Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005910.1 Hibiscus syriacus cultivar Beakdansim tig00013880_pilon, whole genome shotgun sequence
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: 129355
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1398 original size:29 final size:29
Alignment explanation
Indices: 1365--1420 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1355 TCCCAACACA
*
1365 TAGGTAGCCATGCCCTCCGAGCGACCTTG
1 TAGGTAGCCATGCACTCCGAGCGACCTTG
* * *
1394 TAGGTCGCCATGCACTTCGGGCGACCT
1 TAGGTAGCCATGCACTCCGAGCGACCT
1421 ACCTCGCTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.16, C:0.34, G:0.29, T:0.21
Consensus pattern (29 bp):
TAGGTAGCCATGCACTCCGAGCGACCTTG
Found at i:1510 original size:14 final size:14
Alignment explanation
Indices: 1491--1518 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1481 TCGGATGGCC
1491 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1505 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1519 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:1521 original size:10 final size:10
Alignment explanation
Indices: 1469--1504 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
1459 GCTCGGTTGC
1469 CCTCGGAT-G
1 CCTCGGATGG
1478 CTCTCGGATGG
1 C-CTCGGATGG
1489 CCTCGGATGG
1 CCTCGGATGG
1499 CCTCGG
1 CCTCGG
1505 TCGGATGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 1 0.04
10 22 0.88
11 2 0.08
ACGTcount: A:0.08, C:0.33, G:0.36, T:0.22
Consensus pattern (10 bp):
CCTCGGATGG
Found at i:12524 original size:31 final size:31
Alignment explanation
Indices: 12486--12609 Score: 133
Period size: 31 Copynumber: 4.0 Consensus size: 31
12476 CCTCGGCAAC
* *
12486 TGTCCATAGGTCCCGAAGAACCTAGGTAAAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* ** *
12517 TGTCCATATGTTCCTTAGAACATAGGTATAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* *
12548 TGTCCATATGTCTCGAA-AGACATAGGTAATT
1 TGTCCATATGTCCCGAAGA-ACATAGGTAAAT
* *
12579 CTGTCCATATGTTCCGTAGAACATAGGTAAA
1 -TGTCCATATGTCCCGAAGAACATAGGTAAA
12610 CCCTCGACTC
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
30 1 0.01
31 48 0.65
32 24 0.32
33 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAT
Found at i:12599 original size:63 final size:62
Alignment explanation
Indices: 12486--12607 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 62
12476 CCTCGGCAAC
* *
12486 TGTCCATAGGTCCCGAAGAACCTAGGTAAATTGTCCATATGTTCCTTAGAACATAGGTATAT
1 TGTCCATAGGTCCCGAAGAACATAGGTAAATTGTCCATATGTTCCGTAGAACATAGGTATAT
* * *
12548 TGTCCATATGTCTCGAA-AGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 TGTCCATAGGTCCCGAAGA-ACATAGGTAAAT-TGTCCATATGTTCCGTAGAACATAGGTA
12608 AACCCTCGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 1 0.02
62 25 0.47
63 27 0.51
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (62 bp):
TGTCCATAGGTCCCGAAGAACATAGGTAAATTGTCCATATGTTCCGTAGAACATAGGTATAT
Found at i:13402 original size:24 final size:24
Alignment explanation
Indices: 13350--13475 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
13340 CCCCTTTGAA
*
13350 GTGCATCGATACATTC--T-ACA-
1 GTGCATCGATGCATTCTTTAACAT
13370 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
13394 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
*
13418 GTGCATCGATGCATTATTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
13442 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
13466 GTGCATCGAT
1 GTGCATCGAT
13476 ACACCAATCA
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
20 15 0.15
22 1 0.01
23 3 0.03
24 80 0.81
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (24 bp):
GTGCATCGATGCATTCTTTAACAT
Found at i:16073 original size:5 final size:5
Alignment explanation
Indices: 16027--16054 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16017 TAAGTGACAG
16027 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
16055 GTGATACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:16642 original size:20 final size:20
Alignment explanation
Indices: 16617--16658 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
16607 GTTTTTACCT
16617 CACTGGGAAAGTACGCAGGA
1 CACTGGGAAAGTACGCAGGA
16637 CACTGGGAAAGTACGCAGGA
1 CACTGGGAAAGTACGCAGGA
16657 CA
1 CA
16659 TACACCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (20 bp):
CACTGGGAAAGTACGCAGGA
Found at i:19917 original size:22 final size:23
Alignment explanation
Indices: 19883--19929 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
19873 ATATTGGGAC
*
19883 AAATAATACAATT-ATAAAATAA
1 AAATAATAAAATTAATAAAATAA
*
19905 AAATACTAAAATTAAATAAAATAA
1 AAATAATAAAATT-AATAAAATAA
19929 A
1 A
19930 GTATAAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
AAATAATAAAATTAATAAAATAA
Found at i:22167 original size:6 final size:6
Alignment explanation
Indices: 22156--22190 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
22146 CAATGTGCGG
22156 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAA
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAA
22191 CATAATCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.14
Consensus pattern (6 bp):
CAGAAT
Found at i:41456 original size:23 final size:22
Alignment explanation
Indices: 41413--41456 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
41403 TCTTTCAATT
*
41413 AAATATATATTTTTATTAATAA
1 AAATATATATTTTTATAAATAA
41435 AAATA-ATATCTTTTAATAAATA
1 AAATATATAT-TTTT-ATAAATA
41457 TATTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATATATATTTTTATAAATAA
Found at i:41768 original size:23 final size:23
Alignment explanation
Indices: 41742--41789 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
41732 ATAAAGTACA
*
41742 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
41765 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
41788 AT
1 AT
41790 TTACTTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:42239 original size:23 final size:23
Alignment explanation
Indices: 42213--42275 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
42203 ATATAACCAC
42213 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
42236 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
42259 TACCTATTACATCATAT
1 TACCTATTACATTATAT
42276 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:42672 original size:23 final size:23
Alignment explanation
Indices: 42646--42708 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
42636 ATATAACCAC
42646 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
42669 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
42692 TACCTATTACATCATAT
1 TACCTATTACATTATAT
42709 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:42899 original size:432 final size:431
Alignment explanation
Indices: 41856--42918 Score: 2001
Period size: 433 Copynumber: 2.5 Consensus size: 431
41846 TATTACATTA
41856 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
* *
41921 TTATGTTTCAATTTTTTGAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
41986 TTTGCACAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA-
131 TTTGCACAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAAC
*
42050 TA-A-T-AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAA
196 AACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAA
42112 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC
261 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC
*
42177 TTTTATAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTTATAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
42242 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
42283 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
42348 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
42413 TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
131 TTTGCAC-AAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
42478 CAACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAA
195 CAACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAA
*
42543 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
260 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACA
42608 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
325 CTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
42673 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
389 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
42716 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
42781 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
42846 ATTTGCACAAAAATTATTTGATTTTTTGATATTTTAT-AAATATTATTTAGAATTTTTAATTTAA
130 ATTTGCACAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
42910 CAACATTAA
195 CAACATTAA
42919 CCAAAGATAA
Statistics
Matches: 622, Mismatches: 7, Indels: 9
0.97 0.01 0.01
Matches are distributed among these distances:
427 135 0.22
428 57 0.09
429 1 0.00
430 1 0.00
431 1 0.00
432 164 0.26
433 202 0.32
434 61 0.10
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (431 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAAC
AACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAA
TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC
TTTTATAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:43179 original size:39 final size:39
Alignment explanation
Indices: 43125--43210 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
43115 TCAGTTGTAG
*
43125 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
43164 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
43203 ATTTTGAT
1 ATTTTGAT
43211 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:43490 original size:18 final size:18
Alignment explanation
Indices: 43467--43503 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43457 CGAAATATAT
43467 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
43485 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
43503 A
1 A
43504 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:46627 original size:183 final size:183
Alignment explanation
Indices: 46320--47494 Score: 2172
Period size: 183 Copynumber: 6.4 Consensus size: 183
46310 CGACACATTT
* * * *
46320 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTAC-AAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
46384 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
46449 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
46502 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
46567 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
46632 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
46685 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
46750 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
46815 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
*
46868 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTATAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
46933 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
46998 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
47051 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
47116 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
47181 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * * * * *
47234 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
47299 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
47364 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * * * * *
47417 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
**
47482 ATTTTATTATAAT
66 ATTACATTATAAT
47495 ATGTTGAAAG
Statistics
Matches: 978, Mismatches: 14, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
182 51 0.05
183 927 0.95
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (183 bp):
TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:47535 original size:22 final size:22
Alignment explanation
Indices: 47501--47545 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
47491 TAATATGTTG
*
47501 AAAGTGTCCATACTTTTTATAA
1 AAAGTATCCATACTTTTTATAA
* *
47523 AAAGTATCGATACTTTTTTTAA
1 AAAGTATCCATACTTTTTATAA
47545 A
1 A
47546 GATATGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (22 bp):
AAAGTATCCATACTTTTTATAA
Found at i:48968 original size:3 final size:3
Alignment explanation
Indices: 48960--49025 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
48950 ACTTGTTTGG
* * ** * * *
48960 ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
49008 ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC
49026 GTCAGCTTCA
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.23, C:0.35, G:0.08, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:48981 original size:12 final size:12
Alignment explanation
Indices: 48964--49029 Score: 69
Period size: 12 Copynumber: 5.2 Consensus size: 12
48954 GTTTGGATCA
48964 TCATCATCATCG
1 TCATCATCATCG
48976 TCATCATCTTCATCG
1 TCATCA---TCATCG
* * *
48991 CCAGCTTCATCG
1 TCATCATCATCG
49003 TCATCATCATCG
1 TCATCATCATCG
*
49015 TCATCTTCATCG
1 TCATCATCATCG
49027 TCA
1 TCA
49030 GCTTCATCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
12 35 0.80
15 9 0.20
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:49006 original size:24 final size:24
Alignment explanation
Indices: 48979--49037 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
48969 ATCATCGTCA
48979 TCATCTTCATCGCCAGCTTCATCG
1 TCATCTTCATCGCCAGCTTCATCG
* * *
49003 TCATCATCATCGTCATCTTCATCG
1 TCATCTTCATCGCCAGCTTCATCG
*
49027 TCAGCTTCATC
1 TCATCTTCATC
49038 TTCTGTGACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.36, G:0.10, T:0.36
Consensus pattern (24 bp):
TCATCTTCATCGCCAGCTTCATCG
Found at i:49008 original size:36 final size:36
Alignment explanation
Indices: 48961--49037 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
48951 CTTGTTTGGA
*
48961 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
48997 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
49033 TCATC
1 TCATC
49038 TTCTGTGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:49034 original size:12 final size:12
Alignment explanation
Indices: 48983--49037 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
48973 TCGTCATCAT
*
48983 CTTCATCGCCAG
1 CTTCATCGTCAG
*
48995 CTTCATCGTCAT
1 CTTCATCGTCAG
* *
49007 CATCATCGTCAT
1 CTTCATCGTCAG
49019 CTTCATCGTCAG
1 CTTCATCGTCAG
49031 CTTCATC
1 CTTCATC
49038 TTCTGTGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.18, C:0.36, G:0.11, T:0.35
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:49036 original size:18 final size:18
Alignment explanation
Indices: 48979--49040 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
48969 ATCATCGTCA
*
48979 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
48997 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
49015 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
49033 TCATCTTC
1 TCATCTTC
49041 TGTGACCGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:49040 original size:6 final size:6
Alignment explanation
Indices: 48979--49040 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
48969 ATCATCGTCA
* * * * * * *
48979 TCATCT TCATCG CCAGCT TCATCG TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
49027 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
49041 TGTGACCGCT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:50893 original size:194 final size:196
Alignment explanation
Indices: 50488--51770 Score: 2276
Period size: 197 Copynumber: 6.5 Consensus size: 196
50478 AAAACACTTA
50488 ATATTTAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACA
1 ATATTTAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACA
50553 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
66 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
* *
50618 ATGATTTTGGGATCGACACTTTTTATATACGGATCGACACTTTATGGTGCACCATGTTTTCCATT
131 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATT
50683 C
196 C
50684 ATATTTAAATTAGTATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACATATTCTCACA
1 ATATTTAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACA
50748 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCG
66 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
*
50812 ATGATTTTGGGATCGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATT
131 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATT
50877 C
196 C
50878 ATATTTAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACA
1 ATATTTAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACA
*
50943 TAAAACCGGTATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
66 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
*
51008 ATGATGTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATT
131 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATT
51071 C
196 C
51072 ATATTTAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACA
1 ATATTTAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACA
* *
51137 TAAAACCGGTATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCG
66 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
*
51202 ATGATTTTGGGATCGACACATTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATT
131 ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATT
51267 C
196 C
* * *
51268 AT-TCTGGAAATAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCA
1 ATAT-T-TAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCA
51332 CATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTT
64 CATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTT
51397 CGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCC
129 CGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCC
51462 ATTC
193 ATTC
* * * *
51466 AT-TCTGGAAATAAATATCGACACAAACTATATTAGCGTCGACACATTATTTAGACATATTCTCA
1 ATAT-T-TAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCA
51530 CATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTT
64 CATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTT
51594 CGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCA
129 CGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCA
51659 TTC
194 TTC
* * *
51662 AT-TCTGGAAAATAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTC
1 ATAT-T--TAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTC
51726 ACATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
63 ACATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACAT
51771 CCTTTTGGCC
Statistics
Matches: 1064, Mismatches: 15, Indels: 15
0.97 0.01 0.01
Matches are distributed among these distances:
194 292 0.27
195 184 0.17
196 128 0.12
197 320 0.30
198 140 0.13
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (196 bp):
ATATTTAAATTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACA
TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
ATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATT
C
Found at i:51207 original size:390 final size:390
Alignment explanation
Indices: 50501--51770 Score: 2287
Period size: 390 Copynumber: 3.2 Consensus size: 390
50491 TTTAAATTAG
50501 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
50566 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
50631 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCATGTTTTCCATTCATATTTAAATTA
131 CGACACTTTTTATAT--GGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTTAAATTA
50696 GTATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
194 GTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
50760 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGAT
259 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGAT
*
50825 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
324 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGTAAAT
* *
50888 TAG
388 AAA
50891 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
* *
50956 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
51021 CGACACTTTTTATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTTAAATTAGT
131 CGACACTTTTTATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTTAAATTAGT
51086 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
196 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
* *
51151 TTGTACCAGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGATC
261 TTGTACCGGTTAGATTGAAAAATTACATATTACATTAT-ACTTTGGGTTCGATGATTTTGGGATC
* *
51216 GACACATTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
325 GACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGTAAATAA
51281 A
390 A
51282 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
51347 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
51412 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT-TCTGGAAA
131 CGACAC-TTTT-TATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATAT-T-TAAA
* * *
51476 TAAATATCGACACAAACTATATTAGCGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
191 TTAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
51541 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGG
256 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGG
*
51606 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAA
321 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCT-GTA
51671 AATAAA
385 AATAAA
51677 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
51742 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
51771 CCTTTTGGCC
Statistics
Matches: 850, Mismatches: 20, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
388 65 0.08
389 86 0.10
390 221 0.26
391 139 0.16
392 4 0.00
393 21 0.02
394 105 0.12
395 209 0.25
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (390 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATATTTAAATTAGT
ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTGGGTTCGATGATTTTGGGATCG
ACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGTAAATAAA
Found at i:51926 original size:19 final size:19
Alignment explanation
Indices: 51895--51943 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
51885 TTATATTCAC
51895 ATACGAAAA-TATAAATCGT
1 ATAC-AAAATTATAAATCGT
*
51914 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
51933 ATACAAAATTA
1 ATACAAAATTA
51944 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:53765 original size:32 final size:33
Alignment explanation
Indices: 53720--53784 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
53710 CCATCTTATA
*
53720 TCACCCCTTAACACC-CAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
53752 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
53785 CCATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:53858 original size:21 final size:21
Alignment explanation
Indices: 53818--53882 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
53808 CCCCTTATGC
* *
53818 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
53839 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
53860 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
53881 CT
1 CT
53883 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:56123 original size:17 final size:18
Alignment explanation
Indices: 56101--56143 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
56091 ATATATCCGG
56101 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
56118 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
56138 TATCAT
1 TATCAT
56144 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:56300 original size:20 final size:20
Alignment explanation
Indices: 56274--56319 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
56264 CACTTTTAAA
56274 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
56293 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
56314 TTTACC
1 TTTACC
56320 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:57161 original size:29 final size:29
Alignment explanation
Indices: 57091--57162 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
57081 ATGATATATT
* * **
57091 TAAATTTATAAAATTTTAGAGAATGAATT
1 TAAATTTATAAAATTTTAAAGAATAAAAG
57120 TAAATTTATAAAATTTTAAAAGAATAAAAG
1 TAAATTTATAAAATTTT-AAAGAATAAAAG
*
57150 TAAATTTAAAAAA
1 TAAATTTATAAAA
57163 AAATACATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (29 bp):
TAAATTTATAAAATTTTAAAGAATAAAAG
Found at i:57471 original size:21 final size:21
Alignment explanation
Indices: 57420--57472 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
57410 ATTCTGACTA
57420 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
57441 TCG-AGTTGCGATTTTCCTAAT
1 TCGCA-TTGCGATTTCCCAAAT
*
57462 TCGCAATGCGA
1 TCGCATTGCGA
57473 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:57497 original size:20 final size:20
Alignment explanation
Indices: 57462--57514 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
57452 TTTTCCTAAT
* *
57462 TCGCAATGCGAATACGTAAA
1 TCGCAACGCGATTACGTAAA
*
57482 TCGTAACGCGATTACGTAAA
1 TCGCAACGCGATTACGTAAA
*
57502 TCGCAACGAGATT
1 TCGCAACGCGATT
57515 CTGATTATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGATTACGTAAA
Found at i:58397 original size:24 final size:24
Alignment explanation
Indices: 58370--58423 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
58360 GTATTCGAAA
58370 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
58394 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
58418 TTTGAT
1 TTTGAT
58424 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:59479 original size:20 final size:20
Alignment explanation
Indices: 59454--59617 Score: 186
Period size: 20 Copynumber: 8.1 Consensus size: 20
59444 GACGGAGCAC
*
59454 ATTTACGGATACGCATTGCG
1 ATTTACGGATACGCGTTGCG
* * * *
59474 ATTTACGTATTCTCGTTGCA
1 ATTTACGGATACGCGTTGCG
*
59494 ATTTACAGATACGCGTTGCG
1 ATTTACGGATACGCGTTGCG
* * *
59514 ATTTACGTATTCTCGTTGCG
1 ATTTACGGATACGCGTTGCG
59534 ATTTACGGATACGCGTTGCG
1 ATTTACGGATACGCGTTGCG
* *
59554 ATTTTACGTAT-TGTCGTTGCG
1 A-TTTACGGATACG-CGTTGCG
59575 ATTTACGGATACGCGTTGCG
1 ATTTACGGATACGCGTTGCG
*
59595 ATTTTACGGATACTCGTTGCG
1 A-TTTACGGATACGCGTTGCG
59616 AT
1 AT
59618 AGTCAGAATC
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
20 82 0.69
21 36 0.31
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
ATTTACGGATACGCGTTGCG
Found at i:59633 original size:41 final size:41
Alignment explanation
Indices: 59454--59617 Score: 260
Period size: 41 Copynumber: 4.0 Consensus size: 41
59444 GACGGAGCAC
* *
59454 ATTTACGGATACGCATTGCGA-TTTACGTATTCTCGTTGCA
1 ATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCG
*
59494 ATTTACAGATACGCGTTGCGA-TTTACGTATTCTCGTTGCG
1 ATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCG
*
59534 ATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCG
1 ATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCG
* *
59575 ATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCG
1 ATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCG
59616 AT
1 AT
59618 AGTCAGAATC
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 57 0.50
41 58 0.50
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
ATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCG
Found at i:59649 original size:20 final size:20
Alignment explanation
Indices: 59626--59678 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
59616 ATAGTCAGAA
* *
59626 TCGCGTTGTGATTTATATGT
1 TCGCGTTGCGATTTATATAT
* * *
59646 TCGCATTACGATTTTTATAT
1 TCGCGTTGCGATTTATATAT
59666 TCGCGTTGCGATT
1 TCGCGTTGCGATT
59679 CTGAAAAATC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (20 bp):
TCGCGTTGCGATTTATATAT
Found at i:59777 original size:20 final size:19
Alignment explanation
Indices: 59728--59781 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
59718 ATTCTTCATA
59728 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
59747 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
59768 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
59782 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:70029 original size:6 final size:6
Alignment explanation
Indices: 70018--70098 Score: 144
Period size: 6 Copynumber: 13.5 Consensus size: 6
70008 GCTCGGCTCG
70018 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* *
70066 GGTCGT GGTCAT GGTCAT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
70099 AATACGTGTC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.02, C:0.16, G:0.48, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:70417 original size:22 final size:22
Alignment explanation
Indices: 70365--70417 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
70355 TCAGGAGTTA
** *
70365 CAGGAGTTATTTGATTTAATTT
1 CAGGAGTTACATGATATAATTT
70387 CATGG-GTTACATGATATAATTT
1 CA-GGAGTTACATGATATAATTT
70409 CAGGAGTTA
1 CAGGAGTTA
70418 TAACAGCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (22 bp):
CAGGAGTTACATGATATAATTT
Found at i:72632 original size:26 final size:26
Alignment explanation
Indices: 72572--72649 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
72562 TTCAAATTGA
* *
72572 AATTAATAATA-AAT-ATAATAATAAT
1 AATTAATAATATTATAATTATAAT-AT
* *
72597 AGTTAATAATATTACTTATTA-AATAT
1 AATTAATAATATTA-TAATTATAATAT
72623 AATTAATAATATTATAATTATAATAT
1 AATTAATAATATTATAATTATAATAT
72649 A
1 A
72650 TTTTAAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 15 0.34
26 22 0.50
27 4 0.09
28 3 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (26 bp):
AATTAATAATATTATAATTATAATAT
Found at i:74001 original size:18 final size:19
Alignment explanation
Indices: 73980--74015 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
73970 TAAAATTAAA
*
73980 ATATA-ATTTAAACTATAT
1 ATATATATTAAAACTATAT
73998 ATATATATTAAAACTATA
1 ATATATATTAAAACTATA
74016 GGGTCGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATATTAAAACTATAT
Found at i:74619 original size:29 final size:30
Alignment explanation
Indices: 74587--74645 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
74577 AAAAGTAAAT
74587 CCCTAACAACAAATA-TTAAAAAAATAGGC
1 CCCTAACAACAAATATTTAAAAAAATAGGC
* * *
74616 CCCTAATAACAAGTATTTAAAAAATTAGGC
1 CCCTAACAACAAATATTTAAAAAAATAGGC
74646 ATTTAATAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.22
Consensus pattern (30 bp):
CCCTAACAACAAATATTTAAAAAAATAGGC
Found at i:78237 original size:80 final size:80
Alignment explanation
Indices: 78140--78298 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 80
78130 GTTAATATTT
* * * * *
78140 TTTAATATTTCAGGTAAAATGTTACCTAAAATATTATT-TTTTTGTACCGAAAATATTAATATTG
1 TTTAATATTTCAGGTAAAACGCTACATAAAACATTATTATTTTTGTACAG-AAATATTAATATTG
78204 GGCACTACCTAAAATA
65 GGCACTACCTAAAATA
* * * * * *
78220 TTTAATATTTCTGGTAAAGCGCTATATAAAACATTATTATTTTTTTATAGAAATGTTAATATTGG
1 TTTAATATTTCAGGTAAAACGCTACATAAAACATTATTATTTTTGTACAGAAATATTAATATTGG
*
78285 GCGCTACCTAAAAT
66 GCACTACCTAAAAT
78299 GTTCTTTTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 58 0.88
81 8 0.12
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (80 bp):
TTTAATATTTCAGGTAAAACGCTACATAAAACATTATTATTTTTGTACAGAAATATTAATATTGG
GCACTACCTAAAATA
Found at i:79965 original size:23 final size:23
Alignment explanation
Indices: 79939--79983 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
79929 ATGCAGAGAA
79939 AAACATGACACAAAGACATAGAT
1 AAACATGACACAAAGACATAGAT
* ** *
79962 AAACGTGTTATAAAGACATAGA
1 AAACATGACACAAAGACATAGA
79984 ACATGTCACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (23 bp):
AAACATGACACAAAGACATAGAT
Found at i:81255 original size:12 final size:12
Alignment explanation
Indices: 81237--81282 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
81227 TATATACGGT
81237 ATGAACAGTACC
1 ATGAACAGTACC
*
81249 GTGAACAGTA--
1 ATGAACAGTACC
*
81259 ATGAACATTACC
1 ATGAACAGTACC
81271 ATGAACAGTACC
1 ATGAACAGTACC
81283 GAATGCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.29
12 20 0.71
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:81265 original size:22 final size:22
Alignment explanation
Indices: 81237--81280 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
81227 TATATACGGT
*
81237 ATGAACAGTACCGTGAACAGTA
1 ATGAACAGTACCATGAACAGTA
*
81259 ATGAACATTACCATGAACAGTA
1 ATGAACAGTACCATGAACAGTA
81281 CCGAATGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (22 bp):
ATGAACAGTACCATGAACAGTA
Found at i:86031 original size:18 final size:18
Alignment explanation
Indices: 86008--86045 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
85998 TTCATTAACT
86008 CTTCAAAATCCATAAACC
1 CTTCAAAATCCATAAACC
86026 CTTCAAAATCCATAAACC
1 CTTCAAAATCCATAAACC
86044 CT
1 CT
86046 AACTTTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (18 bp):
CTTCAAAATCCATAAACC
Found at i:98015 original size:57 final size:58
Alignment explanation
Indices: 97923--98035 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 58
97913 AGAAACATGG
97923 AAATAAAAGAAATTTCCAAAACCTGAAATAAAAAACAGCAT-AAAAACAAATAAAAGT
1 AAATAAAAGAAATTTCCAAAACCTGAAATAAAAAACAGCATAAAAAACAAATAAAAGT
*
97980 AAATAAAAGAAA-TTCTCAAAACCTGAAATACAAAACAGCATAAAAAACAAATAAAA
1 AAATAAAAGAAATTTC-CAAAACCTGAAATAAAAAACAGCATAAAAAACAAATAAAA
98036 CACAATATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
56 3 0.06
57 36 0.68
58 14 0.26
ACGTcount: A:0.65, C:0.13, G:0.06, T:0.15
Consensus pattern (58 bp):
AAATAAAAGAAATTTCCAAAACCTGAAATAAAAAACAGCATAAAAAACAAATAAAAGT
Found at i:99514 original size:19 final size:20
Alignment explanation
Indices: 99486--99533 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
99476 GAAGAACAGT
*
99486 GGGTTCTTGAATTCAA-TTA
1 GGGTTTTTGAATTCAATTTA
99505 GGGTTTTTGAATTCAATTTA
1 GGGTTTTTGAATTCAATTTA
*
99525 AGGTTTTTG
1 GGGTTTTTG
99534 GGTGGAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (20 bp):
GGGTTTTTGAATTCAATTTA
Found at i:99619 original size:29 final size:29
Alignment explanation
Indices: 99555--99612 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
99545 AGAAGAGAGT
* * *
99555 GAAAGAAATGTTAGTCACCAAACTGTAAC
1 GAAATAAATGTTAGGCACCAAACTGGAAC
* *
99584 GAAATAAATGTTAGGCACTAAATTGGAAC
1 GAAATAAATGTTAGGCACCAAACTGGAAC
99613 AATATAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (29 bp):
GAAATAAATGTTAGGCACCAAACTGGAAC
Found at i:101236 original size:16 final size:16
Alignment explanation
Indices: 101192--101245 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 16
101182 AAGCCATGGG
*
101192 TTTATTCTTTATTTCTTT
1 TTTATT-TTT-TTTATTT
101210 TTGTAATTTTTTTTATTT
1 TT-T-ATTTTTTTTATTT
101228 TTTATTTTTTTTATTT
1 TTTATTTTTTTTATTT
101244 TT
1 TT
101246 AATATTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 15 0.45
17 1 0.03
18 10 0.30
19 4 0.12
20 3 0.09
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTTTATTT
Found at i:102189 original size:17 final size:17
Alignment explanation
Indices: 102140--102191 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
102130 TTTTATATCA
* *
102140 AAAACAAAA-ACAAAAC
1 AAAACAAAATAAAAAAT
102156 AAAACAAAATAAAAAAT
1 AAAACAAAATAAAAAAT
*
102173 AAAACAAGATAAAAAAT
1 AAAACAAAATAAAAAAT
102190 AA
1 AA
102192 TATAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.81, C:0.10, G:0.02, T:0.08
Consensus pattern (17 bp):
AAAACAAAATAAAAAAT
Found at i:102383 original size:2 final size:2
Alignment explanation
Indices: 102378--102403 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102368 AGTTTGAATA
102378 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
102404 GTGCGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104414 original size:369 final size:369
Alignment explanation
Indices: 103735--104471 Score: 1465
Period size: 369 Copynumber: 2.0 Consensus size: 369
103725 AACCTATGAA
103735 TAGCATCCATATTTGAATTTAGCAAAAGAATGTTAAAATGATGATTAGACATTCAGATATAGGTA
1 TAGCATCCATATTTGAATTTAGCAAAAGAATGTTAAAATGATGATTAGACATTCAGATATAGGTA
103800 ATCCATAATTGGGTGCTCTATCTACCGACTTGTATGTAAAGTAGGGAAACAACTTTCGGCAGAAG
66 ATCCATAATTGGGTGCTCTATCTACCGACTTGTATGTAAAGTAGGGAAACAACTTTCGGCAGAAG
103865 AGAAACTGGATCCGTTTCAGCAGAAACTTGAGAAATCAATCCTGAAAACAACAAACAAGAACATC
131 AGAAACTGGATCCGTTTCAGCAGAAACTTGAGAAATCAATCCTGAAAACAACAAACAAGAACATC
103930 ACGTGAGAAGCTCCATCATATAACATTTTAAGCTTTCTAGTAACTGCTACATCCAACATCTCACA
196 ACGTGAGAAGCTCCATCATATAACATTTTAAGCTTTCTAGTAACTGCTACATCCAACATCTCACA
103995 ACCTTGACAATAATATACCATTCCGTAAACTGATATGAGAAGATTAGAACAAACATAAACATATT
261 ACCTTGACAATAATATACCATTCCGTAAACTGATATGAGAAGATTAGAACAAACATAAACATATT
104060 TAAAGATTGATCATGTTTTGAGCTAGCAGATAAGCCACTGAATT
326 TAAAGATTGATCATGTTTTGAGCTAGCAGATAAGCCACTGAATT
104104 TAGCATCCATATTTGAATTTAGCAAAAGAATGTTAAAATGATGATTAGACATTCAGATATAGGTA
1 TAGCATCCATATTTGAATTTAGCAAAAGAATGTTAAAATGATGATTAGACATTCAGATATAGGTA
*
104169 ATCCATAATTGGGTGTTCTATCTACCGACTTGTATGTAAAGTAGGGAAACAACTTTCGGCAGAAG
66 ATCCATAATTGGGTGCTCTATCTACCGACTTGTATGTAAAGTAGGGAAACAACTTTCGGCAGAAG
104234 AGAAACTGGATCCGTTTCAGCAGAAACTTGAGAAATCAATCCTGAAAACAACAAACAAGAACATC
131 AGAAACTGGATCCGTTTCAGCAGAAACTTGAGAAATCAATCCTGAAAACAACAAACAAGAACATC
104299 ACGTGAGAAGCTCCATCATATAACATTTTAAGCTTTCTAGTAACTGCTACATCCAACATCTCACA
196 ACGTGAGAAGCTCCATCATATAACATTTTAAGCTTTCTAGTAACTGCTACATCCAACATCTCACA
104364 ACCTTGACAATAATATACCATTCCGTAAACTGATATGAGAAGATTAGAACAAACATAAACATATT
261 ACCTTGACAATAATATACCATTCCGTAAACTGATATGAGAAGATTAGAACAAACATAAACATATT
104429 TAAAGATTGATCATGTTTTGAGCTAGCAGATAAGCCACTGAAT
326 TAAAGATTGATCATGTTTTGAGCTAGCAGATAAGCCACTGAAT
104472 CCAAGAGTAA
Statistics
Matches: 367, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
369 367 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (369 bp):
TAGCATCCATATTTGAATTTAGCAAAAGAATGTTAAAATGATGATTAGACATTCAGATATAGGTA
ATCCATAATTGGGTGCTCTATCTACCGACTTGTATGTAAAGTAGGGAAACAACTTTCGGCAGAAG
AGAAACTGGATCCGTTTCAGCAGAAACTTGAGAAATCAATCCTGAAAACAACAAACAAGAACATC
ACGTGAGAAGCTCCATCATATAACATTTTAAGCTTTCTAGTAACTGCTACATCCAACATCTCACA
ACCTTGACAATAATATACCATTCCGTAAACTGATATGAGAAGATTAGAACAAACATAAACATATT
TAAAGATTGATCATGTTTTGAGCTAGCAGATAAGCCACTGAATT
Found at i:105128 original size:2 final size:2
Alignment explanation
Indices: 105121--105146 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105111 ATTATTATTA
105121 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
105147 TACAAGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106765 original size:144 final size:140
Alignment explanation
Indices: 106628--106915 Score: 348
Period size: 140 Copynumber: 2.0 Consensus size: 140
106618 AAATATATTT
* * *
106628 ATATTAAATATTATAAAAATTATAATTTATTTAAATCA-TTTTTATGAAAAATTGTTACATTTTT
1 ATATCAAATATTATAAAAATTAT-ATATA-TT-AATCATTTTTTA-GAAAAAATGTT--ATTTTT
* **
106692 A-ATATTTATTTATTAATATCGAAGAGAAGAGCTGTCTTAAAGCACCTAAAAGTTCTTTTCTGAT
60 AGATATTTATTTATTAATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAAAAGCCCTTTTCTGAT
106756 A-TTCTTAAATAAATAA
125 ATTTC-TAAATAAATAA
** * * * * * *
106772 ATATCATGTTTTTTATAAATTATATATATTAATTATTTTTTAGAAAAAATGTTTTTTTTAGTTAT
1 ATATCAAATATTATAAAAATTATATATATTAATCATTTTTTAGAAAAAATGTTATTTTTAGATAT
* *
106837 TTATTTATTAATATCGAAGAAAATAGCTGTCTTAAAGCACCTAGAAGCCCTTTTCTGATATTTCT
66 TTATTTATTAATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAAAAGCCCTTTTCTGATATTTCT
106902 AAATAAATAA
131 AAATAAATAA
106912 ATAT
1 ATAT
106916 TTTATACATA
Statistics
Matches: 125, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
139 6 0.05
140 73 0.58
141 17 0.14
142 8 0.06
143 4 0.03
144 17 0.14
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (140 bp):
ATATCAAATATTATAAAAATTATATATATTAATCATTTTTTAGAAAAAATGTTATTTTTAGATAT
TTATTTATTAATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAAAAGCCCTTTTCTGATATTTCT
AAATAAATAA
Found at i:112132 original size:14 final size:15
Alignment explanation
Indices: 112108--112137 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
112098 CTCATCCAGC
112108 AAAGAAAGAAGAAAA
1 AAAGAAAGAAGAAAA
112123 AAAG-AAGAAGAAAA
1 AAAGAAAGAAGAAAA
112137 A
1 A
112138 GAAAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAGAAAA
Found at i:116381 original size:16 final size:16
Alignment explanation
Indices: 116360--116392 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
116350 TAATAAATAG
116360 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
116376 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
116392 A
1 A
116393 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:116472 original size:10 final size:10
Alignment explanation
Indices: 116457--116531 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
116447 CATTTAATAA
116457 ATAAACGAAC
1 ATAAACGAAC
116467 ATAAACGAAC
1 ATAAACGAAC
116477 ----ACGAAC
1 ATAAACGAAC
116483 ATAAACGAAC
1 ATAAACGAAC
** *
116493 ACGAAC-ATAA
1 ATAAACGA-AC
116503 ATGAACACGAAC
1 AT-AA-ACGAAC
116515 ATAAACGAAC
1 ATAAACGAAC
116525 ATAAACG
1 ATAAACG
116532 TTGGAGACCT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:116482 original size:16 final size:16
Alignment explanation
Indices: 116461--116525 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
116451 TAATAAATAA
116461 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
116477 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
116493 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
116509 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
116525 A
1 A
116526 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:117294 original size:14 final size:14
Alignment explanation
Indices: 117277--117332 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
117267 AATGAACATA
*
117277 AACGAACATAATCG
1 AACGAACATAACCG
117291 AACGAACAT-A---
1 AACGAACATAACCG
117301 AACGAACATAACCG
1 AACGAACATAACCG
117315 AACGAACATAACCG
1 AACGAACATAACCG
117329 AACG
1 AACG
117333 TTCACGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:117297 original size:24 final size:24
Alignment explanation
Indices: 117257--117331 Score: 107
Period size: 24 Copynumber: 3.1 Consensus size: 24
117247 GATTAGGTTA
*
117257 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
117281 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* *
117305 AACATAACCGAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
117329 AAC
1 AAC
117332 GTTCACGAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 3 0.06
24 44 0.94
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:117331 original size:10 final size:10
Alignment explanation
Indices: 117270--117317 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
117260 ATAAATGAAT
117270 GAACATAAAC
1 GAACATAAAC
117280 GAACATAATCGAAC
1 GAACAT-A---AAC
117294 GAACATAAAC
1 GAACATAAAC
*
117304 GAACATAACC
1 GAACATAAAC
117314 GAAC
1 GAAC
117318 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:118227 original size:22 final size:22
Alignment explanation
Indices: 118198--118252 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
118188 GTCTACACTC
*
118198 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
118220 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
118242 TTCAAAGATGA
1 TTCAAAGATGA
118253 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:119120 original size:76 final size:76
Alignment explanation
Indices: 118992--119604 Score: 950
Period size: 76 Copynumber: 8.4 Consensus size: 76
118982 ATGTTTCCCA
*
118992 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
119057 AACCTTAGGGT
66 AACCTTAGGGT
*
119068 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATC-TTTTGATG-TTTC--
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
119129 --CC--A----
66 AACCTTAGGGT
*
119132 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
119197 AACCTTAGGGT
66 AACCTTAGGGT
*
119208 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATG-TTTC--
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
119270 --CC--A----
66 AACCTTAGGGT
* *
119273 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
119338 AGCCTTCGGGT
66 AACCTTAGGGT
*
119349 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
119414 AGCCTTAGGGT
66 AACCTTAGGGT
119425 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
119489 AGCCTTAGGGT
66 AACCTTAGGGT
119500 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
119565 AACCTTAGGGT
66 AACCTTAGGGT
*
119576 CATCTGTAAGTCCTGCAGTGCATGATGTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTT
119605 CATAAGACCT
Statistics
Matches: 496, Mismatches: 17, Indels: 48
0.88 0.03 0.09
Matches are distributed among these distances:
64 47 0.09
65 63 0.13
66 8 0.02
68 1 0.00
69 1 0.00
70 6 0.01
71 2 0.00
72 1 0.00
74 4 0.01
75 87 0.18
76 276 0.56
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:119371 original size:141 final size:141
Alignment explanation
Indices: 118927--119560 Score: 1101
Period size: 141 Copynumber: 4.4 Consensus size: 141
118917 CTATTTCCCA
118927 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTCCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTCCCA
118992 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
119057 AACCTTAGGGT
131 AACCTTAGGGT
119068 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATC-TTTTGATGTTTCCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTCCCA
119132 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
119197 AACCTTAGGGT
131 AACCTTAGGGT
119208 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTCCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTCCCA
*
119273 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
119338 AGCCTTCGGGT
131 AACCTTAGGGT
119349 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATG-TTTC--
*
119414 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
63 --CC--A----CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
119479 GATG-TTTCAAAGCCTTAGGGT
120 GATGTTTTCAAAACCTTAGGGT
*
119500 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTT
119561 TCAAAACCTT
Statistics
Matches: 474, Mismatches: 7, Indels: 15
0.96 0.01 0.03
Matches are distributed among these distances:
140 140 0.30
141 195 0.41
142 4 0.01
146 2 0.00
148 1 0.00
150 3 0.01
151 73 0.15
152 56 0.12
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (141 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTCCCA
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:119552 original size:151 final size:152
Alignment explanation
Indices: 119273--119604 Score: 603
Period size: 151 Copynumber: 2.2 Consensus size: 152
119263 ATGTTTCCCA
* *
119273 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAGTTTCAA
* *
119338 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
119403 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAACCTTAGGGT
119425 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT-GTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAGTTTCAA
119489 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
119554 GATGTTTTCAAAACCTTAGGGT
131 GATGTTTTCAAAACCTTAGGGT
*
119576 CATCTGTAAGTCCTGCAGTGCATGATGTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTT
119605 CATAAGACCT
Statistics
Matches: 174, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
151 118 0.68
152 56 0.32
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (152 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAGTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAACCTTAGGGT
Found at i:119778 original size:3 final size:3
Alignment explanation
Indices: 119763--119805 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
119753 TTTCATTAAA
* **
119763 ATT ATT TTT ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
119806 ATATATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:125818 original size:15 final size:14
Alignment explanation
Indices: 125764--125819 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 14
125754 GTTTAATTTT
125764 TCTAATTTAATTAC
1 TCTAATTTAATTAC
125778 T-TAACTTTCAAATTAC
1 TCTAA-TTT--AATTAC
*
125794 TCATAATTTAATCAC
1 TC-TAATTTAATTAC
125809 TCTAACTTTAA
1 TCTAA-TTTAA
125820 ATTTAATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
13 3 0.09
14 7 0.20
15 12 0.34
16 7 0.20
17 3 0.09
18 3 0.09
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTAATTTAATTAC
Found at i:127966 original size:27 final size:29
Alignment explanation
Indices: 127917--127970 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
127907 GCTCATGGCC
127917 CCCATTTTTTTCATCCTTGTAATTAGGGT
1 CCCATTTTTTTCATCCTTGTAATTAGGGT
*
127946 CCCA-TTTTTTCAT-CTTTTAATTAGG
1 CCCATTTTTTTCATCCTTGTAATTAGG
127971 TCCTTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 11 0.46
28 9 0.38
29 4 0.17
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.50
Consensus pattern (29 bp):
CCCATTTTTTTCATCCTTGTAATTAGGGT
Found at i:127981 original size:27 final size:27
Alignment explanation
Indices: 127923--127987 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
127913 GGCCCCCATT
*
127923 TTTTTCATCCTTGTAATTAGGGTCCCAT
1 TTTTTCAT-CTTGTAATTAGGGTCCCAA
* *
127951 TTTTTCATCTTTTAATTA-GGTCCTTAA
1 TTTTTCATCTTGTAATTAGGGTCC-CAA
127978 -TTTTCATCTT
1 TTTTTCATCTT
127988 ATTTTTTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 15 0.45
27 10 0.30
28 8 0.24
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTTTCATCTTGTAATTAGGGTCCCAA
Found at i:128088 original size:42 final size:41
Alignment explanation
Indices: 127988--128090 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 41
127978 TTTTCATCTT
** *
127988 ATTTTTTATCTTTATAATTGAGGTTCTAAATTATTCAATCT
1 ATTTTTTATCTTTATAATTGAAATTCTAAATTATTCAATCC
** ** *
128029 A-ACTTTATCTTTATAATTGAAATATCTATTTTTTTCAATCC
1 ATTTTTTATCTTTATAATTGAAAT-TCTAAATTATTCAATCC
128070 ATTTTTTATCTTTATAATTGA
1 ATTTTTTATCTTTATAATTGA
128091 GACCTTTAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 18 0.36
41 15 0.30
42 17 0.34
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (41 bp):
ATTTTTTATCTTTATAATTGAAATTCTAAATTATTCAATCC
Done.