Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 165 of 211
Found at i:51377374 original size:16 final size:16
Alignment explanation
Indices: 51377353--51377383 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51377343 ACTTAAAATG
51377353 CATTCATATCACCAAC
1 CATTCATATCACCAAC
51377369 CATTCATATCACCAA
1 CATTCATATCACCAA
51377384 TATTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
CATTCATATCACCAAC
Found at i:51380129 original size:14 final size:15
Alignment explanation
Indices: 51380107--51380183 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
51380097 CTGCCAAACA
51380107 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
51380121 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
51380136 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
51380156 CCA-AAAATCATTTT
1 CCAGAAAATCATTTT
* *
51380170 AC-GAAAAACATTTT
1 CCAGAAAATCATTTT
51380184 ACTGGCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:51380167 original size:34 final size:34
Alignment explanation
Indices: 51380111--51380176 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
51380101 CAAACACCAG
* *
51380111 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTAC-GAAAAGT
51380146 AAAACATTTTCCA-AAAATCATTTTACGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACGAAAA
51380177 ACATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGAAAATCATTTTACGAAAAGT
Found at i:51380184 original size:14 final size:14
Alignment explanation
Indices: 51380146--51380185 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
51380136 ACAGAAAAGT
51380146 AAAACATTTT-CCA
1 AAAACATTTTACCA
*
51380159 AAAATCATTTTACGA
1 AAAA-CATTTTACCA
51380174 AAAACATTTTAC
1 AAAACATTTTAC
51380186 TGGCAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 14 0.58
15 6 0.25
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACCA
Found at i:51381803 original size:14 final size:14
Alignment explanation
Indices: 51381784--51381810 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51381774 CAGAAGTTGG
51381784 GAAATTGGGGAAAA
1 GAAATTGGGGAAAA
51381798 GAAATTGGGGAAA
1 GAAATTGGGGAAA
51381811 TCTAATTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.37, T:0.15
Consensus pattern (14 bp):
GAAATTGGGGAAAA
Found at i:51382606 original size:42 final size:41
Alignment explanation
Indices: 51382509--51382607 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
51382499 TAAAATGATT
* * *
51382509 TTTTGCGGCGTTTTTCTCATATACGCCGCTACTACTTAACC
1 TTTTGCGGCGTTTTTCTCATAAACACCACTACTACTTAACC
* * * *
51382550 TTTTGCGGCATTTTTCTCATAAACATCATTA-TAGCTCTAATC
1 TTTTGCGGCGTTTTTCTCATAAACACCACTACTA-CT-TAACC
51382592 TTTTGCGGCGTTTTTC
1 TTTTGCGGCGTTTTTC
51382608 GATTAGCGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.04
41 27 0.56
42 19 0.40
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.43
Consensus pattern (41 bp):
TTTTGCGGCGTTTTTCTCATAAACACCACTACTACTTAACC
Found at i:51383025 original size:34 final size:37
Alignment explanation
Indices: 51382982--51383049 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 37
51382972 GATGTTGTTT
*
51382982 TTAATAA-TTTTAATTTATTAT-TAT-TTTATAATTC
1 TTAATAATTTTTAATTAATTATCTATGTTTATAATTC
*
51383016 TTAATAATTTTTAATTAATTCTCTATGTTTATAA
1 TTAATAATTTTTAATTAATTATCTATGTTTATAA
51383050 ATATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 7 0.24
35 12 0.41
36 3 0.10
37 7 0.24
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (37 bp):
TTAATAATTTTTAATTAATTATCTATGTTTATAATTC
Found at i:51399654 original size:17 final size:17
Alignment explanation
Indices: 51399632--51399665 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51399622 CACTGACATT
*
51399632 AAAATGTAATGAAAATA
1 AAAATGCAATGAAAATA
*
51399649 AAAATGCAATGACAATA
1 AAAATGCAATGAAAATA
51399666 TATACTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGAAAATA
Found at i:51411772 original size:25 final size:25
Alignment explanation
Indices: 51411740--51411807 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
51411730 ACATAAGAAT
* *
51411740 AATGCTCACACAAGCTGTAATTGTA
1 AATGCTCACACAAGCTGTAACTATA
* ** *
51411765 ATTGCTCACATGAGTTGTAACTATA
1 AATGCTCACACAAGCTGTAACTATA
*
51411790 AATGCTGACACAAGCTGT
1 AATGCTCACACAAGCTGT
51411808 GAAATGGGAC
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTAACTATA
Found at i:51421911 original size:4 final size:4
Alignment explanation
Indices: 51421902--51421942 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
51421892 TAAATTAAGA
*
51421902 AATT AATT AATT AA-- AATT AATT AATT AAATT AATT GATT AA
1 AATT AATT AATT AATT AATT AATT AATT -AATT AATT AATT AA
51421943 AAAATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.06
4 26 0.81
5 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (4 bp):
AATT
Found at i:51421920 original size:14 final size:14
Alignment explanation
Indices: 51421901--51421944 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
51421891 TTAAATTAAG
51421901 AAATTAATTAATTA
1 AAATTAATTAATTA
51421915 AAATTAATTAATT-
1 AAATTAATTAATTA
*
51421928 AAATTAATTGATTA
1 AAATTAATTAATTA
51421942 AAA
1 AAA
51421945 AATATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
AAATTAATTAATTA
Found at i:51422450 original size:121 final size:121
Alignment explanation
Indices: 51422231--51422473 Score: 355
Period size: 121 Copynumber: 2.0 Consensus size: 121
51422221 ACATTGGTCG
* *
51422231 AGCTATACACATACTACACAATACATCATTATTCTGCCATAAGTAGTAAAAAATTATTTTCTAAG
1 AGCTATACACATACTACACAATACATCATTATTCTACCATAAGTAGTAAAAAATTATTTACTAAG
* * *
51422296 AATAAGTTCTATTTTTTTTTGGAATTACCAGTTTTACCAATTTATAGAGAGAACTT
66 AATAAATTCTATTTTTTTTTGGAATTACCAGTTTTAACAATTCATAGAGAGAACTT
* * *
51422352 AGCTATACACATACTACATAATACATCATTATTTTACCATAAAGTAGTAAAAATTTATTTACTAA
1 AGCTATACACATACTACACAATACATCATTATTCTACCAT-AAGTAGTAAAAAATTATTTACTAA
* * *
51422417 GAATAAATT-T-TTTTTTTTTGGGAATTACGAGTTTTAACAGTTCATAGAGAGAGCTT
65 GAATAAATTCTATTTTTTTTT-GGAATTACCAGTTTTAACAATTCATAGAGAGAACTT
51422473 A
1 A
51422474 CTTTCTTTTA
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
120 9 0.08
121 70 0.64
122 30 0.28
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (121 bp):
AGCTATACACATACTACACAATACATCATTATTCTACCATAAGTAGTAAAAAATTATTTACTAAG
AATAAATTCTATTTTTTTTTGGAATTACCAGTTTTAACAATTCATAGAGAGAACTT
Found at i:51423798 original size:13 final size:13
Alignment explanation
Indices: 51423776--51423805 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51423766 GTTAAGAAAA
*
51423776 TAATTGAATTAAT
1 TAATTAAATTAAT
51423789 TAATTAAATTAAT
1 TAATTAAATTAAT
51423802 TAAT
1 TAAT
51423806 ATTATGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATTAAATTAAT
Found at i:51425603 original size:27 final size:27
Alignment explanation
Indices: 51425551--51425602 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
51425541 AGCAAGAAAT
** *
51425551 TAAACCCTAAACTATGGAGAAGAAAAC
1 TAAACCCTAAAAGATGAAGAAGAAAAC
51425578 TAAACCCTAAAAGATGAAG-AGAAAA
1 TAAACCCTAAAAGATGAAGAAGAAAA
51425603 ATCCTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (27 bp):
TAAACCCTAAAAGATGAAGAAGAAAAC
Found at i:51428470 original size:25 final size:24
Alignment explanation
Indices: 51428369--51428494 Score: 143
Period size: 22 Copynumber: 5.3 Consensus size: 24
51428359 CACTAATGAA
*
51428369 CAGAGAGCACTAAAGTGCT-ATA-
1 CAGAGAGCACTAACGTGCTAATAT
* *
51428391 CAGAGAGCACTGATGTGCTAA-A-
1 CAGAGAGCACTAACGTGCTAATAT
* * *
51428413 CAGAGAGCACTGACATGCTAAAAT
1 CAGAGAGCACTAACGTGCTAATAT
*
51428437 CAGAGAGCACCAACGTGCTAATAGT
1 CAGAGAGCACTAACGTGCTAATA-T
51428462 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAAT-AT
51428487 CAGAGAGC
1 CAGAGAGC
51428495 GCGCTAAAGT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
22 37 0.41
23 2 0.02
24 19 0.21
25 31 0.34
26 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.17
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTAATAT
Found at i:51429199 original size:8 final size:8
Alignment explanation
Indices: 51429154--51429193 Score: 80
Period size: 8 Copynumber: 5.0 Consensus size: 8
51429144 TGTTTTATAT
51429154 ATATAATA
1 ATATAATA
51429162 ATATAATA
1 ATATAATA
51429170 ATATAATA
1 ATATAATA
51429178 ATATAATA
1 ATATAATA
51429186 ATATAATA
1 ATATAATA
51429194 TAATAACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:51436747 original size:79 final size:81
Alignment explanation
Indices: 51436607--51436791 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
51436597 TTGAATGATG
* * *
51436607 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATTCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
51436671 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
51436686 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
51436748 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
51436766 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51436792 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:51436805 original size:40 final size:40
Alignment explanation
Indices: 51436608--51436791 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
51436598 TGAATGATGT
* * * *
51436608 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
51436648 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
51436688 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
51436726 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
51436767 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
51436792 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:51436813 original size:79 final size:79
Alignment explanation
Indices: 51436660--51436824 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
51436650 GGACTAAGAT
* * **
51436660 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
51436725 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
51436739 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
51436802 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
51436818 CCGAAGG
1 CCGAAGG
51436825 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:51438415 original size:22 final size:22
Alignment explanation
Indices: 51438341--51438408 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
51438331 TGCACTAATG
*
51438341 AACAGAGAGCACT-AAAGTGCTA
1 AACAGAGAGCACTGACA-TGCTA
* *
51438363 TACAGAGAGCACTGATATGCTA
1 AACAGAGAGCACTGACATGCTA
51438385 AACAGAGAGCACTGACATGCTA
1 AACAGAGAGCACTGACATGCTA
51438407 AA
1 AA
51438409 ATTAGAGAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 39 0.95
23 2 0.05
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTGACATGCTA
Found at i:51438444 original size:25 final size:25
Alignment explanation
Indices: 51438387--51438468 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
51438377 ATATGCTAAA
** *
51438387 CAGAGAGCACTGACATGCTAA-AAT
1 CAGAGAGCACCAACCTGCTAATAAT
* *
51438411 TAGAGAGCACCAACCTGCTAATAGT
1 CAGAGAGCACCAACCTGCTAATAAT
* *
51438436 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACCAACCTGCTAATAAT
51438461 CAGAGAGC
1 CAGAGAGC
51438469 GCGCTAAAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
24 17 0.35
25 31 0.65
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (25 bp):
CAGAGAGCACCAACCTGCTAATAAT
Found at i:51439297 original size:12 final size:13
Alignment explanation
Indices: 51439280--51439311 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
51439270 AATTTCCATC
51439280 AATTCAAT-CACT
1 AATTCAATCCACT
51439292 AATTC-ATCCACT
1 AATTCAATCCACT
51439304 AATTCAAT
1 AATTCAAT
51439312 ATAAACTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 14 0.78
13 2 0.11
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTCAATCCACT
Found at i:51439610 original size:8 final size:8
Alignment explanation
Indices: 51439573--51439604 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
51439563 TGTTTTATAT
51439573 ATATAATA
1 ATATAATA
*
51439581 ATATAACA
1 ATATAATA
51439589 ATATAATA
1 ATATAATA
51439597 ATATAATA
1 ATATAATA
51439605 TAATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (8 bp):
ATATAATA
Found at i:51439610 original size:16 final size:17
Alignment explanation
Indices: 51439569--51439610 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
51439559 CTTTTGTTTT
51439569 ATATATATAATAATATA
1 ATATATATAATAATATA
*
51439586 ACA-ATATAATAATATA
1 ATATATATAATAATATA
51439602 ATATA-ATAA
1 ATATATATAA
51439611 CTTACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATATATAATAATATA
Found at i:51442033 original size:19 final size:18
Alignment explanation
Indices: 51441998--51442033 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
51441988 TTACTATGTT
*
51441998 ATTTTATATTATGTTTAA
1 ATTTTATATTATATTTAA
51442016 ATTTTATGATTATATTTA
1 ATTTTAT-ATTATATTTA
51442034 TTAATTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
ATTTTATATTATATTTAA
Found at i:51445466 original size:32 final size:33
Alignment explanation
Indices: 51445410--51445474 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
51445400 CCATGACATT
* *
51445410 CACAGAGTAAGTCTATTAGGATAGTAAACACAG
1 CACAGAGTAACTCGATTAGGATAGTAAACACAG
*
51445443 CACAGAG-AACTCGATTCGGATAGTAAACACAG
1 CACAGAGTAACTCGATTAGGATAGTAAACACAG
51445475 AATAGGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (33 bp):
CACAGAGTAACTCGATTAGGATAGTAAACACAG
Found at i:51447664 original size:21 final size:21
Alignment explanation
Indices: 51447638--51447684 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
51447628 TGAAAGCAGT
* *
51447638 GGTATCGCGAGATCCCTCTTG
1 GGTATCGCGAGATCCCCCTAG
*
51447659 GGTATCGCTAGATCCCCCTAG
1 GGTATCGCGAGATCCCCCTAG
51447680 GGTAT
1 GGTAT
51447685 TGCAATATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (21 bp):
GGTATCGCGAGATCCCCCTAG
Found at i:51454622 original size:22 final size:22
Alignment explanation
Indices: 51454592--51454649 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
51454582 ATGTTGTGAC
51454592 ACAGGACCTGGTGTATCGCAAA
1 ACAGGACCTGGTGTATCGCAAA
* * *
51454614 ATAGGACCTGGTGTATTGCGAA
1 ACAGGACCTGGTGTATCGCAAA
*
51454636 ACAGGACCTTGTGT
1 ACAGGACCTGGTGT
51454650 GTCATGACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (22 bp):
ACAGGACCTGGTGTATCGCAAA
Found at i:51456057 original size:22 final size:23
Alignment explanation
Indices: 51456018--51456060 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
51456008 ATAGAACAAG
51456018 TGAAAAAATCATTAAATTTTCTA
1 TGAAAAAATCATTAAATTTTCTA
*
51456041 TGAAAAACTCATT-AATTTTC
1 TGAAAAAATCATTAAATTTTC
51456061 AGAACAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (23 bp):
TGAAAAAATCATTAAATTTTCTA
Found at i:51471840 original size:26 final size:26
Alignment explanation
Indices: 51471804--51471887 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
51471794 TTTGCCACAT
* *
51471804 ATATTGTTACTGGTAGCTTTGCTGCG
1 ATATTGATACTGGCAGCTTTGCTGCG
* **
51471830 ATATTGATACTAGCAGCTTCACTGCG
1 ATATTGATACTGGCAGCTTTGCTGCG
* *
51471856 ATACT-ATTACTGGCAACTTTGCTGCG
1 ATATTGA-TACTGGCAGCTTTGCTGCG
51471882 ATATTG
1 ATATTG
51471888 GTGTGTAAGC
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
25 1 0.02
26 44 0.98
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (26 bp):
ATATTGATACTGGCAGCTTTGCTGCG
Found at i:51472031 original size:28 final size:28
Alignment explanation
Indices: 51471991--51472045 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
51471981 CACTGTACTA
51471991 TTATTGTATTGGGCTAAGGCCCACACTG
1 TTATTGTATTGGGCTAAGGCCCACACTG
51472019 TTATTGTATTGGGCTAAGGCCCACACT
1 TTATTGTATTGGGCTAAGGCCCACACT
51472046 ATACTGTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (28 bp):
TTATTGTATTGGGCTAAGGCCCACACTG
Found at i:51472054 original size:33 final size:30
Alignment explanation
Indices: 51471981--51472042 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
51471971 TGCATTATTG
*
51471981 CACTGTACTATTATTGTATTGGGCTAAGGCC
1 CACT-TACTGTTATTGTATTGGGCTAAGGCC
51472012 CAC--ACTGTTATTGTATTGGGCTAAGGCC
1 CACTTACTGTTATTGTATTGGGCTAAGGCC
51472040 CAC
1 CAC
51472043 ACTATACTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 27 0.90
31 3 0.10
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (30 bp):
CACTTACTGTTATTGTATTGGGCTAAGGCC
Found at i:51489488 original size:61 final size:61
Alignment explanation
Indices: 51489415--51489536 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
51489405 AGCACACTGC
51489415 AACTGGAAAGGCTATACAGAATACTATTGCAAAAAAATCAGATCAATTTGCTAATAGAAAT
1 AACTGGAAAGGCTATACAGAATACTATTGCAAAAAAATCAGATCAATTTGCTAATAGAAAT
* * * ** * * *
51489476 AACTGGAAAGGCTATATAGAATATTGTTGCAGTAGAATCAGATCATTTTGCTAATGGAAAT
1 AACTGGAAAGGCTATACAGAATACTATTGCAAAAAAATCAGATCAATTTGCTAATAGAAAT
51489537 GCTATAGCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (61 bp):
AACTGGAAAGGCTATACAGAATACTATTGCAAAAAAATCAGATCAATTTGCTAATAGAAAT
Found at i:51492012 original size:68 final size:68
Alignment explanation
Indices: 51491910--51492048 Score: 278
Period size: 68 Copynumber: 2.0 Consensus size: 68
51491900 GTCAAAATTG
51491910 AGTTGGTGGATACTCTTGCTACATGAGTTTGATTTGAAAATTTTGGATAGAAAATGAACTAAAAA
1 AGTTGGTGGATACTCTTGCTACATGAGTTTGATTTGAAAATTTTGGATAGAAAATGAACTAAAAA
51491975 TCA
66 TCA
51491978 AGTTGGTGGATACTCTTGCTACATGAGTTTGATTTGAAAATTTTGGATAGAAAATGAACTAAAAA
1 AGTTGGTGGATACTCTTGCTACATGAGTTTGATTTGAAAATTTTGGATAGAAAATGAACTAAAAA
51492043 TCA
66 TCA
51492046 AGT
1 AGT
51492049 GGCTGGTCAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (68 bp):
AGTTGGTGGATACTCTTGCTACATGAGTTTGATTTGAAAATTTTGGATAGAAAATGAACTAAAAA
TCA
Found at i:51495931 original size:126 final size:126
Alignment explanation
Indices: 51495700--51496031 Score: 435
Period size: 127 Copynumber: 2.6 Consensus size: 126
51495690 GCTTACATAC
* * *
51495700 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCATGCT
1 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTT
* *
51495765 CTTTAGCGGCG-TTTAGAAAGAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAT-AA
66 CTTTAGCGGCGCTTTAGAAAGAAACACCCCTAAAGATCATGTTCTTTAGCGACGCTT-TGAA
51495825 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAAAAACGCCGCTAAAGATCATGT
* *
51495890 TCTTTAGCGGCGCTTTGGAAA-AAACACCGCTAAAGATCATGTTCTTTAGCGACGCTTTGGAA
65 TCTTTAGCGGCGCTTTAGAAAGAAACACCCCTAAAGATCATGTTCTTTAGCGACGCTTT-GAA
* * * * *
51495952 GAAAACGCCT-CTAAA-AGTAATGTTCTATAGCGACGCTTATTAAAAAACGCCGCTAAA-AGT-A
1 AAAAACG-CTGCTAAAGA-TCATGTTCTTTAGCGGCGCTTA-GAAAAAACGCCGCTAAAGA-TCA
51496013 GTGTTCTTTAGCGGCGCTT
62 -TGTTCTTTAGCGGCGCTT
51496032 ATTTCACAAA
Statistics
Matches: 186, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
125 39 0.21
126 71 0.38
127 74 0.40
128 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (126 bp):
AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTT
CTTTAGCGGCGCTTTAGAAAGAAACACCCCTAAAGATCATGTTCTTTAGCGACGCTTTGAA
Found at i:51496034 original size:42 final size:42
Alignment explanation
Indices: 51495700--51496033 Score: 430
Period size: 42 Copynumber: 8.0 Consensus size: 42
51495690 GCTTACATAC
51495700 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-GA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATGA
* * *
51495741 AAAAACGCCGCTAAAGACCATGCTCTTTAGCGGCGTTTA-GA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATGA
* *
51495782 AAGAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTATAA
1 AA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATGA
* *
51495825 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATGA
51495867 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-TGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAT-GA
* *
51495909 AAAAACACCGCTAAAGATCATGTTCTTTAGCGACGCTT-TGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAT-GA
* * * * *
51495951 AGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGACGCTTATTA
1 A-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTATGA
51495994 AAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTAT
1 AAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTAT
51496034 TTCACAAATG
Statistics
Matches: 262, Mismatches: 24, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
41 41 0.16
42 184 0.70
43 36 0.14
44 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATGA
Found at i:51496506 original size:33 final size:33
Alignment explanation
Indices: 51496464--51496541 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
51496454 GCTTCTATTG
51496464 CTGCTTCTCTCGCTGCTTCTCTCGCTGCAACCT
1 CTGCTTCTCTCGCTGCTTCTCTCGCTGCAACCT
**
51496497 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCTTCTCTCGCTGCAACCT
51496530 CTGCTTCTCTCG
1 CTGCTTCTCTCG
51496542 TTGTAGCCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.03, C:0.42, G:0.18, T:0.37
Consensus pattern (33 bp):
CTGCTTCTCTCGCTGCTTCTCTCGCTGCAACCT
Found at i:51496514 original size:12 final size:12
Alignment explanation
Indices: 51496452--51496524 Score: 89
Period size: 12 Copynumber: 6.3 Consensus size: 12
51496442 TTTTGAACCT
* *
51496452 CTGCTTCTATTG
1 CTGCTTCTCTCG
51496464 CTGCTTCTCTCG
1 CTGCTTCTCTCG
51496476 CTGCTTCTCTCG
1 CTGCTTCTCTCG
**
51496488 CTGCAAC-CT--
1 CTGCTTCTCTCG
51496497 CTGCTTCTCTCG
1 CTGCTTCTCTCG
51496509 CTGCTTCTCTCG
1 CTGCTTCTCTCG
51496521 CTGC
1 CTGC
51496525 GGCCTCTGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 2 0.04
12 43 0.83
ACGTcount: A:0.04, C:0.40, G:0.16, T:0.40
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:51496533 original size:21 final size:21
Alignment explanation
Indices: 51496509--51496577 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
51496499 GCTTCTCTCG
*
51496509 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
51496530 CTGCTTCTCTCGTTGTAGCCG
1 CTGCTTCTCTCGCTGCAGCCT
*
51496551 CTGCTTC-CTTCGCTGCCGCCT
1 CTGCTTCTC-TCGCTGCAGCCT
51496572 CTGCTT
1 CTGCTT
51496578 TAAGTTGCTG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 1 0.03
21 38 0.97
ACGTcount: A:0.01, C:0.41, G:0.22, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:51502089 original size:27 final size:27
Alignment explanation
Indices: 51502075--51502217 Score: 268
Period size: 27 Copynumber: 5.3 Consensus size: 27
51502065 TTTAATTTAC
51502075 TTAATTTATGTAAGTTATGTAAGATAT
1 TTAATTTATGTAAGTTATGTAAGATAT
51502102 TTAATTTATGTAAGTTATGTAAGATAT
1 TTAATTTATGTAAGTTATGTAAGATAT
* *
51502129 TTAAGTTATGTAAGTTATGTAAGTTAT
1 TTAATTTATGTAAGTTATGTAAGATAT
51502156 TTAATTTATGTAAGTTATGTAAGATAT
1 TTAATTTATGTAAGTTATGTAAGATAT
51502183 TTAATTTATGTAAGTTATGTAAGATAT
1 TTAATTTATGTAAGTTATGTAAGATAT
51502210 TTAATTTA
1 TTAATTTA
51502218 AATGTTATAA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (27 bp):
TTAATTTATGTAAGTTATGTAAGATAT
Found at i:51502092 original size:9 final size:9
Alignment explanation
Indices: 51502080--51502205 Score: 162
Period size: 9 Copynumber: 14.0 Consensus size: 9
51502070 TTTACTTAAT
51502080 TTATGTAAG
1 TTATGTAAG
51502089 TTATGTAAG
1 TTATGTAAG
* * *
51502098 ATATTTAAT
1 TTATGTAAG
51502107 TTATGTAAG
1 TTATGTAAG
51502116 TTATGTAAG
1 TTATGTAAG
* *
51502125 ATATTTAAG
1 TTATGTAAG
51502134 TTATGTAAG
1 TTATGTAAG
51502143 TTATGTAAG
1 TTATGTAAG
* *
51502152 TTATTTAAT
1 TTATGTAAG
51502161 TTATGTAAG
1 TTATGTAAG
51502170 TTATGTAAG
1 TTATGTAAG
* * *
51502179 ATATTTAAT
1 TTATGTAAG
51502188 TTATGTAAG
1 TTATGTAAG
51502197 TTATGTAAG
1 TTATGTAAG
51502206 ATATTTAATT
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 97 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:51502448 original size:23 final size:24
Alignment explanation
Indices: 51502408--51502468 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
51502398 ATATTAAATT
*
51502408 TAAA-AAATTAATAAAATTTAAGG
1 TAAATAAATTAATAAAATTCAAGG
*
51502431 TAAATAAATT-ATATAATTCAAGG
1 TAAATAAATTAATAAAATTCAAGG
51502454 TAAATAAAATTAATA
1 TAAAT-AAATTAATA
51502469 TTGGAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 20 0.61
24 10 0.30
25 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (24 bp):
TAAATAAATTAATAAAATTCAAGG
Found at i:51502463 original size:28 final size:31
Alignment explanation
Indices: 51502432--51502497 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 31
51502422 AATTTAAGGT
51502432 AAATAA-ATT-ATA-TAATTCAAGGTAAATA
1 AAATAATATTGATATTAATTCAAGGTAAATA
51502460 AAATTAATATTGGAATATTAATTCAAGGTAAATA
1 AAA-TAATATT-G-ATATTAATTCAAGGTAAATA
51502494 AAAT
1 AAAT
51502498 TTTATTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
28 3 0.09
29 3 0.09
30 3 0.09
33 4 0.12
34 19 0.59
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (31 bp):
AAATAATATTGATATTAATTCAAGGTAAATA
Found at i:51502487 original size:34 final size:34
Alignment explanation
Indices: 51502444--51502647 Score: 185
Period size: 34 Copynumber: 5.7 Consensus size: 34
51502434 ATAAATTATA
**
51502444 TAATTCAAGGTAAATAAAATTAATATTGGAATAT
1 TAATTCAAGGTAAATAAAATTAATATCAGAATAT
*
51502478 TAATTCAAGGTAAATAAAATTTTATTAATTAT-ATAAATTAT
1 TAATTCAAGGTAAAT-AAA----ATTAA-TATCA-GAA-TAT
* * *
51502519 ATAAATTTAAAGTAAATAAAATTAATATCATAATAT
1 -T-AATTCAAGGTAAATAAAATTAATATCAGAATAT
** **
51502555 TAATTCAAGGTAAATAAAATTAATAAAATTATAT
1 TAATTCAAGGTAAATAAAATTAATATCAGAATAT
* * *
51502589 AAATTAAAGGTAAATAAAATTAATATCGGAATAT
1 TAATTCAAGGTAAATAAAATTAATATCAGAATAT
*
51502623 AAATTCAAGGTAAATAAAATTAATA
1 TAATTCAAGGTAAATAAAATTAATA
51502648 AAATTATATA
Statistics
Matches: 141, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
34 94 0.67
35 4 0.03
36 3 0.02
37 5 0.04
38 6 0.04
39 5 0.04
40 5 0.04
41 3 0.02
42 4 0.03
43 12 0.09
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.35
Consensus pattern (34 bp):
TAATTCAAGGTAAATAAAATTAATATCAGAATAT
Found at i:51502554 original size:77 final size:75
Alignment explanation
Indices: 51502434--51502845 Score: 455
Period size: 77 Copynumber: 5.3 Consensus size: 75
51502424 TTTAAGGTAA
* * *
51502434 ATAAATTATAT-AATTCAAGGTAAATAAAATTAATATTGGAATATTAATTCAAGGTAAATAAAAT
1 ATAAATTATATAAATTTAAAGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAA-
51502498 TTTATTAATTAT
65 -TTATTAATTAT
**
51502510 ATAAATTATATAAATTTAAAGTAAATAAAATTAATATCATAATATTAATTCAAGGTAAAT-AAA-
1 ATAAATTATATAAATTTAAAGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAAT
51502573 -ATT-A--AT
66 TATTAATTAT
*
51502579 A-AAATTATATAAA-TTAAAGGTAAATAAAATTAATATCGGAATATAAATTCAAGGTAAATAAAA
1 ATAAATTATATAAATTTAAA-GTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAA
*
51502642 TTAATAAAATTAT
65 TT-AT-TAATTAT
*
51502655 ATAAATTATATAAATTTAAGGTAAAATGTAAGGTAAATAAAATTAATACCGGAATATTAATTCAA
1 ATAAATTATATAAA-TT----T---A---AA-GTAAATAAAATTAATATCGGAATATTAATTCAA
*
51502720 GGTAAATAAAATTAATAAAATTAT
54 GGTAAATAAAATT-AT-TAATTAT
* *
51502744 ATAAATTATATAAATTTAAGGTAAATAAAATTAATATCGGAATACTAATTCAAGGTAAATAAAAT
1 ATAAATTATATAAATTTAAAGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAAT
*
51502809 TAATAAAATTAT
66 T-AT-TAATTAT
*
51502821 ATAAATTATATAAATTTAAGGTAAA
1 ATAAATTATATAAATTTAAAGTAAA
51502846 ATTTAAGGTA
Statistics
Matches: 299, Mismatches: 14, Indels: 45
0.84 0.04 0.13
Matches are distributed among these distances:
67 5 0.02
68 49 0.16
69 6 0.02
71 1 0.00
72 5 0.02
74 1 0.00
76 17 0.06
77 135 0.45
78 1 0.00
79 1 0.00
81 1 0.00
83 1 0.00
84 1 0.00
86 1 0.00
88 2 0.01
89 72 0.24
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (75 bp):
ATAAATTATATAAATTTAAAGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAAT
TATTAATTAT
Found at i:51502584 original size:68 final size:69
Alignment explanation
Indices: 51502504--51502661 Score: 259
Period size: 68 Copynumber: 2.3 Consensus size: 69
51502494 AAATTTTATT
* *
51502504 AATT-ATATAAATTATATAAATTTAAA-GTAAATAAAATTAATATCATAATATTAATTCAAGGTA
1 AATTAATA-AAATTATATAAATTTAAAGGTAAATAAAATTAATATCAGAATATAAATTCAAGGTA
51502567 AATAA
65 AATAA
*
51502572 AATTAATAAAATTATATAAA-TTAAAGGTAAATAAAATTAATATCGGAATATAAATTCAAGGTAA
1 AATTAATAAAATTATATAAATTTAAAGGTAAATAAAATTAATATCAGAATATAAATTCAAGGTAA
51502636 ATAA
66 ATAA
51502640 AATTAATAAAATTATATAAATT
1 AATTAATAAAATTATATAAATT
51502662 ATATAAATTT
Statistics
Matches: 84, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
67 5 0.06
68 75 0.89
69 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.35
Consensus pattern (69 bp):
AATTAATAAAATTATATAAATTTAAAGGTAAATAAAATTAATATCAGAATATAAATTCAAGGTAA
ATAA
Found at i:51502657 original size:34 final size:34
Alignment explanation
Indices: 51502504--51502661 Score: 192
Period size: 34 Copynumber: 4.6 Consensus size: 34
51502494 AAATTTTATT
* *
51502504 AATT-ATATAAATTATATAAATTTAAAGTAAATAA
1 AATTAATA-AAATTATATAAATTCAAGGTAAATAA
** * *
51502538 AATTAATATCATAATATTAATTCAAGGTAAATAA
1 AATTAATAAAATTATATAAATTCAAGGTAAATAA
*
51502572 AATTAATAAAATTATATAAATTAAAGGTAAATAA
1 AATTAATAAAATTATATAAATTCAAGGTAAATAA
*****
51502606 AATTAATATCGGAATATAAATTCAAGGTAAATAA
1 AATTAATAAAATTATATAAATTCAAGGTAAATAA
51502640 AATTAATAAAATTATATAAATT
1 AATTAATAAAATTATATAAATT
51502662 ATATAAATTT
Statistics
Matches: 101, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
34 98 0.97
35 3 0.03
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.35
Consensus pattern (34 bp):
AATTAATAAAATTATATAAATTCAAGGTAAATAA
Found at i:51502699 original size:89 final size:87
Alignment explanation
Indices: 51502589--51502877 Score: 438
Period size: 89 Copynumber: 3.4 Consensus size: 87
51502579 AAAATTATAT
51502589 AAATTAAAGGTAAATAAAATTAATATCGGAATATAAATTCAAGGTAAATAAAATTAATAAAATTA
1 AAATT-AAGGTAAATAAAATTAATATCGGAATAT-AATTCAAGGTAAATAAAATTAATAAAATTA
51502654 TATAAATTATATAAATTTAAGGTA
64 TATAAATTATATAAATTTAAGGTA
*
51502678 AAATGTAAGGTAAATAAAATTAATACCGGAATATTAATTCAAGGTAAATAAAATTAATAAAATTA
1 AAAT-TAAGGTAAATAAAATTAATATCGGAATA-TAATTCAAGGTAAATAAAATTAATAAAATTA
51502743 TATAAATTATAT--A---AA--T-
64 TATAAATTATATAAATTTAAGGTA
51502759 ---TTAAGGTAAATAAAATTAATATCGGAATACTAATTCAAGGTAAATAAAATTAATAAAATTAT
1 AAATTAAGGTAAATAAAATTAATATCGGAATA-TAATTCAAGGTAAATAAAATTAATAAAATTAT
51502821 ATAAATTATATAAATTTAAGGTA
65 ATAAATTATATAAATTTAAGGTA
51502844 AAATTTAAGGTAAATAAAATTAATATCGGAATAT
1 AAA-TTAAGGTAAATAAAATTAATATCGGAATAT
51502878 TAAGGTAAAA
Statistics
Matches: 183, Mismatches: 3, Indels: 29
0.85 0.01 0.13
Matches are distributed among these distances:
77 70 0.38
78 1 0.01
79 1 0.01
82 3 0.02
84 3 0.02
87 1 0.01
88 1 0.01
89 101 0.55
90 2 0.01
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (87 bp):
AAATTAAGGTAAATAAAATTAATATCGGAATATAATTCAAGGTAAATAAAATTAATAAAATTATA
TAAATTATATAAATTTAAGGTA
Found at i:51502723 original size:34 final size:34
Alignment explanation
Indices: 51502684--51502813 Score: 125
Period size: 34 Copynumber: 3.6 Consensus size: 34
51502674 GGTAAAATGT
*
51502684 AAGGTAAATAAAATTAATACCGGAATATTAATTC
1 AAGGTAAATAAAATTAATATCGGAATATTAATTC
*** *
51502718 AAGGTAAATAAAATTAATAAAATTATATAAATTATATAAATTT
1 AAGGTAAATAAAA-T--T--AA-TATCGGAA-TAT-T-AATTC
*
51502761 AAGGTAAATAAAATTAATATCGGAATACTAATTC
1 AAGGTAAATAAAATTAATATCGGAATATTAATTC
51502795 AAGGTAAATAAAATTAATA
1 AAGGTAAATAAAATTAATA
51502814 AAATTATATA
Statistics
Matches: 77, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
34 36 0.47
35 2 0.03
36 2 0.03
37 6 0.08
38 2 0.03
39 2 0.03
40 5 0.06
41 3 0.04
42 2 0.03
43 17 0.22
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.32
Consensus pattern (34 bp):
AAGGTAAATAAAATTAATATCGGAATATTAATTC
Found at i:51502799 original size:166 final size:163
Alignment explanation
Indices: 51502434--51502880 Score: 637
Period size: 166 Copynumber: 2.8 Consensus size: 163
51502424 TTTAAGGTAA
*
51502434 ATAAATTATATAATTCAAGGTAAATAAAATTAATATTGGAATATTAATTCAAGGTAAATAAAA-T
1 ATAAATTATATAATT-AAGGTAAATAAAATTAATATCGGAATA-TAATTCAAGGTAAATAAAATT
* **
51502498 --T----TTAT-T-AATTATATAAA-TT-A--TATAAATTTAAAGTAAATAAAATTAATATCATA
64 AATAAAATTATATAAATTATATAAATTTAAGGTA-AAATTTAAGGTAAATAAAATTAATATCGGA
51502551 ATATTAATTCAAGGTAAATAAAATTAATAAAATTAT
128 ATATTAATTCAAGGTAAATAAAATTAATAAAATTAT
51502587 AT-AA--AT-T-A--AAGGTAAATAAAATTAATATCGGAATATAAATTCAAGGTAAATAAAATTA
1 ATAAATTATATAATTAAGGTAAATAAAATTAATATCGGAATAT-AATTCAAGGTAAATAAAATTA
* *
51502645 ATAAAATTATATAAATTATATAAATTTAAGGTAAAATGTAAGGTAAATAAAATTAATACCGGAAT
65 ATAAAATTATATAAATTATATAAATTTAAGGTAAAATTTAAGGTAAATAAAATTAATATCGGAAT
51502710 ATTAATTCAAGGTAAATAAAATTAATAAAATTAT
130 ATTAATTCAAGGTAAATAAAATTAATAAAATTAT
51502744 ATAAATTATATAAATTTAAGGTAAATAAAATTAATATCGGAATACTAATTCAAGGTAAATAAAAT
1 ATAAATTATAT-AA-TTAAGGTAAATAAAATTAATATCGGAATA-TAATTCAAGGTAAATAAAAT
51502809 TAATAAAATTATATAAATTATATAAATTTAAGGTAAAATTTAAGGTAAATAAAATTAATATCGGA
63 TAATAAAATTATATAAATTATATAAATTTAAGGTAAAATTTAAGGTAAATAAAATTAATATCGGA
51502874 ATATTAA
128 ATATTAA
51502881 GGTAAAAGTC
Statistics
Matches: 262, Mismatches: 8, Indels: 35
0.86 0.03 0.11
Matches are distributed among these distances:
144 1 0.00
145 44 0.17
146 1 0.00
148 2 0.01
149 1 0.00
150 2 0.01
152 6 0.02
153 3 0.01
154 11 0.04
155 2 0.01
156 1 0.00
157 63 0.24
158 4 0.02
160 2 0.01
161 1 0.00
163 1 0.00
166 116 0.44
167 1 0.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (163 bp):
ATAAATTATATAATTAAGGTAAATAAAATTAATATCGGAATATAATTCAAGGTAAATAAAATTAA
TAAAATTATATAAATTATATAAATTTAAGGTAAAATTTAAGGTAAATAAAATTAATATCGGAATA
TTAATTCAAGGTAAATAAAATTAATAAAATTAT
Found at i:51502849 original size:12 final size:12
Alignment explanation
Indices: 51502832--51502857 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51502822 TAAATTATAT
51502832 AAATTTAAGGTA
1 AAATTTAAGGTA
51502844 AAATTTAAGGTA
1 AAATTTAAGGTA
51502856 AA
1 AA
51502858 TAAAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (12 bp):
AAATTTAAGGTA
Found at i:51504386 original size:34 final size:34
Alignment explanation
Indices: 51504348--51504424 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
51504338 TCTTCCAGCT
*
51504348 TGCAAAATCTAAATGCAAAATCATTTTTTACGGA
1 TGCAAAATCTAAATGCAAAATCAATTTTTACGGA
51504382 TGCAAAATCTAAATGCAAAATCAATTTTTACGGA
1 TGCAAAATCTAAATGCAAAATCAATTTTTACGGA
*
51504416 TGGAAAATC
1 TGCAAAATC
51504425 ATTTTTTACG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (34 bp):
TGCAAAATCTAAATGCAAAATCAATTTTTACGGA
Found at i:51504424 original size:21 final size:21
Alignment explanation
Indices: 51504398--51504437 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
51504388 ATCTAAATGC
51504398 AAAATCAATTTTTACGGATGG
1 AAAATCAATTTTTACGGATGG
*
51504419 AAAATCATTTTTTACGGAT
1 AAAATCAATTTTTACGGAT
51504438 ACATAGCTTA
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:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
AAAATCAATTTTTACGGATGG
Found at i:51505381 original size:261 final size:261
Alignment explanation
Indices: 51504911--51505727 Score: 1239
Period size: 261 Copynumber: 3.1 Consensus size: 261
51504901 GAGTACAAAT
* *
51504911 GCCACTAATAACACA-GACAAAACGGCATCC-TCATAAGATAACATTAAACATTTTTGCGGCACT
1 GCCACTAATAACA-AGGACAAAACGGCA-CCGTTATAAGATAACATTAAACATTTTTGCGGCGCT
* * * * **
51504974 TCAGCTGAAGCGCCACTAATAAAAATAGGAAACGGCCCCGTTTCCTCAGCTATTAATA-AATATT
64 TTAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAA-ACAATATT
*
51505038 TGTGGCGTTTTTATAATGCGCCACTGAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTA
128 TGTGGCGTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTA
*
51505103 AAGGAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACCTTTTGCGGTGATTTTCAA
193 AAGGAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACCTTTTGCGGCGATTTTCAA
51505168 ATGC
258 ATGC
* *
51505172 GCCACTAATATCAAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGTGGCGCTTT
1 GCCACTAATAACAAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGCGGCGCTTT
51505237 AGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAAACAATATTTGT
66 AGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAAACAATATTTGT
* *
51505302 GGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAAG
131 GGCGTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAG
* * * *
51505367 GAAATTTCTGGCGTTTCTTCGTAAAACACCGGTAATATATCACCTTTTGCGGCGATTTTCAACTA
196 GAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACCTTTTGCGGCGATTTTCAAATG
51505432 C
261 C
* *
51505433 GCCACTAAAAACAAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTGTTGCGGCGCTTT
1 GCCACTAATAACAAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGCGGCGCTTT
* ** *
51505498 AGCTAAAGCGCAACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTGATTTGCGA-ATT
66 AGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGT-A--AACAATATT
*
51505562 TGTGGCGTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTA
128 TGTGGCGTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTA
* * *
51505627 AAGGCAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCA-CTTTTAGCGGCGTTTTTTA
193 AAGGAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACCTTTT-GCGGCGATTTTCA
51505691 AATGC
257 AATGC
* * **
51505696 GCCACTAAAAGAAAACAACAAAACGGCACCGT
1 GCCACTAATA-ACAAGGACAAAACGGCACCGT
51505728 CTTTGTCACA
Statistics
Matches: 509, Mismatches: 39, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
260 4 0.01
261 348 0.68
262 6 0.01
263 131 0.26
264 20 0.04
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (261 bp):
GCCACTAATAACAAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGCGGCGCTTT
AGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAAACAATATTTGT
GGCGTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTTACAGTTAAAG
GAAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACCTTTTGCGGCGATTTTCAAATG
C
Found at i:51505771 original size:115 final size:116
Alignment explanation
Indices: 51505565--51505804 Score: 412
Period size: 115 Copynumber: 2.1 Consensus size: 116
51505555 GCGAATTTGT
51505565 GGCG-TTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAA
1 GGCGTTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAA
* * ** *
51505629 GGCAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGC
66 GGAAATTTGCGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGC
51505680 GGCGTTTTTTA-AATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAA
1 GGCGTTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAA
*
51505744 GGAAATTTGCGGCGTTTCTTCACAAAACGCCGGTAATATATGACCTTTAGC
66 GGAAATTTGCGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGC
51505795 GGCGTTTTTT
1 GGCGTTTTTT
51505805 CTGAAGCGCC
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
115 112 0.95
116 6 0.05
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (116 bp):
GGCGTTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAA
GGAAATTTGCGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGC
Found at i:51506289 original size:14 final size:13
Alignment explanation
Indices: 51506243--51506323 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 13
51506233 ATATATACCA
51506243 TAAACCTTAAA-TC
1 TAAACC-TAAACTC
*
51506256 TTAAATCCTAAACCC
1 -TAAA-CCTAAACTC
*
51506271 CAAACCTAAAACTC
1 TAAACCT-AAACTC
*
51506285 TAAACTCTAAACTG
1 TAAAC-CTAAACTC
51506299 TAAACCCTAAAC-C
1 TAAA-CCTAAACTC
51506312 ATAAACCTAAAC
1 -TAAACCTAAAC
51506324 CATATTTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
13 10 0.18
14 39 0.71
15 6 0.11
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (13 bp):
TAAACCTAAACTC
Found at i:51506296 original size:21 final size:20
Alignment explanation
Indices: 51506243--51506322 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 20
51506233 ATATATACCA
* * *
51506243 TAAACCTTAAATCTTAAATCC
1 TAAACC-TAAACCTAAAACCC
* *
51506264 TAAACCCCAAACCTAAAACTC
1 TAAA-CCTAAACCTAAAACCC
*
51506285 TAAACTCTAAA-CTGTAAACCC
1 TAAAC-CTAAACCT-AAAACCC
51506306 TAAACCATAAACCTAAA
1 TAAACC-TAAACCTAAA
51506323 CCATATTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
20 4 0.09
21 37 0.82
22 4 0.09
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAACCTAAACCTAAAACCC
Found at i:51517069 original size:15 final size:15
Alignment explanation
Indices: 51517049--51517080 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51517039 ACTTTTAAAG
51517049 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
51517064 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
51517079 AA
1 AA
51517081 GAATCTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:51517404 original size:27 final size:27
Alignment explanation
Indices: 51517366--51517419 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
51517356 AAGTGAAGGC
51517366 CATAATTTGAATATGTCTTCTGCAATT
1 CATAATTTGAATATGTCTTCTGCAATT
*
51517393 CATAATTTGAATATGTCTTTTGCAATT
1 CATAATTTGAATATGTCTTCTGCAATT
51517420 AACTCATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (27 bp):
CATAATTTGAATATGTCTTCTGCAATT
Found at i:51517612 original size:44 final size:44
Alignment explanation
Indices: 51517504--51517593 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
51517494 TAATTGTAAT
* * * * *
51517504 TTAAATTCTAATTATTTTTAAATGTGTATTTATCACAACTTCTA
1 TTAAATTATAACTATTTTTAAATATATAATTATCACAACTTCTA
*
51517548 TTAAATTATAACTATTTTTAAATATATAATTATCACAACTTTTA
1 TTAAATTATAACTATTTTTAAATATATAATTATCACAACTTCTA
51517592 TT
1 TT
51517594 TTATTTAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (44 bp):
TTAAATTATAACTATTTTTAAATATATAATTATCACAACTTCTA
Found at i:51525636 original size:23 final size:23
Alignment explanation
Indices: 51525602--51525652 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
51525592 TGAGTATTTA
*
51525602 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
51525625 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
51525648 AGTAA
1 TGTAA
51525653 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:51528449 original size:24 final size:25
Alignment explanation
Indices: 51528417--51528463 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
51528407 GTGTATATGC
51528417 ATGTCATAAAATTTATGA-TATAAGT
1 ATGTCATAAAA-TTATGATTATAAGT
*
51528442 ATGT-ATAATATTATGATTATAA
1 ATGTCATAAAATTATGATTATAA
51528464 TTATACTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (25 bp):
ATGTCATAAAATTATGATTATAAGT
Found at i:51529622 original size:30 final size:30
Alignment explanation
Indices: 51529584--51529666 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
51529574 GAGAATATAA
* * *
51529584 TGCTCACACAAGCTGATAGTATATCAGGGCT
1 TGCTCACACAAGCTGACAGTATAACAGAG-T
* *
51529615 T-CTCACACAGGCTGACATTATAACAGAGT
1 TGCTCACACAAGCTGACAGTATAACAGAGT
* *
51529644 TGCTCACACAAGCTAACATTATA
1 TGCTCACACAAGCTGACAGTATA
51529667 TTGAGACTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 2 0.05
30 41 0.93
31 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (30 bp):
TGCTCACACAAGCTGACAGTATAACAGAGT
Found at i:51550769 original size:7 final size:7
Alignment explanation
Indices: 51550759--51550860 Score: 204
Period size: 7 Copynumber: 14.6 Consensus size: 7
51550749 TTAGTATTTA
51550759 GTATTAT
1 GTATTAT
51550766 GTATTAT
1 GTATTAT
51550773 GTATTAT
1 GTATTAT
51550780 GTATTAT
1 GTATTAT
51550787 GTATTAT
1 GTATTAT
51550794 GTATTAT
1 GTATTAT
51550801 GTATTAT
1 GTATTAT
51550808 GTATTAT
1 GTATTAT
51550815 GTATTAT
1 GTATTAT
51550822 GTATTAT
1 GTATTAT
51550829 GTATTAT
1 GTATTAT
51550836 GTATTAT
1 GTATTAT
51550843 GTATTAT
1 GTATTAT
51550850 GTATTAT
1 GTATTAT
51550857 GTAT
1 GTAT
51550861 ATAACTAATA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 95 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTAT
Found at i:51551538 original size:18 final size:18
Alignment explanation
Indices: 51551502--51551544 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
51551492 TGCCAGGTGC
*
51551502 GTATCCTAGCCCCTTTAT
1 GTATCCTAGACCCTTTAT
51551520 GTATCCTA-ACCCTTATAT
1 GTATCCTAGACCCTT-TAT
*
51551538 GTTTCCT
1 GTATCCT
51551545 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.19, C:0.30, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAGACCCTTTAT
Found at i:51551810 original size:21 final size:21
Alignment explanation
Indices: 51551786--51551826 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51551776 CCAACACCGA
*
51551786 CAACCAGAATCCC-CGCCGGAG
1 CAACCACAA-CCCTCGCCGGAG
51551807 CAACCACAACCCTCGCCGGA
1 CAACCACAACCCTCGCCGGA
51551827 AGCTGGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.29, C:0.46, G:0.20, T:0.05
Consensus pattern (21 bp):
CAACCACAACCCTCGCCGGAG
Found at i:51552614 original size:96 final size:94
Alignment explanation
Indices: 51552445--51552723 Score: 312
Period size: 94 Copynumber: 2.9 Consensus size: 94
51552435 ACTTACCCTA
* * * *
51552445 AACCCCAAATCCTAATTTATTTGAGTTTTTACTT-AAAATCCTAAACACTTAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAA-
*
51552509 TTTTTAAAAATCTATAATTAATTTAATCAAGT
64 TTTTAAAAAAT-TATAATTAATTTAATCAAGT
* * * *
51552541 AACCCTGAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACTCTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAATT
* * *
51552606 TTAAAAAA-AATTAATTAAATTACTCAAGT
66 TTAAAAAATTA-TAATTAATTTAATCAAGT
* * ** ** *
51552635 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAACAATAAACAGGAAA-CCTAATCCAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTT-AAAAACCCTAAACACTAAACCCTAATCTAAT
*
51552699 TTTGAAAAATTATAATTAATTTAAT
65 TTTAAAAAATTATAATTAATTTAAT
51552724 TGACAAACCC
Statistics
Matches: 153, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
93 1 0.01
94 75 0.49
95 31 0.20
96 46 0.30
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.37
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAATT
TTAAAAAATTATAATTAATTTAATCAAGT
Found at i:51554322 original size:22 final size:21
Alignment explanation
Indices: 51554292--51554332 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
51554282 GATGATTTAT
51554292 AAATATCAAAAATTTAAATAG
1 AAATATCAAAAATTTAAATAG
**
51554313 AAATAATCAATTATTTAAAT
1 AAAT-ATCAAAAATTTAAAT
51554333 TAGTCTAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATATCAAAAATTTAAATAG
Found at i:51567875 original size:16 final size:17
Alignment explanation
Indices: 51567854--51567887 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
51567844 AATAATAACG
51567854 GCAAAAGCAT-AATTTT
1 GCAAAAGCATGAATTTT
*
51567870 GCAAAAGTATGAATTTT
1 GCAAAAGCATGAATTTT
51567887 G
1 G
51567888 GATTGAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (17 bp):
GCAAAAGCATGAATTTT
Found at i:51568469 original size:27 final size:27
Alignment explanation
Indices: 51568439--51568493 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
51568429 GTTCAATGGG
*
51568439 TATGAAAAGGGAAGTAACGATAAGTGT
1 TATGAAAAGGGAAGGAACGATAAGTGT
*
51568466 TATGAAAAGGGAAGGAACGGTAAGTGT
1 TATGAAAAGGGAAGGAACGATAAGTGT
51568493 T
1 T
51568494 CCAATGGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.33, T:0.22
Consensus pattern (27 bp):
TATGAAAAGGGAAGGAACGATAAGTGT
Found at i:51571038 original size:32 final size:32
Alignment explanation
Indices: 51571002--51571216 Score: 179
Period size: 32 Copynumber: 6.7 Consensus size: 32
51570992 GCTGCGATAC
*
51571002 TACTGATGGCTTTGTGCCGGTCATAGTA-TCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACT-GT
* * *
51571034 TACTGATGGCTTTGTGTCGATCATATTACTAT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * * *
51571066 TACCGATGGCTGTGTGCTGATCAT-TTCACTGT
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* * ** *
51571098 TACAGATGGCTGTGTGCCGATCATAACACTGC
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
*
51571130 TACTGATGGCTTTGTGCCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
* *
51571162 TACTGATGG-TTGTGTGTCGATCATA-TCACTGC
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACTGT
* * *
51571194 TATTGATGGCTTTATGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
51571217 CATTATTGTA
Statistics
Matches: 148, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
31 5 0.03
32 140 0.95
33 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACTGT
Found at i:51571082 original size:64 final size:62
Alignment explanation
Indices: 51570999--51571216 Score: 204
Period size: 64 Copynumber: 3.4 Consensus size: 62
51570989 TTTGCTGCGA
* * *
51570999 TACTACTGATGGCTTTGTGCCGGTCATAGTATCGTTACTGATGGCTTTGTGTCGATCATATTAC
1 TACTACCGATGGCTTTGTGCCGATCAT-GTA-CGTTACTGATGGCTTTGTGTCGATCATATCAC
* * * * * * * *
51571063 TATTACCGATGGCTGTGTGCTGATCATTTCACTGTTACAGATGGCTGTGTGCCGATCATAACAC
1 TACTACCGATGGCTTTGTGCCGATCATGT-AC-GTTACTGATGGCTTTGTGTCGATCATATCAC
* *
51571127 TGCTACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGATGG-TTGTGTGTCGATCATATCAC
1 TACTACCGATGGCTTTGTGCCGATCATG-TA-CGTTACTGATGGCTT-TGTGTCGATCATATCAC
* ** * *
51571191 TGCTATTGATGGCTTTATGCCAATCA
1 TACTACCGATGGCTTTGTGCCGATCA
51571217 CATTATTGTA
Statistics
Matches: 125, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
63 3 0.02
64 120 0.96
65 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (62 bp):
TACTACCGATGGCTTTGTGCCGATCATGTACGTTACTGATGGCTTTGTGTCGATCATATCAC
Found at i:51579609 original size:22 final size:21
Alignment explanation
Indices: 51579578--51579636 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
51579568 TTAATTATTT
*
51579578 AATTATGGTTTGTGGTTAATTA
1 AATTAGGGTTT-TGGTTAATTA
*
51579600 AATTAGGGTTTAAT-GTTTATTA
1 AATTAGGGTTT--TGGTTAATTA
51579622 AATTAGGGTTTTGGT
1 AATTAGGGTTTTGGT
51579637 GGTTTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.03
21 2 0.06
22 28 0.88
23 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (21 bp):
AATTAGGGTTTTGGTTAATTA
Found at i:51579816 original size:29 final size:29
Alignment explanation
Indices: 51579783--51579841 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
51579773 TAGTGTTCAG
51579783 GGGTTCTGAAAAAATAATTTTGACAAGAT
1 GGGTTCTGAAAAAATAATTTTGACAAGAT
* *
51579812 GGGTTTTGAAAAAATAATTTTGACGAGAT
1 GGGTTCTGAAAAAATAATTTTGACAAGAT
51579841 G
1 G
51579842 CACTTTGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (29 bp):
GGGTTCTGAAAAAATAATTTTGACAAGAT
Found at i:51579848 original size:29 final size:29
Alignment explanation
Indices: 51579789--51579856 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
51579779 TCAGGGGTTC
***
51579789 TGAAAAAATAATTTTGACAAGATGGGTTT
1 TGAAAAAATAATTTTGACAAGATGCACTT
*
51579818 TGAAAAAATAATTTTGACGAGATGCACTT
1 TGAAAAAATAATTTTGACAAGATGCACTT
*
51579847 TGAGAAAATA
1 TGAAAAAATA
51579857 TCCTAGGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (29 bp):
TGAAAAAATAATTTTGACAAGATGCACTT
Found at i:51586143 original size:139 final size:139
Alignment explanation
Indices: 51585893--51586166 Score: 476
Period size: 139 Copynumber: 2.0 Consensus size: 139
51585883 TGTTGATGCG
* *
51585893 TTTTAATTTTAACCAGCGTACAGCCATGTCTATGAGTATTTACCCATGGGAAATGGGGAAAGCAT
1 TTTTAATTTTAACCAGCGTACAACCATGTCTATGAGTATTTACCCATGGGAAATCGGGAAAGCAT
51585958 CTTGTTTCTGTGCATGCATGTTAGCGATGTGCTAAATGAATGCTACAATTTTCCAAAGTTGCGCC
66 CTTGTTTCTGTGCATGCATGTTAGCGATGTGCTAAATGAATGCTACAATTTTCCAAAGTTGCGCC
51586023 TTTTCGTCA
131 TTTTCGTCA
* * *
51586032 TTTTATTTTTAACCAGTGTACAACCATGTCTATGTGTATTTACCCATGGGAAATCGGGAAAGCAT
1 TTTTAATTTTAACCAGCGTACAACCATGTCTATGAGTATTTACCCATGGGAAATCGGGAAAGCAT
* * *
51586097 CTTGTTTCTGTGCATGCATGTTAGTGATGTGTTGAATGAATGCTACAATTTTCCAAAGTTGCGCC
66 CTTGTTTCTGTGCATGCATGTTAGCGATGTGCTAAATGAATGCTACAATTTTCCAAAGTTGCGCC
51586162 TTTTC
131 TTTTC
51586167 TTCTTCATTT
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
139 127 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (139 bp):
TTTTAATTTTAACCAGCGTACAACCATGTCTATGAGTATTTACCCATGGGAAATCGGGAAAGCAT
CTTGTTTCTGTGCATGCATGTTAGCGATGTGCTAAATGAATGCTACAATTTTCCAAAGTTGCGCC
TTTTCGTCA
Found at i:51587568 original size:44 final size:44
Alignment explanation
Indices: 51587512--51587601 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
51587502 TTGGTGTAAA
51587512 TACCCATTTGGTCCCTTTCAATTTTGAAAATGAGCAAATTGGTC
1 TACCCATTTGGTCCCTTTCAATTTTGAAAATGAGCAAATTGGTC
51587556 TACCCATTTGGTCCCTTTCAATTTTGAAAATGAGCAAATTGGTC
1 TACCCATTTGGTCCCTTTCAATTTTGAAAATGAGCAAATTGGTC
51587600 TA
1 TA
51587602 TTACAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (44 bp):
TACCCATTTGGTCCCTTTCAATTTTGAAAATGAGCAAATTGGTC
Found at i:51587786 original size:16 final size:16
Alignment explanation
Indices: 51587765--51587795 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51587755 TTGAAAGAGT
51587765 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
51587781 TTTCAAATTTATATG
1 TTTCAAATATATATG
51587796 CTTTGACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:51590735 original size:14 final size:14
Alignment explanation
Indices: 51590713--51590742 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51590703 AACATAATAG
51590713 ATTAATAAATATTT
1 ATTAATAAATATTT
*
51590727 ATTATTAAATATTT
1 ATTAATAAATATTT
51590741 AT
1 AT
51590743 AAATTGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTAATAAATATTT
Found at i:51590817 original size:18 final size:16
Alignment explanation
Indices: 51590794--51590847 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 16
51590784 ATTTTCAATA
51590794 AATATTAAGAATATTATT
1 AATATTAA-AAT-TTATT
51590812 AATATTTAAAATTGTTATT
1 AATA-TTAAAA-T-TTATT
*
51590831 AATGTTAAAATTTATT
1 AATATTAAAATTTATT
51590847 A
1 A
51590848 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 6 0.19
17 1 0.03
18 12 0.38
19 13 0.41
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
AATATTAAAATTTATT
Found at i:51590847 original size:16 final size:19
Alignment explanation
Indices: 51590807--51590842 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51590797 ATTAAGAATA
*
51590807 TTATTAATATTTAAAATTG
1 TTATTAATAGTTAAAATTG
51590826 TTATTAAT-GTTAAAATT
1 TTATTAATAGTTAAAATT
51590843 TATTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TTATTAATAGTTAAAATTG
Found at i:51591041 original size:114 final size:114
Alignment explanation
Indices: 51590866--51591093 Score: 413
Period size: 114 Copynumber: 2.0 Consensus size: 114
51590856 AAATTGTAGT
*
51590866 TGTGACAAAATTTGTGGACTGAGTGCTCTGTCCTCTGTTGATGCAGTGTCATTCTTTAATGGAAG
1 TGTGACAAAATTTGTGGACTGAGTGCTCTGTCCTCTGTCGATGCAGTGTCATTCTTTAATGGAAG
51590931 AATTTTTGGCTTCTCACTCGACAGATTTACAGCAACGGCCTATGAATTGC
66 AATTTTTGGCTTCTCACTCGACAGATTTACAG-AACGGCCTATGAATTGC
* *
51590981 TGTGACAAAATTTGTGG-CTGAGTTCTCTGTCCTCTGTCGGTGCAGTGTCATTCTTTAATGGAAG
1 TGTGACAAAATTTGTGGACTGAGTGCTCTGTCCTCTGTCGATGCAGTGTCATTCTTTAATGGAAG
51591045 AATTTTTGGCTTCTCACTCGACAGATTTACAGAACGGCCTATGAATTGC
66 AATTTTTGGCTTCTCACTCGACAGATTTACAGAACGGCCTATGAATTGC
51591094 AAGCTGTGAT
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
113 17 0.15
114 76 0.69
115 17 0.15
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (114 bp):
TGTGACAAAATTTGTGGACTGAGTGCTCTGTCCTCTGTCGATGCAGTGTCATTCTTTAATGGAAG
AATTTTTGGCTTCTCACTCGACAGATTTACAGAACGGCCTATGAATTGC
Found at i:51612302 original size:23 final size:22
Alignment explanation
Indices: 51612266--51612313 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
51612256 TTTTGGGTTT
* *
51612266 TTTGTTTAATTTCTTTGAAATTC
1 TTTGTTAAAGTTCTTT-AAATTC
51612289 TTTGTTAAAGTTCTTTAAATTC
1 TTTGTTAAAGTTCTTTAAATTC
51612311 TTT
1 TTT
51612314 TTGATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (22 bp):
TTTGTTAAAGTTCTTTAAATTC
Found at i:51634037 original size:32 final size:33
Alignment explanation
Indices: 51633966--51634039 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 33
51633956 AGACTAACCC
51633966 GAAAATA-AAGCAAATAAAAAAGAGATTGCAAA
1 GAAAATAGAAGCAAATAAAAAAGAGATTGCAAA
* *
51633998 GAGAAATAGAAG-AAATTAAAAGAGAGATTG-AGA
1 GA-AAATAGAAGCAAA-TAAAAAAGAGATTGCAAA
51634031 GAAAATAGA
1 GAAAATAGA
51634040 GAGGGAGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
32 9 0.24
33 12 0.32
34 16 0.43
ACGTcount: A:0.62, C:0.03, G:0.22, T:0.14
Consensus pattern (33 bp):
GAAAATAGAAGCAAATAAAAAAGAGATTGCAAA
Found at i:51645442 original size:19 final size:21
Alignment explanation
Indices: 51645406--51645445 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
51645396 GCTGGTTAGA
51645406 TTAAAAAAATATACAAAAATT
1 TTAAAAAAATATACAAAAATT
51645427 TTAAAAAAATA-A-AAAAATT
1 TTAAAAAAATATACAAAAATT
51645446 CGATTCAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 1 0.05
21 11 0.58
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (21 bp):
TTAAAAAAATATACAAAAATT
Found at i:51651377 original size:21 final size:21
Alignment explanation
Indices: 51651351--51651402 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
51651341 TTGAAATAGT
51651351 ATGTTTAAGTGTGTTTGAATG
1 ATGTTTAAGTGTGTTTGAATG
51651372 ATGTTTAAGTGTGTTTGAATG
1 ATGTTTAAGTGTGTTTGAATG
51651393 ATGTTTAAGT
1 ATGTTTAAGT
51651403 CCATTGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
ATGTTTAAGTGTGTTTGAATG
Found at i:51651411 original size:20 final size:21
Alignment explanation
Indices: 51651351--51651412 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
51651341 TTGAAATAGT
***
51651351 ATGTTTAAGTGTGTTTGAATG
1 ATGTTTAAGTGCCATTGAATG
***
51651372 ATGTTTAAGTGTGTTTGAATG
1 ATGTTTAAGTGCCATTGAATG
51651393 ATGTTTAAGT-CCATTGAATG
1 ATGTTTAAGTGCCATTGAATG
51651413 TGTGCACAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 7 0.18
21 31 0.82
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (21 bp):
ATGTTTAAGTGCCATTGAATG
Found at i:51653220 original size:14 final size:15
Alignment explanation
Indices: 51653193--51653225 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
51653183 TCATTAAATA
51653193 TATCAAATTACAATT
1 TATCAAATTACAATT
*
51653208 TATCATATT-CAATT
1 TATCAAATTACAATT
51653222 TATC
1 TATC
51653226 GGTCAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (15 bp):
TATCAAATTACAATT
Found at i:51654099 original size:10 final size:10
Alignment explanation
Indices: 51654084--51654124 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
51654074 AAAATTAGCC
51654084 TAATTAACTA
1 TAATTAACTA
51654094 TAATTAACTA
1 TAATTAACTA
*
51654104 -AACTTAATTA
1 TAA-TTAACTA
51654114 TAATTAA-TA
1 TAATTAACTA
51654123 TA
1 TA
51654125 GTTAGTGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 6 0.21
10 20 0.71
11 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATTAACTA
Found at i:51658030 original size:68 final size:68
Alignment explanation
Indices: 51657949--51658139 Score: 177
Period size: 68 Copynumber: 2.8 Consensus size: 68
51657939 TTGGTTGCCT
** * * * * **
51657949 TAGCCAATTTATGGTTTTACACATTGTAACCCCATGTTTAATGTCTTGGCGGACTCTATT-TTTT
1 TAGCCAAGCTATGGTCTTACACATTGTAACCCCATGTTTAATGTCTTGACGAACTCAATTAGATT
**
51658013 GTTA
66 -CCA
** * * * * *
51658017 TAGCCAAGCTATGGTCTTACATTTTGTAACCTCATATTTAATTTCCTGATGAACTCAATTAGATT
1 TAGCCAAGCTATGGTCTTACACATTGTAACCCCATGTTTAATGTCTTGACGAACTCAATTAGATT
51658082 CCA
66 CCA
* * * *
51658085 TAGCCGAGCTATGGTCTTACACCTTGTAACCCCATGATTAATGTCTTGACAAACT
1 TAGCCAAGCTATGGTCTTACACATTGTAACCCCATGTTTAATGTCTTGACGAACT
51658140 TTATATGTCG
Statistics
Matches: 95, Mismatches: 27, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
68 93 0.98
69 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (68 bp):
TAGCCAAGCTATGGTCTTACACATTGTAACCCCATGTTTAATGTCTTGACGAACTCAATTAGATT
CCA
Found at i:51667482 original size:2 final size:2
Alignment explanation
Indices: 51667475--51667567 Score: 177
Period size: 2 Copynumber: 46.5 Consensus size: 2
51667465 ATAATCAACT
51667475 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
51667517 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
51667559 TG TG TG TG T
1 TG TG TG TG T
51667568 TAGTTTGGAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.00, C:0.01, G:0.48, T:0.51
Consensus pattern (2 bp):
TG
Found at i:51671465 original size:21 final size:21
Alignment explanation
Indices: 51671419--51671473 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
51671409 TTAATTTATT
51671419 AAATT-TTAATTTTTATAGAC
1 AAATTATTAATTTTTATAGAC
* *
51671439 -ATTTATTAATTTTTATATAC
1 AAATTATTAATTTTTATAGAC
*
51671459 AAATTATTGATTTTT
1 AAATTATTAATTTTT
51671474 TTAATAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 14 0.48
21 12 0.41
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
AAATTATTAATTTTTATAGAC
Found at i:51674825 original size:84 final size:84
Alignment explanation
Indices: 51674684--51674851 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
51674674 TATGGATTAA
*
51674684 ATTGAATACTAGAAGTACTTAATTGATTGGAATTATCTATTTAGATAAAGATAAACCACATTCGG
1 ATTGAATACTAGAAGTACTTAATTGATTGAAATTATCTATTTAGATAAAGATAAACCACATTCGG
51674749 ACTTAAATCGAGGAAAAGC
66 ACTTAAATCGAGGAAAAGC
* *
51674768 ATTGAATACTAGAAGTACTTAATTGCTTGAAATTATCTATTTAGATCAAGATAAACCACATTCGG
1 ATTGAATACTAGAAGTACTTAATTGATTGAAATTATCTATTTAGATAAAGATAAACCACATTCGG
51674833 ACTTAAATCGAGGAAAAGC
66 ACTTAAATCGAGGAAAAGC
51674852 TAAATCTTCG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (84 bp):
ATTGAATACTAGAAGTACTTAATTGATTGAAATTATCTATTTAGATAAAGATAAACCACATTCGG
ACTTAAATCGAGGAAAAGC
Found at i:51678374 original size:26 final size:26
Alignment explanation
Indices: 51678344--51678413 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
51678334 ATACATATTT
51678344 AATTATTTATATTTAACTA-TATAATA
1 AATTATTTATATTT-ACTATTATAATA
* *
51678370 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTACTATTATAATA
51678399 AATTATTTAATATTT
1 AATTATTT-ATATTT
51678414 TTATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 8 0.22
29 17 0.46
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTACTATTATAATA
Found at i:51678383 original size:16 final size:16
Alignment explanation
Indices: 51678362--51678411 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
51678352 ATATTTAACT
51678362 ATATAATAAATTATTA
1 ATATAATAAATTATTA
51678378 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
51678391 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
51678408 ATAT
1 ATAT
51678412 TTTTATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:51678387 original size:29 final size:30
Alignment explanation
Indices: 51678354--51678411 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
51678344 AATTATTTAT
51678354 ATTTAACTA-TATAATAAATTA-TTAATATA
1 ATTT-ACTATTATAATAAATTATTTAATATA
* *
51678383 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTACTATTATAATAAATTATTTAATAT
51678412 TTTTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.60
30 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTACTATTATAATAAATTATTTAATATA
Found at i:51678416 original size:29 final size:30
Alignment explanation
Indices: 51678365--51678430 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
51678355 TTTAACTATA
51678365 TAATAAATTATTAATATAATTTA-TTATTT
1 TAATAAATTATTAATATAATTTATTTATTT
*
51678394 TAATAAATTATTTAATAT-TTTTATTTTATTT
1 TAATAAATTA-TTAATATAATTTA-TTTATTT
51678425 TAATAA
1 TAATAA
51678431 TAAATATCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 14 0.42
30 7 0.21
31 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATAAATTATTAATATAATTTATTTATTT
Found at i:51678442 original size:19 final size:19
Alignment explanation
Indices: 51678420--51678456 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51678410 ATTTTTATTT
*
51678420 TATTTTAATAATAAATATC
1 TATTATAATAATAAATATC
*
51678439 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
51678457 ATTAACAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATAATAATAAATATC
Found at i:51679562 original size:29 final size:28
Alignment explanation
Indices: 51679499--51679562 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
51679489 TCAGTCCATG
* *
51679499 TACTTTTTTTTCAAGAATCTAATTCCTG
1 TACTTTTTTTTCAAGAATCTAATCCCTC
*
51679527 TACTTTTATTTTCAAGAATCTAGTCCCTC
1 TACTTTT-TTTTCAAGAATCTAATCCCTC
51679556 TA-TTTTT
1 TACTTTTT
51679563 CAGATTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 11 0.34
29 20 0.62
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.52
Consensus pattern (28 bp):
TACTTTTTTTTCAAGAATCTAATCCCTC
Found at i:51683985 original size:31 final size:31
Alignment explanation
Indices: 51683947--51684008 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
51683937 ACAGATAGAC
51683947 TTAGACCAATTGATACTTATCTCATTCATAT
1 TTAGACCAATTGATACTTATCTCATTCATAT
51683978 TTAGACCAATTGATACTTATCTCATTCATAT
1 TTAGACCAATTGATACTTATCTCATTCATAT
51684009 CTACGAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (31 bp):
TTAGACCAATTGATACTTATCTCATTCATAT
Found at i:51690927 original size:7 final size:7
Alignment explanation
Indices: 51690917--51690958 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
51690907 AATGAGAAAA
51690917 GAGAAGG
1 GAGAAGG
51690924 GAGAAGG
1 GAGAAGG
51690931 GAGAAGG
1 GAGAAGG
51690938 GAGAAGG
1 GAGAAGG
51690945 GAGAAGG
1 GAGAAGG
51690952 GAGAAGG
1 GAGAAGG
51690959 TTAATGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (7 bp):
GAGAAGG
Found at i:51690934 original size:21 final size:21
Alignment explanation
Indices: 51690910--51690956 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
51690900 AAGGAAAAAT
51690910 GAGAAAAGAGAAGGGAGAAGG
1 GAGAAAAGAGAAGGGAGAAGG
**
51690931 GAGAAGGGAGAAGGGAGAAGG
1 GAGAAAAGAGAAGGGAGAAGG
51690952 GAGAA
1 GAGAA
51690957 GGTTAATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (21 bp):
GAGAAAAGAGAAGGGAGAAGG
Found at i:51691534 original size:10 final size:11
Alignment explanation
Indices: 51691495--51691534 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
51691485 AACTAATCCT
*
51691495 CTCTCAAATTTT
1 CTCTC-AATTTC
51691507 CTCTCAATTTC
1 CTCTCAATTTC
51691518 CTCTCAATTTC
1 CTCTCAATTTC
51691529 CT-TCAA
1 CTCTCAA
51691535 AAATTCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 4 0.15
11 18 0.67
12 5 0.19
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:51691646 original size:12 final size:12
Alignment explanation
Indices: 51691610--51691637 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
51691600 CCCTTTTTTT
51691610 AAATAATTTTAA
1 AAATAATTTTAA
51691622 AAATAATTTTAA
1 AAATAATTTTAA
51691634 AAAT
1 AAAT
51691638 TTTTTTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAATAATTTTAA
Found at i:51692756 original size:7 final size:7
Alignment explanation
Indices: 51692746--51692770 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51692736 AGTCGATTGA
51692746 TATTTAG
1 TATTTAG
51692753 TATTTAG
1 TATTTAG
51692760 TATTTAG
1 TATTTAG
51692767 TATT
1 TATT
51692771 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:51693448 original size:18 final size:18
Alignment explanation
Indices: 51693421--51693460 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
51693411 CAGGTGCGTT
*
51693421 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
51693439 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
51693457 TCCT
1 TCCT
51693461 TTTCCCAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:51693953 original size:9 final size:9
Alignment explanation
Indices: 51693939--51693993 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
51693929 AAATAGAAAT
*
51693939 TTTTTAATA
1 TTTTGAATA
*
51693948 TTTTTAATA
1 TTTTGAATA
51693957 TTTTGAATA
1 TTTTGAATA
51693966 TTTTGAATA
1 TTTTGAATA
51693975 TTTTGAATA
1 TTTTGAATA
51693984 TTTTG-ATA
1 TTTTGAATA
51693992 TT
1 TT
51693994 ATTTGAGAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
8 5 0.11
9 40 0.89
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (9 bp):
TTTTGAATA
Found at i:51694059 original size:21 final size:22
Alignment explanation
Indices: 51694032--51694087 Score: 96
Period size: 21 Copynumber: 2.5 Consensus size: 22
51694022 CCTTAACTTA
51694032 AAAACCCTAACCTAATTAAATT
1 AAAACCCTAACCTAATTAAATT
51694054 -AAACCCTAACCTAATTAAATT
1 AAAACCCTAACCTAATTAAATT
51694075 AAAAACCCTAACC
1 -AAAACCCTAACC
51694088 CTTAAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 21 0.66
23 11 0.34
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAACCCTAACCTAATTAAATT
Found at i:51694092 original size:21 final size:22
Alignment explanation
Indices: 51694024--51694095 Score: 87
Period size: 21 Copynumber: 3.3 Consensus size: 22
51694014 ATTAATACCC
*
51694024 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACC-AA
51694047 TTAAATT--AAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACC-AA
*
51694068 TTAAATTAAAAACCCTAACC-C
1 TTAAATTAAAAACCCTAACCAA
51694089 TTAAATT
1 TTAAATT
51694096 TTGTATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 28 0.62
23 17 0.38
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (22 bp):
TTAAATTAAAAACCCTAACCAA
Found at i:51694156 original size:12 final size:12
Alignment explanation
Indices: 51694139--51694163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51694129 AGTAATTTCG
51694139 GGTCGGTTAACC
1 GGTCGGTTAACC
51694151 GGTCGGTTAACC
1 GGTCGGTTAACC
51694163 G
1 G
51694164 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:51695855 original size:117 final size:116
Alignment explanation
Indices: 51695611--51695855 Score: 402
Period size: 117 Copynumber: 2.1 Consensus size: 116
51695601 TAAGTTTGTG
**
51695611 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATAATTAGTAAAAATTATCAAATTATATAAAATTATTAA
** *
51695676 TTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TTGTTAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
*
51695727 AAATTATTAATTGATAAATTGTATTATTAATTAGT-AAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATAATTAGTAAAAATTATCAAATTATATAAAATTATTAA
*
51695791 TTGTTAGTACCAGGAAAAAAATATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTTAGTACCA-G-AAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
51695844 AAATTATTAATT
1 AAATTATTAATT
51695856 TCGTTTAGGG
Statistics
Matches: 120, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
115 41 0.34
116 33 0.28
117 46 0.38
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.40
Consensus pattern (116 bp):
AAATTATTAATTGATAAATTGTATTAATAATTAGTAAAAATTATCAAATTATATAAAATTATTAA
TTGTTAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:51695936 original size:44 final size:43
Alignment explanation
Indices: 51695860--51696114 Score: 282
Period size: 44 Copynumber: 5.8 Consensus size: 43
51695850 TTAATTTCGT
*
51695860 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAAGGG
*
51695904 TTAGGGTTTTTTAAGTTAA-AGGTTTAGTGTTTTTAAGTTAAGGG
1 TTAGGG-TTTTTAAGTTAATAGG-TTAGGGTTTTTAAGTTAAGGG
* *
51695948 TTAGGGTTTTTAATTTAATTAGCTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAAGGG
* * *
51695992 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAA--GGG
* * * * *
51696038 TTAAGATTTTTAAGTTAA-GGGTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAA--GGG
* *
51696082 TTAGGATTTTTAAGTTAA-GGGTTAGGGTTTTTA
1 TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTA
51696115 TTTTTGGTTA
Statistics
Matches: 192, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
43 14 0.07
44 148 0.77
45 13 0.07
46 17 0.09
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (43 bp):
TTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGGG
Found at i:51695975 original size:67 final size:66
Alignment explanation
Indices: 51695860--51696114 Score: 322
Period size: 67 Copynumber: 3.9 Consensus size: 66
51695850 TTAATTTCGT
*
51695860 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTTAAGTTAA
1 TTAGGGTTTTTAATTTAA-TAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGG-TTTTTAAGTT-A
*
51695923 AGGT
63 AGGG
* * * * *
51695927 TTAGTGTTTTTAAGTTAA-GGGTTAGGGTTTTTAATTTAATTAGCTTAGGGTTTTTAAGTTAAGG
1 TTAGGGTTTTTAATTTAATAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGG
51695991 G
66 G
* * *
51695992 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAAGATTTTTAAGTTAAG
1 TTAGGGTTTTTAATTTAA-TAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAG
51696057 GG
65 GG
* *
51696059 TTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAAGTTAA--GGGTTAGGGTTTTTA
1 TTAGGGTTTTTAATTTAA-TAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTA
51696115 TTTTTGGTTA
Statistics
Matches: 166, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
65 51 0.31
66 10 0.06
67 105 0.63
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (66 bp):
TTAGGGTTTTTAATTTAATAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGG
G
Found at i:51696048 original size:111 final size:109
Alignment explanation
Indices: 51695860--51696114 Score: 361
Period size: 111 Copynumber: 2.3 Consensus size: 109
51695850 TTAATTTCGT
* * *
51695860 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTTAAGTTAAAG
1 TTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTTAAGTTAAAG
* *
51695925 GTTTAGTGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTAGC
64 GTTAAGTATTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTAGC
* *
51695971 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGG-TTTTTAATTTAATT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTTTTTAAGTTAA--
*
51696035 AGGTTAAG-ATTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTAGG
62 AGGTTAAGTATTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTAGC
*
51696082 TTAGGATTTTTAAGTTAAGGGTTAGGGTTTTTA
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTA
51696115 TTTTTGGTTA
Statistics
Matches: 131, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
109 19 0.15
110 11 0.08
111 94 0.72
112 7 0.05
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (109 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTTAAGTTAAAGGT
TAAGTATTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTAGC
Found at i:51696202 original size:19 final size:19
Alignment explanation
Indices: 51696151--51696206 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
51696141 ATTTTTGGTT
51696151 AAAAATTACCCGAATTAACCG
1 AAAAA-TACCCGAATT-ACCG
* *
51696172 --AATTAACCGAATTACCG
1 AAAAATACCCGAATTACCG
51696189 AAAAATACCCGAATTACC
1 AAAAATACCCGAATTACC
51696207 CGAATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 16 0.55
ACGTcount: A:0.46, C:0.25, G:0.09, T:0.20
Consensus pattern (19 bp):
AAAAATACCCGAATTACCG
Found at i:51696208 original size:9 final size:9
Alignment explanation
Indices: 51696154--51696212 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
51696144 TTTGGTTAAA
51696154 AATTACCCG
1 AATTACCCG
*
51696163 AATTAACCG
1 AATTACCCG
*
51696172 AATTAACCG
1 AATTACCCG
51696181 AATTA-CCG
1 AATTACCCG
*
51696189 AAAAATACCCG
1 --AATTACCCG
51696200 AATTACCCG
1 AATTACCCG
51696209 AATT
1 AATT
51696213 TTTTTTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
8 3 0.07
9 34 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:51696371 original size:13 final size:13
Alignment explanation
Indices: 51696353--51696382 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
51696343 TTTTAGTTTT
51696353 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
51696366 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
51696379 ATTG
1 ATTG
51696383 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:51698434 original size:124 final size:126
Alignment explanation
Indices: 51698107--51698457 Score: 537
Period size: 128 Copynumber: 2.8 Consensus size: 126
51698097 AACATGCTAT
* * *
51698107 TGTAGAAAAAGCGCGTCCA-TGAGGGCACGATTTTCACAAATTCTTCTCAAATAGCATCCTCCTA
1 TGTAGCAAAAGCGCGTCCACT-AGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTACTA
* *
51698171 GAAGCGATTTTATACTATTTGCTTAGAAATGTCAAAAAAAAAAATTATTTCTTCCATGACCTAC
65 GAAGCGATTTTATACTATTTGCTCAGAAACGTC--AAAAAAAAATTATTTCTTCCATGACCTAC
* * * * * *
51698235 AGTAGCAAAAGCGTGTCCACGAGGGTGTGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
1 TGTAGCAAAAGCGCGTCCACTAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTACTAG
*
51698300 AAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAA-TATTTCTTCCATGACCTAC
66 AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCTAC
51698360 TGTAGCAAAAGCGCGTCCACTAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTACTAG
1 TGTAGCAAAAGCGCGTCCACTAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTACTAG
*
51698424 AAGCGATTTTATACTATTTGATCAGAAACGTCAA
66 AAGCGATTTTATACTATTTGCTCAGAAACGTCAA
51698458 CACGAAATTA
Statistics
Matches: 203, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
124 65 0.32
125 44 0.22
126 9 0.04
128 85 0.42
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (126 bp):
TGTAGCAAAAGCGCGTCCACTAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTACTAG
AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCTAC
Found at i:51700542 original size:39 final size:39
Alignment explanation
Indices: 51700499--51700590 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
51700489 TGTACTCTTC
* *
51700499 GTTTTTGTTTTCATTTTAG-TGAAATTATATTTGCCCATG
1 GTTTTT-TTATCATCTTAGATGAAATTATATTTGCCCATG
* *
51700538 G-TTTTTTATCCTCTTCGATGAAATTATATTTGCCCATG
1 GTTTTTTTATCATCTTAGATGAAATTATATTTGCCCATG
*
51700576 G-TTTTTTATCCTCTT
1 GTTTTTTTATCATCTT
51700591 CGGGATTTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
37 8 0.17
38 39 0.81
39 1 0.02
ACGTcount: A:0.18, C:0.15, G:0.13, T:0.53
Consensus pattern (39 bp):
GTTTTTTTATCATCTTAGATGAAATTATATTTGCCCATG
Found at i:51700561 original size:38 final size:38
Alignment explanation
Indices: 51700518--51700592 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
51700508 TTCATTTTAG
51700518 TGAAATTATATTTGCCCATGGTTTTTTATCCTCTTCGA
1 TGAAATTATATTTGCCCATGGTTTTTTATCCTCTTCGA
51700556 TGAAATTATATTTGCCCATGGTTTTTTATCCTCTTCG
1 TGAAATTATATTTGCCCATGGTTTTTTATCCTCTTCG
51700593 GGATTTAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (38 bp):
TGAAATTATATTTGCCCATGGTTTTTTATCCTCTTCGA
Done.