Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 74 of 325
Found at i:25981462 original size:21 final size:21
Alignment explanation
Indices: 25981438--25981478 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25981428 ATCTGCTCAA
* *
25981438 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
25981459 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
25981479 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:25995029 original size:29 final size:28
Alignment explanation
Indices: 25994975--25995045 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
25994965 AAAATATGCT
25994975 TTTTATACTCTTTATCTATCTGAATTTTAG
1 TTTTATACT-TTTATCTATCTGAA-TTTAG
* *
25995005 TTTTATACTTTTAT-TTTCTATAATTTAG
1 TTTTATACTTTTATCTATCT-GAATTTAG
*
25995033 TTCTTCTACTTTT
1 TT-TTATACTTTT
25995046 TGAATTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.31
29 16 0.44
30 9 0.25
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTATACTTTTATCTATCTGAATTTAG
Found at i:25996195 original size:21 final size:23
Alignment explanation
Indices: 25996148--25996201 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
25996138 CATTCAAGAT
**
25996148 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
25996171 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
25996192 AAAAT-ATATA
1 AAAATAATATA
25996202 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:25996313 original size:25 final size:25
Alignment explanation
Indices: 25996285--25996333 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
25996275 AGCGTTATAT
*
25996285 AAAAAGTTAAAATAGAT-AATAGAAA
1 AAAAAG-TAAAATAAATAAATAGAAA
*
25996310 AAAATGTAAAATAAATAAATAGAA
1 AAAAAGTAAAATAAATAAATAGAA
25996334 TGTTGATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.20
Consensus pattern (25 bp):
AAAAAGTAAAATAAATAAATAGAAA
Found at i:25996436 original size:23 final size:23
Alignment explanation
Indices: 25996370--25996436 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
25996360 TATAAGAAAA
*
25996370 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
25996390 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
25996413 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
25996436 A
1 A
25996437 GTAGACATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:25996446 original size:17 final size:15
Alignment explanation
Indices: 25996403--25996506 Score: 58
Period size: 15 Copynumber: 7.1 Consensus size: 15
25996393 ATATAAATAG
*
25996403 AAATAAAAATATAAT
1 AAATAGAAATATAAT
25996418 AAATAGAAATATAAT
1 AAATAGAAATATAAT
* *
25996433 -AATAGTAGACAT-AT
1 AAATAG-AAATATAAT
25996447 AAATAGATAA-ATAAT
1 AAATAGA-AATATAAT
* * *
25996462 -AATAGTATTAGAAT
1 AAATAGAAATATAAT
* *
25996476 -AACA-AAATAAATAT
1 AAATAGAAATATA-AT
*
25996490 AAATAGAAACATAAT
1 AAATAGAAATATAAT
25996505 AA
1 AA
25996507 TAATAGCAAT
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
13 5 0.07
14 24 0.36
15 33 0.49
16 5 0.07
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:25997402 original size:25 final size:26
Alignment explanation
Indices: 25997373--25997421 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
25997363 AATTAAAAGT
* *
25997373 AAGAGAACTAA-ATTTTAAATATAAA
1 AAGAGAACAAAGATTTAAAATATAAA
*
25997398 AAGAGTACAAAGATTTAAAATATA
1 AAGAGAACAAAGATTTAAAATATA
25997422 TTTTAAGCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.27
Consensus pattern (26 bp):
AAGAGAACAAAGATTTAAAATATAAA
Found at i:26000616 original size:21 final size:22
Alignment explanation
Indices: 26000578--26000628 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
26000568 GCGCAACTCC
* *
26000578 TTTTTTTTATACTAAAATA-TA
1 TTTTTTTTAAAATAAAATATTA
*
26000599 TTTTTTTTAAAATTAAATATTA
1 TTTTTTTTAAAATAAAATATTA
*
26000621 TTATTTTT
1 TTTTTTTT
26000629 GTTTTTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTTTTAAAATAAAATATTA
Found at i:26000782 original size:27 final size:27
Alignment explanation
Indices: 26000724--26000783 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
26000714 TCTAGTAGGG
* *
26000724 GCGACTGGTTGAGCCTATCTGATAGGC
1 GCGACTAGTTGAGCCTATCTGATAGAC
* *
26000751 ACGACTAGTTGAGCCTGT-TAGATAGAC
1 GCGACTAGTTGAGCCTATCT-GATAGAC
26000778 GCGACT
1 GCGACT
26000784 GGTAGAGTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GCGACTAGTTGAGCCTATCTGATAGAC
Found at i:26001078 original size:105 final size:105
Alignment explanation
Indices: 26000831--26001094 Score: 396
Period size: 104 Copynumber: 2.5 Consensus size: 105
26000821 CTATATATAT
26000831 ATAACCTAAACACTAACAATTTATATAACCTAA-TCATAAATTACTAACAAAATAACTATAAAAT
1 ATAA-CTAAACACTAACAATTTATATAACCTAACTCATAAATTACTAACAAAATAACTATAAAAT
**
26000895 TATTTTTTTTTAAAATACATTACTAAAAAATCACAAAACAC
65 TATTTTTTTAAAAAATACATTACTAAAAAATCACAAAACAC
26000936 ATAACTAAACACTAACAATTTATATAACCTAAC-CATAAATTACTAACAAAATAACTATAAAATT
1 ATAACTAAACACTAACAATTTATATAACCTAACTCATAAATTACTAACAAAATAACTATAAAATT
26001000 ATTTTTTTAAAAAATTACATTACTAAAAAATCACAAAATC-C
66 ATTTTTTTAAAAAA-TACATTACTAAAAAATCACAAAA-CAC
* * *
26001041 -TATACTAAACACTAACAA-TT-TGTAATCTAATCTCATAAATTATTAACAAAATAA
1 ATA-ACTAAACACTAACAATTTATATAACCTAA-CTCATAAATTACTAACAAAATAA
26001095 ATAACTATAA
Statistics
Matches: 148, Mismatches: 5, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
103 8 0.05
104 76 0.51
105 63 0.43
106 1 0.01
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.31
Consensus pattern (105 bp):
ATAACTAAACACTAACAATTTATATAACCTAACTCATAAATTACTAACAAAATAACTATAAAATT
ATTTTTTTAAAAAATACATTACTAAAAAATCACAAAACAC
Found at i:26002292 original size:33 final size:33
Alignment explanation
Indices: 26002250--26002318 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
26002240 AATTCAATAT
26002250 AAAACAGAGATTTATCGCGCTTTAATGAAAATC
1 AAAACAGAGATTTATCGCGCTTTAATGAAAATC
* *
26002283 AAAACAGAGATTTATGGCGTTTTAATGAAAATC
1 AAAACAGAGATTTATCGCGCTTTAATGAAAATC
26002316 AAA
1 AAA
26002319 CAAAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (33 bp):
AAAACAGAGATTTATCGCGCTTTAATGAAAATC
Found at i:26003701 original size:16 final size:17
Alignment explanation
Indices: 26003671--26003703 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26003661 CTTTGAAAAA
26003671 GTTTTCAAATATATATG
1 GTTTTCAAATATATATG
*
26003688 GTTTT-AAATTTATATG
1 GTTTTCAAATATATATG
26003704 CTCTAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (17 bp):
GTTTTCAAATATATATG
Found at i:26004273 original size:15 final size:15
Alignment explanation
Indices: 26004253--26004285 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
26004243 AGGTGAGCTA
26004253 AGAAAGACAGAGAAG
1 AGAAAGACAGAGAAG
26004268 AGAAAGACAGAGAAG
1 AGAAAGACAGAGAAG
26004283 AGA
1 AGA
26004286 TTGTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.33, T:0.00
Consensus pattern (15 bp):
AGAAAGACAGAGAAG
Found at i:26009958 original size:49 final size:50
Alignment explanation
Indices: 26009904--26010038 Score: 163
Period size: 50 Copynumber: 2.7 Consensus size: 50
26009894 CAACAAATAT
*
26009904 TAAAAATAAAAA--TTGGGTGCTTGCCTATAGATGGCTAG-CACTAGAGATG
1 TAAAAA-AAAAATTTTGGGTGCTGGCC-ATAGATGGCTAGACACTAGAGATG
* * *
26009953 -AAAAAAAAAATTTTGGGTGCTGGCCAGTATATGAC-CGACACTAGAGATG
1 TAAAAAAAAAATTTTGGGTGCTGGCCA-TAGATGGCTAGACACTAGAGATG
26010002 TAAAAAAAAAATTTTGGGTGCTGGCCAATAGATGGCT
1 TAAAAAAAAAATTTTGGGTGCTGGCC-ATAGATGGCT
26010039 GGCATTAGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
47 5 0.07
48 7 0.10
49 29 0.40
50 31 0.42
51 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (50 bp):
TAAAAAAAAAATTTTGGGTGCTGGCCATAGATGGCTAGACACTAGAGATG
Found at i:26010432 original size:20 final size:20
Alignment explanation
Indices: 26010407--26010444 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26010397 CTAATTAATA
*
26010407 TGAAAAAATATAAAATGAAT
1 TGAAAAAAAATAAAATGAAT
*
26010427 TGAAAAAAAATGAAATGA
1 TGAAAAAAAATAAAATGA
26010445 GACTACTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (20 bp):
TGAAAAAAAATAAAATGAAT
Found at i:26010571 original size:16 final size:16
Alignment explanation
Indices: 26010562--26010613 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
26010552 TAAATAAATT
26010562 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
* * *
26010578 TGAATTGAAATGTAAA
1 TAAATTTAAATTTAAA
*
26010594 TGAAATTTGAAATTCAAA
1 T-AAATTT-AAATTTAAA
26010612 TA
1 TA
26010614 GAAGTGAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
16 14 0.52
17 5 0.19
18 8 0.30
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:26010583 original size:22 final size:22
Alignment explanation
Indices: 26010552--26010594 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26010542 GACAAATAAA
* *
26010552 TAAATAAATTTAAATTTAAATT
1 TAAATAAATTGAAATGTAAATT
*
26010574 TAAATGAATTGAAATGTAAAT
1 TAAATAAATTGAAATGTAAAT
26010595 GAAATTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
TAAATAAATTGAAATGTAAATT
Found at i:26011798 original size:5 final size:5
Alignment explanation
Indices: 26011788--26011819 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
26011778 CATACTGTGA
26011788 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
26011820 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:26011813 original size:9 final size:9
Alignment explanation
Indices: 26011789--26011819 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
26011779 ATACTGTGAA
26011789 AAATAAAAT
1 AAATAAAAT
26011798 AAAATAAAAT
1 -AAATAAAAT
26011808 AAATAAAAT
1 AAATAAAAT
26011817 AAA
1 AAA
26011820 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:26016249 original size:5 final size:5
Alignment explanation
Indices: 26016239--26016270 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
26016229 CAATTTGTGA
26016239 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
26016271 GAACACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:26016264 original size:9 final size:9
Alignment explanation
Indices: 26016240--26016270 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
26016230 AATTTGTGAA
26016240 AAATAAAAT
1 AAATAAAAT
26016249 AAAATAAAAT
1 -AAATAAAAT
26016259 AAATAAAAT
1 AAATAAAAT
26016268 AAA
1 AAA
26016271 GAACACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:26017884 original size:89 final size:88
Alignment explanation
Indices: 26017784--26018103 Score: 258
Period size: 89 Copynumber: 3.6 Consensus size: 88
26017774 AGTACACGAC
* **
26017784 AAATTAAATTTACAGATACAATAAAATACAAACATTCTAAAATATTAATACAAAAAAAATATAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAA-ATTAATAC-ACGAAAATATAAA
*
26017849 ATTCAAACAAAA-ATAA-ATCTCACT
64 ATTCAAACAAAATATAATA-CGCACT
* * * * * * * *
26017873 AAATTATATTTAAACACT-CAACAAACTACAAACATATGGGT-AAAATTAATACACGAAAATTTT
1 AAATTAAATTTACAGA-TACAAAAAAATACAAACAT-T--CTAAAAATTAATACACGAAAATATA
* * *
26017936 AAATTCAAACTACATATAATACGGACT
62 AAATTCAAACAAAATATAATACGCACT
*
26017963 AAATTAAATTAACAGATACAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAA-AAATTAATACACGAAAATATAAAA
* * * * * *
26018028 ATGAAACTTTAAATCCT-AGAC-AACT
65 TTCAAAC--AAAAT-ATAATACGCACT
* * *
26018053 ACATTAAATTTACAGATA-TAAAAAATACAAACATTCTAAAGAAATAATACA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAA-AATTAATACA
26018104 ATTATTTTGA
Statistics
Matches: 185, Mismatches: 33, Indels: 26
0.76 0.14 0.11
Matches are distributed among these distances:
87 1 0.01
88 2 0.01
89 105 0.57
90 64 0.35
91 11 0.06
92 2 0.01
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (88 bp):
AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAATTAATACACGAAAATATAAAAT
TCAAACAAAATATAATACGCACT
Found at i:26018615 original size:27 final size:27
Alignment explanation
Indices: 26018577--26018644 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
26018567 TCGGTTGTAC
*
26018577 ACTACGAAAAACTCCCATCTACAATCA
1 ACTACAAAAAACTCCCATCTACAATCA
* *
26018604 ACTACAAAAAACTTCCATCTACAATCT
1 ACTACAAAAAACTCCCATCTACAATCA
26018631 ACTACAAAAAACTC
1 ACTACAAAAAACTC
26018645 ATTTGATGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (27 bp):
ACTACAAAAAACTCCCATCTACAATCA
Found at i:26018832 original size:53 final size:51
Alignment explanation
Indices: 26018773--26018998 Score: 271
Period size: 51 Copynumber: 4.5 Consensus size: 51
26018763 AAAAATAATT
* *
26018773 TTTTTTTACATCTTTGGTGCCGGCCATCTATTGGCCAGCACCCAAAAAAAA
1 TTTTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
* *
26018824 TATGTTTTTACATCTCTGGTGCTGGCCATCTACTGGCCAACACCC----AAAA
1 T-T-TTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
* * * * * *
26018873 TTTTTTTTCATCTCTGGTGCCGACTATCTACTGGCAAGTACCCAAAAAAGA
1 TTTTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
* **
26018924 TTTTTTTTCATCTCTGGTGCCGGCCATCTACTGGTTAGCACCCAAAAAAAA
1 TTTTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
*
26018975 TTTTTTTTACATCTCTGATGCCGG
1 -TTTTTTTACATCTCTGGTGCCGG
26018999 TCATTATATG
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
47 34 0.23
48 1 0.01
49 5 0.03
51 49 0.33
52 22 0.15
53 37 0.25
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (51 bp):
TTTTTTTACATCTCTGGTGCCGGCCATCTACTGGCCAGCACCCAAAAAAAA
Found at i:26018951 original size:98 final size:101
Alignment explanation
Indices: 26018772--26018997 Score: 278
Period size: 100 Copynumber: 2.2 Consensus size: 101
26018762 CAAAAATAAT
* * * *
26018772 TTTTTTTTACATCTTTGGTGCCGGCCATCTATTGGCCAGCACCCAAAAAAAATATGTTTTTACAT
1 TTTTTTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTTACAT
*
26018837 CTCTGGTGCTGGCCATCTACTGGCCAACACCCAAAA
66 CTCTGGTGCCGGCCATCTACTGGCCAACACCCAAAA
* * * *
26018873 TTTTTTTT-CATCTCTGGTGCCGACTATCTACTGGCAAGTACCCAAAAAAGAT-T-TTTTTTCAT
1 TTTTTTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTTACAT
** *
26018935 CTCTGGTGCCGGCCATCTACTGGTTAGCACCCAAAAAAAA
66 CTCTGGTGCCGGCCATCTACTGGCCAACACCC----AAAA
*
26018975 TTTTTTTTACATCTCTGATGCCG
1 TTTTTTTTACATCTCTGGTGCCG
26018998 GTCATTATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
98 36 0.34
99 1 0.01
100 37 0.35
101 8 0.07
102 12 0.11
103 13 0.12
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (101 bp):
TTTTTTTTACATCTCTGGTGCCGACCATCTACTGGCAAGCACCCAAAAAAAATATGTTTTTACAT
CTCTGGTGCCGGCCATCTACTGGCCAACACCCAAAA
Found at i:26020192 original size:48 final size:47
Alignment explanation
Indices: 26020135--26020269 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 47
26020125 CTAAAAAAAA
* *
26020135 TTTTACATCTCTGGTGCCGCTCATCTATTGGCCAGCACCCCAATTTTT
1 TTTTTCATCTCTGGTGCCGC-CATCTATTGGCCAGCACCCAAATTTTT
* * * * *
26020183 TTTTTCATCTCTGGTGTCGACCATCTACTGGCTAACATCCAAATTTTT
1 TTTTTCATCTCTGGTGCCG-CCATCTATTGGCCAGCACCCAAATTTTT
* * * *
26020231 GTTTTCATCTTTGGTGTCGGCCATCTATTAGCCAGCACC
1 TTTTTCATCTCTGGTG-CCGCCATCTATTGGCCAGCACC
26020270 TAAAAAAATT
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
48 67 0.97
49 2 0.03
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.39
Consensus pattern (47 bp):
TTTTTCATCTCTGGTGCCGCCATCTATTGGCCAGCACCCAAATTTTT
Found at i:26022161 original size:34 final size:32
Alignment explanation
Indices: 26022071--26022176 Score: 97
Period size: 34 Copynumber: 3.2 Consensus size: 32
26022061 GGGTTTTCTT
* * *
26022071 AAAA-TAATTGAATTATGTTTTAGGGGTTTTAA
1 AAAATTAATTAAATTATGATTTA-GGTTTTTAA
* * *
26022103 ATAAATAAATTAAATTAGGGTTTAGAGTTTTTAA
1 A-AAATTAATTAAATTATGATTTAG-GTTTTTAA
*
26022137 GAAAATTAATTAAATTATGATTTAGTTTTTTAA
1 -AAAATTAATTAAATTATGATTTAGGTTTTTAA
26022170 AATAATT
1 AA-AATT
26022177 TTGTGTTTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
32 3 0.05
33 15 0.25
34 41 0.68
35 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (32 bp):
AAAATTAATTAAATTATGATTTAGGTTTTTAA
Found at i:26022574 original size:127 final size:126
Alignment explanation
Indices: 26022227--26022747 Score: 604
Period size: 126 Copynumber: 4.2 Consensus size: 126
26022217 TTTTGTTTTT
* * ** *
26022227 TTTTTCTACGGTAGTTCTTTAAAAAATAATTTTGAGAAGACCTTTCTAAA-AATATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTTAAAAAATAATTTTGAGAAGACGATTCTAAACAA-ATAGTGTCAAA
* * * *
26022291 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCTCATGTGGACGCTT
65 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACGTGGACGCTC
* * * * * * * *
26022353 TTTTTCTACGGTAATTCCTAAAAAAATAATCTTGAGAAGACTATTTTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTTAAAAAATAATTTTGAGAAGACGATTCTAAACAAATAGTGTCAAAA
* * *
26022418 ACGCTTTAAGTAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACGTGGACGCTC
* ** * * * *
26022479 TTTTTCTGCAGTAGTTTTTTTAAAAAATAATTTTGAGAAGATGGTTCTAAATAAATGGTGTCAAA
1 TTTTTCTACAGTAG-TTCCTTAAAAAATAATTTTGAGAAGACGATTCTAAACAAATAGTGTCAAA
*
26022544 AATGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
26022606 TTTTTCTACAATAGTTCC-TGAAAAATAATTTTGAGAAGACGATTTTGAACAAATGGTGT-AAAA
1 TTTTTCTACAGTAGTTCCTTAAAAAATAATTTTGAGAAGACGATTCTAAACAAATAGTGTCAAAA
* * * * * *
26022669 ACGCTTTAAGCAAGATGCACTATAAACAAAATTGATGAAAAAAGCTCCCAGGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
*
26022730 TTTTTCTATAGT-GTTCCT
1 TTTTTCTACAGTAGTTCCT
26022748 ATTTGGCCTT
Statistics
Matches: 338, Mismatches: 53, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
123 5 0.01
124 68 0.20
125 35 0.10
126 121 0.36
127 108 0.32
128 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTTAAAAAATAATTTTGAGAAGACGATTCTAAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
Found at i:26024936 original size:25 final size:26
Alignment explanation
Indices: 26024908--26024957 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
26024898 TTTATTCAAA
26024908 TATTAAAA-ATATAAAAATAA-TTTAC
1 TATTAAAATAT-TAAAAATAACTTTAC
*
26024933 TATTTAAATATTAAAAATAACTTTA
1 TATTAAAATATTAAAAATAACTTTA
26024958 ATTTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
TATTAAAATATTAAAAATAACTTTAC
Found at i:26024961 original size:24 final size:23
Alignment explanation
Indices: 26024914--26024961 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
26024904 CAAATATTAA
26024914 AAATATAAAAATAATTTACTATTT
1 AAATATAAAAATAATTTAC-ATTT
26024938 AAATATTAAAAATAACTTTA-ATTT
1 AAATA-TAAAAATAA-TTTACATTT
26024962 TATTAAACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.41
25 9 0.41
26 4 0.18
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATAAAAATAATTTACATTT
Found at i:26024963 original size:25 final size:24
Alignment explanation
Indices: 26024914--26024963 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
26024904 CAAATATTAA
*
26024914 AAATATAAAAATAATTTACTATTT
1 AAATATAAAAATAATTTAATATTT
26024938 AAATATTAAAAATAACTTTAAT-TTT
1 AAATA-TAAAAATAA-TTTAATATTT
26024963 A
1 A
26024964 TTAAACGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 13 0.57
26 5 0.22
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATATAAAAATAATTTAATATTT
Found at i:26025146 original size:21 final size:20
Alignment explanation
Indices: 26025097--26025143 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
26025087 GCTTCTGACA
* * *
26025097 GGGGTTGTGGTTGCTCTGGT
1 GGGGTTGTGGTTCCTCCGGC
26025117 GAGGGTTGTGGTTCCTCCGGC
1 G-GGGTTGTGGTTCCTCCGGC
26025138 GGGGTT
1 GGGGTT
26025144 TGTAGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.02, C:0.15, G:0.49, T:0.34
Consensus pattern (20 bp):
GGGGTTGTGGTTCCTCCGGC
Found at i:26025417 original size:18 final size:18
Alignment explanation
Indices: 26025391--26025433 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26025381 GACTGGGAAA
* *
26025391 AGGAAACATATAAGGATT
1 AGGATACATATAAGGACT
*
26025409 AGGATACATATAAGGGCT
1 AGGATACATATAAGGACT
26025427 AGGATAC
1 AGGATAC
26025434 GCACCTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:26025773 original size:13 final size:14
Alignment explanation
Indices: 26025755--26025783 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26025745 TACCGACTAA
26025755 TTCGT-AGTCGATT
1 TTCGTAAGTCGATT
26025768 TTCGTAAGTCGATT
1 TTCGTAAGTCGATT
26025782 TT
1 TT
26025784 GTACTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (14 bp):
TTCGTAAGTCGATT
Found at i:26026977 original size:24 final size:22
Alignment explanation
Indices: 26026933--26026973 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
26026923 AAAGACAAAT
26026933 GTATAGTAAATAAAATATACAA
1 GTATAGTAAATAAAATATACAA
26026955 GTATA-TAAATAAAA-ATACA
1 GTATAGTAAATAAAATATACA
26026974 TACATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (22 bp):
GTATAGTAAATAAAATATACAA
Found at i:26027047 original size:22 final size:22
Alignment explanation
Indices: 26027001--26027047 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
26026991 TATTAGATAT
**
26027001 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
26027023 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
26027045 TAA
1 TAA
26027048 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:26027205 original size:3 final size:3
Alignment explanation
Indices: 26027199--26027223 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26027189 TATATAAAAA
26027199 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
26027224 GAATAGAAAG
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:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26027293 original size:17 final size:18
Alignment explanation
Indices: 26027271--26027309 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
26027261 GAAGGGGAAT
26027271 AAAAGAAAGAA-AAAAAG
1 AAAAGAAAGAAGAAAAAG
*
26027288 AAAAGAAAGAAGAAAAGG
1 AAAAGAAAGAAGAAAAAG
26027306 AAAA
1 AAAA
26027310 ATTCAAGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAGAAAGAAGAAAAAG
Found at i:26029673 original size:46 final size:45
Alignment explanation
Indices: 26029621--26029790 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
26029611 GATCTTTGAA
* *
26029621 ATGAAATGTGTAAGACAATCATTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCAT-ATTGAAAGATACCATGGCAACCTGAC
* *
26029667 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCAT-ATTGAAAGATACCATGGCAACCTGAC
** * *
26029713 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGTGTAAGACCATA-TTGAAAGATACCATGGCAACCTGAC
* *
26029759 A-GAAAACGAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGTGTAAGACCATA-TTGAAAGATAC
26029791 TATGACATCA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 109 0.99
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (45 bp):
ATGAAATGTGTAAGACCATATTGAAAGATACCATGGCAACCTGAC
Found at i:26031100 original size:25 final size:24
Alignment explanation
Indices: 26031051--26031102 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
26031041 CTGTTATAAA
* *
26031051 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
26031075 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
26031100 AAA
1 AAA
26031103 TAATTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:26031304 original size:20 final size:21
Alignment explanation
Indices: 26031279--26031327 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
26031269 TAAAGAGAGC
*
26031279 TTTGAGA-AATTTAGGGATAA
1 TTTGAGAGAATTTAGGGAGAA
**
26031299 TTTGAGAGCTTTTAGGGAGAA
1 TTTGAGAGAATTTAGGGAGAA
26031320 TTTGAGAG
1 TTTGAGAG
26031328 CGTTTTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.35
Consensus pattern (21 bp):
TTTGAGAGAATTTAGGGAGAA
Found at i:26031314 original size:21 final size:22
Alignment explanation
Indices: 26031288--26031333 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
26031278 CTTTGAGAAA
*
26031288 TTTAGGGATAATTTGAGAGC-T
1 TTTAGGGAGAATTTGAGAGCGT
26031309 TTTAGGGAGAATTTGAGAGCGT
1 TTTAGGGAGAATTTGAGAGCGT
26031331 TTT
1 TTT
26031334 TGAAGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.39
Consensus pattern (22 bp):
TTTAGGGAGAATTTGAGAGCGT
Found at i:26031340 original size:21 final size:21
Alignment explanation
Indices: 26031288--26031343 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
26031278 CTTTGAGAAA
* *
26031288 TTTAGGGATAATTTGAGAGCT
1 TTTAGGAAGAATTTGAGAGCT
*
26031309 TTTAGGGAGAATTTGAGAGCGT
1 TTTAGGAAGAATTTGAGAGC-T
*
26031331 TTT-TGAAGAATTT
1 TTTAGGAAGAATTT
26031344 TGAAGAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (21 bp):
TTTAGGAAGAATTTGAGAGCT
Found at i:26034581 original size:22 final size:22
Alignment explanation
Indices: 26034547--26034589 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
26034537 TATTTAGATA
26034547 ATAATAATAAAA-TAGTAGCAAT
1 ATAATAATAAAATTA-TAGCAAT
* *
26034569 ATAATAGTGAAATTATAGCAA
1 ATAATAATAAAATTATAGCAA
26034590 AATGAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.28
Consensus pattern (22 bp):
ATAATAATAAAATTATAGCAAT
Found at i:26051365 original size:14 final size:15
Alignment explanation
Indices: 26051348--26051376 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26051338 TCACGAAAAT
26051348 TTCACACAT-ATAAA
1 TTCACACATAATAAA
26051362 TTCACACATAATAAA
1 TTCACACATAATAAA
26051377 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:26056252 original size:25 final size:25
Alignment explanation
Indices: 26056218--26056270 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
26056208 GCATTACCAA
*
26056218 TCAAAATACAACTCAGAACAGACGT
1 TCAAAATACAACTCAGAACAGACAT
26056243 TCAAAATACAACTCAGAACAGACAT
1 TCAAAATACAACTCAGAACAGACAT
26056268 TCA
1 TCA
26056271 TTTCAATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.25, G:0.09, T:0.17
Consensus pattern (25 bp):
TCAAAATACAACTCAGAACAGACAT
Found at i:26058299 original size:84 final size:84
Alignment explanation
Indices: 26058144--26058303 Score: 189
Period size: 84 Copynumber: 1.9 Consensus size: 84
26058134 CACATATATC
* * * * **
26058144 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGCTATCATATAGCGATGCCATTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCATACACGCTATCACATAGCGATGCCAACGTCCCAGAC
26058209 AGGGTCTTACACGAATCAA
66 AGGGTCTTACACGAATCAA
* * * * *
26058228 ATACGATGCCAATGTCCCAGGCATGGTCATACACG-TAATCACATATCGATGCCAACGTCCCATA
1 ATACAATGCCAACGTCCCAGACATGGTCATACACGCT-ATCACATAGCGATGCCAACGTCCCAGA
26058292 C-GTGGTCTTACA
65 CAG-GGTCTTACA
26058304 TGTAATCACA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 2 0.03
84 61 0.97
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCATACACGCTATCACATAGCGATGCCAACGTCCCAGAC
AGGGTCTTACACGAATCAA
Found at i:26058309 original size:43 final size:43
Alignment explanation
Indices: 26058149--26058316 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
26058139 ATATCATACA
* * *
26058149 ATGCCAACGTCCCAGACGTGGTCTTACATGCT-ATCATATAGCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATCG
** *
26058192 ATGCCATTGTCCCAGACAG-GGTCTTACACG-AATCAAATA-CG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * * *
26058233 ATGCCAATGTCCCAGGCATGGTCATACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
26058276 ATGCCAACGTCCCATACGTGGTCTTACATGTAATCACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
26058317 TGAAAATCCT
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
41 27 0.26
42 15 0.14
43 62 0.59
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:26059445 original size:14 final size:15
Alignment explanation
Indices: 26059428--26059456 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26059418 TCACGAAAAT
26059428 TTCACACAT-ATAAA
1 TTCACACATAATAAA
26059442 TTCACACATAATAAA
1 TTCACACATAATAAA
26059457 CAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:26065088 original size:20 final size:20
Alignment explanation
Indices: 26065063--26065103 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26065053 TATGGCTTAC
26065063 TAAGCTTTTAAAGTTTACTT
1 TAAGCTTTTAAAGTTTACTT
26065083 TAAGCTTTTAAAGTTTACTT
1 TAAGCTTTTAAAGTTTACTT
26065103 T
1 T
26065104 GAATGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (20 bp):
TAAGCTTTTAAAGTTTACTT
Found at i:26072830 original size:29 final size:29
Alignment explanation
Indices: 26072788--26072845 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
26072778 CACTCGATCA
26072788 CTTTAGCTTGTATTTGAGTGATTAAATCT
1 CTTTAGCTTGTATTTGAGTGATTAAATCT
26072817 CTTTAGCTTGTATTTGAGTGATTAAATCT
1 CTTTAGCTTGTATTTGAGTGATTAAATCT
26072846 TTATTGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.48
Consensus pattern (29 bp):
CTTTAGCTTGTATTTGAGTGATTAAATCT
Found at i:26077967 original size:28 final size:28
Alignment explanation
Indices: 26077935--26078024 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
26077925 TAATCCAATA
26077935 AAATAGTTACATGTGAAAATAATAAAAT
1 AAATAGTTACATGTGAAAATAATAAAAT
* * *
26077963 AAATAAATCATACA--TGAAATTAAAAAAAT
1 AAAT-AGT--TACATGTGAAAATAATAAAAT
*
26077992 AAATAGTTACATGTGAATATAATAAAAT
1 AAATAGTTACATGTGAAAATAATAAAAT
26078020 AAATA
1 AAATA
26078025 AATCATACAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
26 4 0.08
28 23 0.46
29 19 0.38
31 4 0.08
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (28 bp):
AAATAGTTACATGTGAAAATAATAAAAT
Found at i:26077997 original size:57 final size:57
Alignment explanation
Indices: 26077935--26078046 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
26077925 TAATCCAATA
26077935 AAATAGTTACATGTGAAAATAATAAAATAAATAAATCATACATGAAATTAAAAAAAT
1 AAATAGTTACATGTGAAAATAATAAAATAAATAAATCATACATGAAATTAAAAAAAT
*
26077992 AAATAGTTACATGTGAATATAATAAAATAAATAAATCATACATGAAATTAAAAAA
1 AAATAGTTACATGTGAAAATAATAAAATAAATAAATCATACATGAAATTAAAAAA
26078047 TAACTCTTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (57 bp):
AAATAGTTACATGTGAAAATAATAAAATAAATAAATCATACATGAAATTAAAAAAAT
Found at i:26078046 original size:28 final size:29
Alignment explanation
Indices: 26077948--26078049 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
26077938 TAGTTACATG
*
26077948 TGAAAATAATAAAATAAATAAATCATACA
1 TGAAATTAATAAAATAAATAAATCATACA
* *
26077977 TGAAATTAAAAAAATAAAT-AGT--TACA
1 TGAAATTAATAAAATAAATAAATCATACA
*
26078003 TGTGAATATAATAAAATAAATAAATCATACA
1 TG-AAAT-TAATAAAATAAATAAATCATACA
26078034 TGAAATTAA-AAAATAA
1 TGAAATTAATAAAATAA
26078050 CTCTTAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.10
27 3 0.05
28 21 0.34
29 22 0.36
30 3 0.05
31 6 0.10
ACGTcount: A:0.63, C:0.05, G:0.06, T:0.26
Consensus pattern (29 bp):
TGAAATTAATAAAATAAATAAATCATACA
Found at i:26079549 original size:26 final size:29
Alignment explanation
Indices: 26079518--26079570 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
26079508 TTTATTTTTT
26079518 AATTATAAT-T-TA-TTAATTTTATAATA
1 AATTATAATATATATTTAATTTTATAATA
26079544 AATTATAATATATATTTAATTTTATAA
1 AATTATAATATATATTTAATTTTATAA
26079571 ATATCTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 9 0.38
27 1 0.04
28 2 0.08
29 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
AATTATAATATATATTTAATTTTATAATA
Found at i:26079601 original size:34 final size:35
Alignment explanation
Indices: 26079556--26079624 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
26079546 TTATAATATA
* *
26079556 TATTTAATTTTATAA-ATATCTTTGTTTTAAATTTT
1 TATTTAATTTTATAATATATATTTGGTTT-AATTTT
26079591 TATTT-ATTTTATAATATATATTTGGTTTAATTTT
1 TATTTAATTTTATAATATATATTTGGTTTAATTTT
26079625 GCCAAAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (35 bp):
TATTTAATTTTATAATATATATTTGGTTTAATTTT
Found at i:26079619 original size:18 final size:18
Alignment explanation
Indices: 26079546--26079613 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
26079536 TTATAATAAA
26079546 TTATAATATATATTTAATT
1 TTATAATATATATTT-ATT
* *
26079565 TTATAA-ATATCTTTGTT
1 TTATAATATATATTTATT
* *
26079582 TTA-AATTTTTATTTATT
1 TTATAATATATATTTATT
26079599 TTATAATATATATTT
1 TTATAATATATATTT
26079614 GGTTTAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
16 2 0.05
17 15 0.38
18 16 0.41
19 6 0.15
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (18 bp):
TTATAATATATATTTATT
Found at i:26085454 original size:29 final size:27
Alignment explanation
Indices: 26085422--26085497 Score: 111
Period size: 26 Copynumber: 2.8 Consensus size: 27
26085412 TTTTTATCAA
*
26085422 TATTTTGTTTTTGTAATTGATACATTATT
1 TATTTTGTTATTGT--TTGATACATTATT
26085451 TATTTTGTTATTG-TTGATACATTATT
1 TATTTTGTTATTGTTTGATACATTATT
26085477 TATTTTGTTATTG-TTGATACA
1 TATTTTGTTATTGTTTGATACA
26085498 CAATATCAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 34 0.74
29 12 0.26
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.61
Consensus pattern (27 bp):
TATTTTGTTATTGTTTGATACATTATT
Found at i:26085474 original size:26 final size:26
Alignment explanation
Indices: 26085438--26085497 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
26085428 GTTTTTGTAA
26085438 TTGATACATTATTTATTTTGTTATTG
1 TTGATACATTATTTATTTTGTTATTG
26085464 TTGATACATTATTTATTTTGTTATTG
1 TTGATACATTATTTATTTTGTTATTG
26085490 TTGATACA
1 TTGATACA
26085498 CAATATCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (26 bp):
TTGATACATTATTTATTTTGTTATTG
Found at i:26085940 original size:20 final size:21
Alignment explanation
Indices: 26085901--26085940 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26085891 CAAAATATTC
*
26085901 GAAAATTTTCATATATGATAG
1 GAAAATTTTCATAAATGATAG
*
26085922 GAAAATTTTGA-AAATGATA
1 GAAAATTTTCATAAATGATA
26085941 TTCTTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (21 bp):
GAAAATTTTCATAAATGATAG
Found at i:26092006 original size:14 final size:15
Alignment explanation
Indices: 26091987--26092022 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
26091977 ATGTTATTAC
26091987 TAATTAAATTAA-AA
1 TAATTAAATTAACAA
26092001 TAATTAAA-TAACAA
1 TAATTAAATTAACAA
26092015 T-ATTAAAT
1 TAATTAAAT
26092023 GATTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATTAAATTAACAA
Found at i:26092630 original size:23 final size:23
Alignment explanation
Indices: 26092600--26092645 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
26092590 CAGGGCCATG
26092600 AAATCTCAAATAATTAAAAACTT
1 AAATCTCAAATAATTAAAAACTT
26092623 AAATCTCAAATAATTAAAAACTT
1 AAATCTCAAATAATTAAAAACTT
26092646 TTATTTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATCTCAAATAATTAAAAACTT
Found at i:26092801 original size:23 final size:20
Alignment explanation
Indices: 26092771--26092841 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 20
26092761 AAGGCTTCAT
26092771 ACGCCCGTGTGGGTATAGAGCAC
1 ACGCCCGTGT-GGT-TAG-GCAC
*
26092794 ACGCCCGTGT-GTTAGGGAC
1 ACGCCCGTGTGGTTAGGCAC
* *
26092813 ACGCCCGTGT-GCTAGGAAC
1 ACGCCCGTGTGGTTAGGCAC
26092832 ACGCCCGTGT
1 ACGCCCGTGT
26092842 CCCAAACCCG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 30 0.67
20 3 0.07
21 2 0.04
23 10 0.22
ACGTcount: A:0.18, C:0.30, G:0.34, T:0.18
Consensus pattern (20 bp):
ACGCCCGTGTGGTTAGGCAC
Found at i:26092816 original size:19 final size:19
Alignment explanation
Indices: 26092792--26092841 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
26092782 GGTATAGAGC
* *
26092792 ACACGCCCGTGTGTTAGGG
1 ACACGCCCGTGTGCTAGGA
26092811 ACACGCCCGTGTGCTAGGA
1 ACACGCCCGTGTGCTAGGA
26092830 ACACGCCCGTGT
1 ACACGCCCGTGT
26092842 CCCAAACCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (19 bp):
ACACGCCCGTGTGCTAGGA
Found at i:26103198 original size:134 final size:136
Alignment explanation
Indices: 26103007--26103357 Score: 536
Period size: 135 Copynumber: 2.6 Consensus size: 136
26102997 CAACTTCACA
*
26103007 TGTTTAGAAGCCCAAGAGTTTAG-AATCAAAGTCTAGGGTGAAGATTTTG-AAGACTAAAAGTTT
1 TGTTTAGAAGTCCAAGAGTTTAGAAATCAAAGTCTAGGGTGAAGATTTTGAAAGACTAAAAGTTT
* * *
26103070 TCTCTAAAATCCCAAGAAATCTCT-TAG-ATTTCTAAAAACTCAAAGAAATATTGAAGAACA-CA
66 TCTCTAAAATCCCAAGAAATCTATGAAGAATTT-GAAAAACTCAAAGAAATATTGAAGAACACCA
26103132 GTACCACT
130 -TACCACT
* * *
26103140 TGTTTAGAAGTCCAAAAGTTTAGAAATCAAAGTCTAAGGTGAAGATTTTGAAAG-CTAAAAATTT
1 TGTTTAGAAGTCCAAGAGTTTAGAAATCAAAGTCTAGGGTGAAGATTTTGAAAGACTAAAAGTTT
* *
26103204 TCTCTAAAATCCCAAGAAATCTATGAAGAATTTGAAAAACTTAAAGAAATTTTGAAGAACACCAT
66 TCTCTAAAATCCCAAGAAATCTATGAAGAATTTGAAAAACTCAAAGAAATATTGAAGAACACCAT
*
26103269 ACCATT
131 ACCACT
*
26103275 TGTTTAGAAGTCCAAGAGTTTAGAAATCAAAGTCTAGGGTGAAGATTTT-AAAGACTAGAAGTTT
1 TGTTTAGAAGTCCAAGAGTTTAGAAATCAAAGTCTAGGGTGAAGATTTTGAAAGACTAAAAGTTT
26103339 TCTCTAAAATCCCAAGAAA
66 TCTCTAAAATCCCAAGAAA
26103358 GCTACTCTTC
Statistics
Matches: 198, Mismatches: 14, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
133 21 0.11
134 61 0.31
135 110 0.56
136 6 0.03
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (136 bp):
TGTTTAGAAGTCCAAGAGTTTAGAAATCAAAGTCTAGGGTGAAGATTTTGAAAGACTAAAAGTTT
TCTCTAAAATCCCAAGAAATCTATGAAGAATTTGAAAAACTCAAAGAAATATTGAAGAACACCAT
ACCACT
Found at i:26104603 original size:11 final size:11
Alignment explanation
Indices: 26104589--26104629 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
26104579 TGTTTTCTCT
26104589 CTATTTTGCTA
1 CTATTTTGCTA
*
26104600 CTATTTTACTA
1 CTATTTTGCTA
* *
26104611 TTATGTTGCTA
1 CTATTTTGCTA
26104622 CTATTTTG
1 CTATTTTG
26104630 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:26104872 original size:12 final size:12
Alignment explanation
Indices: 26104851--26104884 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
26104841 TATATATATT
*
26104851 AAAATTATATAA
1 AAAATAATATAA
26104863 AAAATAATATAA
1 AAAATAATATAA
*
26104875 AAATTAATAT
1 AAAATAATAT
26104885 GGGCGGACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:26111107 original size:14 final size:15
Alignment explanation
Indices: 26111075--26111108 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26111065 CAATTATTTT
26111075 TTTAAAATAAAATAA
1 TTTAAAATAAAATAA
*
26111090 TTTATAATAAAA-AA
1 TTTAAAATAAAATAA
26111104 TTTAA
1 TTTAA
26111109 GCTCAGACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTAAAATAAAATAA
Found at i:26111932 original size:59 final size:58
Alignment explanation
Indices: 26111805--26111945 Score: 142
Period size: 59 Copynumber: 2.4 Consensus size: 58
26111795 AAGCATTAAT
* * ****
26111805 GCTGAAA-ATATATAACATATATTATCCTTTGATTTAATGTAATTTATCTCATTTTCC
1 GCTGAAATATATATAACATATATTATCCTTTAATTGAATGTAATTTATCTCATTGGAA
* * * * *
26111862 CCTCAAAATATATATACCCTATATTATCCTTTAATTGAATGTAATTTATGTCATTGGAA
1 GCT-GAAATATATATAACATATATTATCCTTTAATTGAATGTAATTTATCTCATTGGAA
* *
26111921 GCTG-AATATATATAATATAGATTAT
1 GCTGAAATATATATAACATATATTAT
26111946 AATATATTAA
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
57 19 0.29
58 3 0.05
59 43 0.66
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (58 bp):
GCTGAAATATATATAACATATATTATCCTTTAATTGAATGTAATTTATCTCATTGGAA
Found at i:26124724 original size:3 final size:3
Alignment explanation
Indices: 26124716--26124741 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26124706 GTGGAGAAAT
26124716 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
26124742 CACCTCTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:26125480 original size:23 final size:24
Alignment explanation
Indices: 26125454--26125500 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
26125444 AATTGGACTT
* *
26125454 AATTTTAAGATTT-AATTCTTATA
1 AATTTTAAAATTTCAATTATTATA
26125477 AATTTTAAAATTTCAATTATTATA
1 AATTTTAAAATTTCAATTATTATA
26125501 GTGAGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
AATTTTAAAATTTCAATTATTATA
Found at i:26131075 original size:6 final size:6
Alignment explanation
Indices: 26131064--26131116 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
26131054 AAGTAGTAGT
* * * *
26131064 CTCAGG CTCAGG CTAAGG CTAAGG CTAAGG CTCAGG CTAAGG CTCAGG
1 CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG CTCAGG
26131112 CTCAG
1 CTCAG
26131117 ACTCTATAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.25, C:0.26, G:0.32, T:0.17
Consensus pattern (6 bp):
CTCAGG
Found at i:26131088 original size:12 final size:12
Alignment explanation
Indices: 26131067--26131113 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
26131057 TAGTAGTCTC
26131067 AGGCTCAGGCTA
1 AGGCTCAGGCTA
*
26131079 AGGCTAAGGCTA
1 AGGCTCAGGCTA
26131091 AGGCTCAGGCTA
1 AGGCTCAGGCTA
26131103 AGGCTCAGGCT
1 AGGCTCAGGCT
26131114 CAGACTCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.34, T:0.17
Consensus pattern (12 bp):
AGGCTCAGGCTA
Found at i:26131114 original size:18 final size:18
Alignment explanation
Indices: 26131067--26131116 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
26131057 TAGTAGTCTC
*
26131067 AGGCTCAGGCTAAGGCTA
1 AGGCTCAGGCTCAGGCTA
*
26131085 AGGCTAAGGCTCAGGCTA
1 AGGCTCAGGCTCAGGCTA
26131103 AGGCTCAGGCTCAG
1 AGGCTCAGGCTCAG
26131117 ACTCTATAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.26, C:0.24, G:0.34, T:0.16
Consensus pattern (18 bp):
AGGCTCAGGCTCAGGCTA
Found at i:26133816 original size:17 final size:17
Alignment explanation
Indices: 26133784--26133827 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
26133774 ATATATTATA
**
26133784 TTTTAAAATTTTAAAAT
1 TTTTAAAATTAAAAAAT
26133801 TTTTAAAATTAAAAAAT
1 TTTTAAAATTAAAAAAT
**
26133818 AATTAAAATT
1 TTTTAAAATT
26133828 TCAAATGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAATTAAAAAAT
Found at i:26134457 original size:15 final size:15
Alignment explanation
Indices: 26134421--26134455 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
26134411 ACTGTCATGT
*
26134421 ATATATATTTTTTAA
1 ATATTTATTTTTTAA
26134436 ATATTTATTTTTT-A
1 ATATTTATTTTTTAA
26134450 ATATTT
1 ATATTT
26134456 TACTATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTATTTTTTAA
Found at i:26143568 original size:49 final size:49
Alignment explanation
Indices: 26143515--26143613 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
26143505 CATTAGTTAG
26143515 TCCAAATAATTAGCTGTATTAATAAATTTAATAGTTGATGTGAATTTTT
1 TCCAAATAATTAGCTGTATTAATAAATTTAATAGTTGATGTGAATTTTT
*
26143564 TCCAAATAATTAGCTGTATTAATAAATTTGATAGTTGATGTGAATTTTT
1 TCCAAATAATTAGCTGTATTAATAAATTTAATAGTTGATGTGAATTTTT
26143613 T
1 T
26143614 AAAAAGACTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (49 bp):
TCCAAATAATTAGCTGTATTAATAAATTTAATAGTTGATGTGAATTTTT
Found at i:26147643 original size:17 final size:17
Alignment explanation
Indices: 26147623--26147657 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26147613 ATAATTTTAA
26147623 AAAAATTATAAGTTTTT
1 AAAAATTATAAGTTTTT
* *
26147640 AAAATTTCTAAGTTTTT
1 AAAAATTATAAGTTTTT
26147657 A
1 A
26147658 TTTAAAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (17 bp):
AAAAATTATAAGTTTTT
Found at i:26153301 original size:4 final size:4
Alignment explanation
Indices: 26153292--26153356 Score: 55
Period size: 4 Copynumber: 17.0 Consensus size: 4
26153282 TACAAATTGT
* * * * *
26153292 TTTA TTTA TTTG TTTG TTTG TTTA TTT- TCTA TTTA TTTA -TTA TTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
26153338 TTTC TTTA TTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA
26153357 GAAAAAATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
3 8 0.15
4 44 0.85
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:26153348 original size:30 final size:31
Alignment explanation
Indices: 26153292--26153356 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
26153282 TACAAATTGT
* * *
26153292 TTTATTTATTTGTTTGTTTGTTTATTTTCTA
1 TTTATTTATTTATTTCTTTCTTTATTTTCTA
*
26153323 TTTATTTA-TTATTTCTTTCTTTATTTTTTA
1 TTTATTTATTTATTTCTTTCTTTATTTTCTA
26153353 TTTA
1 TTTA
26153357 GAAAAAATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (31 bp):
TTTATTTATTTATTTCTTTCTTTATTTTCTA
Found at i:26156208 original size:48 final size:48
Alignment explanation
Indices: 26156097--26156318 Score: 212
Period size: 43 Copynumber: 4.8 Consensus size: 48
26156087 TGCCAAATAA
* * * * *
26156097 ATAGCCGAAGCTATATCAATCTCGTACACTAAGTGCCAATATGTATAT
1 ATAGCCGAAGCTATCTCAATCTCGCACACTTAGTGCCAATATATGTAT
* * * * *
26156145 AGAGCTGGAGCTATCTCAATCACGCACACTAAGTGCCAATATATGTAT
1 ATAGCCGAAGCTATCTCAATCTCGCACACTTAGTGCCAATATATGTAT
* * *
26156193 ATAGCCGAAGTTATCT-GATCTCACACACTTAGTGCC---A-ATGTAT
1 ATAGCCGAAGCTATCTCAATCTCGCACACTTAGTGCCAATATATGTAT
* **
26156236 TTAGCCGAAGCTATCT-GGTCTCGCACACTTAGTGCCAATATA--T-T
1 ATAGCCGAAGCTATCTCAATCTCGCACACTTAGTGCCAATATATGTAT
* *
26156280 -TAGCCAAAGCTATCTCAGTCTCGCACACTTAGTGCCAAT
1 ATAGCCGAAGCTATCTCAATCTCGCACACTTAGTGCCAAT
26156319 GTACAATATA
Statistics
Matches: 147, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
43 52 0.35
44 24 0.16
45 1 0.01
46 1 0.01
47 17 0.12
48 52 0.35
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (48 bp):
ATAGCCGAAGCTATCTCAATCTCGCACACTTAGTGCCAATATATGTAT
Found at i:26174305 original size:25 final size:24
Alignment explanation
Indices: 26174277--26174349 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 24
26174267 TATATTTTAA
26174277 ACTTGTTATATA-TTATTTTAAATT
1 ACTT-TTATATACTTATTTTAAATT
*
26174301 GACTTATATATTACTTATTTTAAAATT
1 -ACTTTTATA-TACTTATTTT-AAATT
26174328 A-TTTTATATACCTTATTTTAAA
1 ACTTTTATATA-CTTATTTTAAA
26174350 CCCCATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 9 0.21
25 20 0.48
26 8 0.19
27 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.55
Consensus pattern (24 bp):
ACTTTTATATACTTATTTTAAATT
Found at i:26174308 original size:20 final size:20
Alignment explanation
Indices: 26174264--26174309 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
26174254 CCTTTACATA
*
26174264 TTATA-TATTTTAAACTTGT
1 TTATATTATTTTAAACTTGC
26174283 TATATATTATTTTAAA-TTGAC
1 T-TATATTATTTTAAACTTG-C
26174304 TTATAT
1 TTATAT
26174310 ATTACTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTATATTATTTTAAACTTGC
Found at i:26174310 original size:22 final size:21
Alignment explanation
Indices: 26174265--26174313 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
26174255 CTTTACATAT
26174265 TATA-TATTTTAAACTTGTTA
1 TATATTATTTTAAACTTGTTA
26174285 TATATTATTTTAAA-TTGACTTA
1 TATATTATTTTAAACTTG--TTA
26174307 TATATTA
1 TATATTA
26174314 CTTATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATTATTTTAAACTTGTTA
Found at i:26184360 original size:18 final size:18
Alignment explanation
Indices: 26184337--26184376 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
26184327 ATGACTTTTA
*
26184337 AATAATTTTTTATTAAAT
1 AATAATATTTTATTAAAT
*
26184355 AATAATATTTTATTAATT
1 AATAATATTTTATTAAAT
26184373 AATA
1 AATA
26184377 TTATAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATAATATTTTATTAAAT
Found at i:26192145 original size:3 final size:3
Alignment explanation
Indices: 26192115--26192179 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
26192105 AAGCGATGAG
* * *
26192115 ATA AGTA ATA AAA ATA ATA GT- ATGA ATA ATA ATA ATA CTA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
*
26192161 ATA ATA TTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
26192180 CCAATGCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 1 0.02
3 45 0.88
4 5 0.10
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:26192868 original size:55 final size:55
Alignment explanation
Indices: 26192784--26192893 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
26192774 TCGTTTGGAC
*
26192784 GTTCAACATCCAGCCCAAAACGGTGCCGTTTTGCAATGCTATAAAATCAACATTT
1 GTTCAACATCCAGCCCAAAACGGCGCCGTTTTGCAATGCTATAAAATCAACATTT
*
26192839 GTTCAACATCCGGCCCAAAACGGCGCCGTTTTGCAATGCTATAAAATCAACATTT
1 GTTCAACATCCAGCCCAAAACGGCGCCGTTTTGCAATGCTATAAAATCAACATTT
26192894 CTAAAAAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (55 bp):
GTTCAACATCCAGCCCAAAACGGCGCCGTTTTGCAATGCTATAAAATCAACATTT
Found at i:26195475 original size:20 final size:21
Alignment explanation
Indices: 26195443--26195485 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
26195433 TCGCTGCCTA
26195443 ACGGTTGAAAAAACTACATAG
1 ACGGTTGAAAAAACTACATAG
26195464 ACGGTT-AAAAAACTACATAG
1 ACGGTTGAAAAAACTACATAG
26195484 AC
1 AC
26195486 AATTTTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (21 bp):
ACGGTTGAAAAAACTACATAG
Found at i:26195652 original size:6 final size:5
Alignment explanation
Indices: 26195638--26195694 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
26195628 TTAGTTTAGG
* * *
26195638 TTTTC TTTTC ATTTTC TTTTC TCTTA TTTTC TTTTT TTTTC TTTTTC TTTTTC
1 TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC -TTTTC
26195691 TTTT
1 TTTT
26195695 TGTTGTAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
5 28 0.64
6 16 0.36
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:26195668 original size:15 final size:16
Alignment explanation
Indices: 26195638--26195692 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
26195628 TTAGTTTAGG
*
26195638 TTTTCTTTTCATTTTC
1 TTTTCTCTTCATTTTC
26195654 TTTTCTCTT-ATTTTC
1 TTTTCTCTTCATTTTC
* * *
26195669 TTTTTTTTTCTTTTTC
1 TTTTCTCTTCATTTTC
26195685 TTTT-TCTT
1 TTTTCTCTT
26195693 TTTGTTGTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
15 16 0.48
16 17 0.52
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTCTTCATTTTC
Found at i:26195695 original size:6 final size:6
Alignment explanation
Indices: 26195638--26195695 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
26195628 TTAGTTTAGG
*
26195638 TTTTC- TTTTCA TTTTCT TTTCTCT TATTT-T CTTTT-T TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTT-TCT T-TTTCT -TTTTCT TTTTCT TTTTCT
26195686 TTTTCT TTTT
1 TTTTCT TTTT
26195696 GTTGTAGTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
5 9 0.19
6 30 0.64
7 6 0.13
8 2 0.04
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:26197687 original size:20 final size:20
Alignment explanation
Indices: 26197643--26197687 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
26197633 TGAAAGTTCC
* *
26197643 AAAAATAATAAAAGAAATAA
1 AAAAATAACAAAAAAAATAA
*
26197663 TAAAATAACAAAAAAAATAA
1 AAAAATAACAAAAAAAATAA
26197683 AAAAA
1 AAAAA
26197688 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (20 bp):
AAAAATAACAAAAAAAATAA
Found at i:26197698 original size:17 final size:17
Alignment explanation
Indices: 26197649--26197699 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
26197639 TTCCAAAAAT
26197649 AATAAAAGAAATAATAA
1 AATAAAAGAAATAATAA
*
26197666 AATAACAA-AAAAAATAA
1 AATAA-AAGAAATAATAA
26197683 AA-AAAATGAAATAATAA
1 AATAAAA-GAAATAATAA
26197700 TGACAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 23 0.79
18 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (17 bp):
AATAAAAGAAATAATAA
Found at i:26201813 original size:19 final size:19
Alignment explanation
Indices: 26201775--26201810 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26201765 AAATTAATGT
*
26201775 ATTTTCAGATTTTCTATTA
1 ATTTTCAAATTTTCTATTA
26201794 ATTTTCAAATTTT-TATT
1 ATTTTCAAATTTTCTATT
26201811 TAAAAAGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTCAAATTTTCTATTA
Found at i:26203665 original size:79 final size:79
Alignment explanation
Indices: 26203528--26203684 Score: 233
Period size: 79 Copynumber: 2.0 Consensus size: 79
26203518 GCAAAATTAA
* * * * * * *
26203528 ATAAATTCGCAATCAATACTAAATTTATTTTTCAAAATCATGAAAAATTCAAGCCTAGTAGTATT
1 ATAAATTCACAATCAACACTAAATATATTCTACAAAATCATGAAAAATTCAAACCTAGTAGTATC
26203593 AGCAATTAACTTTC
66 AGCAATTAACTTTC
* *
26203607 ATAAATTCACAATCAGCACTAAATATATTCTACAAAATCATGAAAAATTCAAATCTAGTAGTATC
1 ATAAATTCACAATCAACACTAAATATATTCTACAAAATCATGAAAAATTCAAACCTAGTAGTATC
26203672 AGCAATTAACTTT
66 AGCAATTAACTTT
26203685 TATCAAATCA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (79 bp):
ATAAATTCACAATCAACACTAAATATATTCTACAAAATCATGAAAAATTCAAACCTAGTAGTATC
AGCAATTAACTTTC
Found at i:26205820 original size:19 final size:20
Alignment explanation
Indices: 26205778--26205826 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
26205768 TAATTATTTG
* * *
26205778 TAAAATTTAATTTGAATATA
1 TAAAATATATTTTAAATATA
26205798 TAAAATATATTTTAAATAT-
1 TAAAATATATTTTAAATATA
26205817 TAAAATATAT
1 TAAAATATAT
26205827 AGTGTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAATATATTTTAAATATA
Found at i:26209385 original size:13 final size:13
Alignment explanation
Indices: 26209367--26209392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26209357 TTAAAAAATA
26209367 TTAAATTTTAACT
1 TTAAATTTTAACT
26209380 TTAAATTTTAACT
1 TTAAATTTTAACT
26209393 AATGTAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAAATTTTAACT
Found at i:26209493 original size:5 final size:5
Alignment explanation
Indices: 26209461--26209492 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
26209451 TTTATATAAC
26209461 AAACA AAACA AAACA AAACA AAACA AAA-A AAA
1 AAACA AAACA AAACA AAACA AAACA AAACA AAA
26209493 AGCGAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:26210335 original size:4 final size:4
Alignment explanation
Indices: 26210326--26210351 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
26210316 CATTCTATTC
26210326 TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TG
26210352 ACATGAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:26212860 original size:82 final size:81
Alignment explanation
Indices: 26212769--26213018 Score: 186
Period size: 82 Copynumber: 3.1 Consensus size: 81
26212759 CATATAAGAA
*
26212769 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
26212834 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
26212851 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
26212907 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
26212923 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
26212987 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
26213008 TATTTATTATT
1 TATTTATTATT
26213019 GATAATAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.07
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 5 0.04
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:26212933 original size:157 final size:157
Alignment explanation
Indices: 26212772--26213081 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
26212762 ATAAGAATAT
*
26212772 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
26212837 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
26212902 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
26212929 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
26212994 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
26213059 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
26213082 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:26213232 original size:16 final size:16
Alignment explanation
Indices: 26213211--26213274 Score: 110
Period size: 16 Copynumber: 4.0 Consensus size: 16
26213201 GATTTGCTAT
26213211 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26213227 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
26213243 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
26213259 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
26213275 AACAGTATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26213407 original size:29 final size:29
Alignment explanation
Indices: 26213375--26213432 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
26213365 GATTTGTTAA
*
26213375 AACGTAGAATTTTAT-TTGTAAAATTTATT
1 AACGAAGAATTTTATATT-TAAAATTTATT
*
26213404 AACGAATAATTTTATATTTAAAATTTATT
1 AACGAAGAATTTTATATTTAAAATTTATT
26213433 TAATTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
AACGAAGAATTTTATATTTAAAATTTATT
Found at i:26214523 original size:3 final size:3
Alignment explanation
Indices: 26214515--26214549 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
26214505 GCACCAGAAG
26214515 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
26214550 ACGTTATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:26224739 original size:46 final size:44
Alignment explanation
Indices: 26224687--26224813 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
26224677 AGAACAGAAA
* *
26224687 TGAGCCATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
* *
26224733 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
* ** * *
26224777 TAATTCATGTAAGTCCATGTCAAAGATATGGCATTGG
1 TGAGCCATGTAAGTCCATAT-TAA-ATATGGCATTGG
26224814 CAGGATATTG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 36 0.52
45 1 0.01
46 32 0.46
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:26224775 original size:44 final size:45
Alignment explanation
Indices: 26224680--26224813 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
26224670 ACAGGACAGA
* * *
26224680 ACAGAAATGAGCCATGTAAGTCTATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
26224726 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
26224770 ACAGGAATAATTCATGTAAGTCCATGTCAAAGATATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
26224814 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:26226395 original size:113 final size:114
Alignment explanation
Indices: 26226265--26226490 Score: 346
Period size: 114 Copynumber: 2.0 Consensus size: 114
26226255 ATGAATTTGA
* * * * *
26226265 CATCATCATAAAATGCAAATTAGTTTAAAAT-TTCAAATGTTTTTACTTTAATATTAAAATCAAA
1 CATCAGCATAAAATGCAAATTAGTTTAAAATATTAAAATATTTTTACTTCAACATTAAAATCAAA
*
26226329 GGCTTTCATGAGTAAAAATTACAAGTCGTGAGCTTATTTAACTACAAAG
66 GGCTTTCAGGAGTAAAAATTACAAGTCGTGAGCTTATTTAACTACAAAG
*
26226378 CATCAGCATAAAATGCAAATTAGTTTAAATTATTAAAATATTTTTACTTCAACATTAAAATCAAA
1 CATCAGCATAAAATGCAAATTAGTTTAAAATATTAAAATATTTTTACTTCAACATTAAAATCAAA
* * * *
26226443 GGCTTTCAGGAGTAAAAATTATATGTTGTGTGCTTATTTAACTACAAA
66 GGCTTTCAGGAGTAAAAATTACAAGTCGTGAGCTTATTTAACTACAAA
26226491 AATAGCATAA
Statistics
Matches: 101, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 29 0.29
114 72 0.71
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (114 bp):
CATCAGCATAAAATGCAAATTAGTTTAAAATATTAAAATATTTTTACTTCAACATTAAAATCAAA
GGCTTTCAGGAGTAAAAATTACAAGTCGTGAGCTTATTTAACTACAAAG
Found at i:26228224 original size:25 final size:25
Alignment explanation
Indices: 26228195--26228251 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
26228185 TAATTAAAAT
*
26228195 TAAAATTAAATAGTAAAATTTAATCA
1 TAAAATTAAATAGCAAAATTTAAT-A
* * *
26228221 -AAAATCAAGTGGCAAAATTTAATA
1 TAAAATTAAATAGCAAAATTTAATA
26228245 TAAAATT
1 TAAAATT
26228252 GAAGTGGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
TAAAATTAAATAGCAAAATTTAATA
Found at i:26230255 original size:29 final size:29
Alignment explanation
Indices: 26230222--26230286 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
26230212 TAATTTTTTA
*
26230222 ATATTAAAATTGTT-AATATATTTTAATTT
1 ATATTAAAATTGTTGAATA-ATATTAATTT
* * *
26230251 ATATTAAATTTTTTGAATAATATTACTTT
1 ATATTAAAATTGTTGAATAATATTAATTT
26230280 ATATTAA
1 ATATTAA
26230287 TCACATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (29 bp):
ATATTAAAATTGTTGAATAATATTAATTT
Found at i:26237028 original size:65 final size:65
Alignment explanation
Indices: 26236947--26237076 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
26236937 TTGCCTTTTG
26236947 TTTTATGCACTTCCAGAACTGTTTGAATTTGAGGCTTTTTGTAGCTAAGTTCCAACATCATAATA
1 TTTTATGCACTTCCAGAACTGTTTGAATTTGAGGCTTTTTGTAGCTAAGTTCCAACATCATAATA
26237012 TTTTATGCACTTCCAGAACTGTTTGAATTTGAGGCTTTTTGTAGCTAAGTTCCAACATCATAATA
1 TTTTATGCACTTCCAGAACTGTTTGAATTTGAGGCTTTTTGTAGCTAAGTTCCAACATCATAATA
26237077 ATTGGCATAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (65 bp):
TTTTATGCACTTCCAGAACTGTTTGAATTTGAGGCTTTTTGTAGCTAAGTTCCAACATCATAATA
Found at i:26249905 original size:21 final size:20
Alignment explanation
Indices: 26249863--26249911 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
26249853 ATAAATAAAA
*
26249863 TCATTCATGTCAATTCCTTG
1 TCATTCATGACAATTCCTTG
26249883 TCATTCACTGACAATTTCC-TG
1 TCATTCA-TGACAA-TTCCTTG
26249904 TCATTCAT
1 TCATTCAT
26249912 AACTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 14 0.54
22 4 0.15
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (20 bp):
TCATTCATGACAATTCCTTG
Found at i:26250110 original size:21 final size:21
Alignment explanation
Indices: 26250084--26250214 Score: 176
Period size: 21 Copynumber: 6.3 Consensus size: 21
26250074 TGAATACACC
*
26250084 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
*
26250105 AACAGAAACTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
*
26250126 AACAGAAGCTC-GAA-AGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
26250145 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTG
* *
26250166 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTG
*
26250187 AATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
26250208 AACAGAA
1 AACAGAA
26250215 AGTAGAATAA
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.17
20 4 0.04
21 74 0.79
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:26250156 original size:61 final size:63
Alignment explanation
Indices: 26250084--26250214 Score: 212
Period size: 61 Copynumber: 2.1 Consensus size: 63
26250074 TGAATACACC
*
26250084 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGCTGAACAGAAGCTC-GAA-AGCTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGCTGAACAGAAGCTCAGAAGAGCTG
* * *
26250145 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTGAATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGCTGAACAGAAGCTCAGAAGAGCTG
26250208 AACAGAA
1 AACAGAA
26250215 AGTAGAATAA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 50 0.78
62 2 0.03
63 12 0.19
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (63 bp):
AACAGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGCTGAACAGAAGCTCAGAAGAGCTG
Found at i:26253958 original size:22 final size:22
Alignment explanation
Indices: 26253916--26253976 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
26253906 AATGAATAGG
* * * *
26253916 GAGCACTAAAGTGATATACAGC
1 GAGCACGAAAGTGCTAAACAGA
*
26253938 GAGCACGAATGTGCTAAACAGA
1 GAGCACGAAAGTGCTAAACAGA
*
26253960 GAGCACTAAAGTGCTAA
1 GAGCACGAAAGTGCTAA
26253977 TAATCGGAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (22 bp):
GAGCACGAAAGTGCTAAACAGA
Found at i:26253989 original size:25 final size:25
Alignment explanation
Indices: 26253958--26254031 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
26253948 GTGCTAAACA
26253958 GAGAGCACTAAAGTGCTAATAATCG
1 GAGAGCACTAAAGTGCTAATAATCG
26253983 GAGAGCACTAACA-TGCTAATAATCG
1 GAGAGCACTAA-AGTGCTAATAATCG
* *
26254008 GAGAGCATTAACGTGCTAATAATC
1 GAGAGCACTAAAGTGCTAATAATC
26254032 AGATACCGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 44 0.98
26 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (25 bp):
GAGAGCACTAAAGTGCTAATAATCG
Found at i:26254919 original size:18 final size:18
Alignment explanation
Indices: 26254896--26254933 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
26254886 CTTGAAAACC
26254896 TTAGTTTTCCCTTTTTCT
1 TTAGTTTTCCCTTTTTCT
*
26254914 TTAGTTTTTCCTTTTTCT
1 TTAGTTTTCCCTTTTTCT
26254932 TT
1 TT
26254934 CTCTTTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.71
Consensus pattern (18 bp):
TTAGTTTTCCCTTTTTCT
Found at i:26254947 original size:13 final size:12
Alignment explanation
Indices: 26254920--26254960 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
26254910 TTCTTTAGTT
26254920 TTTC-CTTTTTC
1 TTTCTCTTTTTC
26254931 TTTCTCTTTTTC
1 TTTCTCTTTTTC
*
26254943 GTTTCTC-CTTTC
1 -TTTCTCTTTTTC
26254955 TTTCTC
1 TTTCTC
26254961 CCCTGTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 10 0.37
12 11 0.41
13 6 0.22
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.68
Consensus pattern (12 bp):
TTTCTCTTTTTC
Found at i:26255041 original size:21 final size:18
Alignment explanation
Indices: 26255015--26255055 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
26255005 TTGTTTGTTT
26255015 TTATAATATAATATAATATCA
1 TTATAATAT--TATAATA-CA
26255036 TTATAATATTATAATACA
1 TTATAATATTATAATACA
26255054 TT
1 TT
26255056 TTAACTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
21 9 0.45
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAATATTATAATACA
Found at i:26257420 original size:4 final size:4
Alignment explanation
Indices: 26257411--26257435 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
26257401 CTTAGCAAAT
26257411 ATTC ATTC ATTC ATTC ATTC ATTC A
1 ATTC ATTC ATTC ATTC ATTC ATTC A
26257436 ATACCTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTC
Found at i:26259297 original size:13 final size:13
Alignment explanation
Indices: 26259279--26259321 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
26259269 TCTAATAATA
26259279 AAATAAAGAAATG
1 AAATAAAGAAATG
26259292 AAATAAAGAAAT-
1 AAATAAAGAAATG
* *
26259304 AAATGAAATAAAAG
1 AAAT-AAAGAAATG
26259318 AAAT
1 AAAT
26259322 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Done.