGACCATATTTGGAACATGGCATTGGTGAT-
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCA-TCGACATC
* * * * *
29831155 GTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * * * *
29831203 GATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGGAATCGGTCA-C
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-GACATC
* * *
29831251 -ATCATGAGATCCAGTGTAAGACCATGTCTGGGACATTGCATCGACAAT-
1 GAT-ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGAC-ATC
* * * * *
29831299 GAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * * * *
29831347 GACATGTGAGCTAGTGTAAGACCATTTTTGGAACATGG
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGG
29831385 AAATGACAAT
Statistics
Matches: 336, Mismatches: 74, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
47 11 0.03
48 316 0.94
49 8 0.02
50 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
Found at i:29840444 original size:27 final size:27
Alignment explanation
Indices: 29840412--29840467 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
29840402 TAAGTATTGA
*
29840412 GTTATCGTCTCATCAGGGATTGTATTT
1 GTTATCGTCTCATCAGGGATTGCATTT
29840439 GTTATCGTCTCATCAGGGATTGCATTT
1 GTTATCGTCTCATCAGGGATTGCATTT
29840466 GT
1 GT
29840468 GCTAAGTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (27 bp):
GTTATCGTCTCATCAGGGATTGCATTT
Found at i:29841481 original size:21 final size:21
Alignment explanation
Indices: 29841457--29841505 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
29841447 AGGAAAGAAT
*
29841457 GATGAATGATGAGGGATGAGG
1 GATGAATGATGAGGGATGAAG
**
29841478 GATGAGGGATGAGGGATGAAG
1 GATGAATGATGAGGGATGAAG
29841499 GATGAAT
1 GATGAAT
29841506 AGAAATGTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (21 bp):
GATGAATGATGAGGGATGAAG
Found at i:29841504 original size:7 final size:7
Alignment explanation
Indices: 29841464--29841503 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
29841454 AATGATGAAT
29841464 GATGAGG
1 GATGAGG
29841471 GATGAGG
1 GATGAGG
29841478 GATGAGG
1 GATGAGG
29841485 GATGAGG
1 GATGAGG
*
29841492 GATGAAG
1 GATGAGG
29841499 GATGA
1 GATGA
29841504 ATAGAAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.53, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:29842306 original size:58 final size:58
Alignment explanation
Indices: 29842237--29842348 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
29842227 TACAAAGTGC
* * *
29842237 CATATATAGCCGAAGCTATCTCAATCTCACACACTAATTTCCATATATAGCTGAAGCT
1 CATATATAGCCGAACCTATCTCAATCTCACACACTAAGTGCCATATATAGCTGAAGCT
*
29842295 CATATATAGCCGAACCTATCTCAATCTCGCACACTAAGTGCCATATATAGCTGA
1 CATATATAGCCGAACCTATCTCAATCTCACACACTAAGTGCCATATATAGCTGA
29842349 TTTGTCGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.28
Consensus pattern (58 bp):
CATATATAGCCGAACCTATCTCAATCTCACACACTAAGTGCCATATATAGCTGAAGCT
Found at i:29844163 original size:43 final size:42
Alignment explanation
Indices: 29844092--29844214 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
29844082 CGGAAAGCTC
* ** * *
29844092 ATACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCATAGACGTGGTCTTACATGAAATCAA
*
29844134 ATATCGATGCC-ACTGTCCTAGACAG-GGTCTTACATGAAATCAA
1 ATA-CGATGCCAAC-GTCATAGAC-GTGGTCTTACATGAAATCAA
*
29844177 ATACGATGCCAACGTCATAGACGTGGTCTTACACGAAA
1 ATACGATGCCAACGTCATAGACGTGGTCTTACATGAAA
29844215 ACACATATCG
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 33 0.47
43 35 0.50
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAACGTCATAGACGTGGTCTTACATGAAATCAA
Found at i:29844198 original size:42 final size:43
Alignment explanation
Indices: 29844114--29844224 Score: 138
Period size: 42 Copynumber: 2.6 Consensus size: 43
29844104 CGTCCCAGAT
* *
29844114 GTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGAC
1 GTGGTCTTACATGAAATCAAATATCGATGCCACTGTCATAGAC
29844157 AG-GGTCTTACATGAAATCAAATA-CGATGCCAAC-GTCATAGAC
1 -GTGGTCTTACATGAAATCAAATATCGATGCC-ACTGTCATAGAC
* * *
29844199 GTGGTCTTACACGAAAACACATATCG
1 GTGGTCTTACATGAAATCAAATATCG
29844225 GATCCTATGT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.02
42 33 0.56
43 24 0.41
44 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (43 bp):
GTGGTCTTACATGAAATCAAATATCGATGCCACTGTCATAGAC
Found at i:29853039 original size:43 final size:43
Alignment explanation
Indices: 29852977--29853115 Score: 160
Period size: 43 Copynumber: 3.2 Consensus size: 43
29852967 GTCCTAGACA
* *
29852977 TGGTCTTACATGTAATCAAATATCGATGTCACTGTCCCAGATAG
1 TGGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGAT-G
*
29853021 -GGTCTTACATGAAATCAAATA-CGATGCCAAC-GTCCCAGACG
1 TGGTCTTACATGAAATCAAATATCGATGCC-ACTGTCCCAGATG
* * *
29853062 TGGTCTTACATGTAAATCATAA-GTCAATGCCAATGTCCCAGATG
1 TGGTCTTACATG-AAATCA-AATATCGATGCCACTGTCCCAGATG
29853106 TGGTCTTACA
1 TGGTCTTACA
29853116 CAAAAACACA
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.30
43 29 0.35
44 27 0.33
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGATG
Found at i:29853059 original size:42 final size:42
Alignment explanation
Indices: 29852977--29853115 Score: 158
Period size: 44 Copynumber: 3.2 Consensus size: 42
29852967 GTCCTAGACA
* *
29852977 TGGTCTTACATGTAATCAAATATCGATGTC-ACTGTCCCAGATAG
1 TGGTCTTACATGAAATCAAATA-CGATGCCAAC-GTCCCAGAT-G
*
29853021 -GGTCTTACATGAAATCAAATACGATGCCAACGTCCCAGACG
1 TGGTCTTACATGAAATCAAATACGATGCCAACGTCCCAGATG
* *
29853062 TGGTCTTACATGTAAATCATAAGT-CAATGCCAATGTCCCAGATG
1 TGGTCTTACATG-AAATCA-AA-TACGATGCCAACGTCCCAGATG
29853106 TGGTCTTACA
1 TGGTCTTACA
29853116 CAAAAACACA
Statistics
Matches: 84, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.30
43 28 0.33
44 29 0.35
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (42 bp):
TGGTCTTACATGAAATCAAATACGATGCCAACGTCCCAGATG
Found at i:29857313 original size:27 final size:27
Alignment explanation
Indices: 29857264--29857318 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
29857254 AATTTCATAT
* * *
29857264 TTGTAGGCTAGTATTACTGAAATGCCC
1 TTGTAGGCTAGAATTACTAAAATACCC
* *
29857291 TTGTAGGGTAGAATTGCTAAAATACCC
1 TTGTAGGCTAGAATTACTAAAATACCC
29857318 T
1 T
29857319 CGATTAGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (27 bp):
TTGTAGGCTAGAATTACTAAAATACCC
Found at i:29857332 original size:27 final size:26
Alignment explanation
Indices: 29857309--29857359 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
29857299 TAGAATTGCT
29857309 AAAATACCCTCGATTAGCAAAATTACC
1 AAAA-ACCCTCGATTAGCAAAATTACC
* * *
29857336 GAAAACCCTCGATTTGTAAAATTA
1 AAAAACCCTCGATTAGCAAAATTA
29857360 TCGAAATACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (26 bp):
AAAAACCCTCGATTAGCAAAATTACC
Found at i:29857529 original size:81 final size:81
Alignment explanation
Indices: 29857320--29857616 Score: 289
Period size: 81 Copynumber: 3.7 Consensus size: 81
29857310 AAATACCCTC
* * * * * *
29857320 GATTAGCAAAATTACCGAAA-ACCCTCGATTTGTAAAATTATCGAAATACCCCTAATTTGTAAAA
1 GATTTGCAAAATTACCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCTTGATTTGTAAAA
* *
29857384 TTATCAAAATATTCTT
66 TTATCAAAATACTCAT
** ** * * *
29857400 GATTTTTAAAATTACCAAAATACCCTTG-TAGTGTAGAATTACCTAAATACCCTTGATTTGTAAA
1 GATTTGCAAAATTACCAAAATACCCCCGAT-TTGTAAAATTACCGAAATACCCTTGATTTGTAAA
*
29857464 ATTACCAAAATACTCAT
65 ATTATCAAAATACTCAT
* * * *
29857481 GATTTGCAAAATTAACAAAATACCCCCGATTTGTAAAACTACCGAAATACCCTTG-TAGTGTAGA
1 GATTTGCAAAATTACCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCTTGAT-TTGTAAA
29857545 ATTATCAAAATACCCTCA-
65 ATTATCAAAATA--CTCAT
* ** ** *
29857563 -ATTTGTAAAATTAGTAAAATACCCCAAATTTGTAAAATTATCGAAATACCCTTG
1 GATTTGCAAAATTACCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCTTG
29857617 TAGTGTAAAA
Statistics
Matches: 178, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
80 18 0.10
81 155 0.87
82 1 0.01
83 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (81 bp):
GATTTGCAAAATTACCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCTTGATTTGTAAAA
TTATCAAAATACTCAT
Found at i:29857617 original size:81 final size:80
Alignment explanation
Indices: 29857276--29857627 Score: 277
Period size: 81 Copynumber: 4.4 Consensus size: 80
29857266 GTAGGCTAGT
* * * * * * * *
29857276 ATTACTGAAATGCCCTTGTAGGGTAGAATT-GCTAAAATACCCTCGATTAGCAAAATTACCGAAA
1 ATTACCGAAATACCCTTGTAGTGTAAAATTATC-AAAATACCCTCAATTTGCAAAATTACCAAAA
29857340 -ACCCTCGATTTGTAAA
65 TACCC-CGATTTGTAAA
* * * * ** ** **
29857356 ATTATCGAAATACCCCT-AATTTGTAAAATTATCAAAATATTCTTGATTTTTAAAATTACCAAAA
1 ATTACCGAAATACCCTTGTA-GTGTAAAATTATCAAAATACCCTCAATTTGCAAAATTACCAAAA
* * *
29857420 TACCCTTG-TAGTGTAGA
65 TACCC-CGAT-TTGTAAA
* * * *
29857437 ATTACCTAAATACCCTTG-ATTTGTAAAATTACCAAAATA--CTCATGATTTGCAAAATTAACAA
1 ATTACCGAAATACCCTTGTA-GTGTAAAATTATCAAAATACCCTCA--ATTTGCAAAATTACCAA
29857499 AATACCCCCGATTTGTAAA
63 AATA-CCCCGATTTGTAAA
* * * **
29857518 ACTACCGAAATACCCTTGTAGTGTAGAATTATCAAAATACCCTCAATTTGTAAAATTAGTAAAAT
1 ATTACCGAAATACCCTTGTAGTGTAAAATTATCAAAATACCCTCAATTTGCAAAATTACCAAAAT
*
29857583 ACCCCAAATTTGTAAA
66 ACCCC-GATTTGTAAA
*
29857599 ATTATCGAAATACCCTTGTAGTGTAAAAT
1 ATTACCGAAATACCCTTGTAGTGTAAAAT
29857628 GACCAGCATA
Statistics
Matches: 216, Mismatches: 43, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
79 3 0.01
80 49 0.23
81 155 0.72
82 5 0.02
83 4 0.02
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (80 bp):
ATTACCGAAATACCCTTGTAGTGTAAAATTATCAAAATACCCTCAATTTGCAAAATTACCAAAAT
ACCCCGATTTGTAAA
Found at i:29857627 original size:27 final size:27
Alignment explanation
Indices: 29857309--29857616 Score: 246
Period size: 27 Copynumber: 11.4 Consensus size: 27
29857299 TAGAATTGCT
* * * *
29857309 AAAATACCCTCGATTAGCAAAATTACC
1 AAAATACCCTTGATTTGTAAAATTATC
* *
29857336 GAAA-ACCCTCGATTTGTAAAATTATC
1 AAAATACCCTTGATTTGTAAAATTATC
* * *
29857362 GAAATACCCCTAATTTGTAAAATTATC
1 AAAATACCCTTGATTTGTAAAATTATC
** * *
29857389 AAAATATTCTTGATTTTTAAAATTACC
1 AAAATACCCTTGATTTGTAAAATTATC
* * *
29857416 AAAATACCCTTG-TAGTGTAGAATTACC
1 AAAATACCCTTGAT-TTGTAAAATTATC
* *
29857443 TAAATACCCTTGATTTGTAAAATTACC
1 AAAATACCCTTGATTTGTAAAATTATC
* * * *
29857470 AAAATACTCATGATTTGCAAAATTAAC
1 AAAATACCCTTGATTTGTAAAATTATC
** * *
29857497 AAAATACCCCCGATTTGTAAAACTACC
1 AAAATACCCTTGATTTGTAAAATTATC
* * *
29857524 GAAATACCCTTG-TAGTGTAGAATTATC
1 AAAATACCCTTGAT-TTGTAAAATTATC
**
29857551 AAAATACCCTCAATTTGTAAAATTAGT-
1 AAAATACCCTTGATTTGTAAAATTA-TC
***
29857578 AAAATACCCCAAATTTGTAAAATTATC
1 AAAATACCCTTGATTTGTAAAATTATC
*
29857605 GAAATACCCTTG
1 AAAATACCCTTG
29857617 TAGTGTAAAA
Statistics
Matches: 223, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
26 26 0.12
27 194 0.87
28 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATACCCTTGATTTGTAAAATTATC
Found at i:29858111 original size:22 final size:22
Alignment explanation
Indices: 29858077--29858135 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
29858067 TATTCTGATC
* *
29858077 ATGGCTCTATGCCAACTTAAAT
1 ATGGCTTTGTGCCAACTTAAAT
* * *
29858099 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACTTAAAT
*
29858121 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
29858136 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACTTAAAT
Found at i:29860773 original size:27 final size:27
Alignment explanation
Indices: 29860690--29860787 Score: 124
Period size: 27 Copynumber: 3.5 Consensus size: 27
29860680 CATGAGATTG
* * * *
29860690 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAG-TT-GATTATATA
29860719 GCACTAAGTGTGCGAGGTTGATTATATA
1 GCACTAAGTGTGCGA-GTTGATTATATA
29860747 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTATATA
*
29860774 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29860788 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
27 25 0.40
28 21 0.33
29 16 0.25
30 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTATATA
Found at i:29860798 original size:27 final size:27
Alignment explanation
Indices: 29860718--29860800 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
29860708 TAAATTGTAC
* *
29860718 AGCACTAAGTGTGCGAGGTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
29860746 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
29860773 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
29860800 A
1 A
29860801 TTTTGAATCA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 31 0.61
28 20 0.39
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:29860801 original size:29 final size:27
Alignment explanation
Indices: 29860690--29860801 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
29860680 CATGAGATTG
** * *
29860690 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
29860719 GCACTAAGTGTGCGAGGTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
29860747 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
29860774 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
29860802 TTTGAATCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 24 0.33
28 28 0.39
29 20 0.28
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:29865289 original size:85 final size:84
Alignment explanation
Indices: 29865186--29865364 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 84
29865176 GGCCGGCCAT
29865186 GAGCATTGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTAGGGTAGTGCATTA
1 GAGCA-TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTAGGGTAGTGCATTA
29865251 TGTAAGGATTAATAAAATAAA
65 TGTAAGGA-TAATAAAATAAA
*
29865272 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTAGGGTAGTGCATTAT
29865337 GTAAGGATAATAAAATAAA
66 GTAAGGATAATAAAATAAA
29865356 GAGCATGGG
1 GAGCATGGG
29865365 CAATAAATAT
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
84 21 0.23
85 66 0.72
86 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (84 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTAGGGTAGTGCATTAT
GTAAGGATAATAAAATAAA
Found at i:29866623 original size:39 final size:40
Alignment explanation
Indices: 29866523--29866706 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
29866513 TCGAATGATG
* * *
29866523 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
29866562 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
29866603 TCCGGGCAAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* ** *
29866642 TCTGGATTAAGTCTCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29866681 AACCGGGCTATGTCCCGAAGGCATTT
1 -TCCGGGCTAAGTCCCGAAGGCATTT
29866707 TAACGAGTAG
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 32 0.28
40 74 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29868281 original size:48 final size:49
Alignment explanation
Indices: 29868209--29868952 Score: 989
Period size: 48 Copynumber: 15.6 Consensus size: 49
29868199 ATATAGATAC
*
29868209 TTCACATTCATCACACATCGGCCATTAGGCCCTATCACATATATATAACACT
1 TTCACATTCAT--CACATCGGCCATTAGGCCTTATCACATATATAT-ACACT
*
29868261 TTCAC-TTCATCACATC-GCCATTAGGCCCTATCACATATATATACAC-
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
29868307 TTCACATTCATTCACATCGG-CATTAGGCCTTATCAC--GTATATACACT
1 TTCACATTCA-TCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
29868354 TTCACATTCATTCACATC-G-CACTTAAGGCCTTATCACATATATAT-TACT
1 TTCACATTCA-TCACATCGGCCA-TT-AGGCCTTATCACATATATATACACT
*
29868403 TTCACATTCATCACATC-GCCATTA-GCCCTATCACATATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
**
29868450 TTCACATTCATCACATCGGCCATTAGGCCTTATCA-ACGTATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
29868498 TTCACATTC-TCACATCGGCCATTAGGCCTTATCACATATATAT--ACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
29868544 TTCACATTCAT-ACATCGGCCATTAGGCCTTAATCAC--ATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTT-ATCACATATATATACACT
*
29868591 TTCACATTCATCACATCGGTCCATTAGGCAC-TATCACATATGTATACAC-
1 TTCACATTCATCACATCGG-CCATTAGGC-CTTATCACATATATATACACT
*
29868640 TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--GTATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
29868687 TTCACATTCATCACAATCGGCCATTAGGCCTTATCACATATATATAC-CT
1 TTCACATTCATCAC-ATCGGCCATTAGGCCTTATCACATATATATACACT
*
29868736 TTCACAATTCATCACA-CGGCCATTAGGCCTTA-CAC---GATATA-ACT
1 TTCAC-ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
29868780 TTCACATTCATCACATCGG-CATTAGGCC-TATCACAATATAGATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATATACACT
29868828 TTCACATTCATCACATCGGCCATTAGGCCTTAT--CATATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
* *
29868875 TTCACGTTCATCACATCGGCCATTAGGCCTTATCATATATA-ATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
29868923 TTCACCGTTCATCCACATCGGCCATTAGGC
1 TTCA-CATTCAT-CACATCGGCCATTAGGC
29868953 TTCGCATCAT
Statistics
Matches: 629, Mismatches: 21, Indels: 86
0.85 0.03 0.12
Matches are distributed among these distances:
42 2 0.00
43 22 0.03
44 15 0.02
45 6 0.01
46 73 0.12
47 160 0.25
48 202 0.32
49 88 0.14
50 51 0.08
51 5 0.01
52 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
Found at i:29868596 original size:237 final size:238
Alignment explanation
Indices: 29868209--29868952 Score: 1006
Period size: 237 Copynumber: 3.1 Consensus size: 238
29868199 ATATAGATAC
* *
29868209 TTCACATTCATCACACATCGGCCATTAGGCCCTATCACATATATATAACACTTTCAC-TTCATCA
1 TTCACATTCATC-CACATCGGCCATTAGGCCTTATCA-ACATATAT-ACACTTTCACATTCATCA
* *
29868273 CATC-GCCATTAGGCCCTATCACATATATATACACTTCACATTCATTCACATCGGCATTAGGCCT
63 CATCGGCCATTAGGCCTTATCACATATATATAC-TTTCACATTCA-TCACATCGGCATTAGGCCT
*
29868337 TATCACGTATATACACTTTCACATTCATTCACATC-G-CACTTAAGGCCTTATCACATATATATT
126 TATCACATATATACACTTTCACATTCA-TCACATCGGCCA-TT-AGGCCTTATCACATATATA-T
*
29868400 ACTTTCACATTCATCACATC-GCCATTA-GCCCTATCACATATATATACACT
187 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
29868450 TTCACATTCAT-CACATCGGCCATTAGGCCTTATCAACGTATATACACTTTCACATTC-TCACAT
1 TTCACATTCATCCACATCGGCCATTAGGCCTTATCAACATATATACACTTTCACATTCATCACAT
29868513 CGGCCATTAGGCCTTATCACATATATATACTTTCACATTCAT-ACATCGGCCATTAGGCCTTAAT
66 CGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGG-CATTAGGCCTT-AT
* *
29868577 CACATATATACACTTTCACATTCATCACATCGGTCCATTAGGCAC-TATCACATATGTATACACT
129 CACATATATACACTTTCACATTCATCACATCGG-CCATTAGGC-CTTATCACATATATATAC-TT
*
29868641 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--GTATATACACT
191 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
29868687 TTCACATTCAT-CACAATCGGCCATTAGGCCTTATC-ACATATATATACCTTTCACAATTCATCA
1 TTCACATTCATCCAC-ATCGGCCATTAGGCCTTATCAACATATATACA-CTTTCAC-ATTCATCA
*
29868750 CA-CGGCCATTAGGCCTTA-CAC-GATATA-ACTTTCACATTCATCACATCGGCATTAGGCC-TA
63 CATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCATTAGGCCTTA
* *
29868810 TCACAATATAGATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACT
128 TCAC-ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACT
* *
29868875 TTCACGTTCATCACATCGGCCATTAGGCCTTATCATATATA-ATACACT
190 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
29868923 TTCACCGTTCATCCACATCGGCCATTAGGC
1 TTCA-CATTCATCCACATCGGCCATTAGGC
29868953 TTCGCATCAT
Statistics
Matches: 458, Mismatches: 21, Indels: 52
0.86 0.04 0.10
Matches are distributed among these distances:
234 5 0.01
235 47 0.10
236 78 0.17
237 179 0.39
238 79 0.17
239 54 0.12
240 5 0.01
241 11 0.02
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (238 bp):
TTCACATTCATCCACATCGGCCATTAGGCCTTATCAACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACA
TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
Found at i:29870989 original size:10 final size:10
Alignment explanation
Indices: 29870974--29870998 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29870964 GGTGTTTGGG
29870974 TTGTTTTTTT
1 TTGTTTTTTT
29870984 TTGTTTTTTT
1 TTGTTTTTTT
29870994 TTGTT
1 TTGTT
29870999 GTTGTGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:29871058 original size:37 final size:36
Alignment explanation
Indices: 29870974--29871059 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 36
29870964 GGTGTTTGGG
* *
29870974 TTGTTT-TTTTTTGTTTTTTTTTGTTGTTGTGGTTT
1 TTGTTTGTTTTTTGTTTTTGTGTGTTGTTGTGGTTT
*
29871009 GTGCTTTGGTTTTTT-TTTTTGTGTGTTGTTGTCTGGTTT
1 TTG-TTT-GTTTTTTGTTTTTGTGTGTTGTTG--TGGTTT
29871048 TTGTTTGTTTTT
1 TTGTTTGTTTTT
29871060 GAAATCATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
35 2 0.05
36 3 0.07
37 20 0.48
38 9 0.21
39 8 0.19
ACGTcount: A:0.00, C:0.02, G:0.23, T:0.74
Consensus pattern (36 bp):
TTGTTTGTTTTTTGTTTTTGTGTGTTGTTGTGGTTT
Found at i:29871059 original size:34 final size:35
Alignment explanation
Indices: 29870975--29871059 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 35
29870965 GTGTTTGGGT
* *
29870975 TGTTTTTTTTTGTTTTTTTTTGTTGTTGTGGTTTG
1 TGTTTTTGTTTGTTTTTTTTTGTTGTTGTGGTCTG
* * *
29871010 TG-CTTTGGTT-TTTTTTTTTGTGTGTTGTTGTCTG
1 TGTTTTTGTTTGTTTTTTTTTGT-TGTTGTGGTCTG
29871044 -GTTTTTGTTTGTTTTT
1 TGTTTTTGTTTGTTTTT
29871060 GAAATCATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
33 12 0.30
34 21 0.52
35 7 0.17
ACGTcount: A:0.00, C:0.02, G:0.24, T:0.74
Consensus pattern (35 bp):
TGTTTTTGTTTGTTTTTTTTTGTTGTTGTGGTCTG
Found at i:29871334 original size:38 final size:38
Alignment explanation
Indices: 29871155--29871323 Score: 242
Period size: 38 Copynumber: 4.5 Consensus size: 38
29871145 CACACAATGC
29871155 TCGGAC-TAACCCGGATTTAACAACTCGCACG--TGCCT
1 TCGGACTTAACCCGGA-TTAACAACTCGCACGAATGCCT
*
29871191 TCGGACTTAA-CCGGTTTTAACAATCTC-CACGAATGCCT
1 TCGGACTTAACCCGG-ATTAACAA-CTCGCACGAATGCCT
29871229 TCGGACTTAACCCGGATTAACAACTCG-ACAGAATGCCT
1 TCGGACTTAACCCGGATTAACAACTCGCAC-GAATGCCT
29871267 TCGGACTTAACCCGGATTAACAACTCGCACGAATGCCT
1 TCGGACTTAACCCGGATTAACAACTCGCACGAATGCCT
29871305 TCGGGACTTAACCCGGATT
1 TC-GGACTTAACCCGGATT
29871324 TGGTATCGCA
Statistics
Matches: 121, Mismatches: 2, Indels: 17
0.86 0.01 0.12
Matches are distributed among these distances:
36 21 0.17
37 11 0.09
38 67 0.55
39 22 0.18
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (38 bp):
TCGGACTTAACCCGGATTAACAACTCGCACGAATGCCT
Found at i:29887530 original size:27 final size:27
Alignment explanation
Indices: 29887478--29887573 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 27
29887468 ATATTAAGTC
*
29887478 CGCACACTCAGTGC-ATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
29887504 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* * * *
29887531 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAACT
29887560 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29887574 CAATCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 13 0.21
27 31 0.50
29 18 0.29
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:29892319 original size:14 final size:14
Alignment explanation
Indices: 29892302--29892335 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29892292 ATATGTTATA
29892302 ATAATAAAATGTAT
1 ATAATAAAATGTAT
* *
29892316 ATAATTATATGTAT
1 ATAATAAAATGTAT
29892330 ATAATA
1 ATAATA
29892336 CAAGTTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (14 bp):
ATAATAAAATGTAT
Found at i:29899211 original size:37 final size:37
Alignment explanation
Indices: 29899161--29899239 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29899151 TTATTACGAA
* * *
29899161 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
29899198 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
29899235 GTCTT
1 GTCTT
29899240 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:29899494 original size:46 final size:46
Alignment explanation
Indices: 29899406--29899857 Score: 680
Period size: 46 Copynumber: 10.0 Consensus size: 46
29899396 ACTCGGCCTG
*
29899406 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTA
*
29899453 TCACATATATACACTTTCACATTCATCACATCGGCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCATTAGGCCTTA
* *
29899499 TCACACACATACACTTTCACATTCATCACGTCGGCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCATTAGGCCTTA
29899545 TCACAC--ATACACTTTCACA-T--TCACATCGGC-TTA-----T-
1 TCACACATATACACTTTCACATTCATCACATCGGCATTAGGCCTTA
*
29899579 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGC-ATTAGGCCTTA
29899626 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC-TA
1 TCACACATATACACTTTCACATTCATCACATCGGC-ATTAGGCCTTA
29899672 TCACACATATACACTTTCACATTCATCACATCGGCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCATTAGGCCTTA
29899718 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTA
**
29899765 TCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TA
1 TCACACATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTA
*
29899811 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTA
29899858 CTATCATTTC
Statistics
Matches: 380, Mismatches: 9, Indels: 32
0.90 0.02 0.08
Matches are distributed among these distances:
34 6 0.02
35 1 0.00
36 13 0.03
37 1 0.00
39 9 0.02
40 3 0.01
41 12 0.03
43 1 0.00
44 13 0.03
45 8 0.02
46 180 0.47
47 133 0.35
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (46 bp):
TCACACATATACACTTTCACATTCATCACATCGGCATTAGGCCTTA
Found at i:29899527 original size:93 final size:93
Alignment explanation
Indices: 29899357--29899855 Score: 690
Period size: 93 Copynumber: 5.5 Consensus size: 93
29899347 GCCTTCGGGA
* * * * * * * * *
29899357 CTTATCACATTTATGCACTTTCACATCCAT-ACGTTGGCCACTCGGCCTGTCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACACATATACACT
29899421 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
*
29899449 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACACACATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACACATATACAC
*
29899513 TTTCACATTCATCACGTCGG-CATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
*
29899541 CTTATCAC--ACATACACTTTCACA-T--TCACATCGG-C-TTA----T-TCACACATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACACATATACACT
* *
29899594 TTCACATTCATCACGTCGGCTATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
* *
29899622 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTATCACACATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACACATATACACT
29899687 TTCACATTCATCACATCGG-CATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
* **
29899714 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACACATATACAC
29899779 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
29899808 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
29899856 TACTATCATT
Statistics
Matches: 368, Mismatches: 22, Indels: 34
0.87 0.05 0.08
Matches are distributed among these distances:
80 33 0.09
81 16 0.04
83 14 0.04
84 1 0.00
86 12 0.03
87 10 0.03
88 3 0.01
89 1 0.00
90 14 0.04
92 106 0.29
93 149 0.40
94 9 0.02
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACACATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:29899698 original size:173 final size:178
Alignment explanation
Indices: 29899406--29899855 Score: 691
Period size: 173 Copynumber: 2.5 Consensus size: 178
29899396 ACTCGGCCTG
*
29899406 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
29899471 ACATTCATCACATCGGCATTAGGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCAT
66 ACATTCATCACATCGGCATTAGGCC-TATCACACACATACACTTTCACATTCATCACATCGGCAT
29899536 TAGGCCTTATCACAC-ATACACTTTCACA-T-TCACATCGG-C-TTA-T
130 TAGGCCTTATCACACAATACACTTTCACATTATCACATCGGCCATTACT
* * *
29899579 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTC
1 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
29899644 ACATTCATCACATCGGCTATTAGGCCTATCACACATATACACTTTCACATTCATCACATCGGCAT
66 ACATTCATCACATCGGC-ATTAGGCCTATCACACACATACACTTTCACATTCATCACATCGGCAT
29899709 TAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
130 TAGGCCTTATCACACA-ATACACTTTCACATT-ATCACATCGGCCATTA---CT
29899763 T-ATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACACT
1 TCA-CAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
29899826 TTCACATTCATCACATCGGCCATTAGGCCT
63 TTCACATTCATCACATCGG-CATTAGGCCT
29899856 TACTATCATT
Statistics
Matches: 252, Mismatches: 9, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
173 130 0.52
174 8 0.03
175 13 0.05
176 1 0.00
178 9 0.04
179 1 0.00
180 3 0.01
183 1 0.00
184 5 0.02
185 44 0.17
186 37 0.15
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (178 bp):
TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCATTAGGCCTATCACACACATACACTTTCACATTCATCACATCGGCATT
AGGCCTTATCACACAATACACTTTCACATTATCACATCGGCCATTACT
Found at i:29899758 original size:139 final size:141
Alignment explanation
Indices: 29899574--29899857 Score: 500
Period size: 139 Copynumber: 2.0 Consensus size: 141
29899564 TTCACATCGG
* *
29899574 CTTATTCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACA
1 CTTATTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACA
*
29899639 CTTTCACATTCATCACATCGGCTATTAGGCCTATCACACATATACACTTTCACATTCATCACATC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTATCACACATATACACTTTCACATTCATCACATC
29899704 GG-CATTAGGC
131 GGCCATTAGGC
**
29899714 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACA
1 CTTATTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACA
*
29899778 CTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTTCACATTCATCACATC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTATCACACATATACACTTTCACATTCATCACATC
29899843 GGCCATTAGGC
131 GGCCATTAGGC
29899854 CTTA
1 CTTA
29899858 CTATCATTTC
Statistics
Matches: 137, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
139 121 0.88
140 16 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (141 bp):
CTTATTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTATCACACATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:29903810 original size:29 final size:29
Alignment explanation
Indices: 29903771--29903849 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
29903761 CTTAATAATC
*
29903771 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
29903801 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
29903830 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
29903850 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:29903892 original size:43 final size:43
Alignment explanation
Indices: 29903831--29903975 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
29903821 TGCATTTCAA
29903831 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29903874 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29903917 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29903960 G-CCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
29903976 TGAAAACCAA
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
42 15 0.15
43 87 0.85
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:29905870 original size:36 final size:37
Alignment explanation
Indices: 29905798--29905875 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
29905788 TTATTACGAA
* * *
29905798 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAAACCCCACACGAAGTCATCGG
*
29905835 GTCTTACCCGGACA-AAACCCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAAACCCCACACGAAGTCATCGG
29905871 GTCTT
1 GTCTT
29905876 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 23 0.62
37 14 0.38
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAAACCCCACACGAAGTCATCGG
Found at i:29906279 original size:47 final size:47
Alignment explanation
Indices: 29906042--29906550 Score: 795
Period size: 47 Copynumber: 11.0 Consensus size: 47
29906032 CACTCACCTG
* *
29906042 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
29906089 T--CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
29906134 TCACAC--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
29906179 TCACACATATACACTTTCACATTCATCACA-C--CTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
29906223 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
29906270 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCCTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
29906317 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
29906364 TCACAC-TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
** *
29906410 TCACGTATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*** *
29906456 TCATGTATATACACTTTCACATTCATCACATCGGC-ATTAGGCCCTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
* *
29906502 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
29906551 CTATCATTTC
Statistics
Matches: 436, Mismatches: 14, Indels: 22
0.92 0.03 0.05
Matches are distributed among these distances:
44 43 0.10
45 96 0.22
46 87 0.20
47 170 0.39
48 30 0.07
49 10 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
Found at i:29906543 original size:94 final size:92
Alignment explanation
Indices: 29906042--29906550 Score: 771
Period size: 93 Copynumber: 5.5 Consensus size: 92
29906032 CACTCACCTG
*
29906042 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATACACTTTCAC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACTTTCAC
29906107 ATTCATCACATCGGCTATTAGGCCTTA
66 ATTCATCACATCGGCTATTAGGCCTTA
* *
29906134 TCAC--ACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATACACTTTC
29906197 ACATTCATCACA-C--CTATTAGGCCTTA
64 ACATTCATCACATCGGCTATTAGGCCTTA
* *
29906223 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATACACTTTC
*
29906288 ACATTCATCACATCGGCTATTAGGCCCTA
64 ACATTCATCACATCGGCTATTAGGCCTTA
* * *
29906317 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACTATACACTTTCA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-TATACACTTTCA
*
29906382 CATTCATCACATCGGCCATTAGGCCTTA
65 CATTCATCACATCGGCTATTAGGCCTTA
* *
29906410 TCACGTATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCATGTATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA--CATATACACTTTC
*
29906474 ACATTCATCACATCGGC-ATTAGGCCCTA
64 ACATTCATCACATCGGCTATTAGGCCTTA
29906502 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29906551 CTATCATTTC
Statistics
Matches: 389, Mismatches: 15, Indels: 23
0.91 0.04 0.05
Matches are distributed among these distances:
89 17 0.04
90 40 0.10
91 71 0.18
92 56 0.14
93 104 0.27
94 97 0.25
95 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (92 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACTTTCAC
ATTCATCACATCGGCTATTAGGCCTTA
Found at i:29910118 original size:14 final size:14
Alignment explanation
Indices: 29910101--29910134 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29910091 ATATGTTATA
29910101 ATAATAAAATGTAT
1 ATAATAAAATGTAT
* *
29910115 ATAATTATATGTAT
1 ATAATAAAATGTAT
29910129 ATAATA
1 ATAATA
29910135 TAAGTTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (14 bp):
ATAATAAAATGTAT
Found at i:29918136 original size:18 final size:17
Alignment explanation
Indices: 29918109--29918142 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
29918099 ATCTCTCAAG
29918109 CACATATTTAATAACTTT
1 CACATATTTAA-AACTTT
*
29918127 CACATGTTTAAAACTT
1 CACATATTTAAAACTT
29918143 ATATCTCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (17 bp):
CACATATTTAAAACTTT
Found at i:29920172 original size:48 final size:48
Alignment explanation
Indices: 29920097--29920239 Score: 232
Period size: 48 Copynumber: 3.0 Consensus size: 48
29920087 ACTCAAAAGT
* * * *
29920097 CTCACACCCTAAGTGCCAATATCATGGCTCGAAGCCAAGTCAATGAAG
1 CTCACACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGAAG
*
29920145 CTCGCACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGAAG
1 CTCACACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGAAG
*
29920193 CTCACACCCGAAGTGCAGATATCATGGCCCGAAGCCAAATCAATGAA
1 CTCACACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGAA
29920240 TTCCCTAATG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (48 bp):
CTCACACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGAAG
Found at i:29920502 original size:27 final size:27
Alignment explanation
Indices: 29920463--29920531 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
29920453 AGAACTTTGT
* *
29920463 CTTTCCTTCGATCTAGATCCGAGTTTCA
1 CTTTTCTT-GATCTAGATCCAAGTTTCA
* ** *
29920491 CTTTTCTTGATCTATATGTAATTTTCA
1 CTTTTCTTGATCTAGATCCAAGTTTCA
29920518 CTTTTCTTGATCTA
1 CTTTTCTTGATCTA
29920532 TATGTAATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
27 28 0.80
28 7 0.20
ACGTcount: A:0.19, C:0.22, G:0.10, T:0.49
Consensus pattern (27 bp):
CTTTTCTTGATCTAGATCCAAGTTTCA
Found at i:29920532 original size:27 final size:27
Alignment explanation
Indices: 29920486--29920539 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
29920476 TAGATCCGAG
29920486 TTTCACTTTTCTTGATCTATATGTAAT
1 TTTCACTTTTCTTGATCTATATGTAAT
29920513 TTTCACTTTTCTTGATCTATATGTAAT
1 TTTCACTTTTCTTGATCTATATGTAAT
29920540 CAAAATTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (27 bp):
TTTCACTTTTCTTGATCTATATGTAAT
Found at i:29928332 original size:38 final size:37
Alignment explanation
Indices: 29928290--29928367 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 37
29928280 AACCAGATAG
29928290 TTGTAGCCCTGGAGGGCTAGCATAAGACAACTTTATAC
1 TTGTAGCCCTGGAGGGCTAGCATAAGACAACTTTA-AC
*
29928328 TTGTAGCCCTGGAGGGCTAGCATAAGATAACTTTAAC
1 TTGTAGCCCTGGAGGGCTAGCATAAGACAACTTTAAC
29928365 TTG
1 TTG
29928368 CTCGTACAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 5 0.13
38 34 0.87
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (37 bp):
TTGTAGCCCTGGAGGGCTAGCATAAGACAACTTTAAC
Found at i:29930404 original size:46 final size:46
Alignment explanation
Indices: 29930347--29930437 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
29930337 GAGAATATGG
**
29930347 ATTCAGGTTCCCAGTTCCTGTATACGTTACAAACTAGAGAATACAA
1 ATTCAGGTTCCCAACTCCTGTATACGTTACAAACTAGAGAATACAA
* * * * *
29930393 ATTCAGGTTCCCAACTCTTGTATATGTTGCGAACTTGAGAATACA
1 ATTCAGGTTCCCAACTCCTGTATACGTTACAAACTAGAGAATACA
29930438 TGTTTACGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (46 bp):
ATTCAGGTTCCCAACTCCTGTATACGTTACAAACTAGAGAATACAA
Found at i:29932259 original size:70 final size:70
Alignment explanation
Indices: 29932171--29932518 Score: 556
Period size: 70 Copynumber: 5.0 Consensus size: 70
29932161 GATATGCTAT
* * *
29932171 TGTAAA-TATTGGTAGTCCAAATTAGGACAAATTCATGGTTCTTAGCTAATTAATATGTTGCTAT
1 TGTAAATTATTGGTTGTCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGTTGCTGT
29932235 TATAC
66 TATAC
* * *
29932240 TATAAATTATTGGTTGTCCAAATTAGGATAAATTCATGGTGCTTAGCTAGTTAATATGTTGCTGT
1 TGTAAATTATTGGTTGTCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGTTGCTGT
29932305 TATAC
66 TATAC
*
29932310 TTTAAATTATTGGTTGTCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGCTT-CTG
1 TGTAAATTATTGGTTGTCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATG-TTGCTG
29932374 TTATAC
65 TTATAC
* * *
29932380 TGTAAATTATTGGCTGTACAAATTAGGACAAATTTATGGTGCTTAGCTAATTAATATGTTGCTGT
1 TGTAAATTATTGGTTGTCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGTTGCTGT
29932445 TATAC
66 TATAC
* * *
29932450 TGTAAATTATTGGTTGTCCAAATTAGGACAAATTCATGGTGTTTAGCTAATTAAAATGTTGTTGT
1 TGTAAATTATTGGTTGTCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGTTGCTGT
29932515 TATA
66 TATA
29932519 ATATGAATCG
Statistics
Matches: 257, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
69 7 0.03
70 248 0.96
71 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (70 bp):
TGTAAATTATTGGTTGTCCAAATTAGGACAAATTCATGGTGCTTAGCTAATTAATATGTTGCTGT
TATAC
Found at i:29937774 original size:20 final size:20
Alignment explanation
Indices: 29937749--29937835 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
29937739 GTTTTGGCAT
29937749 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
29937769 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
29937789 TCATGATATGTATGACATGC
1 ACATGATATGTATGATATGC
* *
29937809 ATAAGATATGTATGATATGC
1 ACATGATATGTATGATATGC
29937829 ACATGAT
1 ACATGAT
29937836 GTATTCATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 56 0.97
21 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29937776 original size:11 final size:10
Alignment explanation
Indices: 29937759--29937828 Score: 65
Period size: 9 Copynumber: 7.0 Consensus size: 10
29937749 ACATGATTGA
29937759 TATGATATGC
1 TATGATATGC
*
29937769 ACATGATATG-
1 -TATGATATGC
29937779 TATGATATGC
1 TATGATATGC
29937789 TCATGATATG-
1 T-ATGATATGC
*
29937799 TATGACATGC
1 TATGATATGC
*
29937809 ATAAGATATG-
1 -TATGATATGC
29937819 TATGATATGC
1 TATGATATGC
29937829 ACATGATGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
9 23 0.48
10 2 0.04
11 23 0.48
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (10 bp):
TATGATATGC
Found at i:29943471 original size:20 final size:20
Alignment explanation
Indices: 29943446--29943532 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
29943436 GTTTTGGTAT
29943446 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
29943466 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29943486 TCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29943506 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
29943526 ACATGAT
1 ACATGAT
29943533 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29943473 original size:11 final size:9
Alignment explanation
Indices: 29943457--29943524 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 9
29943447 CATGATTGAT
29943457 ATGATATGCAC
1 ATGATATG--C
*
29943468 ATGATATGT
1 ATGATATGC
29943477 ATGATATGCTC
1 ATGATATG--C
*
29943488 ATGATATGT
1 ATGATATGC
29943497 ATGATATGCAC
1 ATGATATG--C
*
29943508 ATGATATGT
1 ATGATATGC
29943517 ATGATATG
1 ATGATATG
29943525 TACATGATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
9 24 0.50
11 24 0.50
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (9 bp):
ATGATATGC
Found at i:29943480 original size:9 final size:9
Alignment explanation
Indices: 29943468--29943526 Score: 73
Period size: 9 Copynumber: 6.1 Consensus size: 9
29943458 TGATATGCAC
29943468 ATGATATGT
1 ATGATATGT
29943477 ATGATATGCT
1 ATGATATG-T
29943487 CATGATATGT
1 -ATGATATGT
*
29943497 ATGATATGCAC
1 ATGATATG--T
29943508 ATGATATGT
1 ATGATATGT
29943517 ATGATATGT
1 ATGATATGT
29943526 A
1 A
29943527 CATGATGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 26 0.59
10 2 0.05
11 16 0.36
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (9 bp):
ATGATATGT
Found at i:29943546 original size:40 final size:39
Alignment explanation
Indices: 29943460--29943546 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 39
29943450 GATTGATATG
*
29943460 ATATGCACATGATATGTATGATATGCTCATGATATGTATG
1 ATATGCACATGATATGTATGATATGCTCATGA-ATGTATC
29943500 ATATGCACATGATATGTATGATATG-TACATG-ATGTATTC
1 ATATGCACATGATATGTATGATATGCT-CATGAATGTA-TC
29943539 ATAATGCA
1 AT-ATGCA
29943547 ATGGGTTGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
38 5 0.12
39 4 0.09
40 34 0.79
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (39 bp):
ATATGCACATGATATGTATGATATGCTCATGAATGTATC
Found at i:29943637 original size:24 final size:24
Alignment explanation
Indices: 29943580--29943662 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
29943570 AGGAAGTGCA
* *
29943580 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
29943604 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
29943629 AAAAGGGCTTTTGCCCCAG-TTATT
1 AAAAGGGC-TTTGCCCCAGTTTATC
29943653 AAAAGAGGCT
1 AAAAG-GGCT
29943663 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
24 18 0.34
25 35 0.66
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:29958058 original size:20 final size:19
Alignment explanation
Indices: 29958016--29958059 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
29958006 AGAAATAGAA
*
29958016 ATGAAATGTGAAATGGATC
1 ATGAAATGTGAAATGAATC
* *
29958035 ATGAAATGGTGAATTGAATT
1 ATGAAAT-GTGAAATGAATC
29958055 ATGAA
1 ATGAA
29958060 TATTAATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (19 bp):
ATGAAATGTGAAATGAATC
Found at i:29969819 original size:26 final size:26
Alignment explanation
Indices: 29969783--29969890 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
29969773 TGAAATTCCA
29969783 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
29969809 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
29969835 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
29969861 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
29969887 ATCA
1 ATCA
29969891 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:29976671 original size:26 final size:26
Alignment explanation
Indices: 29976635--29976742 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
29976625 TGAAATTCCA
29976635 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29976661 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
29976687 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
29976713 ATCATGGAACATTTACCAAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29976739 ATCA
1 ATCA
29976743 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29977143 original size:43 final size:42
Alignment explanation
Indices: 29977082--29977228 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 42
29977072 CAATGCTGAC
* * *
29977082 GTCCCGGACATGGTCTTACATGTAATTCAGTATCGATACCTCT
1 GTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCCT-T
*
29977125 GTCCCAGACATGGTCTTACACGAAATT-AGGTA-CGATGCCTT
1 GTCCCAGACATGGTCTTACACGTAATTCA-GTATCGATGCCTT
* * *
29977166 GTCCCAAACATGGTCTTACACGTAAATCTCA-AATCGAGGCCTAT
1 GTCCCAGACATGGTCTTACACGT-AAT-TCAGTATCGATGCCT-T
*
29977210 GTCCCAGACACGGTCTTAC
1 GTCCCAGACATGGTCTTAC
29977229 TCAATATATC
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
41 22 0.25
42 12 0.14
43 35 0.40
44 19 0.22
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCCTT
Found at i:29983165 original size:64 final size:64
Alignment explanation
Indices: 29983084--29983267 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
29983074 AGACATTATG
* * *
29983084 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
29983148 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
29983213 AA
63 AA
* * * *
29983215 ACTG--GCTAGGTCACATGGGTGGTCCTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
29983268 CGAACTATAT
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 26 0.26
66 22 0.22
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:29983201 original size:67 final size:64
Alignment explanation
Indices: 29983060--29983213 Score: 182
Period size: 67 Copynumber: 2.3 Consensus size: 64
29983050 CATCATGTGT
* * * *
29983060 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATG
29983125 TAG
62 TAG
* * *
29983128 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACCATGT
29983193 AG
63 AG
29983195 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
29983214 AACTGGCTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
64 25 0.33
65 3 0.04
66 4 0.05
67 30 0.40
68 13 0.17
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAG
Found at i:29991199 original size:22 final size:24
Alignment explanation
Indices: 29991163--29991215 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
29991153 ACTTTGGGAA
29991163 GAAGAAGAACATGGA-AAAAAAGG
1 GAAGAAGAACATGGAGAAAAAAGG
* *
29991186 GAAGAA-ATCATGGAGAAAAAA-A
1 GAAGAAGAACATGGAGAAAAAAGG
29991208 GAAGAAGA
1 GAAGAAGA
29991216 GAAGAGGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.62, C:0.04, G:0.28, T:0.06
Consensus pattern (24 bp):
GAAGAAGAACATGGAGAAAAAAGG
Found at i:29997158 original size:37 final size:37
Alignment explanation
Indices: 29997099--29997177 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29997089 AGCTCAGACG
* *
29997099 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
29997136 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
29997173 TAATC
1 AAATC
29997178 AGTGATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:29997196 original size:25 final size:25
Alignment explanation
Indices: 29997162--29997211 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
29997152 TCATCGGGTC
29997162 TTACCCGGACATAATCAGTGATAAT
1 TTACCCGGACATAATCAGTGATAAT
29997187 TTACCCGGACATAATCAGTGATAAT
1 TTACCCGGACATAATCAGTGATAAT
29997212 ATTCTCGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
TTACCCGGACATAATCAGTGATAAT
Found at i:29997450 original size:49 final size:49
Alignment explanation
Indices: 29997276--29997743 Score: 776
Period size: 49 Copynumber: 9.7 Consensus size: 49
29997266 CCCTTCGGGA
*
29997276 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29997323 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29997370 CTTATCAC--ATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29997417 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29997466 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29997515 CTTATCACACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTAT--CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29997566 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29997615 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29997662 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29997711 CTTATCAC--ATATATACAGTTTCACATTCATCAC
1 CTTATCACATATATATACACTTTCACATTCATCAC
29997744 GTAGAATCCT
Statistics
Matches: 400, Mismatches: 13, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
46 1 0.00
47 167 0.42
49 185 0.46
51 47 0.12
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29997476 original size:96 final size:95
Alignment explanation
Indices: 29997276--29997743 Score: 760
Period size: 96 Copynumber: 4.9 Consensus size: 95
29997266 CCCTTCGGGA
* *
29997276 CTTATCAC-ATTTATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
29997340 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
29997370 CTTATCAC-ATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
*
29997434 CACTTTCACATTCATCACATCGGCTATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
29997466 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CAC--ATAT
* *
29997531 ATACACTTTCACATTCATCACATTGGCCATTCGGC
61 ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29997566 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29997631 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
29997662 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29997727 AGTTTCACATTCATCAC
65 ACTTTCACATTCATCAC
29997744 GTAGAATCCT
Statistics
Matches: 356, Mismatches: 12, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
94 52 0.15
96 164 0.46
98 46 0.13
100 94 0.26
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30000069 original size:79 final size:79
Alignment explanation
Indices: 29999986--30000164 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 79
29999976 CTCATTCAAT
* * *
29999986 GCCTTCAGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGA-CTTAACCCGGA-AT
1 GCCTTC-GGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATA-
*
30000048 TAGT-A-TCTCGCACAAA
63 TAGTCACT-TAGCACAAA
* **
30000064 GGCCTTCGGGACGTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATAT
1 -GCCTTC-GGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATAT
30000129 AGTCACTTAGCACAAA
64 AGTCACTTAGCACAAA
*
30000145 GCCTTCGGACTTAGCCCGGA
1 GCCTTCGGACTTAACCCGGA
30000165 CAGCATTCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
78 4 0.05
79 51 0.60
80 19 0.22
81 10 0.12
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (79 bp):
GCCTTCGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATATAG
TCACTTAGCACAAA
Found at i:30000125 original size:40 final size:39
Alignment explanation
Indices: 29999983--30000164 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 39
29999973 TAACTCATTC
* *
29999983 AATGCCTTCAGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTC-GGACTTAACCCGGA-ATTAATAACTCGCACA
* *
30000023 AATGCCTTCGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGACTTAACCCGGAATTAATAACTCGCACA
* *
30000062 AAGGCCTTCGGGACGTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTC-GGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
30000102 AATACCTTCGGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
30000143 AA-GCCTTCGGACTTAGCCCGGA
1 AATGCCTTCGGACTTAACCCGGA
30000165 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.37
40 63 0.53
41 8 0.07
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:30004502 original size:39 final size:39
Alignment explanation
Indices: 30004449--30004896 Score: 503
Period size: 39 Copynumber: 11.8 Consensus size: 39
30004439 CACGGATATT
*
30004449 TAGCACG-ATGCTCTTCGGACTTAGCCCAGATACATCAC
1 TAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCAC
*
30004487 TAGCACGAATGCTCTTCGAGACTTAG-CCGGATACGTCAC
1 TAGCACGAATGCTCTTCG-GACTTAGCCCGGATACATCAC
* *
30004526 TAGCACGAATTCTCTT-AGA--TAG-CCGG----ATCAC
1 TAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCAC
30004557 TAGCACGAATGCTCTTCGAGAC-TAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCG-GACTTAGCCCGGATACATCAC
30004596 TAGCACGAATGC-CTTCGAGACTTAG-CCGGATACATCAC
1 TAGCACGAATGCTCTTCG-GACTTAGCCCGGATACATCAC
30004634 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGG-ACTTAGCCCGGATACATCAC
* * *
30004674 TACCACGAATGCTCTTCGAACTTA-TCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCAC
*
30004712 TAGCACGAATGCTCTTCGGACATAGTCCCCTGGATACATCAC
1 TAGCACGAATGCTCTTCGGACTTAG--CCC-GGATACATCAC
* *
30004754 TAGCACGAACGCTCTCTGGGAACTTAGCCC-GATACATCAC
1 TAGCACGAATGCTCT-TCGG-ACTTAGCCCGGATACATCAC
* *
30004794 T---A-GATTGCTC-TCGGAACTT-TCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGG-ACTTAGCCCGGATACATCAC
*
30004828 TAGCACGAATGCTCTTCGGAAACTTAGTCCGGATACATCAC
1 TAGCACGAATGCTCTTCGG--ACTTAGCCCGGATACATCAC
30004869 TAGCACG-A-GCTCTTCGGA-TTAGCCCGGA
1 TAGCACGAATGCTCTTCGGACTTAGCCCGGA
30004897 CATTTCACTC
Statistics
Matches: 357, Mismatches: 25, Indels: 58
0.81 0.06 0.13
Matches are distributed among these distances:
31 19 0.05
33 5 0.01
34 22 0.06
35 11 0.03
36 15 0.04
37 5 0.01
38 83 0.23
39 85 0.24
40 54 0.15
41 22 0.06
42 28 0.08
43 3 0.01
44 5 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (39 bp):
TAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCAC
Found at i:30004625 original size:38 final size:40
Alignment explanation
Indices: 30004552--30004896 Score: 397
Period size: 38 Copynumber: 8.9 Consensus size: 40
30004542 AGATAGCCGG
30004552 ATCACTAGCACGAATGCTCTTCGAGAC-TAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAC
30004591 ATCACTAGCACGAATGC-CTTCGAGACTTAG-CCGGATAC
1 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAC
30004629 ATCACTAGCACGAATGCTCTTCG-GAACTTAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGAG-ACTTAGCCCGGATAC
* *
30004669 ATCACTACCACGAATGCTCTTCGA-ACTTA-TCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAC
*
30004707 ATCACTAGCACGAATGCTCTTCG-GACATAGTCCCCTGGATAC
1 ATCACTAGCACGAATGCTCTTCGAGACTTAG--CCC-GGATAC
* *
30004749 ATCACTAGCACGAACGCTC-TCTGGGAACTTAGCCC-GATAC
1 ATCACTAGCACGAATGCTCTTC-GAG-ACTTAGCCCGGATAC
* *
30004789 ATCACT---A-GATTGCTC-TCG-GAACTT-TCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGAG-ACTTAGCCCGGATAC
* *
30004823 ATCACTAGCACGAATGCTCTTCGGAAACTTAGTCCGGATAC
1 ATCACTAGCACGAATGCTCTTC-GAGACTTAGCCCGGATAC
30004864 ATCACTAGCACG-A-GCTCTTCG-GA-TTAGCCCGGA
1 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGA
30004897 CATTTCACTC
Statistics
Matches: 268, Mismatches: 16, Indels: 47
0.81 0.05 0.14
Matches are distributed among these distances:
33 3 0.01
34 17 0.06
35 1 0.00
36 17 0.06
37 3 0.01
38 77 0.29
39 45 0.17
40 47 0.18
41 24 0.09
42 28 0.10
43 1 0.00
44 5 0.02
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAC
Found at i:30004811 original size:34 final size:34
Alignment explanation
Indices: 30004615--30004871 Score: 115
Period size: 40 Copynumber: 6.6 Consensus size: 34
30004605 TGCCTTCGAG
*
30004615 ACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGA
1 ACTTAGCCCGATACATCACT---A-GAATGCTC-TCGGA
30004654 ACTTAGCCCGGATACATCACTACCACGAATGCTCTTC-GA
1 ACTTAGCCC-GATACATCACT---A-GAATGCTC-TCGGA
* *
30004693 ACTTATCCGGATACATCACTAGCACGAATGCTCTTCGG-
1 ACTTAGCCCGATACATCACT---A-GAATGCTC-TCGGA
* *
30004731 ACATAGTCCCCTGGATACATCACTAGCACGAACGCTCTCTGGGA
1 ACTTAG--CCC--GATACATCACT---A-GAATGCTCTC--GGA
*
30004775 ACTTAGCCCGATACATCACTAGATTGCTCTCGGA
1 ACTTAGCCCGATACATCACTAGAATGCTCTCGGA
*
30004809 ACTT-TCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
1 ACTTAGCCC-GATACATCACT---A-GAATGCTC-TCGG-A
*
30004849 ACTTAGTCCGGATACATCACTAG
1 ACTTAG-CCCGATACATCACTAG
30004872 CACGAGCTCT
Statistics
Matches: 184, Mismatches: 16, Indels: 38
0.77 0.07 0.16
Matches are distributed among these distances:
33 3 0.02
34 18 0.10
36 8 0.04
37 3 0.02
38 38 0.21
39 22 0.12
40 44 0.24
41 13 0.07
42 28 0.15
43 2 0.01
44 5 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (34 bp):
ACTTAGCCCGATACATCACTAGAATGCTCTCGGA
Found at i:30004812 original size:116 final size:115
Alignment explanation
Indices: 30004560--30004896 Score: 435
Period size: 116 Copynumber: 2.9 Consensus size: 115
30004550 GGATCACTAG
**
30004560 CACGAATGCTCTTCGAGACTAGCCCGGATACATCACTAGCACGAATGC-CTTCGAGACTTAG-CC
1 CACGAATGCTCTTCGA-ACTTTCCCGGATACATCACTAGCACGAATGCTCTTCG-GACTTAGTCC
*
30004623 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
64 GGATACATCACTAGCACGAACGCTCTTCGGAACTTAGCCCGGATACATCACT
*
30004675 ACCACGAATGCTCTTCGAACTTAT-CCGGATACATCACTAGCACGAATGCTCTTCGGACATAGTC
1 --CACGAATGCTCTTCGAACTT-TCCCGGATACATCACTAGCACGAATGCTCTTCGGACTTAGT-
*
30004739 CCCTGGATACATCACTAGCACGAACGCTCTCTGGGAACTTAGCCC-GATACATCACT
62 -CC-GGATACATCACTAGCACGAACGCTCT-TCGGAACTTAGCCCGGATACATCACT
*
30004795 -A-GATTGCTC-TCGGAACTTTCCCGGATACATCACTAGCACGAATGCTCTTCGGAAACTTAGTC
1 CACGAATGCTCTTC-GAACTTTCCCGGATACATCACTAGCACGAATGCTCTTCGG--ACTTAGTC
30004857 CGGATACATCACTAGCACG-A-GCTCTTCGG-A-TTAGCCCGGA
63 CGGATACATCACTAGCACGAACGCTCTTCGGAACTTAGCCCGGA
30004897 CATTTCACTC
Statistics
Matches: 200, Mismatches: 8, Indels: 30
0.84 0.03 0.13
Matches are distributed among these distances:
110 7 0.04
111 3 0.01
112 3 0.01
113 5 0.03
114 1 0.00
115 21 0.10
116 81 0.41
117 22 0.11
118 6 0.03
119 2 0.01
120 36 0.18
121 13 0.06
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (115 bp):
CACGAATGCTCTTCGAACTTTCCCGGATACATCACTAGCACGAATGCTCTTCGGACTTAGTCCGG
ATACATCACTAGCACGAACGCTCTTCGGAACTTAGCCCGGATACATCACT
Found at i:30006288 original size:227 final size:223
Alignment explanation
Indices: 30005855--30006301 Score: 769
Period size: 227 Copynumber: 2.0 Consensus size: 223
30005845 GGCAGATAAA
30005855 CTTCACATAAAAGTGAGCTCATGTGACATAGATATCGTATGATTTCACATAACCCTCACATGATC
1 CTTCACATAAAAGTGAGCTCATGTGACATAGATATCGTATGATTTCACATAACCCTCACATGATC
30005920 CGATGTCACATAATATAGAATAGTCTCCTAGATTGTCTCGTATCATACATAACTACCTTATGATT
66 CGATGTCACATAATATAGAATAGTCTCCTAGATTGTCTCGTATCATACATAACTACCTTATGATT
30005985 TGTGCAAATCAAGCTCACATATAAACTTGGAGTACATACCTGTTTAACCTTTCGCATTGAATATA
131 TGTGCAAATCAAGCTCACATATAAACTTGGAGTACATACCTGTTTAACCTTTCGCATTGAATATA
30006050 TTTATAAGCATTCTTATTACGAAGTATC
196 TTTATAAGCATTCTTATTACGAAGTATC
30006078 CTTCACAT-AAAGTGAGCTCATGTGACATAGAT-TACTGTATGATTTCACATAACCTCTCACATG
1 CTTCACATAAAAGTGAGCTCATGTGACATAGATAT-C-GTATGATTTCACATAACC-CTCACATG
30006141 ATCCG-TGTCACATAATCATAGGAATAGTCT-CTAGATTGCTCTCGTATGCATCACATAACTACC
63 ATCCGATGTCACATAAT-ATA-GAATAGTCTCCTAGATTG-TCTCGTAT-CAT-ACATAACTACC
*
30006204 TTATGATTTAGTTCAAATCAAGCTCACATATAAACTTGGAGTACATACCTGTTTAACC-TTCGCA
123 TTATGATTT-GTGCAAATCAAGCTCACATATAAACTTGGAGTACATACCTGTTTAACCTTTCGCA
30006268 TTGAATATATTTATAAGCATTCTTATTACGAAGT
187 TTGAATATATTTATAAGCATTCTTATTACGAAGT
30006302 CTTATAGCTT
Statistics
Matches: 214, Mismatches: 1, Indels: 14
0.93 0.00 0.06
Matches are distributed among these distances:
221 1 0.00
222 25 0.12
223 37 0.17
224 24 0.11
225 17 0.08
226 3 0.01
227 60 0.28
228 47 0.22
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (223 bp):
CTTCACATAAAAGTGAGCTCATGTGACATAGATATCGTATGATTTCACATAACCCTCACATGATC
CGATGTCACATAATATAGAATAGTCTCCTAGATTGTCTCGTATCATACATAACTACCTTATGATT
TGTGCAAATCAAGCTCACATATAAACTTGGAGTACATACCTGTTTAACCTTTCGCATTGAATATA
TTTATAAGCATTCTTATTACGAAGTATC
Found at i:30006621 original size:45 final size:47
Alignment explanation
Indices: 30006522--30006927 Score: 575
Period size: 45 Copynumber: 8.7 Consensus size: 47
30006512 GCCTTCGGGA
* *
30006522 CTTATCACATTTATACACTTTCACATCCATCACATTCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
30006569 CTTATCACATAT-TACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30006614 CTTATCACATATATACACTTTCACATTCATCACATC-G-CATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30006658 CTT-TCACATATATATACTCTTTCACATTCATCACATC-GCCATTAGGCC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
* *
30006706 CTTATCACATATATATAAC-TTCACATTCATCACATTGGCCATT-GGC
1 CTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGC
*
30006752 CTTATCACACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30006801 CCTATCACATATATACA--TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30006846 CTTATCACATTATATACACTTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-TATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
30006895 CTTATCACATATATACACTTTCACATTCATCAC
1 CTTATCACATATATACACTTTCACATTCATCAC
30006928 GTAGAATCCT
Statistics
Matches: 328, Mismatches: 13, Indels: 36
0.87 0.03 0.10
Matches are distributed among these distances:
43 4 0.01
44 10 0.03
45 82 0.25
46 67 0.20
47 66 0.20
48 52 0.16
49 47 0.14
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30006895 original size:94 final size:92
Alignment explanation
Indices: 30006524--30006927 Score: 545
Period size: 92 Copynumber: 4.3 Consensus size: 92
30006514 CTTCGGGACT
* *
30006524 TATCACATTTATACACTTTCACATCCATCACATTCGGCATTAGGCCTTATCACATAT-TACACTT
1 TATCACATATATACAC-TTCACATTCATCACA-TCGGCATTAGGCCTTATCACATATATACACTT
*
30006588 TCACATTCATCACATCGGCCATTA-GCCT
64 TCACATTCATCACATCGGCCATTAGGCCC
*
30006616 TATCACATATATACACTTTCACATTCATCACATC-GCATTA-GCCTT-TCACATATATATACTCT
1 TATCACATATATACAC-TTCACATTCATCACATCGGCATTAGGCCTTATCAC--ATATATACACT
30006678 TTCACATTCATCACATC-GCCATTAGGCCC
63 TTCACATTCATCACATCGGCCATTAGGCCC
* *
30006707 TTATCACATATATATAACTTCACATTCATCACATTGGCCATT-GGCCTTATCACACATATATACA
1 -TATCACATATATA-CACTTCACATTCATCACATCGG-CATTAGGCCTTAT--CACATATATACA
*
30006771 CTTTCACATTCATCACATCGGCTATTAGGCCC
61 CTTTCACATTCATCACATCGGCCATTAGGCCC
30006803 TATCACATATATACA-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATTATATACACTT
1 TATCACATATATACACTTCACATTCATCACATCGG-CATTAGGCCTTATCACA-TATATACAC-T
* *
30006867 TTCACATTCATCACATCGGCTATTAGGCCT
63 TTCACATTCATCACATCGGCCATTAGGCCC
30006897 TATCACATATATACACTTTCACATTCATCAC
1 TATCACATATATACAC-TTCACATTCATCAC
30006928 GTAGAATCCT
Statistics
Matches: 283, Mismatches: 11, Indels: 32
0.87 0.03 0.10
Matches are distributed among these distances:
88 4 0.01
89 5 0.02
90 17 0.06
91 27 0.10
92 63 0.22
93 35 0.12
94 63 0.22
95 41 0.14
96 25 0.09
97 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (92 bp):
TATCACATATATACACTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCC
Found at i:30014108 original size:24 final size:24
Alignment explanation
Indices: 30014086--30014129 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30014076 GGTTCTTACT
30014086 CCGAACA-T-ATCAGTGATAATTA
1 CCGAACATTAATCAGTGATAATTA
*
30014108 CCGGACATTAATCAGTGATAAT
1 CCGAACATTAATCAGTGATAAT
30014130 ATTCTCGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 1 0.05
24 12 0.63
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (24 bp):
CCGAACATTAATCAGTGATAATTA
Found at i:30014385 original size:49 final size:46
Alignment explanation
Indices: 30014196--30014617 Score: 528
Period size: 49 Copynumber: 8.7 Consensus size: 46
30014186 GCCCTTCGGA
* *
30014196 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCA-TA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
*
30014241 CTTATCACATATATACACTTTCACATTCATCACATCGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGC
*
30014287 CTTATACACTACCAAATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTAT---C-A-CATATATACACTTTCACATTCATCACATCGGC-ATTAGGC
30014339 CTTATCACATATATACAACTCTTCACATTCATCAACATCGGCATTAGGC
1 CTTATCACATATATAC-ACT-TTCACATTCATC-ACATCGGCATTAGGC
* *
30014388 CTTATCACACACATATATTA-ACATTTCACATTCATCACATTGGCCATTCGGC
1 CTTAT----CACATATA-TACAC-TTTCACATTCATCACATCGG-CATTAGGC
30014440 CTTATCACAATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGC-ATTAGGC
*
30014488 CTTATCACATATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGG-CATTAGGC
30014537 CTTATCACTATATATACACTTTCACATTCATCACATCGCGCTATTAGGC
1 CTTATCAC-ATATATACACTTTCACATTCATCACATCG-GC-ATTAGGC
30014586 CTTATCACA-ATATACACTTTCACATTCATCAC
1 CTTATCACATATATACACTTTCACATTCATCAC
30014618 GTAGAATCCT
Statistics
Matches: 339, Mismatches: 13, Indels: 48
0.85 0.03 0.12
Matches are distributed among these distances:
44 2 0.01
45 37 0.11
46 7 0.02
47 32 0.09
48 73 0.22
49 93 0.27
50 10 0.03
51 36 0.11
52 38 0.11
53 9 0.03
54 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (46 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCATTAGGC
Found at i:30014467 original size:149 final size:144
Alignment explanation
Indices: 30014196--30014617 Score: 576
Period size: 149 Copynumber: 2.9 Consensus size: 144
30014186 GCCCTTCGGA
* *
30014196 CTTATCACATTTATAC-ACTTTCACATCCATCACATCGGCCA-TA-GCCTTAT--CACATATATA
1 CTTATCACATATATACAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATA
*
30014256 CACTTTCACATTCATCACA-TCGCCATTAGGCCTTATACACTACCAAATATACACTTTCACATTC
66 CACTTTCACATTCATCACATTGGCCATTAGGCCTTAT---C-A-CAAATATACACTTTCACATTC
30014320 ATCACATCGGCTATTAGGC
126 ATCACATCGGCTATTAGGC
30014339 CTTATCACATATATACAACTCTTCACATTCATCAACATCGG-CATTAGGCCTTATCACACACATA
1 CTTATCACATATATACAACT-TTCACATTCATC-ACATCGGCCATTAGGCCTTAT--CACACATA
*
30014403 TATTA-ACATTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACTTTCACAT
62 TA-TACAC-TTTCACATTCATCACATTGGCCATTAGGCCTTATCACAA-ATATACACTTTCACAT
30014467 TCATCACATCGGCTATTAGGC
124 TCATCACATCGGCTATTAGGC
* *
30014488 CTTATCACATATATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATAT
1 CTTATCACATATATA-CAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAT
* *
30014552 ACACTTTCACATTCATCACATCGCGCTATTAGGCCTTATCAC-AATATACACTTTCACATTCATC
65 ACACTTTCACATTCATCACATTG-GCCATTAGGCCTTATCACAAATATACACTTTCACATTCATC
30014616 AC
129 AC
30014618 GTAGAATCCT
Statistics
Matches: 253, Mismatches: 9, Indels: 33
0.86 0.03 0.11
Matches are distributed among these distances:
143 15 0.06
144 26 0.10
145 34 0.13
146 32 0.13
147 10 0.04
148 10 0.04
149 78 0.31
150 5 0.02
151 10 0.04
152 18 0.07
153 15 0.06
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (144 bp):
CTTATCACATATATACAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATA
CACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAAATATACACTTTCACATTCATCAC
ATCGGCTATTAGGC
Found at i:30014585 original size:198 final size:197
Alignment explanation
Indices: 30014214--30014594 Score: 585
Period size: 198 Copynumber: 1.9 Consensus size: 197
30014204 ATTTATACAC
30014214 TTTCACATCCATCACATCGGCCATAGCCTTATCACATATATACACTTTCACATTCATCACATCGC
1 TTTCACATCCATCACATCGGCCATAGCCTTATCACATATATACACTTTCACATTCATCACATCGC
* *
30014279 CATTAGGCCTTATACACTACCAAATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
66 CATTAGGCCTTATACACTACCAAATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
30014344 CACATATATACAACTCTTCACATTCATCAACATCGGCATTAGGCCTTATCACACACATATATTAA
131 CACATATATACAACTCTTCACATTCATCAACATCGGCATTAGGCCTTATCACACACATATATTAA
30014409 CA
196 CA
* * *
30014411 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACTTTCACATTCATCACAT
1 TTTCACATCCATCACATCGGCCA-T-AGCCTTATCAC-ATATATACACTTTCACATTCATCACAT
* * *
30014476 CGGCTATTAGGCCTTAT-CAC-A-TATATATAAACTTTCACATTCATCACATCGGCCATTAGGCC
63 C-GCCATTAGGCCTTATACACTACCAAATATAAACTTTCACATTCATCACATCGGCCATTAGGCC
30014538 TTATCACTATATATAC-ACT-TTCACATTCATC-ACATCGCGCTATTAGGCCTTATCACA
127 TTATCAC-ATATATACAACTCTTCACATTCATCAACATCG-GC-ATTAGGCCTTATCACA
30014595 ATATACACTT
Statistics
Matches: 169, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
196 6 0.04
197 35 0.21
198 64 0.38
199 19 0.11
200 31 0.18
201 14 0.08
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (197 bp):
TTTCACATCCATCACATCGGCCATAGCCTTATCACATATATACACTTTCACATTCATCACATCGC
CATTAGGCCTTATACACTACCAAATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACAACTCTTCACATTCATCAACATCGGCATTAGGCCTTATCACACACATATATTAA
CA
Found at i:30025538 original size:49 final size:47
Alignment explanation
Indices: 30025360--30026096 Score: 1132
Period size: 47 Copynumber: 15.7 Consensus size: 47
30025350 AGGATTCTAC
*
30025360 GTGATGAATGTG-AAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
30025406 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-AT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30025452 GT-ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
30025498 GTGATGAATGTGAATGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
* * * *
30025547 GTGATGAATGTGAAAGTGTGTATATGTCATAAGGCCGAATGGCCAAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30025594 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC-AT
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
*
30025642 -TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-AT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30025687 GTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
* *
30025736 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCATAATAGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
30025783 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA--T
*
30025832 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
30025879 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
30025926 GTGATGAATGTG-AAGTGTATTTATGTGATAAGGCCTAATGGCC-AT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30025971 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * * *
30026018 GTGATGAATGTGAAAGTGTATATATGTGA-CAGGGCGAGTGGCCAAC
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
30026064 GTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAG
30026097 TCCCGAAGGG
Statistics
Matches: 644, Mismatches: 31, Indels: 31
0.91 0.04 0.04
Matches are distributed among these distances:
45 81 0.13
46 134 0.21
47 267 0.41
48 27 0.04
49 135 0.21
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
Found at i:30025582 original size:96 final size:94
Alignment explanation
Indices: 30025360--30026096 Score: 1132
Period size: 96 Copynumber: 7.9 Consensus size: 94
30025350 AGGATTCTAC
*
30025360 GTGATGAATGTG-AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30025424 TATATATGTGATAAGGCCGAATGGCC-AT
66 TATATATGTGATAAGGCCTAATGGCCGAT
*
30025452 GT-ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAATGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30025516 TATATATATGTGATAAGGCCTAATGGCCGAT
66 --TATATATGTGATAAGGCCTAATGGCCGAT
* * * *
30025547 GTGATGAATGTGAAAGTGTGTATATGTCATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30025612 TATATATATGTGATAAGGCCTAATGGCC-AT
66 --TATATATGTGATAAGGCCTAATGGCCGAT
*
30025642 -TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30025705 TCTATATATGTGATAAGGCCTAATGGCCGAT
66 --TATATATGTGATAAGGCCTAATGGCCGAT
* *
30025736 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCATAATAGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
30025801 TATATATGTGATAAGGCCTAATAGTCGATGT
66 TATATATGTGATAAGGCCTAATGGCCGA--T
*
30025832 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30025897 TATATATGTGATAAGGCCTAATAGCCGAT
66 TATATATGTGATAAGGCCTAATGGCCGAT
*
30025926 GTGATGAATGTG-AAGTGTATTTATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30025989 TATATATGTGATAAGGCCTAATGGCCGAT
66 TATATATGTGATAAGGCCTAATGGCCGAT
* * * * * * *
30026018 GTGATGAATGTGAAAGTGTATATATGTGA-CAGGGCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30026082 TATAAATGTGATAAG
66 TATATATGTGATAAG
30026097 TCCCGAAGGG
Statistics
Matches: 604, Mismatches: 29, Indels: 23
0.92 0.04 0.04
Matches are distributed among these distances:
91 9 0.01
92 122 0.20
93 123 0.20
94 107 0.18
95 46 0.08
96 197 0.33
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCGAT
Found at i:30027815 original size:40 final size:40
Alignment explanation
Indices: 30027541--30027803 Score: 328
Period size: 40 Copynumber: 6.8 Consensus size: 40
30027531 GAGAATTGAG
*
30027541 AGTGA-ATATCCGGGCTAAGT--C--TGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30027576 AGTGATATATCCGGGCTAAGT-CCG-AG-GTATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30027613 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30027652 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
30027692 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
** **
30027732 AGTGATATATCCATGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
30027772 GGTGTTATATCCGGGCTAGGTCCCAAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
30027804 ATCATGCTGG
Statistics
Matches: 199, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
35 5 0.03
36 15 0.08
37 35 0.18
38 2 0.01
39 31 0.16
40 111 0.56
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:30031673 original size:96 final size:92
Alignment explanation
Indices: 30031613--30032502 Score: 752
Period size: 96 Copynumber: 9.4 Consensus size: 92
30031603 TTAGGATTCT
*
30031613 ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAA
*
30031678 TGTATATATATGTGATAAGGCCTAATGGACG
66 TGAATATATATGTGATAAGG-C--AT-GACG
* *
30031709 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG-A-GTG----
1 ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAA
* *
30031768 T--ATATATATGTGATAAGGCCGAATGGCCA
66 TGAATATATATGTGATAAGG-C--AT-GACG
* * *
30031797 ATGTGATGAATGTGAAAGTGTATATATTTGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 ACGTAATGAATGTGAAAGTGTATATA----TGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
* * * *
30031862 AAAGTG--TATATATTTGATAAGGCCGAATGGCCA
62 AAAATGAATATATATGTGATAAGG-C--AT-GACG
* * *
30031895 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ACGTAATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
30031960 AGTGTATATATATATGTGATAAGGCCTAATGGCCG
64 AATG-A-ATATATATGTGATAAGG-C--AT-GACG
* * * * * * *
30031995 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAA
* *
30032060 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TGAATATATATGTGATAAGG-C--AT-GACG
** * * * *
30032091 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
1 ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAA
** *
30032156 TGTCTATATATGTGATAAGGCCTAATGGCCG
66 TGAATATATATGTGATAAGG-C--AT-GACG
* * *
30032187 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAA
*
30032252 TG--TATATATGTGATAAGGCCTAATAGCCG
66 TGAATATATATGTGATAAGG-C--AT-GACG
* * * *
30032281 ATGTGATG-ATGTGAACGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAA
*
30032345 TG--TATATATGTGATAAGGCCTAATGGCTG
66 TGAATATATATGTGATAAGG-C--ATGAC-G
* * * * *
30032374 ATGTGATGAATCTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAA
* * * *
30032439 TG--TATATATGTGACAGGGCCGAGTGGCCA
66 TGAATATATATGTGATAAGG-C-A-T-GACG
* * *
30032468 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ACGTAATGAATGTGAAAGTGTATATATGTGATAAG
30032503 TCCCGAAGGG
Statistics
Matches: 737, Mismatches: 36, Indels: 44
0.90 0.04 0.05
Matches are distributed among these distances:
88 51 0.07
90 1 0.00
92 30 0.04
93 90 0.12
94 143 0.19
95 3 0.00
96 278 0.38
98 91 0.12
100 50 0.07
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (92 bp):
ACGTAATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAA
TGAATATATATGTGATAAGGCATGACG
Found at i:30031703 original size:49 final size:47
Alignment explanation
Indices: 30031618--30032502 Score: 1325
Period size: 47 Copynumber: 18.6 Consensus size: 47
30031608 ATTCTACGTA
*
30031618 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
30031665 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGACGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
30031714 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
30031761 ATG-A-GT----GTATATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
30031802 ATGAATGTGAAAGTGTATATATTTGTGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATA----TGTGATAAGGCCTAATGGCCGATGTG
* * *
30031853 ATGAATGTGAAAGTGTATATATTTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
30031900 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
30031949 ATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
30032000 ATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
30032047 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
30032096 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
30032143 ATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
30032192 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
30032239 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
30032286 ATG-ATGTGAACGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
30032332 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
30032379 ATGAATCTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
30032426 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
30032473 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
30032503 TCCCGAAGGG
Statistics
Matches: 772, Mismatches: 45, Indels: 42
0.90 0.05 0.05
Matches are distributed among these distances:
41 34 0.04
42 1 0.00
43 2 0.00
45 2 0.00
46 46 0.06
47 415 0.54
49 178 0.23
51 94 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:30038752 original size:39 final size:39
Alignment explanation
Indices: 30038700--30038827 Score: 211
Period size: 39 Copynumber: 3.3 Consensus size: 39
30038690 TTTGAGATTG
30038700 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
30038739 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
30038778 AATATATCCGGACTTGAGGTCCGCAGGCTACATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
30038817 AAAATATCCGG
1 AAAATATCCGG
30038828 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:30038841 original size:39 final size:39
Alignment explanation
Indices: 30038719--30038845 Score: 141
Period size: 39 Copynumber: 3.3 Consensus size: 39
30038709 GGACATGAGG
**
30038719 TCCGCAGGCTATATGCTGGAAAAATATCC-GGACATGAGA
1 TCCGCAGGCTATATGCTGGAAAAATATCCGGGTTA-GAGA
* * * *
30038758 TCCGCAGGCTATATGCTAGAAATATATCCGGACTT-GAGG
1 TCCGCAGGCTATATGCTGGAAAAATATCCGG-GTTAGAGA
* *
30038797 TCCGCAGGCTACATGCTGGAAAAATATCCGGGTTAAAGA
1 TCCGCAGGCTATATGCTGGAAAAATATCCGGGTTAGAGA
*
30038836 CCCGCAGGCT
1 TCCGCAGGCT
30038846 TACGCTAGTA
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.03
39 69 0.96
40 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (39 bp):
TCCGCAGGCTATATGCTGGAAAAATATCCGGGTTAGAGA
Found at i:30038841 original size:78 final size:76
Alignment explanation
Indices: 30038699--30038853 Score: 213
Period size: 78 Copynumber: 2.0 Consensus size: 76
30038689 GTTTGAGATT
* * *
30038699 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
30038764 GGCTATATGCTA
66 GGCT-TACGCTA
* **
30038776 GAAATATATCCGGACTTGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
30038840 CAGGCTTACGCTA
64 CAGGCTTACGCTA
30038853 G
1 G
30038854 TAATGTATTC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
77 12 0.17
78 57 0.83
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:30043353 original size:27 final size:27
Alignment explanation
Indices: 30043341--30043587 Score: 282
Period size: 27 Copynumber: 9.1 Consensus size: 27
30043331 AAGTACTCCT
*
30043341 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
*
30043368 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
*
30043395 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
**
30043422 -AGTTTACAGAATTACTGTTTTACCCTC
1 GA-TTTACAGAATTACCATTTTACCCTC
*
30043449 GATTTATAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
** * *
30043476 GATTTGTAAAATTACCATTTTACCCTT
1 GATTTACAGAATTACCATTTTACCCTC
* ****
30043503 AATTTACAGAATTATTGGTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* * *
30043530 -AGTTTACAAAATTATCGTTTTACCCTC
1 GA-TTTACAGAATTACCATTTTACCCTC
* *
30043557 GATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCATTTTACCCTC
30043584 GATT
1 GATT
30043588 GTGAAATTAC
Statistics
Matches: 190, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 186 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
GATTTACAGAATTACCATTTTACCCTC
Found at i:30043583 original size:81 final size:80
Alignment explanation
Indices: 30043342--30043583 Score: 333
Period size: 81 Copynumber: 3.0 Consensus size: 80
30043332 AGTACTCCTG
*
30043342 ATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTAC-ATTTTACCCTCGATTTACAGAAT
*
30043407 TACCGTTTTACCCTCA
65 TACCGTTTTACCCTTA
* * ** *
30043423 GTTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTGTAAAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCGATTTACAGAAT
*
30043488 TACCATTTTACCCTTA
65 TACCGTTTTACCCTTA
* * * *
30043504 ATTTACAGAATTATTGGTTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAA
1 ATTTACAGAATTACTGTTTTACCCTCGA-TTTACAGAATTA-CATTTTACCCTCGATTTACAGAA
30043568 TTACCGTTTTACCCTT
64 TTACCGTTTTACCCTT
30043584 GATTGTGAAA
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 138 0.99
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (80 bp):
ATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACATTTTACCCTCGATTTACAGAATT
ACCGTTTTACCCTTA
Found at i:30043622 original size:27 final size:27
Alignment explanation
Indices: 30043592--30043787 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
30043582 TTGATTGTGA
*
30043592 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
30043619 AATTTCTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
30043646 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** * *
30043673 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
30043700 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * *
30043727 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * * *
30043754 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
30043781 AATTACT
1 AATTACT
30043788 ATTTTGCCCC
Statistics
Matches: 140, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
27 139 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Done.