Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 29 of 198
Found at i:8478590 original size:14 final size:14
Alignment explanation
Indices: 8478552--8478591 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
8478542 TTGTGTTATT
*
8478552 AATTCATTATTTTA
1 AATTCATTAATTTA
*
8478566 AATTC-TAAATTTA
1 AATTCATTAATTTA
8478579 AATTCATTAATTT
1 AATTCATTAATTT
8478592 TTATATTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTCATTAATTTA
Found at i:8478830 original size:43 final size:43
Alignment explanation
Indices: 8478777--8478907 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
8478767 ATGACATATA
* * * *
8478777 GTGGTAAAAGTGCCGTTAAAAGTCATGATCTTTATCGGCGTTT
1 GTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
* * *
8478820 GTGGGAAAAGTGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTT
1 GTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
** * * *
8478863 GTGGGAAAAGCACCGCTAAAGGTCTTGTTCTATAGCGGCGTTT
1 GTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
8478906 GT
1 GT
8478908 TTCTAAAAAC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (43 bp):
GTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTT
Found at i:8479051 original size:82 final size:82
Alignment explanation
Indices: 8478914--8479077 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
8478904 TTGTTTCTAA
8478914 AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
1 AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
8478979 CTAAAAGTATTTGCGGC
66 CTAAAAGTATTTGCGGC
8478996 AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
1 AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
8479061 CTAAAAGTATTTGCGGC
66 CTAAAAGTATTTGCGGC
8479078 GTTAAAAAGC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (82 bp):
AAACGCCGCAAAAGTTAGCGGCTGTTTCAATAGCGGCATTTTTTACGACGCTGCTGAAAGCGCCG
CTAAAAGTATTTGCGGC
Found at i:8486878 original size:24 final size:24
Alignment explanation
Indices: 8486850--8486901 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8486840 TTTCTAGAAG
* *
8486850 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
8486874 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
8486898 ATTT
1 ATTT
8486902 GACCTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:8487029 original size:14 final size:15
Alignment explanation
Indices: 8487010--8487043 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8487000 TATGTTTTGA
8487010 GGGTTCGTTG-TTTT
1 GGGTTCGTTGTTTTT
*
8487024 GGGTTCTTTGTTTTT
1 GGGTTCGTTGTTTTT
8487039 GGGTT
1 GGGTT
8487044 TCGGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.00, C:0.06, G:0.35, T:0.59
Consensus pattern (15 bp):
GGGTTCGTTGTTTTT
Found at i:8487744 original size:10 final size:10
Alignment explanation
Indices: 8487729--8487755 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8487719 TCTCCTTTCT
8487729 CTTCTTCAAC
1 CTTCTTCAAC
8487739 CTTCTTCAAC
1 CTTCTTCAAC
8487749 CTTCTTC
1 CTTCTTC
8487756 TATTATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (10 bp):
CTTCTTCAAC
Found at i:8491564 original size:31 final size:31
Alignment explanation
Indices: 8491529--8491705 Score: 230
Period size: 31 Copynumber: 5.7 Consensus size: 31
8491519 GTATATGTTT
* *
8491529 TATACATTGCCGAATTTGATTCGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
8491560 TATACATTGCCAAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
8491591 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * * *
8491622 TATTCATTGCTGATTTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* **
8491653 TATACATTGCCAAATTTGATCCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
8491684 TATATATTGTCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
8491706 AGCATTGGAT
Statistics
Matches: 124, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
30 6 0.05
31 118 0.95
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATGGA
Found at i:8491668 original size:93 final size:92
Alignment explanation
Indices: 8491533--8491705 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 92
8491523 ATGTTTTATA
** *
8491533 CATTGCCGAATTTGATTCGTATATAGATATACATTGCCAAATTTGATTTGTATATGGTTATACAT
1 CATTGCCGAATTTGATTCGTATATAGATATACATTGCCAAATTTGATCCGTATATGGATATACAT
8491598 TGCCGAATTTGATTTGTATATGGATATT
66 TGCCGAA-TTGATTTGTATATGGATATT
* * * *
8491626 CATTGCTGATTTTGATTTGTATATAGATATACATTGCCAAATTTGATCCGTATATGGATATATAT
1 CATTGCCGAATTTGATTCGTATATAGATATACATTGCCAAATTTGATCCGTATATGGATATACAT
*
8491691 TGTCGAATTGATTTG
66 TGCCGAATTGATTTG
8491706 AGCATTGGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 8 0.11
93 64 0.89
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (92 bp):
CATTGCCGAATTTGATTCGTATATAGATATACATTGCCAAATTTGATCCGTATATGGATATACAT
TGCCGAATTGATTTGTATATGGATATT
Found at i:8494076 original size:24 final size:24
Alignment explanation
Indices: 8494048--8494099 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
8494038 TTTCTAGAAG
* *
8494048 ATTTAGTATTTATTAATATAATAT
1 ATTTAGCATTTATTAACATAATAT
*
8494072 ATTTAGCATTTATTAACATAATTT
1 ATTTAGCATTTATTAACATAATAT
8494096 ATTT
1 ATTT
8494100 GACCTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:8495988 original size:50 final size:49
Alignment explanation
Indices: 8495914--8496020 Score: 205
Period size: 50 Copynumber: 2.2 Consensus size: 49
8495904 AATGAGACCC
8495914 CTATAACAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
1 CTATAACAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
8495963 CTATAATCAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
1 CTATAA-CAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
8496013 CTATAACA
1 CTATAACA
8496021 TTATTAAGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
49 8 0.14
50 49 0.86
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (49 bp):
CTATAACAATAATCAATTGAGCTTAGCTAGGTTAAACAACAATAGTCTA
Found at i:8500525 original size:18 final size:17
Alignment explanation
Indices: 8500495--8500530 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8500485 AAAATCATTA
8500495 ATTAAATTCTTGAAAAT
1 ATTAAATTCTTGAAAAT
*
8500512 ATTATAATTTTTGAAAAT
1 ATTA-AATTCTTGAAAAT
8500530 A
1 A
8500531 AAAATTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
ATTAAATTCTTGAAAAT
Found at i:8502709 original size:91 final size:91
Alignment explanation
Indices: 8502538--8502710 Score: 222
Period size: 91 Copynumber: 1.9 Consensus size: 91
8502528 TTTCTAAAAC
* **
8502538 TTTACCAATATTTCTAAGGCTCCACCAAAGATTTCCTTAGTGTCCCAAACCCAATTAACTCAACA
1 TTTACCAATATTTCTAAGGCTCCACCAAAGATTTCCTTAATGTCCCAAACCCAACCAACTCAACA
* * **
8502603 TTTTGCCATTTCAAAATGCATATGGA
66 TTATGACATACCAAAATGCATATGGA
* ** * *
8502629 TTTACCAATATTTTTAAGAG-TTTACCAAAGATTTCCTTAATGTGCCAAACCCGACCAACTCAAC
1 TTTACCAATATTTCTAAG-GCTCCACCAAAGATTTCCTTAATGTCCCAAACCCAACCAACTCAAC
8502693 ATTATGACATACCAAAAT
65 ATTATGACATACCAAAAT
8502711 TTCTAAGGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
91 68 0.99
92 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.31
Consensus pattern (91 bp):
TTTACCAATATTTCTAAGGCTCCACCAAAGATTTCCTTAATGTCCCAAACCCAACCAACTCAACA
TTATGACATACCAAAATGCATATGGA
Found at i:8502731 original size:20 final size:20
Alignment explanation
Indices: 8502706--8502882 Score: 96
Period size: 20 Copynumber: 8.9 Consensus size: 20
8502696 ATGACATACC
8502706 AAAATTTCTAAGGATTTACT
1 AAAATTTCTAAGGATTTACT
* *
8502726 AAAATTTGTAAAGATTTA-T
1 AAAATTTCTAAGGATTTACT
*
8502745 AAAAATATT-TGAGGATTTA-T
1 -AAAAT-TTCTAAGGATTTACT
* *
8502765 CAAAATTTCTTA-GTTTATACT
1 -AAAATTTCTAAGGATT-TACT
* *
8502786 AAAATATCTAAGGATTTACC
1 AAAATTTCTAAGGATTTACT
* * * * *
8502806 ATAATTTGTAAAGA-TCACC
1 AAAATTTCTAAGGATTTACT
* *
8502825 AAAAATTCTAAGGATTTACC
1 AAAATTTCTAAGGATTTACT
* * *
8502845 ATAATTTATTAGG-TTATACT
1 AAAATTTCTAAGGATT-TACT
* *
8502865 AAAATATCTAAAGATTTA
1 AAAATTTCTAAGGATTTA
8502883 ACTATAAGGT
Statistics
Matches: 117, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
19 22 0.19
20 87 0.74
21 8 0.07
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAATTTCTAAGGATTTACT
Found at i:8502761 original size:40 final size:41
Alignment explanation
Indices: 8502705--8502820 Score: 123
Period size: 40 Copynumber: 2.9 Consensus size: 41
8502695 TATGACATAC
*
8502705 CAAAATTTCTAAGGATTTACTAAAATTTGTAAAGATTTATA
1 CAAAATATCTAAGGATTTACTAAAATTTGTAAAGATTTATA
* * * *
8502746 -AAAATATTTGAGGATTTA-TCAAAATTTCT-TAG-TTTATA
1 CAAAATATCTAAGGATTTACT-AAAATTTGTAAAGATTTATA
* *
8502784 CTAAAATATCTAAGGATTTACCATAATTTGTAAAGAT
1 C-AAAATATCTAAGGATTTACTAAAATTTGTAAAGAT
8502821 CACCAAAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
38 6 0.10
39 3 0.05
40 46 0.79
41 2 0.03
42 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (41 bp):
CAAAATATCTAAGGATTTACTAAAATTTGTAAAGATTTATA
Found at i:8502812 original size:80 final size:79
Alignment explanation
Indices: 8502701--8502882 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 79
8502691 ACATTATGAC
* * * * * * * *
8502701 ATACCAAAATTTCTAAGGATTTACTAAAATTTGTAAAGATTTA-TAAAAATATTTGAGGATTTAT
1 ATACTAAAATATCTAAGGATTTACCAAAATTTGTAAAGA-TCACCAAAAAT-TCTAAGGATTTAC
* *
8502765 CAAAATTTCTTAGTTT
64 CAAAATTTATTAGGTT
*
8502781 ATACTAAAATATCTAAGGATTTACCATAATTTGTAAAGATCACCAAAAATTCTAAGGATTTACCA
1 ATACTAAAATATCTAAGGATTTACCAAAATTTGTAAAGATCACCAAAAATTCTAAGGATTTACCA
*
8502846 TAATTTATTAGGTT
66 AAATTTATTAGGTT
*
8502860 ATACTAAAATATCTAAAGATTTA
1 ATACTAAAATATCTAAGGATTTA
8502883 ACTATAAGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 47 0.53
80 41 0.47
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (79 bp):
ATACTAAAATATCTAAGGATTTACCAAAATTTGTAAAGATCACCAAAAATTCTAAGGATTTACCA
AAATTTATTAGGTT
Found at i:8502869 original size:39 final size:40
Alignment explanation
Indices: 8502746--8502918 Score: 148
Period size: 40 Copynumber: 4.5 Consensus size: 40
8502736 AAGATTTATA
* * * * * *
8502746 AAAATATTTGAGGATTTATCAAAATTTCTTAGTTTATACT
1 AAAATATCTAAGGATTTACCATAATTTATTAGGTTATACT
* * * *
8502786 AAAATATCTAAGGATTTACCATAATTTGTAAAG--ATCACC
1 AAAATATCTAAGGATTTACCATAATTTATTAGGTTAT-ACT
8502825 AAAA-ATTCTAAGGATTTACCATAATTTATTAGGTTATACT
1 AAAATA-TCTAAGGATTTACCATAATTTATTAGGTTATACT
* *
8502865 AAAATATCTAAAGATTTAAC-T-A--TA--AGGTTATACT
1 AAAATATCTAAGGATTTACCATAATTTATTAGGTTATACT
*
8502899 AAAATATTTAAGGATTTACC
1 AAAATATCTAAGGATTTACC
8502919 TGAATTTTTA
Statistics
Matches: 110, Mismatches: 18, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
34 27 0.25
36 2 0.02
38 4 0.04
39 31 0.28
40 43 0.39
41 3 0.03
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (40 bp):
AAAATATCTAAGGATTTACCATAATTTATTAGGTTATACT
Found at i:8503053 original size:20 final size:20
Alignment explanation
Indices: 8503030--8503108 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
8503020 TTTTTAAGGA
8503030 TTTACCAAAATTTATAAGAT
1 TTTACCAAAATTTATAAGAT
8503050 TTTACCAAAAATTT-TAAAGA-
1 TTTACC-AAAATTTAT-AAGAT
* * *
8503070 TTTATCAAAAATTATAAGGT
1 TTTACCAAAATTTATAAGAT
* *
8503090 TATACCAAAATATATAAGA
1 TTTACCAAAATTTATAAGA
8503109 GTATCAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
19 9 0.19
20 27 0.57
21 11 0.23
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (20 bp):
TTTACCAAAATTTATAAGAT
Found at i:8503065 original size:40 final size:40
Alignment explanation
Indices: 8503021--8503099 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
8503011 ATACTAATCT
* * *
8503021 TTTTAAGGATTTACCAAAATTTATAAGATTTTACCAAAAA
1 TTTTAAAGATTTACCAAAAATTATAAGATTATACCAAAAA
* *
8503061 TTTTAAAGATTTATCAAAAATTATAAGGTTATACCAAAA
1 TTTTAAAGATTTACCAAAAATTATAAGATTATACCAAAA
8503100 TATATAAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.37
Consensus pattern (40 bp):
TTTTAAAGATTTACCAAAAATTATAAGATTATACCAAAAA
Found at i:8503138 original size:20 final size:21
Alignment explanation
Indices: 8503113--8503165 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
8503103 ATAAGAGTAT
8503113 CAAAATTTCTAAA-GCCTTAC
1 CAAAATTTCTAAAGGCCTTAC
* **
8503133 CAAAATCTC-AAAGGGTTTAC
1 CAAAATTTCTAAAGGCCTTAC
8503153 CAAAATTTCTAAA
1 CAAAATTTCTAAA
8503166 AATTTCCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (21 bp):
CAAAATTTCTAAAGGCCTTAC
Found at i:8503235 original size:20 final size:20
Alignment explanation
Indices: 8503210--8503250 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8503200 CATCTTGGCA
8503210 TACCAAAA-TTGCTAAAGATT
1 TACCAAAACTT-CTAAAGATT
*
8503230 TACCAAAACTTTTAAAGATT
1 TACCAAAACTTCTAAAGATT
8503250 T
1 T
8503251 CCTTAATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (20 bp):
TACCAAAACTTCTAAAGATT
Found at i:8503368 original size:20 final size:20
Alignment explanation
Indices: 8503319--8503447 Score: 74
Period size: 20 Copynumber: 6.5 Consensus size: 20
8503309 AAGATGTACC
*
8503319 AAAATTTCTAAGGTTTTAC-
1 AAAATTTCTAAGGATTTACA
* *
8503338 -TAATATCTAAGGATTTACA
1 AAAATTTCTAAGGATTTACA
8503357 AAAATTTCTAA-GATTATA-A
1 AAAATTTCTAAGGATT-TACA
* *
8503376 CAAAATATCTAAGTATTTATC-
1 -AAAATTTCTAAGGATTTA-CA
* * * *
8503397 AATATTTCGAAAGCA-TTACC
1 AAAATTTC-TAAGGATTTACA
8503417 AAAATTTCTAAGGATTTA-A
1 AAAATTTCTAAGGATTTACA
*
8503436 CAATATTTCTAA
1 -AAAATTTCTAA
8503448 AAGTTTACCG
Statistics
Matches: 83, Mismatches: 16, Indels: 21
0.69 0.13 0.17
Matches are distributed among these distances:
18 15 0.18
19 10 0.12
20 51 0.61
21 7 0.08
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (20 bp):
AAAATTTCTAAGGATTTACA
Found at i:8503456 original size:40 final size:40
Alignment explanation
Indices: 8503339--8503456 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
8503329 AGGTTTTACT
* * *
8503339 AATATCTAAGGATTT-ACAAAAATTTCTAAGA-TTATAACAA
1 AATATCTAAGGATTTAAC-AATATTTCTAAAAGTT-TACCAA
* * * *
8503379 AATATCTAAGTATTTATCAATATTTC-GAAAGCATTACCAA
1 AATATCTAAGGATTTAACAATATTTCTAAAAG-TTTACCAA
*
8503419 AATTTCTAAGGATTTAACAATATTTCTAAAAGTTTACC
1 AATATCTAAGGATTTAACAATATTTCTAAAAGTTTACC
8503457 GATGTTTCTA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
39 2 0.03
40 54 0.87
41 6 0.10
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (40 bp):
AATATCTAAGGATTTAACAATATTTCTAAAAGTTTACCAA
Found at i:8503648 original size:40 final size:40
Alignment explanation
Indices: 8503604--8503750 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 40
8503594 ACCAAAATGC
* * * * *
8503604 CCTTAG-AATTTTTGGTAAATCCCTAGATATTTTGATTCAA
1 CCTTAGAAATTTTTGGTAAATCCTTATAAATTTTG-GTAAA
*
8503644 CCTTAGAAATTTTTTG-AAATCCTTATAAATTTTGGTAAA
1 CCTTAGAAATTTTTGGTAAATCCTTATAAATTTTGGTAAA
* *
8503683 GCCTTAGAAATTTTTTGAAAATCCTTATAAATTTTGGTAAA
1 -CCTTAGAAATTTTTGGTAAATCCTTATAAATTTTGGTAAA
8503724 CCTTAGAAA-TTTTGGTAAA-CCTT-TAAA
1 CCTTAGAAATTTTTGGTAAATCCTTATAAA
8503751 AATATCGGTA
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
37 4 0.04
38 4 0.04
39 11 0.11
40 46 0.48
41 31 0.32
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (40 bp):
CCTTAGAAATTTTTGGTAAATCCTTATAAATTTTGGTAAA
Found at i:8503710 original size:41 final size:39
Alignment explanation
Indices: 8503642--8503736 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 39
8503632 ATTTTGATTC
8503642 AACCTTAGAAATTTTTTGAAATCCTTATAAATTTTGGTA
1 AACCTTAGAAATTTTTTGAAATCCTTATAAATTTTGGTA
8503681 AAGCCTTAGAAATTTTTTGAAAATCCTTATAAATTTTGGTA
1 AA-CCTTAGAAATTTTTTG-AAATCCTTATAAATTTTGGTA
8503722 AACCTTAGAAATTTT
1 AACCTTAGAAATTTT
8503737 GGTAAACCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
39 2 0.04
40 29 0.54
41 23 0.43
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (39 bp):
AACCTTAGAAATTTTTTGAAATCCTTATAAATTTTGGTA
Found at i:8503727 original size:19 final size:20
Alignment explanation
Indices: 8503604--8503746 Score: 132
Period size: 20 Copynumber: 7.2 Consensus size: 20
8503594 ACCAAAATGC
*
8503604 CCTTAGAATTTTTGGTAAAT
1 CCTTAGAAATTTTGGTAAAT
* * * *
8503624 CCCTAGATATTTTGATTCAA-
1 CCTTAGAAATTTTG-GTAAAT
*
8503644 CCTTAGAAATTTT-TTGAAAT
1 CCTTAGAAATTTTGGT-AAAT
* *
8503664 CCTTATAAATTTTGGTAAAG
1 CCTTAGAAATTTTGGTAAAT
* *
8503684 CCTTAGAAATTTTTTGAAAAT
1 CCTTAGAAA-TTTTGGTAAAT
*
8503705 CCTTATAAATTTTGGTAAA-
1 CCTTAGAAATTTTGGTAAAT
8503724 CCTTAGAAATTTTGGTAAA-
1 CCTTAGAAATTTTGGTAAAT
8503743 CCTT
1 CCTT
8503747 TAAAAATATC
Statistics
Matches: 99, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
18 2 0.02
19 24 0.24
20 53 0.54
21 20 0.20
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (20 bp):
CCTTAGAAATTTTGGTAAAT
Found at i:8503760 original size:20 final size:20
Alignment explanation
Indices: 8503718--8503772 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
8503708 TATAAATTTT
* * *
8503718 GGTAAACC-TTAGAAATTTT
1 GGTAAACCTTTAAAAATATC
8503737 GGTAAACCTTTAAAAATATC
1 GGTAAACCTTTAAAAATATC
**
8503757 GGTAAATATTTAAAAA
1 GGTAAACCTTTAAAAA
8503773 ATTTGGTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (20 bp):
GGTAAACCTTTAAAAATATC
Found at i:8503780 original size:20 final size:19
Alignment explanation
Indices: 8503715--8503780 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
8503705 CCTTATAAAT
* *
8503715 TTTGGTAAAC-CTTAGAAAT
1 TTTGGTAAACATTTA-AAAA
*
8503734 TTTGGTAAACCTTTAAAAA
1 TTTGGTAAACATTTAAAAA
* *
8503753 TATCGGTAAATATTTAAAAAA
1 T-TTGGTAAACATTT-AAAAA
8503774 TTTGGTA
1 TTTGGTA
8503781 TGCCAAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 14 0.37
20 18 0.47
21 6 0.16
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (19 bp):
TTTGGTAAACATTTAAAAA
Found at i:8512483 original size:18 final size:19
Alignment explanation
Indices: 8512460--8512501 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8512450 TAGCAAAAAT
8512460 AATTTTAA-AATTAATAAA
1 AATTTTAAGAATTAATAAA
* *
8512478 AATTTTAAGAATTATTTAA
1 AATTTTAAGAATTAATAAA
8512497 AATTT
1 AATTT
8512502 GATATCACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTTTAAGAATTAATAAA
Found at i:8512591 original size:20 final size:21
Alignment explanation
Indices: 8512549--8512591 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
8512539 TCATACCAAC
*
8512549 TAAAAAATTATTTAAAAATTA
1 TAAAAAATTATTTAAAAAATA
8512570 TAAAAAA-TA-TTAAAAACATA
1 TAAAAAATTATTTAAAAA-ATA
8512590 TA
1 TA
8512592 GTAAGTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAAATTATTTAAAAAATA
Found at i:8513099 original size:15 final size:17
Alignment explanation
Indices: 8513079--8513111 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
8513069 TATTTGGATG
8513079 ATTAAATT-TT-TTATT
1 ATTAAATTATTGTTATT
8513094 ATTAAATTATTGTTATT
1 ATTAAATTATTGTTATT
8513111 A
1 A
8513112 AATATGCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTAAATTATTGTTATT
Found at i:8513147 original size:22 final size:24
Alignment explanation
Indices: 8513095--8513148 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
8513085 TTTTTTATTA
8513095 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
8513120 TAAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
8513142 TTAAATT
1 TTAAATT
8513149 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:8515618 original size:29 final size:29
Alignment explanation
Indices: 8515585--8515644 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
8515575 TCGCTGATCT
8515585 CATTCGGTATATAATATAACATTCAATAA
1 CATTCGGTATATAATATAACATTCAATAA
*
8515614 CATTCGGTATATAATATAACATTTAATAA
1 CATTCGGTATATAATATAACATTCAATAA
8515643 CA
1 CA
8515645 GTATATTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (29 bp):
CATTCGGTATATAATATAACATTCAATAA
Found at i:8516077 original size:22 final size:23
Alignment explanation
Indices: 8516024--8516076 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
8516014 GTCCTTTTTG
8516024 ACATTTTTACAAAAATGCCTCCA
1 ACATTTTTACAAAAATGCCTCCA
8516047 ACATTTTTACAAAAATGCCTCCA
1 ACATTTTTACAAAAATGCCTCCA
8516070 ACATTTT
1 ACATTTT
8516077 ATTTTTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (23 bp):
ACATTTTTACAAAAATGCCTCCA
Found at i:8518628 original size:43 final size:43
Alignment explanation
Indices: 8518581--8518703 Score: 219
Period size: 43 Copynumber: 2.8 Consensus size: 43
8518571 TATGATTTCA
8518581 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTTG
*
8518624 TGTAAGACCATGTCTGGGACATTGGCATCAATATGAGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTTG
*
8518667 TGTAAGACCATGTCTGGGACATTGGCATTGTATATGA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATATGA
8518704 TTATAACATG
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
43 70 0.92
44 6 0.08
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTTTG
Found at i:8522944 original size:9 final size:9
Alignment explanation
Indices: 8522932--8522966 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8522922 TTTTATTACA
8522932 ACAATTAAT
1 ACAATTAAT
8522941 ACAATTAAT
1 ACAATTAAT
8522950 ACAATT-A-
1 ACAATTAAT
8522957 ACAATTAAT
1 ACAATTAAT
8522966 A
1 A
8522967 ATTTGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.25
8 2 0.08
9 16 0.67
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (9 bp):
ACAATTAAT
Found at i:8522994 original size:16 final size:16
Alignment explanation
Indices: 8522973--8523014 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8522963 AATAATTTGA
*
8522973 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
8522989 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
8523005 TAGTTTTAAT
1 TAATTTTAAT
8523015 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:8522998 original size:22 final size:23
Alignment explanation
Indices: 8522988--8523043 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
8522978 TTACTAACAA
* * *
8522988 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
8523010 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
8523033 TTAATTTTAAT
1 TTAATTTTAAT
8523044 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:8523612 original size:32 final size:30
Alignment explanation
Indices: 8523564--8523626 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 30
8523554 AGTTTAGTAT
* *
8523564 TATTTCTAAAAAATATTTTTGAGATAAAAA
1 TATTGCTAAAAAATATTTTTGAGACAAAAA
*
8523594 TATTGCTAAACAAGATATTTTTGGGACAAAAA
1 TATTGCTAAA-AA-ATATTTTTGAGACAAAAA
8523626 T
1 T
8523627 GCGATGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 9 0.32
31 2 0.07
32 17 0.61
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (30 bp):
TATTGCTAAAAAATATTTTTGAGACAAAAA
Found at i:8525148 original size:27 final size:29
Alignment explanation
Indices: 8525118--8525177 Score: 97
Period size: 27 Copynumber: 2.1 Consensus size: 29
8525108 TGTGTCATTT
8525118 GGTTAGGGTTTTGG-GTTATT-GGTTTAG
1 GGTTAGGGTTTTGGTGTTATTAGGTTTAG
*
8525145 GGTTAGGGTTTTGGTGTTTTTAGGTTTAG
1 GGTTAGGGTTTTGGTGTTATTAGGTTTAG
8525174 GGTT
1 GGTT
8525178 TAGAGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 14 0.47
28 5 0.17
29 11 0.37
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (29 bp):
GGTTAGGGTTTTGGTGTTATTAGGTTTAG
Found at i:8525471 original size:7 final size:7
Alignment explanation
Indices: 8525449--8525484 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
8525439 AAAAATTAGA
8525449 TTAGGGT
1 TTAGGGT
* *
8525456 TTTGTGT
1 TTAGGGT
8525463 TTAGGGT
1 TTAGGGT
8525470 TTAGGGT
1 TTAGGGT
8525477 TTAGGGT
1 TTAGGGT
8525484 T
1 T
8525485 GCTTAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (7 bp):
TTAGGGT
Found at i:8525471 original size:96 final size:96
Alignment explanation
Indices: 8525227--8525471 Score: 298
Period size: 96 Copynumber: 2.6 Consensus size: 96
8525217 GTTTGTCAAT
** * * * *
8525227 TAAATTAATTAT-AAATTTTTCAAAATTGGATTA-GGTTTCGTGTTTATTGTTTTTTAAGAAAAA
1 TAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTA-AGGTTTTTAAGAAAAA
* * *
8525290 ATCAATTGAATTAGGGTTTAGGGTTACTTGAG
65 ATCAAATAAATTAGGGTTTAGAGTTACTTGAG
* * * * *
8525322 TAATTTAATTA-AAATTTTTAAAAAAATTAGATTAGGGTTTAGAGTTAAAGGTTTTTACGAAAAA
1 TAAATTAATTATAAAATTTT-AAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTTTTAAGAAAAA
*
8525386 ATTAAATAAATTAGGGTTTAGAGTTACTTGAG
65 ATCAAATAAATTAGGGTTTAGAGTTACTTGAG
* *
8525418 TAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTTGTGTTTAGGGTTT
1 TAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTT
8525472 AGGGTTTAGG
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
95 16 0.13
96 92 0.74
97 17 0.14
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (96 bp):
TAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAAGGTTTTTAAGAAAAAA
TCAAATAAATTAGGGTTTAGAGTTACTTGAG
Found at i:8525709 original size:126 final size:126
Alignment explanation
Indices: 8525510--8525922 Score: 691
Period size: 126 Copynumber: 3.3 Consensus size: 126
8525500 TAATTTAAAT
* * *
8525510 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGATGTTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
*
8525575 CTGAGCAAATGGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
* *
8525636 AAGCTCCCACGTGGATGCACTTTTGTTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* *
8525701 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGCATTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
* *
8525762 AAGCTCCCACGTGGACGCACTTTTGTTACAGTAGCTCCTGAAAAAATAATTTCGAATAGACGTTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* * *
8525827 CTGAGAAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
* *
8525888 AAGCTCCCACGTAGACGCGCTTTTGCTACAGTAGC
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGC
8525923 GCATGTTTGG
Statistics
Matches: 269, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 269 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTGAAAG
Found at i:8529107 original size:21 final size:21
Alignment explanation
Indices: 8529064--8529122 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
8529054 GTCCAGCTTT
* *
8529064 CGGCAGGGGTTGTGGTTACTC
1 CGGCAGGGATTCTGGTTACTC
8529085 CGGCAGGGATTCTGGTT-CTTC
1 CGGCAGGGATTCTGGTTAC-TC
*
8529106 CGGTAGAGGA-TCTGGTT
1 CGGCAG-GGATTCTGGTT
8529123 GTCGGTGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.88
22 3 0.09
ACGTcount: A:0.12, C:0.19, G:0.39, T:0.31
Consensus pattern (21 bp):
CGGCAGGGATTCTGGTTACTC
Found at i:8529390 original size:18 final size:18
Alignment explanation
Indices: 8529364--8529406 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8529354 GACTAGAAAA
* * *
8529364 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
8529382 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
8529400 AGGATAC
1 AGGATAC
8529407 GCACCTGGCA
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:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:8529501 original size:30 final size:30
Alignment explanation
Indices: 8529467--8529525 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
8529457 TGCTGGGTTG
* * * *
8529467 GGTGACTGTATTGGTGCTGTTGCTGGGCCT
1 GGTGACTGTATGGGTACTGATGATGGGCCT
*
8529497 GGTGATTGTATGGGTACTGATGATGGGCC
1 GGTGACTGTATGGGTACTGATGATGGGCC
8529526 GGGTAATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.14, G:0.41, T:0.34
Consensus pattern (30 bp):
GGTGACTGTATGGGTACTGATGATGGGCCT
Found at i:8531225 original size:28 final size:26
Alignment explanation
Indices: 8531181--8531237 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
8531171 AAAAAAAATC
* **
8531181 AAAAAAATAAAATTTAAATTTTTTTT
1 AAAAAAATAAAAATTAAAGCTTTTTT
8531207 AAAAATAATTAAAAATTAAAGCTTTTTT
1 AAAAA-AA-TAAAAATTAAAGCTTTTTT
8531235 AAA
1 AAA
8531238 TAGGAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.19
27 2 0.08
28 19 0.73
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
AAAAAAATAAAAATTAAAGCTTTTTT
Found at i:8538934 original size:22 final size:22
Alignment explanation
Indices: 8538903--8538954 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
8538893 GAATGATGGG
8538903 TAAGAACTCTT-AATAAAAAAAA
1 TAAGAACTCTTCAA-AAAAAAAA
* *
8538925 TAAGATCTCTTCAAAATAAAAA
1 TAAGAACTCTTCAAAAAAAAAA
*
8538947 TAAAAACT
1 TAAGAACT
8538955 TTTTCTCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.60, C:0.12, G:0.04, T:0.25
Consensus pattern (22 bp):
TAAGAACTCTTCAAAAAAAAAA
Found at i:8543188 original size:35 final size:34
Alignment explanation
Indices: 8543105--8543269 Score: 163
Period size: 35 Copynumber: 4.8 Consensus size: 34
8543095 AATCTAACCA
* * *
8543105 AAACACACCAGATGCTCACAAGAGCCAATTCATCCG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCAT-CG
* * *
8543141 --ACACAACAATGCTCATAAGAGTTAATCCATCT
1 AAACACACCAATGCTCATAAGAGCTAATCCATCG
* *
8543173 AAAGCACACCAATGCTCATAAAAGCTAATTCCTTCG
1 AAA-CACACCAATGCTCATAAGAGCTAA-TCCATCG
* * *
8543209 AAACATACCAATGCTCATAAGAGCTAGTCCCTCCG
1 AAACACACCAATGCTCATAAGAGCTAATCCAT-CG
*
8543244 AAACACACCAATACTCATAAGAGCTA
1 AAACACACCAATGCTCATAAGAGCTA
8543270 GTCTAACCTA
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
32 1 0.01
33 18 0.17
34 12 0.11
35 68 0.64
36 8 0.07
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (34 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCG
Found at i:8543203 original size:68 final size:70
Alignment explanation
Indices: 8543105--8543269 Score: 192
Period size: 70 Copynumber: 2.4 Consensus size: 70
8543095 AATCTAACCA
* * * *
8543105 AAACACACCAGATGCTCACAAGAGCCAATTCATCCGACACA-A-CAATGCTCATAAGAGTTAATC
1 AAACACACCA-ATGCTCATAAGAGCTAATTCATCCGAAACATACCAATGCTCATAAGAGCTAATC
*
8543168 CAT-CT
65 CATCCG
* * * *
8543173 AAAGCACACCAATGCTCATAAAAGCTAATTCCTTCGAAACATACCAATGCTCATAAGAGCTAGTC
1 AAA-CACACCAATGCTCATAAGAGCTAATTCATCCGAAACATACCAATGCTCATAAGAGCTAATC
*
8543238 CCTCCG
65 CATCCG
*
8543244 AAACACACCAATACTCATAAGAGCTA
1 AAACACACCAATGCTCATAAGAGCTA
8543270 GTCTAACCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
68 27 0.33
69 8 0.10
70 42 0.52
71 4 0.05
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (70 bp):
AAACACACCAATGCTCATAAGAGCTAATTCATCCGAAACATACCAATGCTCATAAGAGCTAATCC
ATCCG
Found at i:8550719 original size:35 final size:35
Alignment explanation
Indices: 8550552--8550715 Score: 165
Period size: 35 Copynumber: 4.7 Consensus size: 35
8550542 AATCCAACCA
* * * *
8550552 AAACACACCAGATGCTTACAAGAGCCAATCCGTCCT
1 AAACACACCA-ATGCTCATAAGAGCTAATCCCTCCT
* * *
8550588 --ACACATC-ATGCTGATAAGAGTTAATCCCT-CT
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCT
* * *
8550619 AAAACACACCAATGCTAATAACAACTAATCCCTCCT
1 -AAACACACCAATGCTCATAAGAGCTAATCCCTCCT
* *
8550655 GAACACACCAATGCTCATAAGAGCTAGTCCCTCCT
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCT
*
8550690 AAACACACCAATACTCATAAGAGCTA
1 AAACACACCAATGCTCATAAGAGCTA
8550716 GTCCAATCGA
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
31 2 0.02
32 17 0.16
34 12 0.11
35 72 0.69
36 2 0.02
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.20
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCCTCCT
Found at i:8551682 original size:12 final size:12
Alignment explanation
Indices: 8551665--8551689 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8551655 ATCAAACCAA
8551665 TTTTCTTTAAAT
1 TTTTCTTTAAAT
8551677 TTTTCTTTAAAT
1 TTTTCTTTAAAT
8551689 T
1 T
8551690 CTTTATTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTCTTTAAAT
Found at i:8555312 original size:25 final size:26
Alignment explanation
Indices: 8555252--8555305 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
8555242 GCTTCTTTTC
*
8555252 TTTT-TCTTTTCATTTTTAGATTAGG
1 TTTTCTCTTTTCATTTTTAGATTAGA
*
8555277 TTTTCTCTTTTC-TTTTTAGGTTAGA
1 TTTTCTCTTTTCATTTTTAGATTAGA
8555302 TTTT
1 TTTT
8555306 AGTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.13, C:0.09, G:0.11, T:0.67
Consensus pattern (26 bp):
TTTTCTCTTTTCATTTTTAGATTAGA
Found at i:8562428 original size:5 final size:5
Alignment explanation
Indices: 8562402--8562441 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
8562392 AAATGGGAAA
8562402 AAAAG TAAAAG AGAAA- AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG -AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAA
8562442 AAATAGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 3 0.09
5 21 0.66
6 8 0.25
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:8562756 original size:6 final size:6
Alignment explanation
Indices: 8562747--8562779 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
8562737 ATGTTGGAGT
8562747 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGG
1 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGG
8562780 CGTGATTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
AGGTGA
Found at i:8565344 original size:7 final size:7
Alignment explanation
Indices: 8565332--8565370 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
8565322 TGGTTAGTTC
*
8565332 AAAATTT
1 AAAATTG
8565339 AAAATTG
1 AAAATTG
8565346 AAAATTG
1 AAAATTG
8565353 AAAATTG
1 AAAATTG
8565360 AAAATTG
1 AAAATTG
8565367 AAAA
1 AAAA
8565371 ATTAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (7 bp):
AAAATTG
Found at i:8566779 original size:16 final size:16
Alignment explanation
Indices: 8566744--8566786 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
8566734 AATTCCTAGA
8566744 AAATTTGAGC-TAAAT
1 AAATTTGAGCTTAAAT
8566759 AAATTTGAGCTTAAA-
1 AAATTTGAGCTTAAAT
8566774 AGAATTTGAGCTT
1 A-AATTTGAGCTT
8566787 TAGCTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (16 bp):
AAATTTGAGCTTAAAT
Found at i:8569274 original size:47 final size:45
Alignment explanation
Indices: 8569222--8569475 Score: 301
Period size: 47 Copynumber: 5.4 Consensus size: 45
8569212 ATTTTCACAC
* * *
8569222 CAAAATTTGGGCAGCATATATACAAAATTTGGATTGCATTTATACAT
1 CAAAATTT-GACAGCATATATATAAAA-TTGGACTGCATTTATACAT
* * *
8569269 TAAAATTTGGCAGCATATACATATATAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATAT--ATATAAAATTGGACTGCATTTATACAT
* *
8569316 CAAAATTTGACAGCATATACATAAATAATTGGACTGCATTTGTACAT
1 CAAAATTTGACAGCATATATAT-AA-AATTGGACTGCATTTATACAT
* *
8569363 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACAT
1 CAAAATTTGACAGCATAT--ATATAAAATTGGACTGCATTTATACAT
* * *
8569410 CAAAATTTGACAGCATATACATATATAATTGGACTACATTTATTCAT
1 CAAAATTTGACAGCATAT--ATATAAAATTGGACTGCATTTATACAT
8569457 CAAAATTTGACAGCATATA
1 CAAAATTTGACAGCATATA
8569476 CATTCATTTA
Statistics
Matches: 187, Mismatches: 14, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
45 4 0.02
46 11 0.06
47 162 0.87
48 7 0.04
49 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (45 bp):
CAAAATTTGACAGCATATATATAAAATTGGACTGCATTTATACAT
Found at i:8569324 original size:94 final size:92
Alignment explanation
Indices: 8569222--8569478 Score: 361
Period size: 94 Copynumber: 2.7 Consensus size: 92
8569212 ATTTTCACAC
* * * * *
8569222 CAAAATTTGGGCAGCATATATACAAAATTTGGATTGCATTTATACATTAAAATTTGGCAGCATAT
1 CAAAATTT-GACAGCATATATATAAAA-TTGGACTGCATTTATACATCAAAATTTGACAGCATAT
8569287 ACATATATAATTGGACTGCATTTATACAT
64 ACATATATAATTGGACTGCATTTATACAT
* *
8569316 CAAAATTTGACAGCATATACATAAATAATTGGACTGCATTTGTACATCAAAATTTGACAGCATAT
1 CAAAATTTGACAGCATATATAT-AA-AATTGGACTGCATTTATACATCAAAATTTGACAGCATAT
*
8569381 ACATATATAATTGGACTGCATTTGTACAT
64 ACATATATAATTGGACTGCATTTATACAT
* * *
8569410 CAAAATTTGACAGCATATACATATATAATTGGACTACATTTATTCATCAAAATTTGACAGCATAT
1 CAAAATTTGACAGCATAT--ATATAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATAT
8569475 ACAT
64 ACAT
8569479 TCATTTACTC
Statistics
Matches: 146, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
93 11 0.08
94 129 0.88
95 3 0.02
96 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (92 bp):
CAAAATTTGACAGCATATATATAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
ATATATAATTGGACTGCATTTATACAT
Found at i:8569476 original size:47 final size:47
Alignment explanation
Indices: 8569250--8569478 Score: 386
Period size: 47 Copynumber: 4.9 Consensus size: 47
8569240 TATACAAAAT
* * *
8569250 TTGGATTGCATTTATACATTAAAATTTGGCAGCATATACATATATAA
1 TTGGACTGCATTTATACATCAAAATTTGACAGCATATACATATATAA
*
8569297 TTGGACTGCATTTATACATCAAAATTTGACAGCATATACATAAATAA
1 TTGGACTGCATTTATACATCAAAATTTGACAGCATATACATATATAA
*
8569344 TTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAA
1 TTGGACTGCATTTATACATCAAAATTTGACAGCATATACATATATAA
*
8569391 TTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAA
1 TTGGACTGCATTTATACATCAAAATTTGACAGCATATACATATATAA
* *
8569438 TTGGACTACATTTATTCATCAAAATTTGACAGCATATACAT
1 TTGGACTGCATTTATACATCAAAATTTGACAGCATATACAT
8569479 TCATTTACTC
Statistics
Matches: 173, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 173 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (47 bp):
TTGGACTGCATTTATACATCAAAATTTGACAGCATATACATATATAA
Found at i:8569754 original size:14 final size:15
Alignment explanation
Indices: 8569730--8569764 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
8569720 TATATACATT
8569730 ACCATATAAATACTA
1 ACCATATAAATACTA
8569745 ACCATA-AAATACTA
1 ACCATATAAATACTA
8569759 ATCCAT
1 A-CCAT
8569765 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:8577450 original size:31 final size:31
Alignment explanation
Indices: 8577388--8577450 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
8577378 TGAACTGTGA
* *
8577388 AAACCATCATTGCTGGACAATCCGAGGTGGT
1 AAACCATCATTCCTGGACAATCCGAGATGGT
* ** *
8577419 AAACCATCGTTCCTGGGTAATCTGAGATGGT
1 AAACCATCATTCCTGGACAATCCGAGATGGT
8577450 A
1 A
8577451 GGTCATCGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (31 bp):
AAACCATCATTCCTGGACAATCCGAGATGGT
Found at i:8577651 original size:111 final size:110
Alignment explanation
Indices: 8577332--8577643 Score: 335
Period size: 111 Copynumber: 2.8 Consensus size: 110
8577322 GAGAAATTTA
* *
8577332 GGATGGTAGGTCATCGTTTCTGAGCAA-CTCAAGATGACAGATTCGTTGAACTGTGAAAACCATC
1 GGATGGTAGGTCATCGTTTC-AAGCAACCT-GAGATGACAGATTCGTTGAACTGTGAAAACCATC
* * * * *
8577396 ATTG-CTGGACAATCCGAGGTGGTAAACCATC-GTTCCTGGGTAATCTG
64 ATTGTCAGG-CAATCCGAGGTGGTAAACCATCATTTTC-GGGCAATCCG
* * * * *
8577443 AGATGGTAGGTCATCGTTGTCAGGAAACCTGAGATGACAGATTTGTTGAATTGTGAAAACCATCA
1 GGATGGTAGGTCATCGTT-TCAAGCAACCTGAGATGACAGATTCGTTGAACTGTGAAAACCATCA
* ** * *
8577508 TCGTTGGGCAATCCAATGTGGTAAACCATCATTTTCGGGCAATCCG
65 TTGTCAGGCAATCCGAGGTGGTAAACCATCATTTTCGGGCAATCCG
* * * * *
8577554 GGATGGTAGGTCATCGTTCTCAAGCAACCTGGGATGATAGATTCATTGAACTATGAAAATCATCA
1 GGATGGTAGGTCATCGTT-TCAAGCAACCTGAGATGACAGATTCGTTGAACTGTGAAAACCATCA
*
8577619 TTGTCAGGCAATTCGAGGTGG-AAAC
65 TTGTCAGGCAATCCGAGGTGGTAAAC
8577644 TTATCATTGT
Statistics
Matches: 164, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
110 4 0.02
111 151 0.92
112 9 0.05
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (110 bp):
GGATGGTAGGTCATCGTTTCAAGCAACCTGAGATGACAGATTCGTTGAACTGTGAAAACCATCAT
TGTCAGGCAATCCGAGGTGGTAAACCATCATTTTCGGGCAATCCG
Found at i:8582725 original size:23 final size:23
Alignment explanation
Indices: 8582691--8582734 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8582681 GCATAATATC
*
8582691 CAAATAATATTAAAAATGACACT
1 CAAATAAGATTAAAAATGACACT
8582714 CAAATAAGATTAAAAATGACA
1 CAAATAAGATTAAAAATGACA
8582735 GCTAAACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (23 bp):
CAAATAAGATTAAAAATGACACT
Found at i:8582786 original size:23 final size:23
Alignment explanation
Indices: 8582760--8582814 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
8582750 AAACAATTGC
8582760 AAAACAACA-ATAAAATAGCACAA
1 AAAACAACACA-AAAATAGCACAA
* *
8582783 AAAACAACACCAAAAATAGTACCA
1 AAAACAACA-CAAAAATAGCACAA
8582807 AAAACAAC
1 AAAACAAC
8582815 CTGCAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.32
24 18 0.64
25 1 0.04
ACGTcount: A:0.67, C:0.22, G:0.04, T:0.07
Consensus pattern (23 bp):
AAAACAACACAAAAATAGCACAA
Found at i:8594480 original size:6 final size:6
Alignment explanation
Indices: 8594469--8594497 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8594459 AAAGAATGAG
8594469 AGGGAA AGGGAA AGGGAA AGGGAA AGGGA
1 AGGGAA AGGGAA AGGGAA AGGGAA AGGGA
8594498 GAGAACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
AGGGAA
Found at i:8595162 original size:16 final size:16
Alignment explanation
Indices: 8595141--8595172 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8595131 GGATTATTTC
8595141 CTCATGGAATATGTAA
1 CTCATGGAATATGTAA
8595157 CTCATGGAATATGTAA
1 CTCATGGAATATGTAA
8595173 ACATCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
CTCATGGAATATGTAA
Found at i:8601838 original size:12 final size:12
Alignment explanation
Indices: 8601823--8601855 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8601813 ATTAAAAGTT
*
8601823 AAAGTAAATATA
1 AAAGTAAAAATA
8601835 AAAGTAAAAATA
1 AAAGTAAAAATA
8601847 AAAG-AAAAA
1 AAAGTAAAAA
8601856 GATGACAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (12 bp):
AAAGTAAAAATA
Found at i:8603046 original size:75 final size:75
Alignment explanation
Indices: 8602916--8603059 Score: 236
Period size: 75 Copynumber: 1.9 Consensus size: 75
8602906 AAGGAAAACC
* *
8602916 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
1 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAAAAAAACGAATTATATTCTTTCC
8602981 AAAAAAATGT
66 AAAAAAATGT
* *
8602991 AGGATTGTTCCCTTATTAATAGAGAAGGCAAGTGGAAAGTTACAAAAAACG-ATTATATTCTTTC
1 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTA-AAAAAACGAATTATATTCTTTC
8603055 CAAAA
65 CAAAA
8603060 GAATATTAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
75 58 0.91
76 6 0.09
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (75 bp):
AGGATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAAAAAAACGAATTATATTCTTTCC
AAAAAAATGT
Found at i:8603188 original size:37 final size:37
Alignment explanation
Indices: 8603146--8603220 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 37
8603136 AATATATACA
*
8603146 ATTAATATTTTGTATGAAC-CAAATTCATATATTAATT
1 ATTAATAATTTGTATG-ACTCAAATTCATATATTAATT
8603183 ATTAATAATTTGTATGACTCAAATTCATATATTAATT
1 ATTAATAATTTGTATGACTCAAATTCATATATTAATT
8603220 A
1 A
8603221 AATTCTTTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 2 0.06
37 34 0.94
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (37 bp):
ATTAATAATTTGTATGACTCAAATTCATATATTAATT
Found at i:8603246 original size:175 final size:176
Alignment explanation
Indices: 8603042--8603359 Score: 505
Period size: 175 Copynumber: 1.8 Consensus size: 176
8603032 ACAAAAAACG
* * *
8603042 ATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTT-GATCGAAATTAATTAA
1 ATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCCTTTATATTTTGGCT-GAAATTAATTAA
* * *
8603106 TATAATTGTTTATATTAATAAATTCGGTAAAATA-TATACAATTAATATTTTGTATGAACCAAAT
65 TATAACTGTTAATACTAATAAATTCGGTAAAATATTATACAATTAATATTTTGTATGAACCAAAT
8603170 TCATATATTAATTATTAATAATTTGTATGACTCAAATTCATATATTA
130 TCATATATTAATTATTAATAATTTGTATGACTCAAATTCATATATTA
*
8603217 ATTAAATTCTTTCCAAAAGAATATTAATTTTCATGTCCTTTATATTTTGGCTGAAATTAATTAAT
1 ATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCCTTTATATTTTGGCTGAAATTAATTAAT
* ** *
8603282 ATAACTGTTAATACTAATAAATTCGGTAAAATATTTATACTATTAATATTTTGTATGAATTAATT
66 ATAACTGTTAATACTAATAAATTCGGTAAAATA-TTATACAATTAATATTTTGTATGAACCAAAT
8603347 TCATATATTAATT
130 TCATATATTAATT
8603360 TTATCTATGT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
175 88 0.68
176 2 0.02
177 39 0.30
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (176 bp):
ATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCCTTTATATTTTGGCTGAAATTAATTAAT
ATAACTGTTAATACTAATAAATTCGGTAAAATATTATACAATTAATATTTTGTATGAACCAAATT
CATATATTAATTATTAATAATTTGTATGACTCAAATTCATATATTA
Found at i:8617545 original size:22 final size:23
Alignment explanation
Indices: 8617499--8617546 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
8617489 AATTATTAGC
*
8617499 TTACATTTCATATTCCAATTTATT
1 TTACATTT-ATATACCAATTTATT
*
8617523 TTACATTT-TATACCATTTTATT
1 TTACATTTATATACCAATTTATT
8617545 TT
1 TT
8617547 TTGAAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
24 8 0.36
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (23 bp):
TTACATTTATATACCAATTTATT
Found at i:8619814 original size:3 final size:3
Alignment explanation
Indices: 8619808--8619910 Score: 197
Period size: 3 Copynumber: 34.3 Consensus size: 3
8619798 TCTGTTGTTC
8619808 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
8619856 CTT CTT CTT CGT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
8619904 CTT CTT C
1 CTT CTT C
8619911 ACTCAACCCA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:8622170 original size:3 final size:3
Alignment explanation
Indices: 8622162--8622202 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
8622152 TGGGCTGAGT
8622162 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA G
8622203 GGGAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8623344 original size:3 final size:3
Alignment explanation
Indices: 8623336--8623416 Score: 153
Period size: 3 Copynumber: 27.0 Consensus size: 3
8623326 TTAGGTATAA
8623336 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
*
8623384 TGT TGT TGT TGT TGT TGT TGT TGT TGT TAT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
8623417 GAGCTTCAGA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.01, C:0.00, G:0.32, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:8623785 original size:15 final size:15
Alignment explanation
Indices: 8623767--8623806 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
8623757 ATGTGTACAA
8623767 GATTAGATTGGATTG
1 GATTAGATTGGATTG
8623782 GATTAGATTGGATTG
1 GATTAGATTGGATTG
*
8623797 GACTAGATTG
1 GATTAGATTG
8623807 AATCGTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.03, G:0.33, T:0.38
Consensus pattern (15 bp):
GATTAGATTGGATTG
Found at i:8623910 original size:5 final size:5
Alignment explanation
Indices: 8623900--8623968 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
8623890 CTTGGAGTGT
8623900 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
8623950 TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTAT
8623969 TAAGCTATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:8625057 original size:3 final size:3
Alignment explanation
Indices: 8625049--8625088 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8625039 TGGTCATATC
8625049 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8625089 AACCTTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8625592 original size:30 final size:30
Alignment explanation
Indices: 8625558--8625620 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
8625548 ATTTATTTTA
*
8625558 TTGTTAATTTTCTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
8625588 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
8625618 TTG
1 TTG
8625621 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:8626452 original size:22 final size:22
Alignment explanation
Indices: 8626424--8626475 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
8626414 TTAATTATTA
8626424 CTCTCATGGCTAACGTACTAAG
1 CTCTCATGGCTAACGTACTAAG
** *
8626446 CTCTCATGTTTCACGTACTAAG
1 CTCTCATGGCTAACGTACTAAG
8626468 CTCTCATG
1 CTCTCATG
8626476 TTTGAACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (22 bp):
CTCTCATGGCTAACGTACTAAG
Found at i:8626476 original size:22 final size:22
Alignment explanation
Indices: 8626436--8626478 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8626426 CTCATGGCTA
8626436 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
8626458 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
8626479 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:8630381 original size:4 final size:4
Alignment explanation
Indices: 8630367--8630396 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
8630357 TTAAACCAAT
8630367 ATAA A-AA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
8630397 TATGTATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:8639572 original size:14 final size:13
Alignment explanation
Indices: 8639538--8639577 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
8639528 ATGGATGGTT
*
8639538 TTATTTTGTTGGA
1 TTATTTTGATGGA
*
8639551 TCATTTTGATGGA
1 TTATTTTGATGGA
8639564 TGTATTTTGATGGA
1 T-TATTTTGATGGA
8639578 CGGTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.53
Consensus pattern (13 bp):
TTATTTTGATGGA
Found at i:8639583 original size:45 final size:45
Alignment explanation
Indices: 8639527--8639623 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 45
8639517 GTTAACATAC
* * * * *
8639527 GATGGATGGTTTTATTTTGTTGGATCATTTTGATGGATGTATTTT
1 GATGGACGGTTTAATTTTGTTGAATCATTCTGATGGATATATTTT
*
8639572 GATGGACGGTTTAATTTTGTTGAATCATTCTGATGGTTATATTTT
1 GATGGACGGTTTAATTTTGTTGAATCATTCTGATGGATATATTTT
8639617 GATGGAC
1 GATGGAC
8639624 AATTTATATT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.21, C:0.05, G:0.26, T:0.48
Consensus pattern (45 bp):
GATGGACGGTTTAATTTTGTTGAATCATTCTGATGGATATATTTT
Found at i:8646715 original size:50 final size:50
Alignment explanation
Indices: 8646600--8646842 Score: 362
Period size: 50 Copynumber: 4.8 Consensus size: 50
8646590 GATCATAACA
* * ** *
8646600 TGCCAAAGCCATGTCCCAGACATAGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
8646651 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
8646701 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
8646751 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
8646801 TGCCAACGCCATGTCCCAGACAGGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8646843 TTACCCAAAT
Statistics
Matches: 176, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
49 1 0.01
50 143 0.81
51 31 0.18
52 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:8648621 original size:9 final size:9
Alignment explanation
Indices: 8648604--8648634 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8648594 TCAAGTTGAT
8648604 TCGAATAAC
1 TCGAATAAC
*
8648613 TCGATTAAC
1 TCGAATAAC
8648622 TCGAATAAC
1 TCGAATAAC
8648631 TCGA
1 TCGA
8648635 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:8650090 original size:35 final size:35
Alignment explanation
Indices: 8650044--8650139 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
8650034 ATTACCCCTA
*
8650044 AGGACTTGTATACCGTTTACACGATGTCACATCAT
1 AGGACTTGTATACCGTTTACACGATGTCACACCAT
* *
8650079 AGGACTTGTATACCATTTACAC-AGTGTCACCCCAT
1 AGGACTTGTATACCGTTTACACGA-TGTCACACCAT
*
8650114 AGGCCTATGTAT--CGTTTACACGATGT
1 AGGACT-TGTATACCGTTTACACGATGT
8650140 TGCTTTGAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
34 12 0.23
35 36 0.68
36 5 0.09
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (35 bp):
AGGACTTGTATACCGTTTACACGATGTCACACCAT
Found at i:8652025 original size:26 final size:26
Alignment explanation
Indices: 8651971--8652057 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
8651961 GGGCCTTCCA
* **
8651971 ACCAAATCAAACTCAAGGGACATTTG
1 ACCAACTCAAACTCAAGGGACATCGG
**
8651997 ACCAACTCAAACTCAAGGGTTATCGG
1 ACCAACTCAAACTCAAGGGACATCGG
* * * *
8652023 ACCCACTCAAACTCAAAGGACCTCTG
1 ACCAACTCAAACTCAAGGGACATCGG
8652049 A-CAACTCAA
1 ACCAACTCAA
8652058 GGGTCCTCGG
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 7 0.14
26 42 0.86
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.17
Consensus pattern (26 bp):
ACCAACTCAAACTCAAGGGACATCGG
Found at i:8655117 original size:19 final size:18
Alignment explanation
Indices: 8655075--8655117 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
8655065 CGACTCGCCC
*
8655075 TATTAATTTTTTTATATT
1 TATTAATTTTTATATATT
8655093 TATTAATATTTTATATTATT
1 TATTAAT-TTTTATA-TATT
8655113 T-TTAA
1 TATTAA
8655118 AAAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 10 0.45
20 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTAATTTTTATATATT
Found at i:8667729 original size:17 final size:18
Alignment explanation
Indices: 8667702--8667786 Score: 59
Period size: 17 Copynumber: 4.7 Consensus size: 18
8667692 AAAATTATCA
8667702 AAATATTATAAAAA-ATAG
1 AAAT-TTATAAAAACATAG
* *
8667720 AAATTTATAAAAAAATCTAT
1 AAATTTATAAAAACA--TAG
*
8667740 AAATATTATAAAAACA-AA
1 AAAT-TTATAAAAACATAG
* **
8667758 AAATATATAAAAATTTAG
1 AAATTTATAAAAACATAG
8667776 -AATTTATAAAA
1 AAATTTATAAAA
8667787 TAATTATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
17 27 0.50
18 11 0.20
20 6 0.11
21 10 0.19
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATTTATAAAAACATAG
Found at i:8667769 original size:55 final size:56
Alignment explanation
Indices: 8667701--8667807 Score: 148
Period size: 55 Copynumber: 1.9 Consensus size: 56
8667691 AAAAATTATC
*
8667701 AAAATATTATAAAAA-ATAGAAATTTATAAAAAAATCTATAAATAT-TATAAAAACAA
1 AAAATATTATAAAAATATAG-AATTTATAAAAAAAT-TATAAAAATATATAAAAACAA
* *
8667757 AAAATA-TATAAAAATTTAGAATTTATAAAATAATTATAAAAATATATAAAA
1 AAAATATTATAAAAATATAGAATTTATAAAAAAATTATAAAAATATATAAAA
8667808 TATAGAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 8 0.17
55 29 0.63
56 9 0.20
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (56 bp):
AAAATATTATAAAAATATAGAATTTATAAAAAAATTATAAAAATATATAAAAACAA
Found at i:8667811 original size:28 final size:29
Alignment explanation
Indices: 8667703--8667811 Score: 75
Period size: 28 Copynumber: 3.9 Consensus size: 29
8667693 AAATTATCAA
* *
8667703 AATATTATAAAAA-ATAGAAATTTATAAAAA
1 AATA-TATAAAAATATAGAAA-ATATAAAAT
* * * *
8667733 AATCTATAAATAT-TATAAAA-ACAAAA-
1 AATATATAAAAATATAGAAAATATAAAAT
* **
8667759 AATATATAAAAATTTAGAATTTATAAAAT
1 AATATATAAAAATATAGAAAATATAAAAT
*
8667788 AAT-TATAAAAATATATAAAATATA
1 AATATATAAAAATATAGAAAATATA
8667812 GAGAAATTAA
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
26 11 0.18
27 9 0.15
28 22 0.37
29 15 0.25
30 3 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AATATATAAAAATATAGAAAATATAAAAT
Found at i:8675066 original size:21 final size:22
Alignment explanation
Indices: 8675041--8675089 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
8675031 GCTATTTCTG
* *
8675041 ATCTCACT-GCTGCAGTATCTA
1 ATCTCACTCGCTACAGTAACTA
*
8675062 ATCTC-GTCGCTACAGTAACTA
1 ATCTCACTCGCTACAGTAACTA
8675083 ATCTCAC
1 ATCTCAC
8675090 CGCCACTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (22 bp):
ATCTCACTCGCTACAGTAACTA
Found at i:8678151 original size:21 final size:21
Alignment explanation
Indices: 8678125--8678164 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8678115 GATCCGATTG
*
8678125 AAACACGGGAATTTTTTTTGA
1 AAACACGGAAATTTTTTTTGA
8678146 AAACACGGAAATTTTTTTT
1 AAACACGGAAATTTTTTTT
8678165 TGGAAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (21 bp):
AAACACGGAAATTTTTTTTGA
Found at i:8678204 original size:17 final size:17
Alignment explanation
Indices: 8678161--8678236 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 17
8678151 CGGAAATTTT
8678161 TTTTTGGAAATAC-AAGAA
1 TTTTT-GAAATACGAA-AA
* *
8678179 TCTTAGAAATACGAAAA
1 TTTTTGAAATACGAAAA
*
8678196 TTTTTGAAAACACGAAAA
1 TTTTTG-AAATACGAAAA
* * *
8678214 TCTTTAAAATACGGGAAA
1 TTTTTGAAATAC-GAAAA
8678232 TTTTT
1 TTTTT
8678237 TTTGAAAACA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
17 18 0.40
18 27 0.60
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (17 bp):
TTTTTGAAATACGAAAA
Found at i:8678244 original size:22 final size:21
Alignment explanation
Indices: 8678229--8678279 Score: 84
Period size: 22 Copynumber: 2.4 Consensus size: 21
8678219 AAAATACGGG
8678229 AAATTTTTTTTGAAAACACGA
1 AAATTTTTTTTGAAAACACGA
*
8678250 AAATTGTTTTTTTAAAACACGA
1 AAATT-TTTTTTGAAAACACGA
8678272 AAATTTTT
1 AAATTTTT
8678280 GAAACACGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (21 bp):
AAATTTTTTTTGAAAACACGA
Found at i:8678303 original size:42 final size:42
Alignment explanation
Indices: 8678256--8678379 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
8678246 ACGAAAATTG
8678256 TTTTTTTAAAACACGAAAATTTTTGAAACACGAGAATTTTTA
1 TTTTTTTAAAACACGAAAATTTTTGAAACACGAGAATTTTTA
* * *
8678298 TTTTTTTTAAACACGAAGATTTTTG-AA-AC---AATTATTAA
1 TTTTTTTAAAACACGAAAATTTTTGAAACACGAGAATT-TTTA
* *
8678336 TTTTTTTGAAAACACGAAAAAATTTTAAAACACGAGAATTTTTA
1 TTTTTTT-AAAACACG-AAAATTTTTGAAACACGAGAATTTTTA
8678380 AGTTTTTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
37 4 0.06
38 10 0.15
39 7 0.11
40 9 0.14
41 4 0.06
42 25 0.38
44 3 0.05
45 4 0.06
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (42 bp):
TTTTTTTAAAACACGAAAATTTTTGAAACACGAGAATTTTTA
Found at i:8678724 original size:1 final size:1
Alignment explanation
Indices: 8678720--8678773 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
8678710 GGCTTTTTCC
* * * * *
8678720 TTTTTTTTCTTTTTTTTTTTTTTTTCTTTTTTTTCTTTTTTTTCTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8678774 GGCCTGTTGC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:8678731 original size:9 final size:9
Alignment explanation
Indices: 8678713--8678772 Score: 95
Period size: 9 Copynumber: 6.7 Consensus size: 9
8678703 CGACTCGGGC
*
8678713 TTTTTCCTT
1 TTTTTTCTT
8678722 TTTTTTCTT
1 TTTTTTCTT
8678731 TTTTTT-TT
1 TTTTTTCTT
8678739 TTTTTTCTT
1 TTTTTTCTT
8678748 TTTTTTCTT
1 TTTTTTCTT
8678757 TTTTTTCTCT
1 TTTTTTCT-T
8678767 TTTTTT
1 TTTTTT
8678773 TGGCCTGTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
8 8 0.17
9 33 0.69
10 7 0.15
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:8679140 original size:3 final size:3
Alignment explanation
Indices: 8679132--8679158 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8679122 TCATTTTTCT
8679132 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
8679159 AAGCCCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:8679566 original size:30 final size:28
Alignment explanation
Indices: 8679489--8679632 Score: 162
Period size: 30 Copynumber: 4.9 Consensus size: 28
8679479 TAATTTTGAG
* *
8679489 AAAATTTAGGGGTCATAAGGTAATTTCA
1 AAAATTTAGGGGTCAAAATGTAATTTCA
* *
8679517 AAAATTTTATGGGTTAAAATGTAATTTCAA
1 AAAA-TTTAGGGGTCAAAATGTAATTTC-A
* *
8679547 AAAAGTTTAGGGGTCAAAATATAATTTTA
1 AAAA-TTTAGGGGTCAAAATGTAATTTCA
*
8679576 GGAAAATTTAGGGGTCAAAATGCAATTTCA
1 --AAAATTTAGGGGTCAAAATGTAATTTCA
*
8679606 AAAAGTTTAGGGGCCAAAATGTAATTT
1 AAAA-TTTAGGGGTCAAAATGTAATTT
8679633 TTTAGGGGTA
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
28 8 0.08
29 40 0.41
30 45 0.46
31 4 0.04
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (28 bp):
AAAATTTAGGGGTCAAAATGTAATTTCA
Found at i:8679572 original size:59 final size:58
Alignment explanation
Indices: 8679489--8679632 Score: 175
Period size: 59 Copynumber: 2.5 Consensus size: 58
8679479 TAATTTTGAG
* * * * *
8679489 AAAA-TTTAGGGGTCATAAGGTAATTTCA-AAAATTTTATGGGTTAAAATGTAATTTCAA
1 AAAAGTTTAGGGGTCAAAATGTAATTTCAGAAAA-TTTAGGGGTCAAAATGCAATTTC-A
* *
8679547 AAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATGCAATTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTCA-GAAAATTTAGGGGTCAAAATGCAATTTCA
*
8679606 AAAAGTTTAGGGGCCAAAATGTAATTT
1 AAAAGTTTAGGGGTCAAAATGTAATTT
8679633 TTTAGGGGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 4 0.05
59 46 0.62
60 20 0.27
61 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (58 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTCAGAAAATTTAGGGGTCAAAATGCAATTTCA
Found at i:8679625 original size:89 final size:89
Alignment explanation
Indices: 8679467--8679632 Score: 235
Period size: 89 Copynumber: 1.9 Consensus size: 89
8679457 CAACACTTCT
* * * * **
8679467 GGGGCCAAAACATAATTTTGAGAAAATTTAGGGGTCATAAGGTAATTTCAAAAATTTTATGGGTT
1 GGGGCCAAAACATAATTTTGAGAAAATTTAGGGGTCAAAAGGCAATTTCAAAAAGTTTAGGGGCC
8679532 AAAATGTAATTTCAAAAAAGTTTA
66 AAAATGTAATTTCAAAAAAGTTTA
* * *
8679556 GGGGTCAAAATATAATTTT-AGGAAAATTTAGGGGTCAAAATGCAATTTCAAAAAGTTTAGGGGC
1 GGGGCCAAAACATAATTTTGA-GAAAATTTAGGGGTCAAAAGGCAATTTCAAAAAGTTTAGGGGC
8679620 CAAAATGTAATTT
65 CAAAATGTAATTT
8679633 TTTAGGGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
88 1 0.01
89 66 0.99
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.31
Consensus pattern (89 bp):
GGGGCCAAAACATAATTTTGAGAAAATTTAGGGGTCAAAAGGCAATTTCAAAAAGTTTAGGGGCC
AAAATGTAATTTCAAAAAAGTTTA
Found at i:8679696 original size:22 final size:22
Alignment explanation
Indices: 8679668--8679711 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8679658 AAATTTTGTC
* *
8679668 CATACATTCATGTTTGTAATCA
1 CATACATTCATATCTGTAATCA
8679690 CATACATTCATATCTGTAATCA
1 CATACATTCATATCTGTAATCA
8679712 TTAAATTTTG
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:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (22 bp):
CATACATTCATATCTGTAATCA
Found at i:8682046 original size:25 final size:27
Alignment explanation
Indices: 8682001--8682054 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
8681991 ACTTGAGAAG
*
8682001 CTTTAGTGGCGAAGTTATTTGGAAAGC
1 CTTTAGTGGCGAAGTCATTTGGAAAGC
8682028 CTTT-GTGGC-AAGTCATTTGGAAAGC
1 CTTTAGTGGCGAAGTCATTTGGAAAGC
8682053 CT
1 CT
8682055 ATATGACGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 17 0.65
26 5 0.19
27 4 0.15
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (27 bp):
CTTTAGTGGCGAAGTCATTTGGAAAGC
Found at i:8694430 original size:22 final size:21
Alignment explanation
Indices: 8694405--8694451 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8694395 AAGCATGCAA
8694405 AATTCATCCAAAGAAATTTGAC
1 AATT-ATCCAAAGAAATTTGAC
* * *
8694427 AATTTTCCTAAGAAATTTGGC
1 AATTATCCAAAGAAATTTGAC
8694448 AATT
1 AATT
8694452 TTCCTAAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (21 bp):
AATTATCCAAAGAAATTTGAC
Found at i:8694439 original size:21 final size:21
Alignment explanation
Indices: 8694415--8694459 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
8694405 AATTCATCCA
8694415 AAGAAATTTGACAATTTTCCT
1 AAGAAATTTGACAATTTTCCT
*
8694436 AAGAAATTTGGCAATTTTCCT
1 AAGAAATTTGACAATTTTCCT
8694457 AAG
1 AAG
8694460 CACATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (21 bp):
AAGAAATTTGACAATTTTCCT
Found at i:8694797 original size:25 final size:25
Alignment explanation
Indices: 8694727--8694871 Score: 89
Period size: 25 Copynumber: 5.7 Consensus size: 25
8694717 TTCATATTCG
*
8694727 GGAATGCTCATGTGAGCACATA-AACG
1 GGAA-GCTCATGTGAGC-CATATAACA
*
8694753 GGAAGCCCTC-TCTCGAGCCATATAACA
1 GGAAG--CTCATGT-GAGCCATATAACA
*
8694780 GGAAGCTCATGTGAGCCATGTAACA
1 GGAAGCTCATGTGAGCCATATAACA
* ** * **
8694805 GGAAGCTTATCCGGGCTGTATAACA
1 GGAAGCTCATGTGAGCCATATAACA
** * *
8694830 GGAAGCTCATAAGAGTCATAT-TCA
1 GGAAGCTCATGTGAGCCATATAACA
* *
8694854 GGAAGCTTATGCGAGCCA
1 GGAAGCTCATGTGAGCCA
8694872 AAAACGGGCA
Statistics
Matches: 91, Mismatches: 23, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
24 16 0.18
25 48 0.53
26 12 0.13
27 15 0.16
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (25 bp):
GGAAGCTCATGTGAGCCATATAACA
Found at i:8695028 original size:25 final size:26
Alignment explanation
Indices: 8694947--8695029 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
8694937 AGCGAGCCAT
*
8694947 ATCGGGAAACTTCGAAGAGCCAT-TA
1 ATCGGGAAGCTTCGAAGAGCCATATA
* * * *
8694972 ATCAGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCT-TCGAAGAGCCATATA
8694998 ATCGGGAAGCTTCGAAGAGCCATATA
1 ATCGGGAAGCTTCGAAGAGCCATATA
8695024 A-CGGGA
1 ATCGGGA
8695030 CGTTTATAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
25 23 0.49
26 24 0.51
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (26 bp):
ATCGGGAAGCTTCGAAGAGCCATATA
Found at i:8701108 original size:20 final size:21
Alignment explanation
Indices: 8701080--8701128 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
8701070 GCGAGGTGAT
*
8701080 AATTCATAAACCAC-AAT-ATA
1 AATTAATAAA-CACTAATAATA
8701100 AATTAATAAACACTAATAATA
1 AATTAATAAACACTAATAATA
*
8701121 AATGAATA
1 AATTAATA
8701129 CCAATAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.48
21 10 0.40
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (21 bp):
AATTAATAAACACTAATAATA
Found at i:8701677 original size:2 final size:2
Alignment explanation
Indices: 8701672--8701736 Score: 112
Period size: 2 Copynumber: 32.5 Consensus size: 2
8701662 ATTCAAATGA
* *
8701672 AT AT AT AT AT GT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8701714 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
8701737 AATGTCCAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8707725 original size:17 final size:17
Alignment explanation
Indices: 8707703--8707737 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8707693 TTCTTATGTG
8707703 AATTCAGGTACTAGCTT
1 AATTCAGGTACTAGCTT
*
8707720 AATTCATGTACTAGCTT
1 AATTCAGGTACTAGCTT
8707737 A
1 A
8707738 TTGAAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (17 bp):
AATTCAGGTACTAGCTT
Found at i:8710426 original size:18 final size:17
Alignment explanation
Indices: 8710403--8710455 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
8710393 GTACAATTCA
8710403 AATAATTTATTTTAATTT
1 AATAATTTA-TTTAATTT
* *
8710421 AATAATATATTTCATTT
1 AATAATTTATTTAATTT
* *
8710438 AATTATTTTACTTAATTT
1 AA-TAATTTATTTAATTT
8710456 TTTATTTCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
AATAATTTATTTAATTT
Found at i:8714951 original size:88 final size:88
Alignment explanation
Indices: 8714847--8715098 Score: 285
Period size: 87 Copynumber: 2.8 Consensus size: 88
8714837 TCAAACTTAA
*
8714847 AAAAAAAGCAATTAAGCCCCTACTTTTTTT-ACACTCAATTAAGTACTTGAACTTTCAAAATGCA
1 AAAAAAAGCAATTAAGCCCCT-CTTTTTTTAAAACTCAATTAAGTACTTGAACTTTCAAAATGCA
* *
8714911 T-AAAAAGGCCCTCGAACTTTTTC
65 TCAAAAAGGCCCTCAAACTTTTCC
* **
8714934 AAATAAAAGCAACTAAGCCCCT-TTTTTTTAAAACTCAATTGGGTACTTGAACTTTCAAAATGCA
1 AAA-AAAAGCAATTAAGCCCCTCTTTTTTTAAAACTCAATTAAGTACTTGAACTTTCAAAATGCA
*
8714998 TCAAAAAGGCTCTCAAACTTTTCC
65 TCAAAAAGGCCCTCAAACTTTTCC
** *** * **
8715022 AAAAAAAAAAATTAAGCCCCTGCTTTTTTTTTTTACATCCAATTAGGTACTTGAACTGCCAAAAT
1 AAAAAAAGCAATTAAGCCCCT-C-TTTTTTTAAAAC-T-CAATTAAGTACTTGAACTTTCAAAAT
*
8715087 GTATCAAAAAGG
62 GCATCAAAAAGG
8715099 TCCTTTGACC
Statistics
Matches: 140, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
86 7 0.05
87 50 0.36
88 39 0.28
90 9 0.06
91 1 0.01
92 34 0.24
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (88 bp):
AAAAAAAGCAATTAAGCCCCTCTTTTTTTAAAACTCAATTAAGTACTTGAACTTTCAAAATGCAT
CAAAAAGGCCCTCAAACTTTTCC
Found at i:8715254 original size:20 final size:20
Alignment explanation
Indices: 8715231--8715279 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
8715221 AATAAAAGTT
*
8715231 ATAAAAATTATTAATTTTTA
1 ATAAAAATTATTAAATTTTA
*
8715251 ATAAAAAAT-TTAAATTTTA
1 ATAAAAATTATTAAATTTTA
*
8715270 TTAAAAATTA
1 ATAAAAATTA
8715280 GAAAAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAAATTATTAAATTTTA
Found at i:8715327 original size:19 final size:18
Alignment explanation
Indices: 8715281--8715343 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
8715271 TAAAAATTAG
* *
8715281 AAAAAATTAAAAAATTGT
1 AAAAAATTATAAAATCGT
**
8715299 AAAATTTTATAAATATCGT
1 AAAAAATTATAAA-ATCGT
*
8715318 AAAAAATTATAAAATGCAT
1 AAAAAATTATAAAAT-CGT
8715337 AAAAAAT
1 AAAAAAT
8715344 CCCTTTAACC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 12 0.33
19 24 0.67
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAAAATTATAAAATCGT
Found at i:8715539 original size:21 final size:21
Alignment explanation
Indices: 8715514--8715588 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 21
8715504 TTGATACGAT
8715514 AATTTTTATAATTTTTTTACG
1 AATTTTTATAATTTTTTTACG
*
8715535 AA-TTTTAT-ATTTCTTTAC-
1 AATTTTTATAATTTTTTTACG
* *
8715553 ATTTTTTATAATTTTCTTACG
1 AATTTTTATAATTTTTTTACG
* * *
8715574 ACTTTATAAAATTTT
1 AATTTTTATAATTTT
8715589 ATAATTTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 1 0.02
19 15 0.34
20 14 0.32
21 14 0.32
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (21 bp):
AATTTTTATAATTTTTTTACG
Found at i:8715590 original size:29 final size:29
Alignment explanation
Indices: 8715556--8715658 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
8715546 TCTTTACATT
*
8715556 TTTTATAATTTTCTTACGA-CTTTATAAAA
1 TTTTATAATTTT-TTACGATATTTATAAAA
* * * *
8715585 TTTTATAATTTTTTTCAATATTTCTATATA
1 TTTTATAATTTTTTACGATATTTATA-AAA
*
8715615 TTTTATAATTTTTTTACGATTTTTATAAAA
1 TTTTATAA-TTTTTTACGATATTTATAAAA
*
8715645 TTTTACAATTTTTT
1 TTTTATAATTTTTT
8715659 TATGATTTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 4 0.07
29 23 0.38
30 19 0.32
31 14 0.23
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTATAATTTTTTACGATATTTATAAAA
Found at i:8715596 original size:39 final size:38
Alignment explanation
Indices: 8715512--8715598 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 38
8715502 TATTGATACG
* *
8715512 ATAA-TTTTTATAATTTTTTTACGAATTTTATATTTCT
1 ATAATTTTTTATAATTTTCTTACGAATTTTAAATTTCT
* *
8715549 TTACATTTTTTATAATTTTCTTACGACTTTATAAAATTT-T
1 ATA-ATTTTTTATAATTTTCTTACGAATTT-T-AAATTTCT
8715589 ATAATTTTTT
1 ATAATTTTTT
8715599 TCAATATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
37 2 0.05
38 1 0.02
39 29 0.71
40 4 0.10
41 5 0.12
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (38 bp):
ATAATTTTTTATAATTTTCTTACGAATTTTAAATTTCT
Found at i:8715620 original size:30 final size:28
Alignment explanation
Indices: 8715583--8715676 Score: 100
Period size: 30 Copynumber: 3.2 Consensus size: 28
8715573 GACTTTATAA
8715583 AATTTTATAATTTTTTTCAATATTTCTAT
1 AATTTTATAATTTTTTTC-ATATTTCTAT
* * *
8715612 ATATTTTATAATTTTTTTACGATTTTTATAA
1 A-ATTTTATAATTTTTTT-C-ATATTTCTAT
*
8715643 AATTTTACAATTTTTTT-ATGATTTCTAT
1 AATTTTATAATTTTTTTCAT-ATTTCTAT
8715671 AATTTT
1 AATTTT
8715677 TCTATTTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.04
28 11 0.20
29 1 0.02
30 31 0.57
31 9 0.17
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
AATTTTATAATTTTTTTCATATTTCTAT
Found at i:8715632 original size:59 final size:58
Alignment explanation
Indices: 8715556--8715676 Score: 174
Period size: 59 Copynumber: 2.1 Consensus size: 58
8715546 TCTTTACATT
*
8715556 TTTTATAATTTTCTTACGA-CTTTATAAAATTTTATAATTTTTTTCAAT-ATTTCTATATA
1 TTTTATAATTTTCTTACGATCTTTATAAAATTTTACAATTTTTTT--ATGATTTCTATA-A
* *
8715615 TTTTATAATTTTTTTACGATTTTTATAAAATTTTACAATTTTTTTATGATTTCTATAA
1 TTTTATAATTTTCTTACGATCTTTATAAAATTTTACAATTTTTTTATGATTTCTATAA
8715673 TTTT
1 TTTT
8715677 TCTATTTTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
58 7 0.12
59 27 0.47
60 23 0.40
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (58 bp):
TTTTATAATTTTCTTACGATCTTTATAAAATTTTACAATTTTTTTATGATTTCTATAA
Done.