Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 82 of 199
Found at i:29246280 original size:15 final size:15
Alignment explanation
Indices: 29246243--29246288 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
29246233 AATAAAAGAG
29246243 AGAGAAG-AAAG-AA
1 AGAGAAGAAAAGAAA
29246256 AGATGAAAGAAAAGAAA
1 AGA-G-AAGAAAAGAAA
*
29246273 AGAGAAGAAAGGAAA
1 AGAGAAGAAAAGAAA
29246288 A
1 A
29246289 TTTCTCATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.11
14 1 0.04
15 14 0.50
16 5 0.18
17 5 0.18
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (15 bp):
AGAGAAGAAAAGAAA
Found at i:29248754 original size:23 final size:24
Alignment explanation
Indices: 29248716--29248778 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
29248706 AACTTAATCG
*
29248716 AACATGTTCACGAACAT-TAAACA
1 AACATGTTCACAAACATATAAACA
* **
29248739 AACATGTTCATAAACATATAATTA
1 AACATGTTCACAAACATATAAACA
*
29248763 AACATGTCCACAAACA
1 AACATGTTCACAAACA
29248779 ATGTTAATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.49, C:0.21, G:0.06, T:0.24
Consensus pattern (24 bp):
AACATGTTCACAAACATATAAACA
Found at i:29250971 original size:20 final size:21
Alignment explanation
Indices: 29250946--29250987 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
29250936 AAAAGTTTCC
* *
29250946 ATATCATATCAT-TCCATTTT
1 ATATCACATCATATCAATTTT
29250966 ATATCACATCATATCAATTTT
1 ATATCACATCATATCAATTTT
29250987 A
1 A
29250988 ACTTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATCACATCATATCAATTTT
Found at i:29259474 original size:7 final size:8
Alignment explanation
Indices: 29259458--29259482 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
29259448 TTTTATTTTT
29259458 AAAATAAA
1 AAAATAAA
29259466 AAAATAAA
1 AAAATAAA
29259474 AAAATAAA
1 AAAATAAA
29259482 A
1 A
29259483 TTGATACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:29259517 original size:10 final size:10
Alignment explanation
Indices: 29259502--29259534 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
29259492 ACTTATAAAT
29259502 ATTATAATAA
1 ATTATAATAA
29259512 ATTATAATAA
1 ATTATAATAA
29259522 A-TATAATAA
1 ATTATAATAA
29259531 ATTA
1 ATTA
29259535 AAAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTATAATAA
Found at i:29261157 original size:25 final size:24
Alignment explanation
Indices: 29261098--29261212 Score: 79
Period size: 25 Copynumber: 4.6 Consensus size: 24
29261088 AGAGTACATA
* *
29261098 AACGGAAAGCTCTTTTGAGCCATAT
1 AACGGAAAGCTCATGTGAGCCAT-T
*
29261123 AAC-AAGAAGCTCATGTGAGCCATGT
1 AACGGA-AAGCTCATGTGAGCCAT-T
** *
29261148 AACGGAAAGCTCCGGAGAGCCATT
1 AACGGAAAGCTCATGTGAGCCATT
* * *
29261172 CACGGGAAGCTCATGCGAGCCAATT
1 AACGGAAAGCTCATGTGAGCC-ATT
* *
29261197 AATTGGGAAGCTCATG
1 AA-CGGAAAGCTCATG
29261213 AAAGAGCCTT
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
24 18 0.25
25 40 0.56
26 13 0.18
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (24 bp):
AACGGAAAGCTCATGTGAGCCATT
Found at i:29261191 original size:24 final size:24
Alignment explanation
Indices: 29261114--29261263 Score: 86
Period size: 25 Copynumber: 5.9 Consensus size: 24
29261104 AAGCTCTTTT
** *
29261114 GAGCCATATAACAAGAAGCTCATGT
1 GAGCCAT-TAACGGGAAGCTCATGA
* **
29261139 GAGCCATGTAACGGAAAGCTCCGGA
1 GAGCCAT-TAACGGGAAGCTCATGA
* *
29261164 GAGCCATTCACGGGAAGCTCATGC
1 GAGCCATTAACGGGAAGCTCATGA
*
29261188 GAGCCAATTAATTGGGAAGCTCATGAAA
1 GAGCC-ATTAA-CGGGAAGCTCATG--A
* * *
29261216 GAGCCTTTAATCAGGAAGCTC-CGAA
1 GAGCCATTAA-CGGGAAGCTCATG-A
* *
29261241 GAGCCATATATCGGGACGCTCAT
1 GAGCCAT-TAACGGGAAGCTCAT
29261264 AAAAGTTGCG
Statistics
Matches: 95, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
24 17 0.18
25 45 0.47
26 15 0.16
27 13 0.14
28 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.19
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCATGA
Found at i:29261585 original size:22 final size:22
Alignment explanation
Indices: 29261535--29261587 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
29261525 ACATGGCACT
29261535 TATAC-ATTTCAAATACATAAAA
1 TATACAATTT-AAATACATAAAA
29261557 T-T-CAATTTAAA-ACATATAAA
1 TATACAATTTAAATACATA-AAA
29261577 TATACAATTTA
1 TATACAATTTA
29261588 GTTATACGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 5 0.19
20 8 0.30
21 6 0.22
22 8 0.30
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TATACAATTTAAATACATAAAA
Found at i:29264424 original size:19 final size:20
Alignment explanation
Indices: 29264386--29264428 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
29264376 ATAATAATAA
29264386 ACAAGCCCAAAAATAAAATT
1 ACAAGCCCAAAAATAAAATT
*
29264406 ACAAGCCCAAATA-AAAATT
1 ACAAGCCCAAAAATAAAATT
29264425 ACAA
1 ACAA
29264429 ATCCAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.60, C:0.21, G:0.05, T:0.14
Consensus pattern (20 bp):
ACAAGCCCAAAAATAAAATT
Found at i:29264434 original size:19 final size:18
Alignment explanation
Indices: 29264396--29264434 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
29264386 ACAAGCCCAA
*
29264396 AAATAAAATTACAAGCCC
1 AAATAAAATTACAAACCC
*
29264414 AAATAAAAATTACAAATCC
1 AAAT-AAAATTACAAACCC
29264433 AA
1 AA
29264435 TTACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (18 bp):
AAATAAAATTACAAACCC
Found at i:29265812 original size:20 final size:19
Alignment explanation
Indices: 29265789--29265826 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
29265779 TAATTTCAAC
29265789 TTTTCATTT-TTATTATTTTA
1 TTTT-ATTTATTATT-TTTTA
29265809 TTTTATTTATTATTTTTT
1 TTTTATTTATTATTTTTT
29265827 GCCCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTATTATTTTTTA
Found at i:29270540 original size:21 final size:21
Alignment explanation
Indices: 29270516--29270556 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29270506 GCTTCCTGTA
29270516 CTTTTCATGCCGCTTCTCATT
1 CTTTTCATGCCGCTTCTCATT
* * *
29270537 CTTTTCGTGTCGCTTTTCAT
1 CTTTTCATGCCGCTTCTCAT
29270557 GCTTCTCGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.29, G:0.12, T:0.51
Consensus pattern (21 bp):
CTTTTCATGCCGCTTCTCATT
Found at i:29270565 original size:21 final size:21
Alignment explanation
Indices: 29270526--29270567 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
29270516 CTTTTCATGC
* *
29270526 CGCTTCTCATTCTTTTCGTGT
1 CGCTTCTCATGCTTCTCGTGT
*
29270547 CGCTTTTCATGCTTCTCGTGT
1 CGCTTCTCATGCTTCTCGTGT
29270568 TTGTTGTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.29, G:0.17, T:0.50
Consensus pattern (21 bp):
CGCTTCTCATGCTTCTCGTGT
Found at i:29271423 original size:13 final size:14
Alignment explanation
Indices: 29271405--29271434 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
29271395 TAGCACCAGT
29271405 TTCTTTATAAA-TG
1 TTCTTTATAAAGTG
29271418 TTCTTTATAAAGTG
1 TTCTTTATAAAGTG
29271432 TTC
1 TTC
29271435 ATAATTGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (14 bp):
TTCTTTATAAAGTG
Found at i:29279477 original size:20 final size:20
Alignment explanation
Indices: 29279452--29279493 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
29279442 TTTCTAACGA
*
29279452 AATTTTAATATCATATTACT
1 AATTTTAATACCATATTACT
29279472 AATTTTAATACCATATTACT
1 AATTTTAATACCATATTACT
29279492 AA
1 AA
29279494 CATTTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTAATACCATATTACT
Found at i:29281682 original size:45 final size:45
Alignment explanation
Indices: 29281614--29281707 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
29281604 AACAGATAGT
* * *
29281614 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
* * *
29281659 CGGTGGAATCAGTACATAACAACCACCTTACTAGTCAATGATGTT
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
29281704 CGGT
1 CGGT
29281708 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
Found at i:29281738 original size:26 final size:26
Alignment explanation
Indices: 29281709--29281788 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
29281699 ATGTTCGGTT
29281709 CACATAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
* * * *
29281735 CACAT-GTAACCAT-TACCAT-CTAATA
1 CACATAGTAGCC-TGCA-CATAGTACTA
*
29281760 CACGTAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
29281786 CAC
1 CAC
29281789 GCGTGATCGA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (26 bp):
CACATAGTAGCCTGCACATAGTACTA
Found at i:29281773 original size:51 final size:50
Alignment explanation
Indices: 29281713--29281899 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
29281703 TCGGTTCACA
**
29281713 TAGTAGCCTGCACATAGTACTACACATGTAACCATTACCATCTAATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCA-TACCATCTGGTACACG
** * * * * * * *
29281764 TAGTAGCCTGCACATAGTACTACACGCGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGT-AACCATACCATCTGGTACACG
* * * *
29281815 TAGTAGTCTACACATAGTACTACACATGCAACC-TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCATACCA-TCTGGTACACG
*
29281865 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTAACCAT
29281900 CACTTTCACT
Statistics
Matches: 105, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.37
51 61 0.58
52 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTAACCATACCATCTGGTACACG
Found at i:29281919 original size:101 final size:99
Alignment explanation
Indices: 29281710--29281895 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 99
29281700 TGTTCGGTTC
* *
29281710 ACATAGTAGCCTGCACATAGTACTACACATGTAACCATTACCATCTAATACACGTAGTAGCCTGC
1 ACATAGTAGCCTACACATAGTACTACACATGCAACCA-TACCATCTAATACACGTAGTAGCCTGC
* *
29281775 ACATAGTACTACACGCGTGATCGAAACTATCCGGT
65 ACATAGTACTACACACGTGATCCAAACTATCCGGT
* * **
29281810 ACGCATAGTAGTCTACACATAGTACTACACATGCAACC-TATCATTCTGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTACACATAGTACTACACATGCAACCATACCA-TCTAATACACGTAGTAGCCT
*
29281874 GCACATAGTACTACACATGTGA
63 GCACATAGTACTACACACGTGA
29281896 CCATCACTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 5 0.07
101 38 0.51
102 32 0.43
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTACACATAGTACTACACATGCAACCATACCATCTAATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATCCGGT
Found at i:29284556 original size:25 final size:25
Alignment explanation
Indices: 29284521--29284589 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
29284511 ATTCATGTAT
29284521 GCTCATGCGAGCTGAATAACGGAAA
1 GCTCATGCGAGCTGAATAACGGAAA
* * * *
29284546 GCTCATACGAGCTGAGTATCGGGAA
1 GCTCATGCGAGCTGAATAACGGAAA
*
29284571 GCTCATGTGAGCTGAATAA
1 GCTCATGCGAGCTGAATAA
29284590 TGGGAAGTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAACGGAAA
Found at i:29284594 original size:25 final size:25
Alignment explanation
Indices: 29284521--29284601 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
29284511 ATTCATGTAT
* *
29284521 GCTCATGCGAGCTGAATAACGGAAA
1 GCTCATGCGAGCTGAATAATGGGAA
* *
29284546 GCTCATACGAGCTGAGT-ATCGGGAA
1 GCTCATGCGAGCTGAATAAT-GGGAA
*
29284571 GCTCATGTGAGCTGAATAATGGGAA
1 GCTCATGCGAGCTGAATAATGGGAA
*
29284596 GTTCAT
1 GCTCAT
29284602 TTCAGCTGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.93
26 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAATGGGAA
Found at i:29293522 original size:21 final size:21
Alignment explanation
Indices: 29293498--29293541 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
29293488 GATTTAATAC
29293498 ACGAGTTAGCTAAATTAAGTT
1 ACGAGTTAGCTAAATTAAGTT
29293519 ACGAGTTAGCTAAATTAAGTT
1 ACGAGTTAGCTAAATTAAGTT
29293540 AC
1 AC
29293542 AACGATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (21 bp):
ACGAGTTAGCTAAATTAAGTT
Found at i:29296539 original size:132 final size:131
Alignment explanation
Indices: 29296382--29296641 Score: 305
Period size: 134 Copynumber: 2.0 Consensus size: 131
29296372 AGCGTCGTGT
* *
29296382 TAATAAGGCGAAGATCGCAGCTTCGAGAA-TTGCATGGGCCACTAAATAC-A-TT-TTTCCA-TC
1 TAATAACGCGAAGATCGCAGCTTCGA-AACTAG-ATGGGCCACTAAATACAACTTCTTT--ATTC
** *
29296442 TTTTGGGAAAAACGGCAACGTTTTCTATTATTTACTAAAACAGAATTAAGAATAAGAAATCAGCG
62 TTTTGGG-AAAACGGCAACGTTTTAGATTATTTACTAAAACAGAATTAAGAATAA-AAATCAACG
29296507 GCTGTGC
125 GCTGTGC
* * * *
29296514 TAATAACGCGAAGGTCGCAGGTTCGAAACCTAGATGGGCCACTAAATGCAACTTCCTTTATTTTT
1 TAATAACGCGAAGATCGCAGCTTCGAAA-CTAGATGGGCCACTAAATACAACTT-CTTTATTCTT
* * *
29296579 TTGGGAAAACGGCAACGTTTTAGATTATTTATTAAAACAGAATTTAGAATGAAAATCAACGGC
64 TTGGGAAAACGGCAACGTTTTAGATTATTTACTAAAACAGAATTAAGAATAAAAATCAACGGC
29296642 CTATTAGCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
131 2 0.02
132 38 0.35
133 13 0.12
134 45 0.41
135 8 0.07
136 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (131 bp):
TAATAACGCGAAGATCGCAGCTTCGAAACTAGATGGGCCACTAAATACAACTTCTTTATTCTTTT
GGGAAAACGGCAACGTTTTAGATTATTTACTAAAACAGAATTAAGAATAAAAATCAACGGCTGTG
C
Found at i:29296768 original size:24 final size:25
Alignment explanation
Indices: 29296727--29296778 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
29296717 ATGATTTATC
* *
29296727 TTTGTTTTTTTTGGAAAAA-CGGAA
1 TTTGTTTTTTTTGAAAAAATCAGAA
29296751 TTTGTTTTGTTTT-AAAAAATCAGAA
1 TTTGTTTT-TTTTGAAAAAATCAGAA
29296776 TTT
1 TTT
29296779 AAAATTGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (25 bp):
TTTGTTTTTTTTGAAAAAATCAGAA
Found at i:29296769 original size:25 final size:24
Alignment explanation
Indices: 29296727--29296778 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
29296717 ATGATTTATC
** *
29296727 TTTGTTTTTTTTGGAAAAACGGAA
1 TTTGTTTTTTTTAAAAAAACAGAA
*
29296751 TTTGTTTTGTTTTAAAAAATCAGAA
1 TTTGTTTT-TTTTAAAAAAACAGAA
29296776 TTT
1 TTT
29296779 AAAATTGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (24 bp):
TTTGTTTTTTTTAAAAAAACAGAA
Found at i:29296844 original size:155 final size:151
Alignment explanation
Indices: 29296510--29297024 Score: 619
Period size: 154 Copynumber: 3.3 Consensus size: 151
29296500 ATCAGCGGCT
* * *
29296510 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTAG-ATGGGCCACTAAATGCAACTTCCTTT-
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCT-GCATGGGCCATTAAATG--ATTTACTTTG
* * * * *
29296573 ATTTTTTTGGGAAAACGGCAA-CGTTTTAGATTATTTATTAAAACAGAATTTAGAATGAAAATCA
63 TTTTTTTTGGAAAAACGG-AATTGTTTT-G--T-TTTA-AAAAACAGAATTTAAAATGAAAA-CA
*
29296637 ACGGCCTATTAGCTCAGCTGGTTAGAGCGTC
121 AAGGCCTATTAGCTCAGCTGGTTAGAGCGTC
29296668 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTAAATGATTTATCTTTGTT
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTAAATGATTTA-CTTTGTT
*
29296733 TTTTTTGGAAAAACGGAATTTGTTTTGTTTTAAAAAATCAGAATTTAAAATTGACAACAAAGGCC
65 TTTTTTGGAAAAACGGAA-TTGTTTTGTTTTAAAAAA-CAGAATTTAAAA-TGAAAACAAAGGCC
29296798 TATTAGCTCAGCTGGTTAGAGCGTC
127 TATTAGCTCAGCTGGTTAGAGCGTC
* * * * *
29296823 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATT-AGTAATTCA-TTTGTAG
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTAAATGATTTACTTTGT-T
* * * *
29296886 TTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAA-AAAATTTTTAAAAACTGATAAGAAAGG
65 TTTTTTGGAAAAACGG-AATTGTTTTGTTTTAAAAAACAGAA--TTT-AAAA-TGAAAACAAAGG
*
29296950 CCTATTAGCTCAGTTGGTTAGAGCGTC
125 CCTATTAGCTCAGCTGGTTAGAGCGTC
*
29296977 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATTA
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTA
29297025 GTATTTCATT
Statistics
Matches: 323, Mismatches: 21, Indels: 29
0.87 0.06 0.08
Matches are distributed among these distances:
151 3 0.01
152 5 0.02
153 36 0.11
154 99 0.31
155 93 0.29
156 9 0.03
157 7 0.02
158 66 0.20
159 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (151 bp):
GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTAAATGATTTACTTTGTTT
TTTTTGGAAAAACGGAATTGTTTTGTTTTAAAAAACAGAATTTAAAATGAAAACAAAGGCCTATT
AGCTCAGCTGGTTAGAGCGTC
Found at i:29297007 original size:154 final size:151
Alignment explanation
Indices: 29296639--29297111 Score: 648
Period size: 154 Copynumber: 3.1 Consensus size: 151
29296629 GAAAATCAAC
*
29296639 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTG
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
* * * * *
29296704 CATGGGCCATTAAATGATTTATCTTTGTTTTTTTTGGAAAAACGGAATTTGTTTTGTTTTAAAAA
66 CATGGGCCATT-AGTAATTCA--TTTGTTTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAA
* * *
29296769 ATCAGAATTT-AAAATTGACAACAAA
128 A--AGAATTTAAAAACTGATAAGAAA
29296794 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
*
29296859 CATGGGCCATTAGTAATTCATTTGTAGTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAAA
66 CATGGGCCATTAGTAATTCATTTGT-TTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAAA
*
29296924 AAATTTTTAAAAACTGATAAGAAA
130 GAA--TTTAAAAACTGATAAGAAA
*
29296948 GGCCTATTAGCTCAGTTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
* * * *
29297013 CATGGGCCATTAGTATTTCATTTTTTTTACTTTTCGG-AAAACGGCAA-CGTTTTTGCTTTAGAA
66 CATGGGCCATTAGTAATTCATTTGTTTT--TTTT-GGAAAAACGGAAATTG-TTTTGCTTTA-AA
29297076 AAAACGAATTTAAAAACTGATAAG-AA
126 AAAA-GAATTTAAAAACTGATAAGAAA
29297102 GGCCTATTAG
1 GGCCTATTAG
29297112 GTGCTAATAA
Statistics
Matches: 290, Mismatches: 18, Indels: 21
0.88 0.05 0.06
Matches are distributed among these distances:
151 3 0.01
152 5 0.02
153 40 0.14
154 118 0.41
155 114 0.39
156 8 0.03
157 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (151 bp):
GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
CATGGGCCATTAGTAATTCATTTGTTTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAAAG
AATTTAAAAACTGATAAGAAA
Found at i:29298817 original size:43 final size:42
Alignment explanation
Indices: 29298769--29299082 Score: 260
Period size: 43 Copynumber: 7.3 Consensus size: 42
29298759 CCGCTAAATT
* * *
29298769 GCCGCTAAAAATCATGACCTATAGCAGTGCTTTTATCACAAAC
1 GCCGCTAAAAA-CATGACCTTTAGCGGCGCTTTTATCACAAAC
* *
29298812 GCCGCTAAAGACCATGACCTTTAGCGACGCTTTTATCACAAAC
1 GCCGCTAAA-AACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * * **
29298855 GCCGCTATAGAACA-AACCTTTAGCGGCGCTTCTCGCA-AAAC
1 GCCGCTA-AAAACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * * ****
29298896 GCCGCTAAAAACATAACAAATTTTCTA-TGAAAATTTTATCACAAAC
1 GCCGCTAAAAACATGAC----CTT-TAGCGGCGCTTTTATCACAAAC
* *
29298942 GCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTCACAAAC
1 GCCGCTAAAAACATGACCTTTAGCGGCGCTTTTATCACAAAC
*
29298984 GCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAA-AACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * * * **
29299027 GCAGCTATAGAACA-AACCTTTAGCGGCGCTTCTCGCA-AAAGC
1 GCCGCTA-AAAACATGACCTTTAGCGGCGCTTTTATCACAAA-C
29299069 GCCGCTAAAAACAT
1 GCCGCTAAAAACAT
29299083 AACATTTAAA
Statistics
Matches: 216, Mismatches: 41, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
40 5 0.02
41 24 0.11
42 67 0.31
43 87 0.40
44 3 0.01
45 8 0.04
46 22 0.10
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
GCCGCTAAAAACATGACCTTTAGCGGCGCTTTTATCACAAAC
Found at i:29299103 original size:85 final size:82
Alignment explanation
Indices: 29298842--29299097 Score: 255
Period size: 85 Copynumber: 3.0 Consensus size: 82
29298832 TTAGCGACGC
29298842 TTTTATCACAAACGCCGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAACGCCGCTAAAAA
1 TTTTATCACAAACGCCGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAACGCCGCTAAAAA
**
29298907 CATAACAAATTTTCTATGAAAA
66 CATAAC--A--TT-TAAAAAAA
* * * * *
29298929 TTTTATCACAAACGCCGCTA-AAAACATGACCTTTAGCGGTGCTT-TTGTCACAAACGCTGCTAA
1 TTTTATCACAAACGCCGCTATAGAACA-AACCTTTAGCGGCGCTTCTCG-CA-AAACGCCGCTAA
* * ******
29298992 AGAACATGACCTTTAGCGGCGC
63 A-AACATAACATTTA-AAAAAA
*
29299014 TTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAAGCGCCGCTAAAA
1 TTTTATCACAAACGCCGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAA-CGCCGCTAAAA
29299079 ACATAACATTTAAAAAAA
65 ACATAACATTTAAAAAAA
29299097 T
1 T
29299098 ATTTTAATCA
Statistics
Matches: 135, Mismatches: 26, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
83 1 0.01
84 16 0.12
85 48 0.36
86 14 0.10
87 37 0.27
88 12 0.09
89 7 0.05
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (82 bp):
TTTTATCACAAACGCCGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAACGCCGCTAAAAA
CATAACATTTAAAAAAA
Found at i:29299305 original size:43 final size:43
Alignment explanation
Indices: 29299225--29299353 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 43
29299215 TCTATGAAAA
* *
29299225 TTTTATCACAAACGCCGCTAAA-AACATGACCTTTAGCGGTGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
* *
29299267 TTTTGTCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
* *
29299310 TTTTATCACAAACGCAGCTATAGAACA-AACCTTTAGCGGCGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
29299352 TT
1 TT
29299354 CTCGCAAAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 36 0.46
43 43 0.54
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
Found at i:29299568 original size:295 final size:296
Alignment explanation
Indices: 29298913--29299820 Score: 1766
Period size: 295 Copynumber: 3.1 Consensus size: 296
29298903 AAAACATAAC
29298913 AAATTTTCTATGAAAATTTTATCACAAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTC
1 AAATTTTCTATGAAAATTTTATCACAAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTC
29298978 ACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCAGCTATAGAACAAA
66 ACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCAGCTATAGAACAAA
29299043 CCTTTAGCGGCGCTTCTCGCAAAAGCGCCGCTAAAAACATAACATTTAAAAAAATATTTTAATCA
131 CCTTTAGCGGCGCTTCTCGCAAAAGCGCCGCTAAAAACATAACATTTAAAAAAATATTTTAATCA
29299108 AATAATATATATTTTTATGATAAATATTATATTATGTTTTATTTTTTAAATTTGAACTTTAAATA
196 AATAATATATATTTTTATGATAAATATTATATTATGTTTTATTTTTTAAATTTGAACTTTAAATA
29299173 TATTTTTAAGGATAAATAAAAAATATTATTTAAATT
261 TATTTTTAAGGATAAATAAAAAATATTATTTAAATT
29299209 AAATTTTCTATGAAAATTTTATCACAAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTC
1 AAATTTTCTATGAAAATTTTATCACAAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTC
29299274 ACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCAGCTATAGAACAAA
66 ACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCAGCTATAGAACAAA
29299339 CCTTTAGCGGCGCTTCTCGCAAAAGCGCCGCTAAAAACATAACATTT-AAAAAATATTTTAATCA
131 CCTTTAGCGGCGCTTCTCGCAAAAGCGCCGCTAAAAACATAACATTTAAAAAAATATTTTAATCA
29299403 AATAATATATATTTTTATGATAAATATTATATTATGTTTTATTTTTTAAATTTGAACTTTAAATA
196 AATAATATATATTTTTATGATAAATATTATATTATGTTTTATTTTTTAAATTTGAACTTTAAATA
29299468 TATTTTTAAGGATAAATAAAAAATATTATTTAAATT
261 TATTTTTAAGGATAAATAAAAAATATTATTTAAATT
29299504 AAATTTTCTATGAAAATTTTATCACAAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTC
1 AAATTTTCTATGAAAATTTTATCACAAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTC
29299569 ACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCAGCTATAGAACAAA
66 ACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCAGCTATAGAACAAA
29299634 CCTTTAGCGGCGCTTCTCGCAAAAGCGCCGCTAAAAACATAACATTTAAAAAAATATTTTAATCA
131 CCTTTAGCGGCGCTTCTCGCAAAAGCGCCGCTAAAAACATAACATTTAAAAAAATATTTTAATCA
* *
29299699 AATAATATTTA-TTTTATGATAAATATTATATTATGTTTTATTTTTTAAATTTTAACTTTAAATA
196 AATAATATATATTTTTATGATAAATATTATATTATGTTTTATTTTTTAAATTTGAACTTTAAATA
*
29299763 TACTTTTAAGGATAAATAAAAAAATATTATTTAAATT
261 TATTTTTAAGGATAAAT-AAAAAATATTATTTAAATT
29299800 AAATTTTCTATGAAAATTTTA
1 AAATTTTCTATGAAAATTTTA
29299821 ACTTTAAAAC
Statistics
Matches: 607, Mismatches: 3, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
295 363 0.60
296 244 0.40
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (296 bp):
AAATTTTCTATGAAAATTTTATCACAAACGCCGCTAAAAACATGACCTTTAGCGGTGCTTTTGTC
ACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCAGCTATAGAACAAA
CCTTTAGCGGCGCTTCTCGCAAAAGCGCCGCTAAAAACATAACATTTAAAAAAATATTTTAATCA
AATAATATATATTTTTATGATAAATATTATATTATGTTTTATTTTTTAAATTTGAACTTTAAATA
TATTTTTAAGGATAAATAAAAAATATTATTTAAATT
Found at i:29299600 original size:43 final size:43
Alignment explanation
Indices: 29299520--29299648 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 43
29299510 TCTATGAAAA
* *
29299520 TTTTATCACAAACGCCGCTAAA-AACATGACCTTTAGCGGTGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
* *
29299562 TTTTGTCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
* *
29299605 TTTTATCACAAACGCAGCTATAGAACA-AACCTTTAGCGGCGC
1 TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
29299647 TT
1 TT
29299649 CTCGCAAAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 36 0.46
43 43 0.54
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
TTTTATCACAAACGCAGCTAAAGAACATGACCTTTAGCGGCGC
Found at i:29301085 original size:5 final size:5
Alignment explanation
Indices: 29301075--29301110 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
29301065 ATCAACATGT
29301075 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
29301111 ATAGTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:29305121 original size:16 final size:16
Alignment explanation
Indices: 29305086--29305122 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
29305076 CTTTCGTTTG
* *
29305086 ACATTACAATTAGCTG
1 ACATTACAATTAACTA
29305102 ACATTACAATTAACTA
1 ACATTACAATTAACTA
29305118 ACATT
1 ACATT
29305123 CTCATAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (16 bp):
ACATTACAATTAACTA
Found at i:29305512 original size:49 final size:49
Alignment explanation
Indices: 29305457--29305557 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
29305447 CTCATTTTCT
* * * *
29305457 CGATGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCA-TATAC
1 CGATGCCATAGACCAACTATGGTCCTACACGAAATCACATATCACT-TAC
* *
29305506 CGATGCCATAGACCAGCTATGGTCCTATACGAAATCACATATCACTTAC
1 CGATGCCATAGACCAACTATGGTCCTACACGAAATCACATATCACTTAC
29305555 CGA
1 CGA
29305558 AAGTACTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 44 0.98
50 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (49 bp):
CGATGCCATAGACCAACTATGGTCCTACACGAAATCACATATCACTTAC
Found at i:29306376 original size:33 final size:34
Alignment explanation
Indices: 29306325--29306533 Score: 129
Period size: 33 Copynumber: 5.7 Consensus size: 34
29306315 TTATCCGTTA
* *
29306325 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
* *
29306359 TCGG-GGAATCAGCACTTAGAAACCCCTTTCATATTCAATGAT
1 TCGGTGGAATCAGCACTTAGCAA---C---C--A-CCAATGAT
* *
29306401 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
29306435 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGTGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* * * *
29306476 ACGGTGGGATTAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
29306510 TCGG-GGAATC-GACACTTAGCAACC
1 TCGGTGGAATCAG-CACTTAGCAACC
29306534 CTTTGGGGGA
Statistics
Matches: 136, Mismatches: 19, Indels: 41
0.69 0.10 0.21
Matches are distributed among these distances:
32 1 0.01
33 53 0.39
34 18 0.13
35 1 0.01
36 4 0.03
37 2 0.01
38 1 0.01
39 4 0.03
40 1 0.01
41 6 0.04
42 28 0.21
43 17 0.12
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:29306452 original size:76 final size:75
Alignment explanation
Indices: 29306326--29306534 Score: 321
Period size: 76 Copynumber: 2.8 Consensus size: 75
29306316 TATCCGTTAT
* * * * *
29306326 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGAAACCCCTTTCAT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
29306391 ATTCAATGATA
66 ATTCAA-GATA
29306402 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
29306467 ATTTAAGATA
66 ATTCAAGATA
* *
29306477 CGGTGGGATTAGCACTTAGCAACCACCAATGAATCGGGGAATC-GACACTTAGCAACCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAG-CACTTAGCAACCC
29306535 TTTGGGGGAA
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
74 1 0.01
75 58 0.47
76 65 0.52
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:29306664 original size:51 final size:50
Alignment explanation
Indices: 29306586--29306724 Score: 172
Period size: 50 Copynumber: 2.8 Consensus size: 50
29306576 GATATCGGTT
*
29306586 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TATCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCAT-TCCAGTA
* * * * * **
29306637 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCAGTA
*
29306687 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
29306725 TCACTTTCAC
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
50 41 0.55
51 33 0.45
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCAGTA
Found at i:29310177 original size:29 final size:29
Alignment explanation
Indices: 29310140--29310196 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
29310130 AACATGAAAC
29310140 AACTAATCTATTAAGCAAGTCAGAAAATT
1 AACTAATCTATTAAGCAAGTCAGAAAATT
*
29310169 AACTCATCTATTAAGCAAGTCAGAAAAT
1 AACTAATCTATTAAGCAAGTCAGAAAAT
29310197 CAAAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (29 bp):
AACTAATCTATTAAGCAAGTCAGAAAATT
Found at i:29311497 original size:15 final size:15
Alignment explanation
Indices: 29311477--29311511 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
29311467 ATGACGAACC
29311477 GCTCGTCTCAAGTTT
1 GCTCGTCTCAAGTTT
29311492 GCTCGTCTCAAGTTT
1 GCTCGTCTCAAGTTT
29311507 GCTCG
1 GCTCG
29311512 AAAAGCCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.29, G:0.23, T:0.37
Consensus pattern (15 bp):
GCTCGTCTCAAGTTT
Found at i:29312106 original size:41 final size:41
Alignment explanation
Indices: 29312061--29312179 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
29312051 TGCTTGACTT
*
29312061 TTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCCCTCAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTCAGCA
* ** *
29312102 TTAGCGGCGATTCTTTTAAAACGCCGCTAAAGCCCTGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTCAGCA
* *
29312143 TTAGCGGCGCTTTTTCAAAAAAACGCCACTAAAGCCC
1 TTAGCGGCGCTTCTTC--AAAAACGCCGCTAAAGCCC
29312180 AAAAAACTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 49 0.74
43 17 0.26
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTCAGCA
Found at i:29312788 original size:56 final size:58
Alignment explanation
Indices: 29312709--29312816 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 58
29312699 AATCAAATGA
* *
29312709 AGAAATAGAAAACATTTGGAAATGATTAAGCTTTTCTCCAAAA-AAAAATGAACATGG
1 AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGAACATGG
* ** * *
29312766 AGAAAT-GAAAATATTTGAAAATGAATGTGGTTTTCTCCAAAATGAAAATGA
1 AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGA
29312817 CAATGAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 30 0.70
57 13 0.30
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (58 bp):
AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGAACATGG
Found at i:29312828 original size:56 final size:54
Alignment explanation
Indices: 29312698--29312830 Score: 131
Period size: 56 Copynumber: 2.4 Consensus size: 54
29312688 ATCGCATAAT
* * *
29312698 AAATCAAATGAAGAAATAGAAAACATTTGGAAATGATTAAGCTTTTCTCCAAAAAA
1 AAATGAAATGAA-AAAT-GAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAAAA
* * ** * *
29312754 AAATGAACATGGAGAAATGAAAATATTTGAAAATGAATGTGGTTTTCTCCAAAATGA
1 AAATGAA-AT-GAAAAATGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAA-AA
29312811 AAATGACAATGAAAAATGAA
1 AAATGA-AATGAAAAATGAA
29312831 TTTATATTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
56 45 0.71
57 15 0.24
58 3 0.05
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (54 bp):
AAATGAAATGAAAAATGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAAAA
Found at i:29313417 original size:17 final size:17
Alignment explanation
Indices: 29313385--29313418 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29313375 GTCCATATTA
* *
29313385 ATTTTTTATATTATTTT
1 ATTTTTTACATAATTTT
29313402 ATTTTTTACATAATTTT
1 ATTTTTTACATAATTTT
29313419 TAAATTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTACATAATTTT
Found at i:29320823 original size:9 final size:9
Alignment explanation
Indices: 29320793--29320832 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
29320783 ATTAATTTTT
29320793 TAAAATTTA
1 TAAAATTTA
*
29320802 -AAAATTCA
1 TAAAATTTA
*
29320810 AAAAATTTA
1 TAAAATTTA
29320819 TAAAATTTA
1 TAAAATTTA
29320828 TAAAA
1 TAAAA
29320833 AAAAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATTTA
Found at i:29322416 original size:23 final size:24
Alignment explanation
Indices: 29322365--29322417 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
29322355 TAAATTTTAT
29322365 TTGATAAATGTTTTGATATAATAAA
1 TTGAT-AATGTTTTGATATAATAAA
29322390 --GATAATGTTTTTGA-ATAA-AAA
1 TTGATAATG-TTTTGATATAATAAA
29322411 TTGATAA
1 TTGATAA
29322418 ATTCAAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
23 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (24 bp):
TTGATAATGTTTTGATATAATAAA
Found at i:29324184 original size:8 final size:8
Alignment explanation
Indices: 29324171--29324205 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
29324161 AAAAAATCGT
29324171 AATAATAA
1 AATAATAA
29324179 AATAATAA
1 AATAATAA
29324187 AATAATAA
1 AATAATAA
29324195 GAGATAATAA
1 -A-ATAATAA
29324205 A
1 A
29324206 CACAATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.64
9 2 0.08
10 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:29337682 original size:24 final size:24
Alignment explanation
Indices: 29337650--29337700 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
29337640 TTTAAATATG
29337650 AAAGGATGTTTTAGTAATTTTACT
1 AAAGGATGTTTTAGTAATTTTACT
*
29337674 AAAGGATGTTTTAGTAATTTTCCT
1 AAAGGATGTTTTAGTAATTTTACT
29337698 AAA
1 AAA
29337701 TAAGTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (24 bp):
AAAGGATGTTTTAGTAATTTTACT
Found at i:29340561 original size:17 final size:18
Alignment explanation
Indices: 29340547--29340609 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
29340537 CATTTTTACT
29340547 TTATT-TTATTTTTTAGC
1 TTATTATTATTTTTTAGC
29340564 TTATTATTATTATTATTA--
1 TTATTATTATT-TT-TTAGC
29340582 TTATTATTATTATTATTA--
1 TTATTATTATT-TT-TTAGC
29340600 TTATTATTAT
1 TTATTATTAT
29340610 GTATATCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.12
18 33 0.77
19 2 0.05
20 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATTATTATTTTTTAGC
Found at i:29340572 original size:3 final size:3
Alignment explanation
Indices: 29340564--29340609 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
29340554 ATTTTTTAGC
29340564 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
29340610 GTATATCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29344895 original size:8 final size:8
Alignment explanation
Indices: 29344833--29344904 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
29344823 GATACAAAGC
*
29344833 AAAAAAAG
1 AAAAAAAT
29344841 AAAAAGAA-
1 AAAAA-AAT
29344849 AAAAAAAT
1 AAAAAAAT
29344857 CAAAAAAAT
1 -AAAAAAAT
* *
29344866 --CAAAGT
1 AAAAAAAT
*
29344872 CAAAAATAT
1 -AAAAAAAT
29344881 AAAAAAAT
1 AAAAAAAT
29344889 AAAAAAAAT
1 -AAAAAAAT
29344898 AAAAAAA
1 AAAAAAA
29344905 AAAGAGAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
6 4 0.08
7 2 0.04
8 24 0.47
9 21 0.41
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:29344906 original size:10 final size:10
Alignment explanation
Indices: 29344836--29344906 Score: 56
Period size: 10 Copynumber: 6.9 Consensus size: 10
29344826 ACAAAGCAAA
*
29344836 AAAAGAAAAAG
1 AAAA-AAAAAT
29344847 AAAAAAAAAT
1 AAAAAAAAAT
*
29344857 -CAAAAAAAT
1 AAAAAAAAAT
*
29344866 CAAAGTCAAAAAT
1 -AAA--AAAAAAT
*
29344879 ATAAAAAAAT
1 AAAAAAAAAT
29344889 -AAAAAAAAT
1 AAAAAAAAAT
29344898 AAAAAAAAA
1 AAAAAAAAA
29344907 AGAGAAAAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
9 16 0.33
10 19 0.40
11 5 0.10
12 2 0.04
13 6 0.12
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.10
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:29344915 original size:19 final size:18
Alignment explanation
Indices: 29344848--29344905 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
29344838 AAGAAAAAGA
*
29344848 AAAAAAAATCAAAAAAAT
1 AAAAAAAATAAAAAAAAT
29344866 CAAAGTCAAAAATATAAAAAAAT
1 -AAA---AAAAATA-AAAAAAAT
29344889 AAAAAAAATAAAAAAAA
1 AAAAAAAATAAAAAAAA
29344906 AAGAGAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 7 0.21
19 10 0.29
22 9 0.26
23 8 0.24
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (18 bp):
AAAAAAAATAAAAAAAAT
Found at i:29345761 original size:15 final size:16
Alignment explanation
Indices: 29345720--29345762 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
29345710 TTGAGTCAAA
*
29345720 AAAAAGAAAAAAGATG
1 AAAAAGTAAAAAGATG
29345736 AAAAA-TGAAAAA-ATG
1 AAAAAGT-AAAAAGATG
29345751 AAAAAGTAAAAA
1 AAAAAGTAAAAA
29345763 TAGAGAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (16 bp):
AAAAAGTAAAAAGATG
Found at i:29345893 original size:21 final size:21
Alignment explanation
Indices: 29345847--29345886 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
29345837 GCTCAAATGT
29345847 TGATCAGAATGGGGCATGAAC
1 TGATCAGAATGGGGCATGAAC
*
29345868 TGATCAGATTGGGGCATGA
1 TGATCAGAATGGGGCATGA
29345887 TGTGATCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (21 bp):
TGATCAGAATGGGGCATGAAC
Found at i:29347021 original size:46 final size:46
Alignment explanation
Indices: 29346949--29347440 Score: 743
Period size: 46 Copynumber: 10.7 Consensus size: 46
29346939 TATCAATGAG
*
29346949 GATAGCAGATCTTATCTTCCTGTATTTGACAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
29346995 GATAGCAGATCTTATCTTCCTATATTTGGCAGCGGAAGAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
29347041 GATAGC-GAATCTTATCTTCCTGTATTTGGTAGCGGAAGAGATCGAA
1 GATAGCAG-ATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
29347087 GATAGCAGATTTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
29347133 GATAACGGATCTTATCTTCCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
29347179 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
29347225 GATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGAAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
29347271 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * * *
29347317 GATAGTAGATATTATCTTCCTGTATTTAGCAGCGAAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
29347363 GATAGCAGATCTTATCTTCCTATATTTGGCAGCGGAGGAGATCGAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
29347409 GATAGCAGATCTTGTCTTCCTGTAATTGGCAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAG
29347441 TAGAGGGATT
Statistics
Matches: 402, Mismatches: 42, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 400 1.00
47 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
Found at i:29347607 original size:132 final size:132
Alignment explanation
Indices: 29347449--29348684 Score: 2166
Period size: 132 Copynumber: 9.4 Consensus size: 132
29347439 AGTAGAGGGA
* *
29347449 TTGAAGATTACAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
29347514 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29347579 GG
131 GG
*
29347581 TTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* *
29347646 TTCCCAATACAGTGGAGAAGCATATTTAAGTCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29347711 GG
131 GG
* *
29347713 TTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAACAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* *
29347778 TTCCCAATACAGTGGAGAAGTAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29347843 GG
131 GG
*
29347845 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGTAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
29347910 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29347975 GG
131 GG
*
29347977 TTAAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
29348042 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29348107 GG
131 GG
*
29348109 TTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
*
29348174 TTCCCAATACAGTGGAGAAGCAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29348239 GG
131 GG
29348241 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
*
29348306 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29348371 GG
131 GG
* * * * * *
29348373 TCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGAAGCAAATCGAAGACGGTGAATCTTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* *
29348438 TTCTCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29348503 GG
131 GG
* * * * * *
29348505 TCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATTATC
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
* *
29348570 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATA
66 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
29348635 GG
131 GG
* * * *
29348637 TCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTAGAGCAAATCAA
1 TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAA
29348685 CAATAACGAA
Statistics
Matches: 1059, Mismatches: 45, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 1059 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
TTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
GG
Found at i:29350169 original size:17 final size:18
Alignment explanation
Indices: 29350155--29350236 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 18
29350145 CATTTTTACT
29350155 TTATT-TTATTTTTTAGC
1 TTATTATTATTTTTTAGC
29350172 TTATTATTATTATTATTA--
1 TTATTATTATT-TT-TTAGC
29350190 TTATTATTATTATTATTA--
1 TTATTATTATT-TT-TTAGC
29350208 TTATTATTATTATTATTA--
1 TTATTATTATT-TT-TTAGC
29350226 TTATTATTATT
1 TTATTATTATT
29350237 ATTATTATTA
Statistics
Matches: 62, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
17 5 0.08
18 52 0.84
19 2 0.03
20 3 0.05
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (18 bp):
TTATTATTATTTTTTAGC
Found at i:29350180 original size:3 final size:3
Alignment explanation
Indices: 29350172--29350250 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
29350162 ATTTTTTAGC
29350172 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29350220 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
29350251 GTATATCTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29352066 original size:45 final size:45
Alignment explanation
Indices: 29352015--29352102 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
29352005 GACTTTGTCT
29352015 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
1 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
*
29352060 CTTTGACCTTTTGTGACTCAAAATTATCACTGAAAACATATTG
1 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTG
29352103 CATTAGAGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (45 bp):
CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
Found at i:29356665 original size:34 final size:35
Alignment explanation
Indices: 29356621--29356687 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
29356611 GAGTAAAATA
29356621 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
29356655 TTTTCTGTAAAATGATTTATTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
29356688 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:29358191 original size:12 final size:12
Alignment explanation
Indices: 29358167--29358204 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29358157 ATTAAAATGG
29358167 AAGAAAAAGTTAA
1 AAGAAAAA-TTAA
*
29358180 ATGAAAAATTAA
1 AAGAAAAATTAA
29358192 AAGAAAAA-TAA
1 AAGAAAAATTAA
29358203 AA
1 AA
29358205 CGTCGTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 5 0.22
12 11 0.48
13 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (12 bp):
AAGAAAAATTAA
Found at i:29366032 original size:3 final size:3
Alignment explanation
Indices: 29366024--29366048 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29366014 ATCCATCACA
29366024 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
29366049 CAATTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:29366613 original size:13 final size:14
Alignment explanation
Indices: 29366589--29366626 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
29366579 TGTTTCACTG
29366589 AAAATGACTTTC-GA
1 AAAATGA-TTTCTGA
*
29366603 AAAATGATTTCTGG
1 AAAATGATTTCTGA
29366617 AAAATGATTT
1 AAAATGATTT
29366627 ATTTTTCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:29367103 original size:15 final size:15
Alignment explanation
Indices: 29367083--29367134 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
29367073 ACTACAAGAC
29367083 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
29367098 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
29367117 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
29367132 ATT
1 ATT
29367135 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:29369366 original size:13 final size:13
Alignment explanation
Indices: 29369348--29369372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29369338 ATTTGCGTGT
29369348 TAAAATATAATAA
1 TAAAATATAATAA
29369361 TAAAATATAATA
1 TAAAATATAATA
29369373 TAATTTTATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAATATAATAA
Found at i:29377542 original size:164 final size:164
Alignment explanation
Indices: 29376340--29379038 Score: 4148
Period size: 164 Copynumber: 16.5 Consensus size: 164
29376330 CGTGACGATT
29376340 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29376405 TAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATAC--TAACATGTTGCCGTTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
29376468 CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
131 CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
*
29376502 TGGCCCATGCAGGTCTCGAACCTGCGACATTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * *
29376567 TAATAGGCCGTTGATATTTCCG-CTAAAATTCTGTTTTAATAAATACTATAACAGGTTGACGTTT
66 TAATAGGCCGTTGATATTCCCGCCT-AAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTT
29376631 TCCAAAAAACAAAAAATAAAGTAAAAAAAAGCCATTAA
130 TCCAAAAAACAAAAAATAAAG---AAAAAAGCCATTAA
*
29376669 TGGCCCATG-A-------AACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29376726 TAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCCG-TTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
*
29376790 CCAAAAAACAAAAAA-AAGGAAAACAAGCCATTAA
131 CCAAAAAACAAAAAATAAAGAAAA-AAGCCATTAA
29376824 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29376889 TAATAGGCCGTTGACATTCCCGCTTAAATT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCT-GTTTTAATAAATACTGTAACAGGTTGCCGTTT
* *
29376953 TCCAAAAAACAAAAAATAAAGAAAAAATACCATTAT
130 TCCAAAAAACAAAAAATAAAGAAAAAA-GCCATTAA
*
29376989 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29377054 TAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATAC--TAACATGTTGCCGTTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
29377117 CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
131 CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
*
29377151 TGGCCCATGCAGGTCTCGAACCTGCGACATTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * *
29377216 TAATAGGCCGTTGATATTTCCG-CTAAATTCTGTTTTAATAAATACTATAACAGGTTGACGTTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
29377280 CCAAAAAACAAAAAATAAAGTAAAAAAAAGCCATTAA
131 CCAAAAAACAAAAAATAAAG---AAAAAAGCCATTAA
* *
29377317 TGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29377382 TAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCCG-TTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
29377446 CCAAAAAACAAAAAA-AAAGGAAAACAAGCCATTAA
131 CCAAAAAACAAAAAATAAA-GAAAA-AAGCCATTAA
29377481 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29377546 TAATAGGCCGTTGACATTCCCGCTTAAATT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCT-GTTTTAATAAATACTGTAACAGGTTGCCGTTT
* *
29377610 TCCAAAAAACAAAAAATAAAGAAAAAATACCATTAT
130 TCCAAAAAACAAAAAATAAAGAAAAAA-GCCATTAA
*
29377646 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29377711 TAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATAC--TAACATGTTGCCGTTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
29377774 CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
131 CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
*
29377808 TGGCCCATGCAGGTCTCGAACCTGCGACATTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * *
29377873 TAATAGGCCGTTGATATTTCCG-CTAAAATTCTGTTTTAATAAATACTATAACAGGTTGACGTTT
66 TAATAGGCCGTTGATATTCCCGCCT-AAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTT
29377937 TCCAAAAAACAAAAAATAAAGTAAAAAAAAGCCATTAA
130 TCCAAAAAACAAAAAATAAAG---AAAAAAGCCATTAA
* *
29377975 TGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29378040 TAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCCG-TTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
29378104 CCAAAAAACAAAAAA-AAAGGAAAACAAGCCATTAA
131 CCAAAAAACAAAAAATAAA-GAAAA-AAGCCATTAA
29378139 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29378204 TAATAGGCCGTTGACATTCCCGCTTAAATT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCT-GTTTTAATAAATACTGTAACAGGTTGCCGTTT
* *
29378268 TCCAAAAAACAAAAAATAAAGAAAAAATACCATTAT
130 TCCAAAAAACAAAAAATAAAGAAAAAA-GCCATTAA
*
29378304 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29378369 TAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATAC--TAACATGTTGCCGTTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
29378432 CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
131 CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
*
29378466 TGGCCCATGCAGGTCTCGAACCTGCGACATTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * *
29378531 TAATAGGCCGTTGATATTTCCG-CTAAAATTCTGTTTTAATAAATACTATAACAGGTTGACGTTT
66 TAATAGGCCGTTGATATTCCCGCCT-AAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTT
29378595 TCCAAAAAACAAAAAATAAAGTAAAAAAAAGCCATTAA
130 TCCAAAAAACAAAAAATAAAG---AAAAAAGCCATTAA
* *
29378633 TGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29378698 TAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCCG-TTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
29378762 CCAAAAAACAAAAAA-AAAGGAAAACAAGCCATTAA
131 CCAAAAAACAAAAAATAAA-GAAAA-AAGCCATTAA
29378797 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
29378862 TAATAGGCCGTTGACATTCCCGCTTAAATT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTT
66 TAATAGGCCGTTGATATTCCCGCCTAAATTCT-GTTTTAATAAATACTGTAACAGGTTGCCGTTT
* *
29378926 TCCAAAAAACAAAAAATAAAGAAAAAATACCATTAT
130 TCCAAAAAACAAAAAATAAAGAAAAAA-GCCATTAA
*
29378962 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
29379027 TAATAGGCCGTT
66 TAATAGGCCGTT
29379039 TTGTACCCTT
Statistics
Matches: 2327, Mismatches: 149, Indels: 119
0.90 0.06 0.05
Matches are distributed among these distances:
154 4 0.00
155 19 0.01
156 1 0.00
157 3 0.00
158 18 0.01
159 96 0.04
160 2 0.00
161 27 0.01
162 409 0.18
163 268 0.12
164 506 0.22
165 494 0.21
166 166 0.07
167 310 0.13
168 4 0.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (164 bp):
TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
TAATAGGCCGTTGATATTCCCGCCTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
CCAAAAAACAAAAAATAAAGAAAAAAGCCATTAA
Found at i:29377726 original size:329 final size:329
Alignment explanation
Indices: 29376339--29379038 Score: 4369
Period size: 329 Copynumber: 8.2 Consensus size: 329
29376329 ACGTGACGAT
*
29376339 TTGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * * *
29376404 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
66 CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATACTAACAAGTTGCCGTTTTC
29376469 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
131 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
* * *
29376534 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
196 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAATTCT
29376599 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
261 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
29376664 ATTA
326 ATTA
* *
29376668 ATGGCCCATG-A-------AACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * *
29376725 CTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCCG-TT
66 CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATAC--TAACAAGTTGCCGTTT
* *
29376789 TCCAAAAAACAAAAAA-AAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACC
129 TCCAAAAAACAAAAAATAAAGAAAA-AAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACA
29376853 TTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAAT
193 TTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAAT
* * ** *
29376918 T-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAG-AAAAAAT
258 TCT-GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAA
29376981 A-CCATTA
322 AGCCATTA
29376988 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * * *
29377053 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
66 CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATACTAACAAGTTGCCGTTTTC
29377118 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
131 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
* *
29377183 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGC-TAAATTCT
196 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAATTCT
29377247 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
261 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
29377312 ATTA
326 ATTA
* *
29377316 ATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * *
29377381 CTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCCG-TT
66 CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATAC--TAACAAGTTGCCGTTT
29377445 TCCAAAAAACAAAAAA-AAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGAC
129 TCCAAAAAACAAAAAATAAA-GAAAA-AAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGAC
*
29377509 CTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAA
192 ATTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAA
* * **
29377574 TT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAG-AAAAAA
257 TTCT-GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAA
*
29377637 TA-CCATTA
321 AAGCCATTA
29377645 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * * *
29377710 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
66 CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATACTAACAAGTTGCCGTTTTC
29377775 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
131 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
* * *
29377840 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
196 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAATTCT
29377905 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
261 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
29377970 ATTA
326 ATTA
* *
29377974 ATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * *
29378039 CTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCCG-TT
66 CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATAC--TAACAAGTTGCCGTTT
29378103 TCCAAAAAACAAAAAA-AAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGAC
129 TCCAAAAAACAAAAAATAAA-GAAAA-AAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGAC
*
29378167 CTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAA
192 ATTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAA
* * **
29378232 TT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAG-AAAAAA
257 TTCT-GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAA
*
29378295 TA-CCATTA
321 AAGCCATTA
29378303 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * * *
29378368 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
66 CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATACTAACAAGTTGCCGTTTTC
29378433 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
131 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
* * *
29378498 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
196 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAATTCT
29378563 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
261 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
29378628 ATTA
326 ATTA
* *
29378632 ATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
* * *
29378697 CTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCCG-TT
66 CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATAC--TAACAAGTTGCCGTTT
29378761 TCCAAAAAACAAAAAA-AAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGAC
129 TCCAAAAAACAAAAAATAAA-GAAAA-AAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGAC
*
29378825 CTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAA
192 ATTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAA
* * **
29378890 TT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAG-AAAAAA
257 TTCT-GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAA
*
29378953 TA-CCATTA
321 AAGCCATTA
29378961 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
29379026 CTAATAGGCCGTT
66 CTAATAGGCCGTT
29379039 TTGTACCCTT
Statistics
Matches: 2200, Mismatches: 128, Indels: 86
0.91 0.05 0.04
Matches are distributed among these distances:
320 15 0.01
321 102 0.05
322 168 0.08
323 12 0.01
326 67 0.03
327 445 0.20
328 269 0.12
329 566 0.26
330 177 0.08
331 379 0.17
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (329 bp):
TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
CTAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATACTAACAAGTTGCCGTTTTC
CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTAAATTCT
GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
ATTA
Found at i:29378356 original size:658 final size:658
Alignment explanation
Indices: 29376339--29379038 Score: 5321
Period size: 658 Copynumber: 4.1 Consensus size: 658
29376329 ACGTGACGAT
*
29376339 TTGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
29376404 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
66 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
29376469 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
131 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
29376534 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
196 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
29376599 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
261 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
29376664 ATTAATGGCCCATG-A-------AACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
326 ATTAATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
29376721 TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
391 TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
29376786 GTTTCCAAAAAAC-AAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
456 GTTTCCAAAAAACAAAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
29376850 ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
521 ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
29376915 AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
586 AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
29376980 TACCATTA
651 TACCATTA
29376988 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
29377053 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
66 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
29377118 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
131 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
29377183 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCT-AAATTCT
196 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
29377247 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
261 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
29377312 ATTAATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
326 ATTAATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
29377377 TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
391 TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
29377442 GTTTCCAAAAAACAAAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
456 GTTTCCAAAAAACAAAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
29377507 ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
521 ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
29377572 AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
586 AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
29377637 TACCATTA
651 TACCATTA
29377645 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
29377710 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
66 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
29377775 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
131 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
29377840 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
196 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
29377905 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
261 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
29377970 ATTAATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
326 ATTAATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
29378035 TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
391 TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
29378100 GTTTCCAAAAAACAAAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
456 GTTTCCAAAAAACAAAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
29378165 ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
521 ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
29378230 AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
586 AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
29378295 TACCATTA
651 TACCATTA
29378303 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
29378368 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
66 CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
29378433 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
131 CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
29378498 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
196 GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
29378563 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
261 GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
29378628 ATTAATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
326 ATTAATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
29378693 TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
391 TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
29378758 GTTTCCAAAAAACAAAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
456 GTTTCCAAAAAACAAAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
29378823 ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
521 ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
29378888 AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
586 AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
29378953 TACCATTA
651 TACCATTA
29378961 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
1 TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
29379026 CTAATAGGCCGTT
66 CTAATAGGCCGTT
29379039 TTGTACCCTT
Statistics
Matches: 2040, Mismatches: 1, Indels: 11
0.99 0.00 0.01
Matches are distributed among these distances:
648 86 0.04
649 252 0.12
656 120 0.06
657 441 0.22
658 1141 0.56
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (658 bp):
TTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAG
CTAATAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTAGTAAATACTAACATGTTGCCGTTTTC
CAAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTC
GCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCT
GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAAAAGCC
ATTAATGGCCCATGCAGGTTTCGAACCTGCAACCTTCGCGTTATTAGCACGACGCTCTAACCAGC
TGAGCTAATAGGCCGTTGATACTCCCGCCTAAGTTTTGTTTTAATAAATACTGTAACAAGTTGCC
GTTTCCAAAAAACAAAAAAAAAGGAAAACAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCG
ACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTTA
AATTTAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAAATAAAGAAAAAA
TACCATTA
Found at i:29384315 original size:2 final size:2
Alignment explanation
Indices: 29384310--29384339 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
29384300 ATATATATAT
*
29384310 AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
29384340 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:29389550 original size:19 final size:20
Alignment explanation
Indices: 29389526--29389571 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
29389516 AAATTTACAT
*
29389526 AAATTTAAATTTA-ACAAAA
1 AAATTTAAATATATACAAAA
*
29389545 AAATTTAAATATATATAAAA
1 AAATTTAAATATATACAAAA
29389565 AAATTTA
1 AAATTTA
29389572 CATAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTTAAATATATACAAAA
Found at i:29389563 original size:29 final size:29
Alignment explanation
Indices: 29389508--29389563 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
29389498 TTTTTATATA
* *
29389508 TAACAAAAAAATTTACATAAATTTAAATT
1 TAACAAAAAAATTTAAATAAATATAAATT
*
29389537 TAACAAAAAAATTTAAATATATATAAA
1 TAACAAAAAAATTTAAATAAATATAAA
29389564 AAAATTTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
TAACAAAAAAATTTAAATAAATATAAATT
Found at i:29389582 original size:21 final size:20
Alignment explanation
Indices: 29389541--29389583 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
29389531 TAAATTTAAC
*
29389541 AAAAAAATTTAAATATATAT
1 AAAAAAATTTAAATAAATAT
*
29389561 AAAAAAATTTACATAAATTAT
1 AAAAAAATTTAAATAAA-TAT
29389582 AA
1 AA
29389584 GTTCAAAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAATTTAAATAAATAT
Found at i:29390099 original size:19 final size:19
Alignment explanation
Indices: 29390060--29390100 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
29390050 TTGAAATATC
*
29390060 TTTATTATAAAAACATCAT
1 TTTATTATAAAAACATAAT
* *
29390079 TTTATTATAAATACCTAAT
1 TTTATTATAAAAACATAAT
29390098 TTT
1 TTT
29390101 TTTAAATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATTATAAAAACATAAT
Found at i:29416490 original size:49 final size:49
Alignment explanation
Indices: 29416433--29416530 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
29416423 AGGTCCTATA
29416433 AGCTGGTTTTTCATATTTTTGCATCATGTGAGTTCAATTCTTGCGCTTT
1 AGCTGGTTTTTCATATTTTTGCATCATGTGAGTTCAATTCTTGCGCTTT
* *
29416482 AGCTGGTTTTTCATATTTTTGTATCATGTGAGTTCAATTCTTGCTCTTT
1 AGCTGGTTTTTCATATTTTTGCATCATGTGAGTTCAATTCTTGCGCTTT
29416531 TCTTGTAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.16, C:0.15, G:0.17, T:0.51
Consensus pattern (49 bp):
AGCTGGTTTTTCATATTTTTGCATCATGTGAGTTCAATTCTTGCGCTTT
Found at i:29421578 original size:12 final size:12
Alignment explanation
Indices: 29421561--29421585 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29421551 TTTACAAATC
29421561 ATAAAAGTTTGA
1 ATAAAAGTTTGA
29421573 ATAAAAGTTTGA
1 ATAAAAGTTTGA
29421585 A
1 A
29421586 ATACTTGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATAAAAGTTTGA
Found at i:29424470 original size:25 final size:25
Alignment explanation
Indices: 29424442--29424491 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
29424432 TGAGAAAATG
29424442 TATGATTTATTTACAATTAAATTTA
1 TATGATTTATTTACAATTAAATTTA
* *
29424467 TATGATTTATTTATAATTTAATTTA
1 TATGATTTATTTACAATTAAATTTA
29424492 ATTTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TATGATTTATTTACAATTAAATTTA
Found at i:29431347 original size:41 final size:41
Alignment explanation
Indices: 29431290--29431373 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
29431280 CTAGAAACTA
29431290 AAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
1 AAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
29431331 AAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
1 AAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
29431372 AA
1 AA
29431374 TTTTGAGGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.52, C:0.05, G:0.26, T:0.17
Consensus pattern (41 bp):
AAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
Found at i:29436072 original size:12 final size:12
Alignment explanation
Indices: 29436055--29436080 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29436045 TCGAATAAGC
29436055 ATGTATATATAT
1 ATGTATATATAT
29436067 ATGTATATATAT
1 ATGTATATATAT
29436079 AT
1 AT
29436081 AATGCTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:29436813 original size:40 final size:41
Alignment explanation
Indices: 29436709--29436861 Score: 218
Period size: 41 Copynumber: 3.8 Consensus size: 41
29436699 AGGCTAAGCG
29436709 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
29436750 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
* ** * *
29436791 CCTAGCA-GCTACATGCCGGTGATTTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
* * * *
29436831 TCTAGCAGTCTATGTGCCGGTGATCTGAATC
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATC
29436862 AAGCTATAAG
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 34 0.34
41 67 0.66
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:29436852 original size:81 final size:82
Alignment explanation
Indices: 29436709--29436861 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 82
29436699 AGGCTAAGCG
* ** *
29436709 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
1 CCTAGCAGGCTACATGCCGGTGATTTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCGGTGAT
*
29436774 TTGAATCGGGTTATAAA
66 CTGAATCGGGTTATAAA
** * *
29436791 CCTAGCA-GCTACATGCCGGTGATTTGAATCAAGCTATAAGTCTAGCAGTCTATGTGCCGGTGAT
1 CCTAGCAGGCTACATGCCGGTGATTTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCGGTGAT
29436855 CTGAATC
66 CTGAATC
29436862 AAGCTATAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
81 55 0.89
82 7 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (82 bp):
CCTAGCAGGCTACATGCCGGTGATTTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCGGTGAT
CTGAATCGGGTTATAAA
Found at i:29436870 original size:81 final size:81
Alignment explanation
Indices: 29436709--29436879 Score: 207
Period size: 81 Copynumber: 2.1 Consensus size: 81
29436699 AGGCTAAGCG
* ** *
29436709 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
1 CCTAGCA-GCTACATGCCGGTGATTTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCGGTGAT
* ** *
29436774 TTGAATCGGGTTATAAA
65 CTGAATCAAGCTATAAA
** * *
29436791 CCTAGCAGCTACATGCCGGTGATTTGAATCAAGCTATAAGTCTAGCAGTCTATGTGCCGGTGATC
1 CCTAGCAGCTACATGCCGGTGATTTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCGGTGATC
*
29436856 TGAATCAAGCTATAAG
66 TGAATCAAGCTATAAA
*
29436872 TCTAGCAG
1 CCTAGCAG
29436880 GCTATGTACC
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 68 0.91
82 7 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (81 bp):
CCTAGCAGCTACATGCCGGTGATTTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCGGTGATC
TGAATCAAGCTATAAA
Found at i:29436886 original size:41 final size:41
Alignment explanation
Indices: 29436709--29436883 Score: 217
Period size: 41 Copynumber: 4.3 Consensus size: 41
29436699 AGGCTAAGCG
** *
29436709 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAAGCTATAAA
** *
29436750 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAAGCTATAAA
* *
29436791 CCTAGCA-GCTACATGCCGGTGATTTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAAGCTATAAA
* * * * *
29436831 TCTAGCAGTCTATGTGCCGGTGATCTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAAGCTATAAA
*
29436872 TCTAGCAGGCTA
1 CCTAGCAGGCTA
29436884 TGTACCGTTG
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
40 34 0.28
41 88 0.72
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCAAGCTATAAA
Found at i:29441823 original size:22 final size:22
Alignment explanation
Indices: 29441795--29441844 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
29441785 ACAAATCCTA
*
29441795 TCTCAATTTCCTTTCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
29441817 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
29441839 TCTCAA
1 TCTCAA
29441845 ATCCATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:29441915 original size:30 final size:30
Alignment explanation
Indices: 29441881--29441941 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
29441871 CAATTTCATT
*
29441881 TTTTTTAAAATAATTTTAAATTTTTTTATA
1 TTTTTAAAAATAATTTTAAATTTTTTTATA
29441911 TTTTTAAAAATAATTTTAAATTTTTTTATA
1 TTTTTAAAAATAATTTTAAATTTTTTTATA
29441941 T
1 T
29441942 ATTCATCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTAAAAATAATTTTAAATTTTTTTATA
Found at i:29444208 original size:29 final size:29
Alignment explanation
Indices: 29444166--29444905 Score: 1018
Period size: 29 Copynumber: 24.8 Consensus size: 29
29444156 AAAAAAATCT
*
29444166 TAATTTAATTAAAAACCCTAAACACTAACC
1 TAATTTAATTAAAAACCCT-AACCCTAACC
*
29444196 TAATTTAATAAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
* *
29444225 TAATTTAATTAAAAACTCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
29444254 TAATTTAATTAAAAACCCTAACCCTACCC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
29444283 TAATTTAATTAAAAACCCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
29444312 TAATTTAATTAAAAACCCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
29444341 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
29444370 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
* *
29444399 TAATTTAATTAAAAACCCTAACTCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
29444428 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
29444457 TAATTTAATTAAAAACCCTAAACCCAAACC
1 TAATTTAATTAAAAACCCT-AACCCTAACC
29444487 TAATTTAATTAAAAACCCTAACCTTAACCCTAACC
1 TAATTTAATTAAAAA--C---CC-TAACCCTAACC
*
29444522 TAATTTAATTAAAAACCCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
29444551 TAATTTAATTAAAAACCCTAACCCTAACCCTAACC
1 TAATTTAATT--AAA----AACCCTAACCCTAACC
* * *
29444586 TAATTTATTTTAAAACCCTAAACCCT-GCC
1 TAATTTAATTAAAAACCCT-AACCCTAACC
*
29444615 ATAATTTAATTAAAAACTCTAACCCTAACC
1 -TAATTTAATTAAAAACCCTAACCCTAACC
*
29444645 TAATTTAATT--AAACCCTAATCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
* * *
29444672 TAATTTATTTTAAAACCCTAAACCCTCACC
1 TAATTTAATTAAAAACCCT-AACCCTAACC
29444702 TAATTTAATTAAAAACCCTAACCCTAACCGTAACC
1 TAATTTAATTAAAAACCCTAA--C---CC-TAACC
* *
29444737 TAATTTATTTTAAAACCCTAAACCCTAACC
1 TAATTTAATTAAAAACCCT-AACCCTAACC
29444767 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
* *
29444796 TAATTTAATTAAAAACTCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
29444825 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
29444854 TAATTTAATTAAAAACCCTAAACCCTAACT
1 TAATTTAATTAAAAACCCT-AACCCTAACC
29444884 TAATTTAATTAAAAACCCTAAC
1 TAATTTAATTAAAAACCCTAAC
29444906 TATTAACAAA
Statistics
Matches: 640, Mismatches: 43, Indels: 55
0.87 0.06 0.07
Matches are distributed among these distances:
27 24 0.04
29 386 0.60
30 143 0.22
31 6 0.01
32 1 0.00
33 3 0.00
34 3 0.00
35 71 0.11
36 3 0.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (29 bp):
TAATTTAATTAAAAACCCTAACCCTAACC
Found at i:29444675 original size:22 final size:21
Alignment explanation
Indices: 29444635--29444676 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
29444625 TAAAAACTCT
**
29444635 AACCCTAACCTAATTTAATTA
1 AACCCTAACCTAACCTAATTA
29444656 AACCCTAATCCTAACCTAATT
1 AACCCTAA-CCTAACCTAATT
29444677 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (21 bp):
AACCCTAACCTAACCTAATTA
Found at i:29448883 original size:14 final size:14
Alignment explanation
Indices: 29448841--29448890 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
29448831 CTAAAGTTCA
29448841 ATTATAATAA-ATTT
1 ATTA-AATAATATTT
*
29448855 ATTAAA-ACTACTTT
1 ATTAAATAATA-TTT
29448869 ATTAAATAATATTT
1 ATTAAATAATATTT
*
29448883 AATAAATA
1 ATTAAATA
29448891 TTATGATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 3 0.10
14 23 0.77
15 3 0.10
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAATAATATTT
Found at i:29453955 original size:24 final size:24
Alignment explanation
Indices: 29453924--29454036 Score: 79
Period size: 24 Copynumber: 4.6 Consensus size: 24
29453914 CAATTATCAA
* *
29453924 GAAGCTCATACGAGCCATAAACGG
1 GAAGCTCATAAGAGCCATAAACAG
* *
29453948 GAAGCTCA-AGAGAGTCATTAACAG
1 GAAGCTCATA-AGAGCCATAAACAG
29453972 GAAGCTCATAAGAGCCA-AATATC-G
1 GAAGCTCATAAGAGCCATAA-A-CAG
* * *
29453996 AGAAGCTCGTGAGAACCATATAACAG
1 -GAAGCTCATAAGAGCCATA-AACAG
* *
29454022 GATGCTTATAAGAGC
1 GAAGCTCATAAGAGC
29454037 TAAATAACAG
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
23 2 0.03
24 34 0.51
25 27 0.40
26 3 0.04
27 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAAACAG
Found at i:29458482 original size:20 final size:19
Alignment explanation
Indices: 29458432--29458482 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
29458422 AATGTTTGTT
*
29458432 CTTTCTTCTTCTTCTTTTTG
1 CTTTCTT-TTCTTCTTTTAG
*
29458452 CTTCTCCTTTCTTTCTTTTAG
1 CTT-TCTTTTC-TTCTTTTAG
29458473 CTTTCTTTTC
1 CTTTCTTTTC
29458483 CTTTAATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.02, C:0.27, G:0.04, T:0.67
Consensus pattern (19 bp):
CTTTCTTTTCTTCTTTTAG
Found at i:29464942 original size:10 final size:9
Alignment explanation
Indices: 29464929--29465045 Score: 55
Period size: 9 Copynumber: 12.9 Consensus size: 9
29464919 TAAAAACGAT
29464929 TAAAAAATCA
1 TAAAAAAT-A
29464939 TAAAAAATA
1 TAAAAAATA
29464948 -AAAAAATA
1 TAAAAAATA
*
29464956 -AAATTAATA
1 TAAA-AAATA
**
29464965 T-AAACTTA
1 TAAAAAATA
*
29464973 CT-AAAATTA
1 -TAAAAAATA
*
29464982 TAAAAAAAA
1 TAAAAAATA
* *
29464991 TTATAAATA
1 TAAAAAATA
*
29465000 TTATAAAATA
1 -TAAAAAATA
29465010 TAAAAATATA
1 TAAAAA-ATA
**
29465020 TAATAAGTTA
1 TAA-AAAATA
29465030 TAAAAAAT-
1 TAAAAAATA
29465038 TAAAAAAT
1 TAAAAAAT
29465046 TTATTAGAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 16
0.71 0.16 0.14
Matches are distributed among these distances:
8 22 0.27
9 33 0.40
10 25 0.30
11 2 0.02
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.29
Consensus pattern (9 bp):
TAAAAAATA
Found at i:29464987 original size:9 final size:9
Alignment explanation
Indices: 29464986--29465136 Score: 71
Period size: 10 Copynumber: 16.6 Consensus size: 9
29464976 AAATTATAAA
29464986 AAAAATTAT
1 AAAAATTAT
*
29464995 AAATATTAT
1 AAAAATTAT
29465004 -AAAA-TAT
1 AAAAATTAT
29465011 AAAAATATAT
1 AAAAAT-TAT
*
29465021 AATAAGTTAT
1 AA-AAATTAT
29465031 AAAAAATTA-
1 -AAAAATTAT
29465040 AAAAATTTAT
1 AAAAA-TTAT
* * *
29465050 TAGAATTCTT
1 AAAAATT-AT
* * *
29465060 AAAAGTAACC
1 AAAAATTA-T
*
29465070 AAAAAGTA-
1 AAAAATTAT
29465078 AAAAA--AT
1 AAAAATTAT
*
29465085 TAAAATTAT
1 AAAAATTAT
*
29465094 TAAAATTAT
1 AAAAATTAT
*
29465103 ATAAACTTAT
1 A-AAAATTAT
29465113 AAAAATTAT
1 AAAAATTAT
*
29465122 AAAAAATCAT
1 -AAAAATTAT
29465132 AAAAA
1 AAAAA
29465137 CTTGAGCTAG
Statistics
Matches: 107, Mismatches: 21, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
6 1 0.01
7 7 0.07
8 17 0.16
9 36 0.34
10 41 0.38
11 5 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:29465112 original size:10 final size:10
Alignment explanation
Indices: 29465085--29465128 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
29465075 GTAAAAAAAT
29465085 TAAAATTAT-
1 TAAAATTATA
29465094 TAAAATTATA
1 TAAAATTATA
*
29465104 TAAACTTATA
1 TAAAATTATA
29465114 -AAAATTATA
1 TAAAATTATA
*
29465123 AAAAAT
1 TAAAAT
29465129 CATAAAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 17 0.55
10 14 0.45
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAATTATA
Found at i:29465112 original size:19 final size:19
Alignment explanation
Indices: 29465085--29465136 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
29465075 GTAAAAAAAT
*
29465085 TAAAATTATTAAAATTATA
1 TAAAATTATAAAAATTATA
*
29465104 TAAACTTATAAAAATTATA
1 TAAAATTATAAAAATTATA
* *
29465123 AAAAATCATAAAAA
1 TAAAATTATAAAAA
29465137 CTTGAGCTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATTATAAAAATTATA
Found at i:29470946 original size:29 final size:29
Alignment explanation
Indices: 29470913--29470971 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
29470903 TGGAAGTGTA
29470913 AGTCTCCAAAACCTCGTTACATTTATCGT
1 AGTCTCCAAAACCTCGTTACATTTATCGT
29470942 AGTCTCCAAAACCTCGTTACATTTATCGT
1 AGTCTCCAAAACCTCGTTACATTTATCGT
29470971 A
1 A
29470972 TTTCCCTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (29 bp):
AGTCTCCAAAACCTCGTTACATTTATCGT
Found at i:29476288 original size:6 final size:6
Alignment explanation
Indices: 29476279--29476327 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
29476269 AATAAATTCA
* * *
29476279 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACACAC ACACAC ACACAC
1 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
29476327 A
1 A
29476328 TATATATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.41, C:0.49, G:0.00, T:0.10
Consensus pattern (6 bp):
ACTCAC
Found at i:29476313 original size:2 final size:2
Alignment explanation
Indices: 29476282--29476327 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
29476272 AAATTCAACT
* * * *
29476282 CA CA CT CA CA CT CA CA CT CA CA CT CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
29476324 CA CA
1 CA CA
29476328 TATATATATA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.41, C:0.50, G:0.00, T:0.09
Consensus pattern (2 bp):
CA
Found at i:29477326 original size:154 final size:154
Alignment explanation
Indices: 29477046--29477337 Score: 401
Period size: 154 Copynumber: 1.9 Consensus size: 154
29477036 TTTTTTACTT
* * * * *
29477046 TACATTCTTTCACATGATTAATTATAAAGTTCATAAATCTAACAAGCTCAATTAATTAGTATGAG
1 TACATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAG
* * * * *
29477111 TCATCAAATTTAATTAATTAATTTATCATGCGTTATTAAATTCAAGTAATCAATTTATAAGTTTT
66 TCATCAAATTAAATTAATTAATCTATAATGAGTTATTAAATTCAAGTAATCAATTTATAAGTTTA
29477176 TGATGTTCTAAATTCACAGTAGAA
131 TGATGTTCTAAATTCACAGTAGAA
* *
29477200 TACATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTTAATTAATCGGTACGAG
1 TACATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAG
* * *
29477265 TTA-CAAAATTAAATTAA-TATATCTATAATGAGTTATTCAATTTAAGTAATTC-ATTTATAAGT
66 TCATC-AAATTAAATTAATTA-ATCTATAATGAGTTATTAAATTCAAGTAA-TCAATTTATAAGT
29477327 TTATGATGTTC
128 TTATGATGTTC
29477338 CAAACTCATA
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
153 3 0.03
154 115 0.96
155 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (154 bp):
TACATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAG
TCATCAAATTAAATTAATTAATCTATAATGAGTTATTAAATTCAAGTAATCAATTTATAAGTTTA
TGATGTTCTAAATTCACAGTAGAA
Found at i:29479777 original size:25 final size:25
Alignment explanation
Indices: 29479718--29479789 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
29479708 TATGGCTCTT
* * **
29479718 ATGAGCTTCCCGTTATACAGCCCGG
1 ATGAGCTTCCTGTTATACAGCTCAC
*
29479743 AT-AACTTTCCTGTTATACAGCTCAC
1 ATGAGC-TTCCTGTTATACAGCTCAC
* *
29479768 ATGAGCTTCCTATTATATAGCT
1 ATGAGCTTCCTGTTATACAGCT
29479790 TGAGAGAGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 2 0.05
25 33 0.89
26 2 0.05
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATACAGCTCAC
Found at i:29485342 original size:57 final size:58
Alignment explanation
Indices: 29485264--29485386 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 58
29485254 ATTTCTAGGT
* * * *
29485264 CATTTTCATTTGCATTTTGGAGAAAACCACATTCATTTTCAAATGATT-CTATTTCTC
1 CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
* * *
29485321 CATTTTCATTTTCATTATGGAGAAAACCATAATCATTTCCAAATGTTTCCCATTTCTC
1 CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
29485379 CATTTTCA
1 CATTTTCA
29485387 CAATTTCTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 42 0.72
58 16 0.28
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.43
Consensus pattern (58 bp):
CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
Found at i:29489337 original size:29 final size:29
Alignment explanation
Indices: 29489304--29489359 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
29489294 AAGGCCGGTT
29489304 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
* *
29489333 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
29489360 ATTTTCTGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:29490328 original size:29 final size:29
Alignment explanation
Indices: 29490295--29490356 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
29490285 GCGGAAAATA
*
29490295 GCCCATTCCGGTAAATAATT-AAAAAACCG
1 GCCCATTCAGGTAAAT-ATTAAAAAAACCG
* *
29490324 GCCCATTTAGGTAAATTTTGAAAAAAACCG
1 GCCCATTCAGGTAAATATT-AAAAAAACCG
29490354 GCC
1 GCC
29490357 TTTTTTGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 14 0.50
30 12 0.43
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (29 bp):
GCCCATTCAGGTAAATATTAAAAAAACCG
Found at i:29494406 original size:21 final size:21
Alignment explanation
Indices: 29494365--29494406 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
29494355 TTTATTCTAG
**
29494365 ATATATTTTTTAGTATTATAT
1 ATATATTTTTTAGTAAAATAT
29494386 ATATATTTTATTA-TAAAATAT
1 ATATATTTT-TTAGTAAAATAT
29494407 CAATTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATATTTTTTAGTAAAATAT
Found at i:29494514 original size:19 final size:19
Alignment explanation
Indices: 29494488--29494542 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
29494478 AATATATGAA
29494488 TATATAAAAGAACTAAAAT
1 TATATAAAAGAACTAAAAT
*
29494507 TTTATAAAA-AA-TATAAA-
1 TATATAAAAGAACTA-AAAT
*
29494524 TATATAAAGGAACTAAAAT
1 TATATAAAAGAACTAAAAT
29494543 AACACATGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
17 9 0.31
18 10 0.34
19 10 0.34
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (19 bp):
TATATAAAAGAACTAAAAT
Found at i:29495904 original size:6 final size:6
Alignment explanation
Indices: 29495884--29495913 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
29495874 AAAAGATATT
29495884 AAATAA AATATAA AAATAA AAATAA AAATA
1 AAATAA AA-ATAA AAATAA AAATAA AAATA
29495914 TTTGTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:29506338 original size:3 final size:3
Alignment explanation
Indices: 29506330--29506409 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
29506320 TCCTTTCAAC
29506330 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
29506378 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
29506410 CTATCTTCCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:29511940 original size:27 final size:27
Alignment explanation
Indices: 29511891--29512010 Score: 91
Period size: 27 Copynumber: 4.4 Consensus size: 27
29511881 AGGGGCATAG
* *
29511891 CGGTCATTTTACCCCAT-GGGGATATTT
1 CGGTCATTTTA-CCCTTCGAGGATATTT
*
29511918 CGGTCATTTTACCCTTTGAGGATATTT
1 CGGTCATTTTACCCTTCGAGGATATTT
* * *
29511945 -TGACAATTTTACCCTTCGAGGGTATTT
1 CGGTC-ATTTTACCCTTCGAGGATATTT
** * * *
29511972 CAATAATTTTACCATTCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGATATTT
* *
29511999 CGATAATTTTAC
1 CGGTCATTTTAC
29512011 GGCTCAAGCC
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
26 6 0.08
27 72 0.92
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.41
Consensus pattern (27 bp):
CGGTCATTTTACCCTTCGAGGATATTT
Found at i:29512376 original size:29 final size:29
Alignment explanation
Indices: 29512334--29512390 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
29512324 ACATCAAAAG
*
29512334 ATTTAGGAACCCAACATCAGAATAATCGA
1 ATTTAGGAACCCAACACCAGAATAATCGA
29512363 ATTTAGGAACCCAACACCAGAATAATCG
1 ATTTAGGAACCCAACACCAGAATAATCG
29512391 GCTGACATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.19
Consensus pattern (29 bp):
ATTTAGGAACCCAACACCAGAATAATCGA
Found at i:29512840 original size:29 final size:29
Alignment explanation
Indices: 29512798--29512854 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
29512788 ACATCAAAAG
29512798 ATTTAGGAACCCAACACCAGAATAATCGA
1 ATTTAGGAACCCAACACCAGAATAATCGA
29512827 ATTTAGGAACCCAACACCAGAATAATCG
1 ATTTAGGAACCCAACACCAGAATAATCG
29512855 GCTGACATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.14, T:0.18
Consensus pattern (29 bp):
ATTTAGGAACCCAACACCAGAATAATCGA
Found at i:29512925 original size:464 final size:464
Alignment explanation
Indices: 29512057--29512986 Score: 1623
Period size: 464 Copynumber: 2.0 Consensus size: 464
29512047 TCGTCCAACG
* * * *
29512057 CCTAGTCTCGTGGACTCAGTTTTCCTGCACGAATGATTGCACACTCATGTGGCCTCGGTTGCCGT
1 CCTAGTCTCGTGGACTCAGTTTTCCCGCACGAATGATCGCACACTCATGTGGCCTCGGTTACCAT
* *
29512122 GTTTTTAGATTTTCAGCTTTTGTCGATTTGTAATAGAGAATGTGTGATTACACACTTTTTTCCAG
66 GTTTTTAGATTTTCAGCTTTTGTCGATTTGCAATAGAGAAGGTGTGATTACACACTTTTTTCCAG
* * *
29512187 AATAGCGCAGAAACCTTGAATGTCAAACCTGAGCCTTGCTTGATCGGATGCCCCTAGCCTTCTTA
131 AATAGCGCAGAAACCCTGAATGTCAAACCCGAACCTTGCTTGATCGGATGCCCCTAGCCTTCTTA
* * *
29512252 GACTACTAACAGAATCGATCACCCGCTTAATTATGTATCTTCCTGTCCATGGATTCTATTAAAAA
196 GACTACTAACAGAATCGATCACCCGCTTAATCATGTATCTGCCTGTCCACGGATTCTATTAAAAA
*
29512317 GTTAAAAACATCAAAAGATTTAGGAACCCAACATCAGAATAATCGAATTTAGGAACCCAACACCA
261 GTTAAAAACATCAAAAGATTTAGGAACCCAACACCAGAATAATCGAATTTAGGAACCCAACACCA
29512382 GAATAATCGGCTGACATCATAAATTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAAAAG
326 GAATAATCGGCTGACATCATAAATTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAAAAG
29512447 GATTGACTACCATTGCGATCATTGACAAACCCCTTCACCCCTTGTAATGATCTAAAAAACTGAAA
391 GATTGACTACCATTGCGATCATTGACAAACCCCTTCACCCCTTGTAATGATCTAAAAAACTGAAA
29512512 GTGCCACCA
456 GTGCCACCA
*
29512521 CCTAGTCTCGTGGACTTAGTTTTCCCGCACGAATGATCGCACACTCATGTGGCCTCGGTTACCAT
1 CCTAGTCTCGTGGACTCAGTTTTCCCGCACGAATGATCGCACACTCATGTGGCCTCGGTTACCAT
*
29512586 GTTTTTAGCTTTTC-GACTTTTGTCGATTTGCAATAGAGAAGGTGTGATTACACACTCTTTTT-C
66 GTTTTTAGATTTTCAG-CTTTTGTCGATTTGCAATAGAGAAGGTGTGATTACACACT-TTTTTCC
*
29512649 GGAATAGCGCAGAAACCCTGAATGTCAAACCCGAACCTTGCTTGATCGGATGCCCCTAGCCTTCT
129 AGAATAGCGCAGAAACCCTGAATGTCAAACCCGAACCTTGCTTGATCGGATGCCCCTAGCCTTCT
*
29512714 TAGACTACTAACAGAATTGATCACCCGCTTAATCATGTATCTGCCTGTCCACGGATTCTATT-AA
194 TAGACTACTAACAGAATCGATCACCCGCTTAATCATGTATCTGCCTGTCCACGGATTCTATTAAA
29512778 AAGATTAAAAACATCAAAAGATTTAGGAACCCAACACCAGAATAATCGAATTTAGGAACCCAACA
259 AAG-TTAAAAACATCAAAAGATTTAGGAACCCAACACCAGAATAATCGAATTTAGGAACCCAACA
**
29512843 CCAGAATAATCGGCTGACATCATACGTTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAA
323 CCAGAATAATCGGCTGACATCATAAATTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAA
* *
29512908 AAGGATTGACTACCATTGCGATCTTTGACAAACCCCTTCACCTCTTGTAATGATCTAAAAAACTG
388 AAGGATTGACTACCATTGCGATCATTGACAAACCCCTTCACCCCTTGTAATGATCTAAAAAACTG
29512973 AAAGTGCCACCA
453 AAAGTGCCACCA
29512985 CC
1 CC
29512987 ATCATTGGGG
Statistics
Matches: 442, Mismatches: 21, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
463 6 0.01
464 431 0.98
465 5 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (464 bp):
CCTAGTCTCGTGGACTCAGTTTTCCCGCACGAATGATCGCACACTCATGTGGCCTCGGTTACCAT
GTTTTTAGATTTTCAGCTTTTGTCGATTTGCAATAGAGAAGGTGTGATTACACACTTTTTTCCAG
AATAGCGCAGAAACCCTGAATGTCAAACCCGAACCTTGCTTGATCGGATGCCCCTAGCCTTCTTA
GACTACTAACAGAATCGATCACCCGCTTAATCATGTATCTGCCTGTCCACGGATTCTATTAAAAA
GTTAAAAACATCAAAAGATTTAGGAACCCAACACCAGAATAATCGAATTTAGGAACCCAACACCA
GAATAATCGGCTGACATCATAAATTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAAAAG
GATTGACTACCATTGCGATCATTGACAAACCCCTTCACCCCTTGTAATGATCTAAAAAACTGAAA
GTGCCACCA
Found at i:29516758 original size:18 final size:18
Alignment explanation
Indices: 29516719--29516774 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
29516709 ATAATTTAAA
* *
29516719 AAAATTCAAGATAATTTTT
1 AAAATTCAAAAT-ATTTAT
29516738 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
29516756 AAAAATTCTAAA-ATTTAT
1 -AAAATTCAAAATATTTAT
29516774 A
1 A
29516775 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 1 0.03
18 11 0.33
19 21 0.64
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:29517905 original size:24 final size:28
Alignment explanation
Indices: 29517878--29517958 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
29517868 AGAATATACA
*
29517878 AAATAATTT-AT-TATAA-CTT-ATTAT
1 AAATAATTTAATATATAATATTAATTAT
*
29517902 AAATATTTTAATATATAATATTAATTAT
1 AAATAATTTAATATATAATATTAATTAT
*
29517930 AAATATTTCTAAT-TAATTAATATTAATTA
1 AAATAATT-TAATAT-A-TAATATTAATTA
29517959 ATTGTTAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.17
25 2 0.04
26 5 0.10
27 2 0.04
28 14 0.29
29 5 0.10
30 12 0.25
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
AAATAATTTAATATATAATATTAATTAT
Found at i:29517929 original size:28 final size:30
Alignment explanation
Indices: 29517897--29517958 Score: 94
Period size: 28 Copynumber: 2.1 Consensus size: 30
29517887 ATTATAACTT
29517897 ATTATAAATATTT-TAA-T-ATATAATATTA
1 ATTATAAATATTTCTAATTAAT-TAATATTA
29517925 ATTATAAATATTTCTAATTAATTAATATTA
1 ATTATAAATATTTCTAATTAATTAATATTA
29517955 ATTA
1 ATTA
29517959 ATTGTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 13 0.42
29 3 0.10
30 13 0.42
31 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTATAAATATTTCTAATTAATTAATATTA
Found at i:29517944 original size:16 final size:15
Alignment explanation
Indices: 29517897--29517944 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
29517887 ATTATAACTT
29517897 ATTATAAATATTTTA
1 ATTATAAATATTTTA
29517912 A-TATATAATA--TTA
1 ATTATA-AATATTTTA
29517925 ATTATAAATATTTCTA
1 ATTATAAATATTT-TA
29517941 ATTA
1 ATTA
29517945 ATTAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 8 0.29
14 8 0.29
15 6 0.21
16 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAAATATTTTA
Found at i:29518020 original size:21 final size:21
Alignment explanation
Indices: 29517972--29518024 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
29517962 GTTAAATTTA
*
29517972 ATTAGAATATATAAACTATATT
1 ATTA-AATATTTAAACTATATT
29517994 -TTAAATATTTAAA-TATAATT
1 ATTAAATATTTAAACTAT-ATT
29518014 ATTAAATATTT
1 ATTAAATATTT
29518025 GTAATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATATTTAAACTATATT
Found at i:29520457 original size:2 final size:2
Alignment explanation
Indices: 29520450--29520483 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
29520440 TTAGGGGAGT
29520450 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
29520484 GCAACAATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:29520527 original size:18 final size:18
Alignment explanation
Indices: 29520493--29520527 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29520483 GGCAACAATC
**
29520493 TTGAAGAAAATGGAAGAA
1 TTGAAGAAAATAAAAGAA
29520511 TTGAAGAAAATAAAAGA
1 TTGAAGAAAATAAAAGA
29520528 GAAGAGAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
TTGAAGAAAATAAAAGAA
Found at i:29531823 original size:23 final size:23
Alignment explanation
Indices: 29531797--29531845 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
29531787 ATGAAGTGAA
29531797 TTTGCAAGAAATTATAAGGGAGT
1 TTTGCAAGAAATTATAAGGGAGT
29531820 TTTGCAAGAAATTATAAGGGAGT
1 TTTGCAAGAAATTATAAGGGAGT
29531843 TTT
1 TTT
29531846 ATTTTCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (23 bp):
TTTGCAAGAAATTATAAGGGAGT
Found at i:29535269 original size:13 final size:13
Alignment explanation
Indices: 29535251--29535294 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
29535241 GTGCATTCGT
29535251 TAGTTAATTTAGA
1 TAGTTAATTTAGA
* *
29535264 TAGTTACATTCA-T
1 TAGTTA-ATTTAGA
29535277 TAGTTAATTTAGA
1 TAGTTAATTTAGA
29535290 TAGTT
1 TAGTT
29535295 TGATTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 4 0.16
13 17 0.68
14 4 0.16
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (13 bp):
TAGTTAATTTAGA
Found at i:29535280 original size:26 final size:26
Alignment explanation
Indices: 29535244--29535294 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
29535234 TTCTTTGGTG
*
29535244 CATTCGTTAGTTAATTTAGATAGTTA
1 CATTCATTAGTTAATTTAGATAGTTA
29535270 CATTCATTAGTTAATTTAGATAGTT
1 CATTCATTAGTTAATTTAGATAGTT
29535295 TGATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (26 bp):
CATTCATTAGTTAATTTAGATAGTTA
Done.