Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 228 of 332
Found at i:75756228 original size:43 final size:43
Alignment explanation
Indices: 75756125--75756280 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
75756115 TGTGAATATA
* * *
75756125 TGTAAGACCATGTCTAGAACATTGGCATCATTATGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTACG
* *
75756168 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTACG
* * * *
75756211 TGTAAGACCATAG-CTGGG-CTATCGGCATCGATATGTGATAACA
1 TGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTTATGTGATTACG
* *
75756254 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
75756281 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 6 0.06
43 88 0.93
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTACG
Found at i:75760402 original size:40 final size:40
Alignment explanation
Indices: 75760170--75760395 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
75760160 TTGAATGATG
* * * *
75760170 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
75760210 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
75760250 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
75760290 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
75760330 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
75760371 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
75760396 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 158 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:75765381 original size:24 final size:24
Alignment explanation
Indices: 75765336--75765381 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
75765326 CTTATCTCAC
*
75765336 ATTTTTTTCAAAGACGATTTGGTT
1 ATTTTTTTCAAAGACGAGTTGGTT
**
75765360 ATTTTTTTCAAAGTGGAGTTGG
1 ATTTTTTTCAAAGACGAGTTGG
75765382 AACAAGCCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.48
Consensus pattern (24 bp):
ATTTTTTTCAAAGACGAGTTGGTT
Found at i:75766760 original size:44 final size:44
Alignment explanation
Indices: 75766697--75766786 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
75766687 TAAGTCCAAG
75766697 TCCCTAAAATCGTGCTATCCAACGCACACTGAAGGAATGTGGGT
1 TCCCTAAAATCGTGCTATCCAACGCACACTGAAGGAATGTGGGT
75766741 TCCCTAAAATCGTGCTATCCAACGCACACTGAAGGAATGTGGGT
1 TCCCTAAAATCGTGCTATCCAACGCACACTGAAGGAATGTGGGT
75766785 TC
1 TC
75766787 TTCTGTTTTA
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:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (44 bp):
TCCCTAAAATCGTGCTATCCAACGCACACTGAAGGAATGTGGGT
Found at i:75768515 original size:31 final size:31
Alignment explanation
Indices: 75768479--75768545 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
75768469 TTTTTAAAGT
75768479 TTGTTGGATACTAAAATTTTATATG-TTAAGA
1 TTGTTGGATACTAAAATTTTA-ATGCTTAAGA
** * *
75768510 TTGTTGGATGTTGAAATTTTAATGCTTAAGT
1 TTGTTGGATACTAAAATTTTAATGCTTAAGA
75768541 TTGTT
1 TTGTT
75768546 AAGTATTGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.49
Consensus pattern (31 bp):
TTGTTGGATACTAAAATTTTAATGCTTAAGA
Found at i:75768560 original size:31 final size:32
Alignment explanation
Indices: 75768520--75768593 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
75768510 TTGTTGGATG
*
75768520 TTGAAATTTTAATG-CTTAAGTTTGTT-AAGTA
1 TTGAAATTTTAATGTCTTAAGTTGGTTGAA-TA
* * *
75768551 TTGACATTTTTATGTTTTAAGTTGGTTGAATA
1 TTGAAATTTTAATGTCTTAAGTTGGTTGAATA
*
75768583 TTGAAAATTTA
1 TTGAAATTTTA
75768594 TAAGTTTGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
31 12 0.35
32 20 0.59
33 2 0.06
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (32 bp):
TTGAAATTTTAATGTCTTAAGTTGGTTGAATA
Found at i:75779886 original size:40 final size:40
Alignment explanation
Indices: 75779813--75779889 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
75779803 ACGGTACCTT
* *
75779813 TTGGTGTGTAGGGTTAGATGGGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGGTTAGAAGGGTCGATTATATCCCCATAC
* *
75779853 TTGGTGTGTAGGGTTGGAAGGGTCGATTCTATCCCCA
1 TTGGTGTGTAGGGTTAGAAGGGTCGATTATATCCCCA
75779890 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.35
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTAGAAGGGTCGATTATATCCCCATAC
Found at i:75783759 original size:33 final size:33
Alignment explanation
Indices: 75783680--75783760 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
75783670 TGCATTTTGC
*
75783680 ACTGTACTGATACCGAATAGGGCTTTGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
75783713 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
75783746 ACTGTACTGATACTG
1 ACTGTACTGATACTG
75783761 TGTTATTCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTTTGGCCCAG
Found at i:75789921 original size:28 final size:30
Alignment explanation
Indices: 75789883--75789945 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
75789873 TTGGTTGCAC
* *
75789883 AAAAATAAAAAAT-A-TCAACTTCTGTAAAA
1 AAAAATAAAAAATGATTAAAATT-TGTAAAA
75789912 AAAAAT-AAAAATGATTAAAATTTGTAAAA
1 AAAAATAAAAAATGATTAAAATTTGTAAAA
75789941 AAAAA
1 AAAAA
75789946 ATGTTTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.20
29 19 0.63
30 5 0.17
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (30 bp):
AAAAATAAAAAATGATTAAAATTTGTAAAA
Found at i:75797557 original size:27 final size:27
Alignment explanation
Indices: 75797519--75797573 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
75797509 GTAAAAGAGA
75797519 AAACTTATGTATGAAAAGTCATTGGTT
1 AAACTTATGTATGAAAAGTCATTGGTT
75797546 AAACTTATGTATGAAAAGTCATTGGTT
1 AAACTTATGTATGAAAAGTCATTGGTT
75797573 A
1 A
75797574 TGTACCTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.36
Consensus pattern (27 bp):
AAACTTATGTATGAAAAGTCATTGGTT
Found at i:75800055 original size:27 final size:27
Alignment explanation
Indices: 75800007--75800165 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
75799997 GCGAGGCTGC
* *
75800007 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
75800034 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
75800060 CAGATATATATGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
75800087 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
75800114 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
75800141 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
75800166 GACGCTTCCT
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
26 9 0.08
27 96 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:75800166 original size:54 final size:54
Alignment explanation
Indices: 75800025--75800168 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
75800015 GTGACGAAGT
* * *
75800025 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATATGGCAAAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATATGGCAAAGC
* * *
75800079 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATATGGCAAAGC
75800133 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
75800169 GCTTCCTTCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 79 0.95
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATATGGCAAAGC
Found at i:75800571 original size:8 final size:8
Alignment explanation
Indices: 75800555--75800584 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
75800545 CTCAAAATAC
75800555 CGGCTTTT
1 CGGCTTTT
*
75800563 CGGCATTT
1 CGGCTTTT
75800571 CGGCTTTT
1 CGGCTTTT
75800579 CGGCTT
1 CGGCTT
75800585 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:75801784 original size:26 final size:26
Alignment explanation
Indices: 75801753--75801808 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
75801743 TGAAATGCCC
75801753 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
75801779 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
75801805 ATCA
1 ATCA
75801809 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:75802556 original size:19 final size:19
Alignment explanation
Indices: 75802532--75802569 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
75802522 GAAATGAATA
*
75802532 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
75802551 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
75802570 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:75803754 original size:9 final size:9
Alignment explanation
Indices: 75803725--75803766 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
75803715 AGAGGTTAGG
*
75803725 TTTTTTTCT
1 TTTTTTTAT
*
75803734 TTTTCTTCAT
1 TTTT-TTTAT
75803744 TTTTTTTAT
1 TTTTTTTAT
75803753 TTTTTTTAT
1 TTTTTTTAT
75803762 TTTTT
1 TTTTT
75803767 ATTTTGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:75803763 original size:18 final size:19
Alignment explanation
Indices: 75803725--75803766 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
75803715 AGAGGTTAGG
*
75803725 TTTTTTTCTTTTTCTTCAT
1 TTTTTTTATTTTTCTTCAT
*
75803744 TTTTTTTATTTTT-TTTAT
1 TTTTTTTATTTTTCTTCAT
75803762 TTTTT
1 TTTTT
75803767 ATTTTGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTATTTTTCTTCAT
Found at i:75808663 original size:28 final size:28
Alignment explanation
Indices: 75808623--75808679 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
75808613 TGTAATAGAA
75808623 TATTGTGTACTCTTTTTCCTTCATTAGG
1 TATTGTGTACTCTTTTTCCTTCATTAGG
75808651 TATTGTGTACTCTTTTTCCTTCATTAGG
1 TATTGTGTACTCTTTTTCCTTCATTAGG
75808679 T
1 T
75808680 TTTTTATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.54
Consensus pattern (28 bp):
TATTGTGTACTCTTTTTCCTTCATTAGG
Found at i:75810389 original size:10 final size:9
Alignment explanation
Indices: 75810329--75810389 Score: 56
Period size: 10 Copynumber: 6.6 Consensus size: 9
75810319 AAGAATATAA
75810329 AAAAATTAGT
1 AAAAATTA-T
75810339 AAAAA-TATT
1 AAAAATTA-T
75810348 AAAAA-TAT
1 AAAAATTAT
75810356 AAAAACTTAT
1 AAAAA-TTAT
75810366 AAAAACTTAT
1 AAAAA-TTAT
75810376 -AAAATTATT
1 AAAAATTA-T
75810385 AAAAA
1 AAAAA
75810390 AATAATTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
8 9 0.20
9 15 0.33
10 22 0.48
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:75814589 original size:19 final size:19
Alignment explanation
Indices: 75814561--75814597 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75814551 GTGCATTAGA
*
75814561 ACTTTTTTTTATTTTATAT
1 ACTTTATTTTATTTTATAT
*
75814580 ACTTTATTTTGTTTTATA
1 ACTTTATTTTATTTTATA
75814598 GTTTTTAATC
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:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (19 bp):
ACTTTATTTTATTTTATAT
Found at i:75815267 original size:9 final size:9
Alignment explanation
Indices: 75815251--75815285 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
75815241 TTAATTAAGA
75815251 AATTAATTT
1 AATTAATTT
*
75815260 AGTTAATTT
1 AATTAATTT
*
75815269 AATTAATTA
1 AATTAATTT
75815278 AATTAATT
1 AATTAATT
75815286 GATAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:75817252 original size:100 final size:100
Alignment explanation
Indices: 75817120--75817323 Score: 248
Period size: 100 Copynumber: 2.0 Consensus size: 100
75817110 TTTGGTCGAT
* * * *
75817120 TATAGAAAATCAAATATAATATCACATATGTGCATAACTAT-ATGGCCGAATATGCAAGATCAAA
1 TATACAAAATCAAAAATAATATCACATATGTGCATAACT-TCATGGCAGAATATGCAAAATCAAA
* ** * *
75817184 TTTAACATTAAATATGTACTTACTTATATGGCTGAA
65 TATAACACCAAATATGTACATACTTATATGGCCGAA
* * * * *
75817220 TATACAAATTCAAAAATAATATCACATTTGTGCATACCTTCATGGCAGAATATTCAAAATCCAAT
1 TATACAAAATCAAAAATAATATCACATATGTGCATAACTTCATGGCAGAATATGCAAAATCAAAT
* *
75817285 ATAACACCACATATGTACATACTTATGTGGCCGAA
66 ATAACACCAAATATGTACATACTTATATGGCCGAA
75817320 TATA
1 TATA
75817324 TGCAAGGTCA
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 1 0.01
100 86 0.99
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (100 bp):
TATACAAAATCAAAAATAATATCACATATGTGCATAACTTCATGGCAGAATATGCAAAATCAAAT
ATAACACCAAATATGTACATACTTATATGGCCGAA
Found at i:75817321 original size:50 final size:50
Alignment explanation
Indices: 75817120--75817323 Score: 187
Period size: 50 Copynumber: 4.1 Consensus size: 50
75817110 TTTGGTCGAT
* * *
75817120 TATAGAAAATCAAATATAATATCACATATGTGCATAAC-TATATGGCCGAA
1 TATACAAAATCAAATATAACATCACATATGTACAT-ACTTATATGGCCGAA
* * * * * * *
75817170 TATGCAAGATCAAATTTAACATTAAATATGTACTTACTTATATGGCTGAA
1 TATACAAAATCAAATATAACATCACATATGTACATACTTATATGGCCGAA
* * * * * * *
75817220 TATACAAATTCAAAAATAATATCACATTTGTGCATACCTT-CATGGCAGAA
1 TATACAAAATCAAATATAACATCACATATGTACATA-CTTATATGGCCGAA
* * * *
75817270 TATTCAAAATCCAATATAACACCACATATGTACATACTTATGTGGCCGAA
1 TATACAAAATCAAATATAACATCACATATGTACATACTTATATGGCCGAA
75817320 TATA
1 TATA
75817324 TGCAAGGTCA
Statistics
Matches: 116, Mismatches: 35, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
49 5 0.04
50 108 0.93
51 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (50 bp):
TATACAAAATCAAATATAACATCACATATGTACATACTTATATGGCCGAA
Found at i:75825127 original size:50 final size:48
Alignment explanation
Indices: 75824984--75825153 Score: 155
Period size: 50 Copynumber: 3.5 Consensus size: 48
75824974 CGATTATAGA
*
75824984 AAATT-AAATATAATATCACATATGTGCATAACTATATGGCCGAATATGC
1 AAATTCAAATATAATATCACATATGTGCAT-ACT-TATGGCCGAATATAC
* * * * * * *
75825033 AAGA-TCAAATTTAACATTAAATATGTACTTACTTATGGCTGAATATAC
1 AA-ATTCAAATATAATATCACATATGTGCATACTTATGGCCGAATATAC
* *
75825081 AAATTCAAATATAATATCACATTTGTGCATACCTTCATGGCCGAATATTC
1 AAATTCAAATATAATATCACATATGTGCATA-CTT-ATGGCCGAATATAC
* * * *
75825131 AAAATCCAATATAACACCACATA
1 AAATTCAAATATAATATCACATA
75825154 GGTACAAACC
Statistics
Matches: 94, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
47 1 0.01
48 35 0.37
49 9 0.10
50 49 0.52
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (48 bp):
AAATTCAAATATAATATCACATATGTGCATACTTATGGCCGAATATAC
Found at i:75830068 original size:29 final size:28
Alignment explanation
Indices: 75830004--75830102 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
75829994 TGAATGTGAC
**
75830004 TGGGCCTAACAGGCCATATAAATGTATT
1 TGGGCCTAATGGGCCATATAAATGTATT
75830032 TGGGCCTAATGGGCCATATACAA-GTGATT
1 TGGGCCTAATGGGCCATATA-AATGT-ATT
*
75830061 TGGGCCTAATGGGTCATATGAATATG-A-T
1 TGGGCCTAATGGGCCATAT-AA-ATGTATT
*
75830089 TGGGCTTAATGGGC
1 TGGGCCTAATGGGC
75830103 TAGATACAGG
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
28 33 0.54
29 25 0.41
30 2 0.03
31 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAATGTATT
Found at i:75833660 original size:41 final size:41
Alignment explanation
Indices: 75833615--75833693 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
75833605 ATGATATTTG
75833615 TTATTGATTGTTCTGAATTGTGCGGTAATACTCCATAACCC
1 TTATTGATTGTTCTGAATTGTGCGGTAATACTCCATAACCC
* *
75833656 TTATTGATTGTTCTGAATTGTGCGGTGATACTCTATAA
1 TTATTGATTGTTCTGAATTGTGCGGTAATACTCCATAA
75833694 TCCTAACGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (41 bp):
TTATTGATTGTTCTGAATTGTGCGGTAATACTCCATAACCC
Found at i:75834163 original size:67 final size:67
Alignment explanation
Indices: 75834013--75834166 Score: 168
Period size: 67 Copynumber: 2.3 Consensus size: 67
75834003 TTGAAATAGG
* * * * * *
75834013 GCCACACAG-CCGTGTTCCAGCCCGTGTTTTCACTTGTGTAACTCTCTGAGTTGGGTCACTCGGC
1 GCCACAC-GCCCGTGTCCCAGCCCGTATTCTCACTCGTGTAACTCTCTAAGTTGGGCCACTCGGC
*
75834077 GAA
65 CAA
* * * *
75834080 GCCATAGGCCCATGTCCCAGCTCGTATTCTCACTCGTGTAACTCTCTAAGTTGGGCCACAT-GGC
1 GCCACACGCCCGTGTCCCAGCCCGTATTCTCACTCGTGTAACTCTCTAAGTTGGGCCAC-TCGGC
75834144 CAA
65 CAA
*
75834147 GCTACACGCCCGTGTCCCAG
1 GCCACACGCCCGTGTCCCAG
75834167 GCTATGTAAC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
66 1 0.01
67 68 0.97
68 1 0.01
ACGTcount: A:0.18, C:0.33, G:0.23, T:0.25
Consensus pattern (67 bp):
GCCACACGCCCGTGTCCCAGCCCGTATTCTCACTCGTGTAACTCTCTAAGTTGGGCCACTCGGCC
AA
Found at i:75835072 original size:41 final size:41
Alignment explanation
Indices: 75835001--75835196 Score: 180
Period size: 41 Copynumber: 4.8 Consensus size: 41
75834991 AGGGGTACTA
* * * * *
75835001 AAGTACAAATAGGGGCACATCTATGCAATTCAGTGTTACCG
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGTGGTACCG
* * *
75835042 AAATACAAACAGGGGCACGTATGTGTAATTCA-TGGGTATCG
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGT-GGTACCG
** * **
75835083 AAGTACAAACAAAGGCACGTATGTGCAATTAAAG-GGTATTG
1 AAGTACAAACAGGGGCACGTATGTGCAATT-CAGTGGTACCG
*** * * * *
75835124 AAGTATGGACAGGGGTATGTATGTGCAACTCAGGGGTACCG
1 AAGTACAAACAGGGGCACGTATGTGCAATTCAGTGGTACCG
75835165 AAGTACAAACAGGGGCACGTATGTGCAATTCA
1 AAGTACAAACAGGGGCACGTATGTGCAATTCA
75835197 TCGTTATATT
Statistics
Matches: 120, Mismatches: 31, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
40 3 0.03
41 116 0.97
42 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
AAGTACAAACAGGGGCACGTATGTGCAATTCAGTGGTACCG
Found at i:75837386 original size:23 final size:23
Alignment explanation
Indices: 75837360--75837428 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
75837350 TAAATGGCAT
*
75837360 TCTATTTGGCCTTTGTGGTGTAC
1 TCTATTTGGCCTTTGTGGTATAC
* * *
75837383 TCTA-ATAGCCTTTGTGGTATAT
1 TCTATTTGGCCTTTGTGGTATAC
* *
75837405 TCTATTTGGCCCTTGTGGCATAC
1 TCTATTTGGCCTTTGTGGTATAC
75837428 T
1 T
75837429 TTGATAAGCC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.45
Consensus pattern (23 bp):
TCTATTTGGCCTTTGTGGTATAC
Found at i:75844039 original size:30 final size:30
Alignment explanation
Indices: 75843996--75844054 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
75843986 GGAGGTGAGA
75843996 TGGGAAGGAAGTAAAAATTTTAGGGAGAAAG
1 TGGGAAGGAAGTAAAAA-TTTAGGGAGAAAG
* *
75844027 TGGG-AGGGAGTAAAAATTTAGGGGGAAA
1 TGGGAAGGAAGTAAAAATTTAGGGAGAAA
75844055 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 11 0.42
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTAGGGAGAAAG
Found at i:75845408 original size:3 final size:3
Alignment explanation
Indices: 75845400--75845430 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
75845390 TACATGACTA
75845400 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
75845431 TAATTTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:75848493 original size:28 final size:28
Alignment explanation
Indices: 75848453--75848508 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
75848443 TTTTTGTGGT
*
75848453 TTGAAGAGATTAATTAAAGAAAAATATA
1 TTGAAGAGATTAATAAAAGAAAAATATA
*
75848481 TTGAAGAGATTAATAAAAGTAAAATATA
1 TTGAAGAGATTAATAAAAGAAAAATATA
75848509 CTTTAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (28 bp):
TTGAAGAGATTAATAAAAGAAAAATATA
Found at i:75850055 original size:60 final size:60
Alignment explanation
Indices: 75849983--75850101 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
75849973 CGGCCATATT
* *
75849983 TGGGGTCACACAAGCTTGTCTCTATCACACGGCCATGTAACCCCTGTTGGCACTTTTTAA
1 TGGGGTCACACAAGCTTGTCTCTATCAAACGGCCATGTAACCCCTGTTGACACTTTTTAA
*
75850043 TGGGGTCACACAAGCTTGTCTCTGTCAAACGGCCATGTAACCCCTGTTGACACTTTTTA
1 TGGGGTCACACAAGCTTGTCTCTATCAAACGGCCATGTAACCCCTGTTGACACTTTTTA
75850102 CTCAAAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (60 bp):
TGGGGTCACACAAGCTTGTCTCTATCAAACGGCCATGTAACCCCTGTTGACACTTTTTAA
Found at i:75851379 original size:75 final size:75
Alignment explanation
Indices: 75851286--75851792 Score: 383
Period size: 75 Copynumber: 6.7 Consensus size: 75
75851276 AGAGTTTGCC
* * * * *
75851286 GATTTACGATCACAACCTTTGGCTTTCTAACAGTTCGCTAATTTATGATTACGATTATCATTTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
**
75851351 ACGGTCTGTT
66 ACGGTCTACT
* * * * * * * * * * *
75851361 GAGTTACAATCACGACCTTCGATTTTCTAACAGTTTGCTGATTTACAATTATGAATGTCATTTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
* *
75851426 ATGGTCTATT
66 ACGGTCTACT
* * * * * * * * *
75851436 GATTTATGATCACGATCTTTGGCTTCCTAACAGTTCGTTGATTTAGGCTCACGAC-AGTTATTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTA-TCATTTT
* **
75851500 TACAGTCCGCT
65 TACGGTCTACT
* * * *
75851511 GATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCACGACTATCATTTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
75851576 ACGGT-TCACT
66 ACGGTCT-ACT
* * * * * * * **
75851586 GATTTATGATCATGACCTTAGATTTTCTAACAGTTCACACTAATTTATGATAACGACTGGCATTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTT--CGCTAATTTACGATCACGACTATCATTT
* *
75851651 TTACTGTCCGA-T
64 TTACGGT-CTACT
** * * * * * *
75851663 GATTTTTGATCACGACCTTTAGTTTTCTAGCAGTTCGCTAATTTATGATCATGACTGTTATTTTT
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
*
75851728 ACGAT-TCACT
66 ACGGTCT-ACT
* * * * *
75851738 GATTTACGATCATGACCTTTGGCTTTCTAACAGTTCACTAATTTACAATTACGAC
1 GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGAC
75851793 CTTTTACTCA
Statistics
Matches: 334, Mismatches: 89, Indels: 18
0.76 0.20 0.04
Matches are distributed among these distances:
74 1 0.00
75 273 0.82
76 1 0.00
77 58 0.17
78 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (75 bp):
GATTTACGATCACGACCTTTGGTTTTCTAACAGTTCGCTAATTTACGATCACGACTATCATTTTT
ACGGTCTACT
Found at i:75851407 original size:39 final size:39
Alignment explanation
Indices: 75851286--75851621 Score: 150
Period size: 39 Copynumber: 8.9 Consensus size: 39
75851276 AGAGTTTGCC
* * **
75851286 GATTTACGATCACAACCTTTGGCTTTCTAACAGTTCGCT
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
* * * * * *
75851325 AATTTATGATTACGA-TTATC-ATTTT-T-AC-GGTCTGTT
1 GATTTACGATCACGACCT-TCGATTTTCTAACAGTTC-GCT
* * *
75851361 GAGTTACAATCACGACCTTCGATTTTCTAACAGTTTGCT
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
* * * * * * **
75851400 GATTTACAATTATGA-ATGTC-ATTTT-T-A-TGGTCTATT
1 GATTTACGATCACGACCT-TCGATTTTCTAACAGTTC-GCT
* * * ** * *
75851436 GATTTATGATCACGATCTTTGGCTTCCTAACAGTTCGTT
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
* * * *
75851475 GATTTAGGCTCACGACAGTT--ATTTT-T-ACAGTCCGCT
1 GATTTACGATCACGAC-CTTCGATTTTCTAACAGTTCGCT
*
75851511 GATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCT
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
* *
75851550 GATTTACGATCACGA-CTATC-ATTTT-T-ACGGTTCACT
1 GATTTACGATCACGACCT-TCGATTTTCTAACAGTTCGCT
* * *
75851586 GATTTATGATCATGACCTTAGATTTTCTAACAGTTC
1 GATTTACGATCACGACCTTCGATTTTCTAACAGTTC
75851622 ACACTAATTT
Statistics
Matches: 212, Mismatches: 61, Indels: 48
0.66 0.19 0.15
Matches are distributed among these distances:
35 7 0.03
36 73 0.34
37 25 0.12
38 23 0.11
39 77 0.36
40 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (39 bp):
GATTTACGATCACGACCTTCGATTTTCTAACAGTTCGCT
Found at i:75851466 original size:150 final size:149
Alignment explanation
Indices: 75851286--75851791 Score: 512
Period size: 150 Copynumber: 3.4 Consensus size: 149
75851276 AGAGTTTGCC
* *
75851286 GATTTACGATCACAACCTTTGGCTTTCTAACAGTTCGCTAATTTATGATTACGATTATCATTTTT
1 GATTTACGATCACGACCTTTGGCTTTCTAACAGTTCACTAATTTATGATTACGA-TATCATTTTT
* * * * * * * *
75851351 ACGGTCTGTTGAGTTACAATCACGACCTTCGATTTTCTAACAGTTTGCTGATTTACAATTATGAA
65 ACAGTCCGATGATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCATGAC
* *
75851416 TGTCATTTTTATGG-TCTATT
130 TGTCATTTTTACGGTTC-ACT
* * * ** * * * * * *
75851436 GATTTATGATCACGATCTTTGGCTTCCTAACAGTTCGTTGATTTAGGCTCACGACAGTTATTTTT
1 GATTTACGATCACGACCTTTGGCTTTCTAACAGTTCACTAATTTATGATTACGATA-TCATTTTT
* *
75851501 ACAGTCCGCTGATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCACGAC
65 ACAGTCCGATGATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCATGAC
*
75851566 TATCATTTTTACGGTTCACT
130 TGTCATTTTTACGGTTCACT
* * * ** * **
75851586 GATTTATGATCATGACCTTAGATTTTCTAACAGTTCACACTAATTTATGATAACGACTGGCATTT
1 GATTTACGATCACGACCTTTGGCTTTCTAACAGTT--CACTAATTTATGATTACGA-TATCATTT
* *** * * * *
75851651 TTACTGTCCGATGATTTTTGATCACGACCTT-TAGTTTTCTAGCAGTTCGCTAATTTATGATCAT
63 TTACAGTCCGATGATTTACAATCACGACCTTCGA-TTTTCTAACAGTTCGCTGATTTACGATCAT
* *
75851715 GACTGTTATTTTTACGATTCACT
127 GACTGTCATTTTTACGGTTCACT
* **
75851738 GATTTACGATCATGACCTTTGGCTTTCTAACAGTTCACTAATTTACAATTACGA
1 GATTTACGATCACGACCTTTGGCTTTCTAACAGTTCACTAATTTATGATTACGA
75851792 CCTTTTACTC
Statistics
Matches: 291, Mismatches: 59, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
149 1 0.00
150 167 0.57
151 3 0.01
152 120 0.41
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (149 bp):
GATTTACGATCACGACCTTTGGCTTTCTAACAGTTCACTAATTTATGATTACGATATCATTTTTA
CAGTCCGATGATTTACAATCACGACCTTCGATTTTCTAACAGTTCGCTGATTTACGATCATGACT
GTCATTTTTACGGTTCACT
Found at i:75851524 original size:36 final size:35
Alignment explanation
Indices: 75851465--75851591 Score: 110
Period size: 36 Copynumber: 3.5 Consensus size: 35
75851455 TGGCTTCCTA
* ***
75851465 ACAGTTCGTTGATTTAGGCTCACGACAGTTATTTTT
1 ACAGTTCGCTGATTTACAATCACGACA-TTATTTTT
* *
75851501 ACAGTCCGCTGATTTACAATCACGACCTTCGATTTTCT
1 ACAGTTCGCTGATTTACAATCACGACATT--ATTTT-T
* *
75851539 AACAGTTCGCTGATTTACGATCACGACTATCATTTTT
1 -ACAGTTCGCTGATTTACAATCACGAC-ATTATTTTT
* *
75851576 ACGGTTCACTGATTTA
1 ACAGTTCGCTGATTTA
75851592 TGATCATGAC
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
35 2 0.03
36 35 0.47
37 6 0.08
38 6 0.08
39 24 0.32
40 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (35 bp):
ACAGTTCGCTGATTTACAATCACGACATTATTTTT
Found at i:75851597 original size:36 final size:35
Alignment explanation
Indices: 75851495--75851749 Score: 136
Period size: 36 Copynumber: 6.8 Consensus size: 35
75851485 CACGACAGTT
* * **
75851495 ATTTTTACAGTCCGCTGATTTACAATCACGACCTTC
1 ATTTTTACAGTTCACTGATTTATGATCACGA-CTTC
* *
75851531 GATTTTCTAACAGTTCGCTGATTTACGATCACGACTATC
1 -ATTTT-T-ACAGTTCACTGATTTATGATCACGACT-TC
* * *
75851570 ATTTTTACGGTTCACTGATTTATGATCATGACCTTAG
1 ATTTTTACAGTTCACTGATTTATGATCACGA-CTT-C
* * *
75851607 ATTTTCTAACAGTTCACACTAATTTATGATAACGACTGGC
1 ATTTT-T-ACAGTT--CACTGATTTATGATCACGACT-TC
* * * *
75851647 ATTTTTACTGTCCGA-TGATTTTTGATCACGACCTTT
1 ATTTTTACAGTTC-ACTGATTTATGATCACGA-CTTC
* * * *
75851683 AGTTTTCTAGCAGTTCGCTAATTTATGATCATGACTGTT
1 A-TTTT-TA-CAGTTCACTGATTTATGATCACGACT-TC
*
75851722 ATTTTTAC-GATTCACTGATTTACGATCA
1 ATTTTTACAG-TTCACTGATTTATGATCA
75851750 TGACCTTTGG
Statistics
Matches: 171, Mismatches: 29, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
35 1 0.01
36 53 0.31
37 22 0.13
38 21 0.12
39 51 0.30
40 7 0.04
41 16 0.09
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (35 bp):
ATTTTTACAGTTCACTGATTTATGATCACGACTTC
Found at i:75851905 original size:24 final size:24
Alignment explanation
Indices: 75851862--75851908 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
75851852 TACAATGCAT
*
75851862 TTCGTAGCATTTCAATAAATACAG
1 TTCGTAGCATTTCAACAAATACAG
**
75851886 TTCGTAGCATTTCTGCAAATACA
1 TTCGTAGCATTTCAACAAATACA
75851909 ACTTGCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (24 bp):
TTCGTAGCATTTCAACAAATACAG
Found at i:75852046 original size:21 final size:21
Alignment explanation
Indices: 75852020--75852061 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
75852010 AAGTTTCAAG
75852020 GTAAATATTATATAGTAAGCT
1 GTAAATATTATATAGTAAGCT
75852041 GTAAATATTATATAGTAAGCT
1 GTAAATATTATATAGTAAGCT
75852062 CCAAATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (21 bp):
GTAAATATTATATAGTAAGCT
Found at i:75852067 original size:21 final size:21
Alignment explanation
Indices: 75852022--75852067 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
75852012 GTTTCAAGGT
**
75852022 AAATATTATATAGTAAGCTGT
1 AAATATTATATAGTAAGCTCC
75852043 AAATATTATATAGTAAGCTCC
1 AAATATTATATAGTAAGCTCC
75852064 AAAT
1 AAAT
75852068 TACACGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (21 bp):
AAATATTATATAGTAAGCTCC
Found at i:75857873 original size:16 final size:16
Alignment explanation
Indices: 75857851--75857919 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
75857841 TTTGGTTCGC
75857851 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
75857867 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
75857883 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
75857900 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
75857916 TGTA
1 TGTA
75857920 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:75857897 original size:33 final size:32
Alignment explanation
Indices: 75857851--75857919 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
75857841 TTTGGTTCGC
75857851 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
75857883 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
75857916 TGTA
1 TGTA
75857920 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:75857984 original size:44 final size:45
Alignment explanation
Indices: 75857900--75857990 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
75857890 GGATTAGAGG
* * *
75857900 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
75857945 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
75857989 TG
1 TG
75857991 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:75858351 original size:120 final size:120
Alignment explanation
Indices: 75858138--75858605 Score: 884
Period size: 120 Copynumber: 3.9 Consensus size: 120
75858128 ATCATATTTA
*
75858138 AACATAATTATTATTAAATATATTTTAATTACAA-TATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTA-AACTATATAATTTAAAAAAATTCTTAATAATTA
*
75858202 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
75858258 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
75858323 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
75858378 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
75858443 TATTCTTATATTAATTTACTCAAATCATAATATATGATATTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
75858498 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
75858563 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
75858606 TGATGCTAGT
Statistics
Matches: 342, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
119 2 0.01
120 340 0.99
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:75865646 original size:137 final size:137
Alignment explanation
Indices: 75865451--75865723 Score: 458
Period size: 137 Copynumber: 2.0 Consensus size: 137
75865441 GGCATTAGAC
* * *
75865451 AACTCAAAAACCATTTGCTTAACCAGTTTAAAACATGATCAAATACATTTAAAACATGTCAAAAC
1 AACTCAAAAACCATTTGCTTAACCAGTTCAAAACACGATCAAATACATTCAAAACATGTCAAAAC
*
75865516 AATTATCCTAGGT-TCCTAACCAATGTACGCTCAATGGTACCACATTTATATCATCTATTCATAT
66 AATTATCCTAGGTGT-CTAACCAATGTACGCTCAATGGTACCACAATTATATCATCTATTCATAT
75865580 CATCAAAT
130 CATCAAAT
** *
75865588 AACTCAAAAACTGTTTGTTTAACCAGTTCAAAACACGATCAAATACATTCAAAACATGTCAAAAC
1 AACTCAAAAACCATTTGCTTAACCAGTTCAAAACACGATCAAATACATTCAAAACATGTCAAAAC
*
75865653 AATTATCCTAGGTGTCTAACCAATGTACGCTCATTGGTACCACAATTATATCATCTATTCATATC
66 AATTATCCTAGGTGTCTAACCAATGTACGCTCAATGGTACCACAATTATATCATCTATTCATATC
75865718 ATCAAA
131 ATCAAA
75865724 GTATCATTCA
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
137 126 0.99
138 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (137 bp):
AACTCAAAAACCATTTGCTTAACCAGTTCAAAACACGATCAAATACATTCAAAACATGTCAAAAC
AATTATCCTAGGTGTCTAACCAATGTACGCTCAATGGTACCACAATTATATCATCTATTCATATC
ATCAAAT
Found at i:75866351 original size:28 final size:25
Alignment explanation
Indices: 75866315--75866381 Score: 64
Period size: 28 Copynumber: 2.6 Consensus size: 25
75866305 ACAATGGCAC
*
75866315 TATCTATTCCATATTT-AATTCAACATA
1 TATCAATTCCAT-TTTCAATTC-AC-TA
* *
75866342 TTTCACATTCTATTTTCAATTCACTA
1 TATCA-ATTCCATTTTCAATTCACTA
75866368 TATCAATTCCATTT
1 TATCAATTCCATTT
75866382 CTTATACCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
25 8 0.24
26 6 0.18
27 8 0.24
28 11 0.33
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (25 bp):
TATCAATTCCATTTTCAATTCACTA
Found at i:75867566 original size:14 final size:13
Alignment explanation
Indices: 75867547--75867577 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
75867537 TTTTTTCCCT
75867547 TTTCTTTCTATTTC
1 TTTCTTTCT-TTTC
75867561 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
75867574 TTTC
1 TTTC
75867578 AAATTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:75872224 original size:69 final size:69
Alignment explanation
Indices: 75872130--75872263 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 69
75872120 CTATGACAAT
* *
75872130 TATAAACATAAGACCATAGCAAGGCTATGACAATTGTTCAGATATAAGATCATGGTTGGACCATG
1 TATAAACATAAGACCATAGCAAGGCTATGACAATTGTTCAGACATAAGACCATGGTTGGACCATG
75872195 GCAA
66 GCAA
* ** * * *
75872199 TATATACATAAGACCATAGTGAGGCTATGACAGTTGTTTAGACGTAAGACCATGGTTGGACCATG
1 TATAAACATAAGACCATAGCAAGGCTATGACAATTGTTCAGACATAAGACCATGGTTGGACCATG
75872264 ACAGTGTGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (69 bp):
TATAAACATAAGACCATAGCAAGGCTATGACAATTGTTCAGACATAAGACCATGGTTGGACCATG
GCAA
Found at i:75878850 original size:47 final size:46
Alignment explanation
Indices: 75878782--75879112 Score: 129
Period size: 47 Copynumber: 7.2 Consensus size: 46
75878772 CCTAGACACA
* * * *
75878782 GTCTTATACTGGCTCATATCTCA-AGTCGATGCTGTGTCCCAAACAT
1 GTCTTACACTGACTCATATCTCATAGCCGATGC-ATGTCCCAAACAT
*
75878828 GGTCTTACACTGACT-ATCATCTCATAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGACTCAT-ATCTCATAGCCGATGCATGTCCCAAACAT
* * * * * * ** *
75878875 GTCTTACATTGGCTTACGTAT-TGA-GGTCTTTGCATGTCCCAGACAT
1 GTCTTACACTGAC-T-CATATCTCATAGCCGATGCATGTCCCAAACAT
* * *
75878921 GTCTTACACT-AGC-CCTCGTCTCA-ATGCCGATGCCATGTCCCAGACAT
1 GTCTTACACTGA-CTCAT-ATCTCATA-GCCGATG-CATGTCCCAAACAT
* * *
75878968 GGTCTT--ACT--CTCATA-AT-GTGGCCGATGCATGTCCCAAACAT
1 -GTCTTACACTGACTCATATCTCATAGCCGATGCATGTCCCAAACAT
* * * *
75879009 GTCTTACACT-AGCCCTTGTCTCA-ATGCCGATGCCATGTCCCAGACAT
1 GTCTTACACTGA-CTCATATCTCATA-GCCGATG-CATGTCCCAAACAT
* * * * * *
75879056 GGTCTTACATTGGCTC-TCATAAT-GTGGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGACTCAT-AT-CTCATAGCCGATGCATGTCCCAAACAT
75879103 GTCTTACACT
1 GTCTTACACT
75879113 AGCTCACACA
Statistics
Matches: 215, Mismatches: 43, Indels: 53
0.69 0.14 0.17
Matches are distributed among these distances:
40 5 0.02
41 13 0.06
42 10 0.05
43 3 0.01
44 5 0.02
45 5 0.02
46 64 0.30
47 74 0.34
48 34 0.16
49 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
GTCTTACACTGACTCATATCTCATAGCCGATGCATGTCCCAAACAT
Found at i:75879105 original size:94 final size:94
Alignment explanation
Indices: 75878854--75879115 Score: 380
Period size: 88 Copynumber: 2.9 Consensus size: 94
75878844 TCATCTCATA
* * * * **
75878854 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTATTGAGGTCTTTGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAATGTGGCCGATGCATGTCCCA
75878916 GACATGTCTTACACTAGCCCTCGTCTCAAT
65 GACATGTCTTACACTAGCCCTCGTCTCAAT
*
75878946 GCCGATGCCATGTCCCAGACATGGTCTT--A----CTCTCATAATGTGGCCGATGCATGTCCCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
*
75879005 ACATGTCTTACACTAGCCCTTGTCTCAAT
66 ACATGTCTTACACTAGCCCTCGTCTCAAT
75879034 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
75879099 ACATGTCTTACACTAGC
66 ACATGTCTTACACTAGC
75879116 TCACACACGA
Statistics
Matches: 152, Mismatches: 9, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
88 77 0.51
89 1 0.01
90 1 0.01
92 8 0.05
93 14 0.09
94 51 0.34
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCCCTCGTCTCAAT
Found at i:75890077 original size:43 final size:43
Alignment explanation
Indices: 75890022--75890213 Score: 215
Period size: 43 Copynumber: 4.5 Consensus size: 43
75890012 ATATTGGCAC
* * ** *
75890022 ACATAGTACATCATCGGATAAATTGAAACAATTATACTAGCAT
1 ACATAGTGCATCATCGGATATACCGAAATAATTATACTAGCAT
* * * *
75890065 ATACAGTGCATCATTGGATATACCGAAGTAATTATACTAGCAT
1 ACATAGTGCATCATCGGATATACCGAAATAATTATACTAGCAT
*
75890108 ACATAGTGCATCATTGGATATACC-AAAGTAATTATACTAGCAT
1 ACATAGTGCATCATCGGATATACCGAAA-TAATTATACTAGCAT
* * * * * *
75890151 AGATAGTTCATCATCGGATATACCGAAAAAATTATATTGGCAC
1 ACATAGTGCATCATCGGATATACCGAAATAATTATACTAGCAT
*
75890194 ACATTGTGCATCATCGGATA
1 ACATAGTGCATCATCGGATA
75890214 AACTAAAGTA
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
42 2 0.02
43 120 0.96
44 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (43 bp):
ACATAGTGCATCATCGGATATACCGAAATAATTATACTAGCAT
Found at i:75890141 original size:86 final size:86
Alignment explanation
Indices: 75890018--75890223 Score: 243
Period size: 86 Copynumber: 2.4 Consensus size: 86
75890008 ATTTATATTG
* ** * * *
75890018 GCACACATAGTACATCATCGGATAAATTGAAA-CAATTATACTAGCATATACAGTGCATCATTGG
1 GCACACATAGTGCATCATCGGATAAA-CCAAAGTAATTATACTAGCATAGACAGTGCATCATCGG
**
75890082 ATATACCGAAGTAATTATACTA
65 ATATACCGAAAAAATTATACTA
* * * * *
75890104 GCATACATAGTGCATCATTGGATATACCAAAGTAATTATACTAGCATAGATAGTTCATCATCGGA
1 GCACACATAGTGCATCATCGGATAAACCAAAGTAATTATACTAGCATAGACAGTGCATCATCGGA
* *
75890169 TATACCGAAAAAATTATATTG
66 TATACCGAAAAAATTATACTA
* *
75890190 GCACACATTGTGCATCATCGGATAAACTAAAGTA
1 GCACACATAGTGCATCATCGGATAAACCAAAGTA
75890224 TAACATGTAC
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
85 3 0.03
86 96 0.97
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (86 bp):
GCACACATAGTGCATCATCGGATAAACCAAAGTAATTATACTAGCATAGACAGTGCATCATCGGA
TATACCGAAAAAATTATACTA
Found at i:75890203 original size:129 final size:130
Alignment explanation
Indices: 75889978--75890213 Score: 285
Period size: 129 Copynumber: 1.8 Consensus size: 130
75889968 ATATTGGCAC
* * *
75889978 ACATAGTGCATCATTGGACAAAACCAAAGCATTTATATTGGCACACATAGTACATCATCGGATAA
1 ACATAGTGCATCATTGGACAAAACCAAAGCAATTATACTAGCACACATAGTACATCATCGGATAA
** * * * *
75890043 ATTGAAACAATTATACTAGCATATACAGTGCATCATTGGATATACCGAAGTAATTATACTAGCAT
66 ACCGAAAAAATTATACTAGCACACACAGTGCATCATCGGATATACCGAAGTAATTATACTAGCAT
* * * * * * *
75890108 ACATAGTGCATCATTGGA-TATACCAAAGTAATTATACTAGCATAGATAGTTCATCATCGGATAT
1 ACATAGTGCATCATTGGACAAAACCAAAGCAATTATACTAGCACACATAGTACATCATCGGATAA
* * **
75890172 ACCGAAAAAATTATATTGGCACACATTGTGCATCATCGGATA
66 ACCGAAAAAATTATACTAGCACACACAGTGCATCATCGGATA
75890214 AACTAAAGTA
Statistics
Matches: 86, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
129 68 0.79
130 18 0.21
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (130 bp):
ACATAGTGCATCATTGGACAAAACCAAAGCAATTATACTAGCACACATAGTACATCATCGGATAA
ACCGAAAAAATTATACTAGCACACACAGTGCATCATCGGATATACCGAAGTAATTATACTAGCAT
Found at i:75891181 original size:15 final size:15
Alignment explanation
Indices: 75891163--75891203 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
75891153 TTATAATTAA
75891163 CTTAATTAACCTAAG
1 CTTAATTAACCTAAG
* *
75891178 CTTAGTTAAACTTAAG
1 CTTAATT-AACCTAAG
75891194 CTTAATTAAC
1 CTTAATTAAC
75891204 AATTTTGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (15 bp):
CTTAATTAACCTAAG
Found at i:75892808 original size:27 final size:26
Alignment explanation
Indices: 75892771--75892837 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
75892761 AACATGGCTG
* * *
75892771 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTATGACAAAGCCA
*
75892797 CCAGATACAGATATTATGGCAAAGCCA
1 CCAGA-ACAGATATTATGACAAAGCCA
*
75892824 CTAGAACAGATATT
1 CCAGAACAGATATT
75892838 TGTGGCGTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 14 0.40
27 21 0.60
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTATGACAAAGCCA
Found at i:75892850 original size:27 final size:27
Alignment explanation
Indices: 75892803--75892886 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 27
75892793 GTCACCAGAT
* *
75892803 ACAGATA-TTATGGCAAAGCCACTAGA
1 ACAGATATTTATGGCATAGCCACAAGA
* * *
75892829 ACAGATATTTGTGGCGTAGCCACCAAAA
1 ACAGATATTTATGGCATAGCCA-CAAGA
* *
75892857 ATAGATATTTATGGCATAGCCACCAGA
1 ACAGATATTTATGGCATAGCCACAAGA
75892884 ACA
1 ACA
75892887 CTTCCTCTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
26 7 0.16
27 16 0.36
28 22 0.49
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (27 bp):
ACAGATATTTATGGCATAGCCACAAGA
Found at i:75892885 original size:55 final size:53
Alignment explanation
Indices: 75892771--75892886 Score: 135
Period size: 54 Copynumber: 2.2 Consensus size: 53
75892761 AACATGGCTG
* * *
75892771 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTATGGCAAAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAAAAACAGATATTATGGCAAAGCCA
* * * *
75892824 CTAGAACAGATATTTGTGGC-GTAGCCACCAAAAATAGATATTTATGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCCACCAAAAACAGATA-TTATGGCAAAGCCA
75892879 CCAGAACA
1 CCAGAACA
75892887 CTTCCTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
53 12 0.23
54 20 0.38
55 20 0.38
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAAAAACAGATATTATGGCAAAGCCA
Found at i:75893072 original size:28 final size:27
Alignment explanation
Indices: 75893015--75893074 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
75893005 ATTTTGCACC
*
75893015 TAGGGGTATAATAGTAATTTTTATTCT
1 TAGGGGTATAATAGTAATTTCTATTCT
**
75893042 TAGGGGTATTTTAGTAAATTTACTATT-T
1 TAGGGGTATAATAGT-AATTT-CTATTCT
75893070 TAGGG
1 TAGGG
75893075 TTTTCATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.46
28 11 0.39
29 4 0.14
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (27 bp):
TAGGGGTATAATAGTAATTTCTATTCT
Found at i:75897364 original size:20 final size:20
Alignment explanation
Indices: 75897341--75897390 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
75897331 AAATTCAAAT
**
75897341 TAAAATACTAAAATTTTGGA
1 TAAAATACTAAAATTCAGGA
* *
75897361 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
75897381 TAAGAATACT
1 TAA-AATACT
75897391 GATGTGGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:75905090 original size:21 final size:21
Alignment explanation
Indices: 75905064--75905104 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75905054 ATCTGCTCAA
* *
75905064 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
75905085 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
75905105 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:75912169 original size:48 final size:48
Alignment explanation
Indices: 75912116--75912214 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
75912106 TTTTTCGAGT
*
75912116 GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCATTGTG
1 GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCAGTGTG
*
75912164 GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCCGTGTG
1 GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCAGTGTG
75912212 GTT
1 GTT
75912215 TGCTAGACTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (48 bp):
GTTAGGTTGACTTAGATTTGAAGAGAAGCAATCGCCTAAGGCAGTGTG
Found at i:75913467 original size:18 final size:18
Alignment explanation
Indices: 75913425--75913467 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
75913415 CTTCTATTTG
* *
75913425 CTCCTCTTTAACACCTTG
1 CTCCTCTTTAAAACCTTC
* *
75913443 TTTCTCTTTAAAACCTTC
1 CTCCTCTTTAAAACCTTC
75913461 CTCCTCT
1 CTCCTCT
75913468 AGAAGGTATT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.37, G:0.02, T:0.44
Consensus pattern (18 bp):
CTCCTCTTTAAAACCTTC
Found at i:75914025 original size:24 final size:24
Alignment explanation
Indices: 75913997--75914049 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
75913987 TTAGTAAGTC
* *
75913997 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
75914021 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
75914045 AAATA
1 AAATA
75914050 TTCTAGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:75915975 original size:24 final size:24
Alignment explanation
Indices: 75915947--75915999 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
75915937 TTAGTAAGTC
* *
75915947 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
75915971 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
75915995 AAATA
1 AAATA
75916000 TTTTAGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:75925955 original size:25 final size:25
Alignment explanation
Indices: 75925924--75925981 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
75925914 GCTGTAAACA
* *
75925924 GTAAGCTCATACGAGTTGAATATTG
1 GTAAGCTCATACGAGCTGAATATCG
*
75925949 GTAAGCTCATGCGAGCTGAATATCG
1 GTAAGCTCATACGAGCTGAATATCG
75925974 GTAAGCTC
1 GTAAGCTC
75925982 TCTCAAGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATATCG
Found at i:75926876 original size:21 final size:21
Alignment explanation
Indices: 75926847--75926894 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
75926837 AGAAATGAAA
*
75926847 TTAAATTGTTTTAATTT-CACT
1 TTAATTTGTTTTAATTTCCA-T
75926868 TTAATTTGTTTTAATTTCCAT
1 TTAATTTGTTTTAATTTCCAT
75926889 TTAATT
1 TTAATT
75926895 ATAAAATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.60
Consensus pattern (21 bp):
TTAATTTGTTTTAATTTCCAT
Found at i:75929208 original size:30 final size:31
Alignment explanation
Indices: 75929184--75929242 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
75929174 GTAAATACTC
*
75929184 AAAATTTGAGAGG-CTAA-AGTGTAAATATGA
1 AAAATTTGA-AGGACCAATAGTGTAAATATGA
75929214 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAATAGTGTAAATAT
75929243 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 12 0.46
31 11 0.42
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAATTTGAAGGACCAATAGTGTAAATATGA
Found at i:75929527 original size:14 final size:14
Alignment explanation
Indices: 75929491--75929517 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75929481 GAGATATTTT
75929491 ATTATTTTATTATC
1 ATTATTTTATTATC
75929505 ATTATTTTATTAT
1 ATTATTTTATTAT
75929518 TATTTATTTA
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:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTATTATC
Found at i:75930096 original size:23 final size:22
Alignment explanation
Indices: 75930066--75930109 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
75930056 AAAATTGTAG
75930066 AAATTG-AATTACAAGTTGAATA
1 AAATTGAAATTA-AAGTTGAATA
*
75930088 AAATATGAAATTAAATTTGAAT
1 AAAT-TGAAATTAAAGTTGAAT
75930110 CTAATTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (22 bp):
AAATTGAAATTAAAGTTGAATA
Found at i:75930787 original size:51 final size:51
Alignment explanation
Indices: 75930727--75930841 Score: 178
Period size: 51 Copynumber: 2.3 Consensus size: 51
75930717 AGTTATCCGA
*
75930727 ATGAAATATGAAGCTCTTGTTGAAGCTAGA-AGACCAAAGTAATAATTCCAG
1 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGA-AACAAAGTAATAATTCCAG
* *
75930778 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGAAACAAAGTAATAATTTCGG
1 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGAAACAAAGTAATAATTCCAG
*
75930829 ATGAAGTATGAAG
1 ATGAAATATGAAG
75930842 TAAGTTTGAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (51 bp):
ATGAAATATGAAGCTCTTGTTGAAGCTAGAGAAACAAAGTAATAATTCCAG
Found at i:75932544 original size:31 final size:31
Alignment explanation
Indices: 75932506--75932580 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
75932496 ACGGTTACTA
75932506 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
75932537 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
75932568 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
75932581 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:75932651 original size:42 final size:42
Alignment explanation
Indices: 75932604--75932695 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
75932594 TGGCCCTTAG
* ** *
75932604 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
75932646 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
75932688 GCCCATTT
1 GCCCATTT
75932696 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:75932857 original size:24 final size:24
Alignment explanation
Indices: 75932830--75932913 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
75932820 CTAGAGGCCT
*
75932830 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
* *
75932854 AGCCCTTTCTGATAAACTGGGGCAG
1 AGCCCTTT-TAATAAACTGGGGCAA
** *
75932879 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAA
75932904 AGCCCTTTTA
1 AGCCCTTTTA
75932914 TCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 40 0.77
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:75932882 original size:25 final size:25
Alignment explanation
Indices: 75932846--75932912 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
75932836 TTTTAATAAT
*
75932846 TGGGGCAAAGCCC-TTTCTGATAAAC
1 TGGGGCAGAGCCCTTTTC-GATAAAC
*
75932871 TGGGGCAGAGCCCTTTTCGGTAAAC
1 TGGGGCAGAGCCCTTTTCGATAAAC
75932896 TGGGGCAGAGCCCTTTT
1 TGGGGCAGAGCCCTTTT
75932913 ATCACTTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (25 bp):
TGGGGCAGAGCCCTTTTCGATAAAC
Found at i:75933861 original size:27 final size:27
Alignment explanation
Indices: 75933831--75933939 Score: 80
Period size: 27 Copynumber: 3.9 Consensus size: 27
75933821 GTAAATCTAC
75933831 AAACCAAAGGTATTTTAGTAATTTTGT
1 AAACCAAAGGTATTTTAGTAATTTTGT
* *
75933858 AAACCAATGGTATTCCTA-TAATTTT-T
1 AAACCAAAGGTATT-TTAGTAATTTTGT
* *
75933884 AAAAAAGTCAAGGGTATTTCT-GTAATTTTGT
1 ---AAA-CCAAAGGTATTT-TAGTAATTTTGT
* * *
75933915 AAATCAGAGGTATTTTGGTAATTTT
1 AAACCAAAGGTATTTTAGTAATTTT
75933940 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
26 2 0.03
27 38 0.58
28 5 0.08
29 3 0.05
30 17 0.26
31 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAAAGGTATTTTAGTAATTTTGT
Found at i:75933945 original size:27 final size:26
Alignment explanation
Indices: 75933896--75933991 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 26
75933886 AAAAGTCAAG
*
75933896 GGTATTTCT-GTAATTTTGTAAATCAGA
1 GGTATTT-TGGTAATTTT-CAAATCAGA
*
75933923 GGTATTTTGGTAATTTTACAAAT-TGA
1 GGTATTTTGGTAATTTT-CAAATCAGA
* * *
75933949 GGGTATTTCGGTAATTTCTCAAACCAGT
1 -GGTATTTTGGTAATTT-TCAAATCAGA
75933977 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
75933992 CTATCCTACA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.05
27 52 0.91
28 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTCAAATCAGA
Found at i:75934287 original size:27 final size:27
Alignment explanation
Indices: 75934023--75934276 Score: 330
Period size: 27 Copynumber: 9.4 Consensus size: 27
75934013 GTAATTTCAC
* * *
75934023 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
75934050 AA-CTAAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* * *
75934077 AATCGAGGGTAAAACGATAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
***
75934104 AATCGAGGGTACTTTGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
75934131 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
75934158 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
75934185 AATCGAGGGTAAAATTGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
75934212 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
75934239 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
75934266 AATCGAGGGTA
1 AATCGAGGGTA
75934277 CTTTGGTAAT
Statistics
Matches: 200, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 198 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:75934315 original size:81 final size:81
Alignment explanation
Indices: 75934055--75934287 Score: 378
Period size: 81 Copynumber: 2.9 Consensus size: 81
75934045 TTGTAAACTA
* * *
75934055 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTACTTTG
1 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTG
75934120 GTAATTCTATAAATTG
66 GTAATTCTATAAATTG
* **
75934136 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATT
1 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT-ACTTT
*
75934201 -GTAATTCTATAAATCG
65 GGTAATTCTATAAATTG
*
75934217 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTG
1 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTG
75934282 GTAATT
66 GTAATT
75934288 TTACAATTTA
Statistics
Matches: 139, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
80 3 0.02
81 133 0.96
82 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (81 bp):
AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTG
GTAATTCTATAAATTG
Found at i:75935373 original size:46 final size:46
Alignment explanation
Indices: 75935306--75935552 Score: 316
Period size: 46 Copynumber: 5.3 Consensus size: 46
75935296 GGGTGCTACA
*
75935306 GAAAGATACCATGGCAACATGATATGAAAT-ATGTAAGACCATTGTT
1 GAAAGATACCATGGCAACATGATATGAAATGA-GTAAGACCATGGTT
* * *
75935352 GAAAGATACCATGGCAACATGATATGAAGTGTGTCAGACCATGGTT
1 GAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATGGTT
*
75935398 GAAATATACCATGGCAACATGATATGAAATGAGTAAGACCATGGTT
1 GAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATGGTT
* *** *
75935444 GAAAGACACCATGGCAACATGACGGGGAAATGAATAAGACCATGGTT
1 GAAAGATACCATGGCAACATGA-TATGAAATGAGTAAGACCATGGTT
* ** *
75935491 GAAAGATACCATGGCAACATGACAAAAAATGAGTAAGACCATAGTT
1 GAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATGGTT
* * *
75935537 AAAAGACACTATGGCA
1 GAAAGATACCATGGCA
75935553 TCATATCGAA
Statistics
Matches: 175, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
46 134 0.77
47 41 0.23
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATGGTT
Found at i:75935521 original size:93 final size:92
Alignment explanation
Indices: 75935306--75935552 Score: 325
Period size: 93 Copynumber: 2.7 Consensus size: 92
75935296 GGGTGCTACA
* *
75935306 GAAAGATACCATGGCAACATGATATGAAAT-ATGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 GAAAGATACCATGGCAACATGATATGAAATGA-GTAAGACCATAGTTGAAAGACACCATGGCAAC
* * * ** *
75935370 ATGATATGAAGTGTGTCAGACCATGGTT
65 ATGAGAGGAAATGAATAAGACCATGGTT
* *
75935398 GAAATATACCATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGACACCATGGCAACA
1 GAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACA
*
75935463 TGACGGGGAAATGAATAAGACCATGGTT
66 TGA-GAGGAAATGAATAAGACCATGGTT
* ** * *
75935491 GAAAGATACCATGGCAACATGACAAAAAATGAGTAAGACCATAGTTAAAAGACACTATGGCA
1 GAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCA
75935553 TCATATCGAA
Statistics
Matches: 136, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
92 63 0.46
93 73 0.54
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
GAAAGATACCATGGCAACATGATATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAACA
TGAGAGGAAATGAATAAGACCATGGTT
Found at i:75935670 original size:26 final size:24
Alignment explanation
Indices: 75935640--75935709 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 24
75935630 ACCAGATGAC
*
75935640 AAATGGTTATATGAATTGGTTATACA
1 AAATGGTTATATGAAAT-GTT-TACA
* *
75935666 AAATGGTTGTGTGAAATGTTTACA
1 AAATGGTTATATGAAATGTTTACA
75935690 AGAATTGGTTATATAGAAAT
1 A-AA-TGGTTATAT-GAAAT
75935710 ATATATGTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 5 0.14
25 5 0.14
26 21 0.58
27 5 0.14
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (24 bp):
AAATGGTTATATGAAATGTTTACA
Found at i:75938451 original size:14 final size:14
Alignment explanation
Indices: 75938432--75938458 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75938422 TAATGAGATA
75938432 TTTTATTATTTTAT
1 TTTTATTATTTTAT
75938446 TTTTATTATTTTA
1 TTTTATTATTTTA
75938459 ATATAAAAGG
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTATTTTAT
Found at i:75939730 original size:51 final size:51
Alignment explanation
Indices: 75939654--75939752 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
75939644 AAGTTATCCA
75939654 GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCG
1 GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCG
75939705 GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATT
1 GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATT
75939753 TTGAATGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (51 bp):
GATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCG
Found at i:75939761 original size:51 final size:51
Alignment explanation
Indices: 75939655--75939769 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
75939645 AGTTATCCAG
*
75939655 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCGG
1 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCGA
**
75939706 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTTTGA
1 ATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCGA
*
75939757 ATGAAGTATGAAG
1 ATGAAATATGAAG
75939770 TAAGTTTGAG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (51 bp):
ATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCGA
Found at i:75940660 original size:21 final size:21
Alignment explanation
Indices: 75940636--75940708 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
75940626 CAACATGATA
75940636 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* * * * *
75940657 TGAAATATGCCATGGCAACATGAT
1 TGAAATGTG-TA-AG-ACCATGGT
75940681 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
75940703 TGAAAT
1 TGAAAT
75940709 ATACCATGGC
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
21 14 0.37
22 7 0.18
23 2 0.05
24 7 0.18
25 8 0.21
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:75940686 original size:25 final size:25
Alignment explanation
Indices: 75940611--75940687 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
75940601 AGACCATTGT
* *
75940611 TGAAAGATACCATGGCAACATGATA
1 TGAAATATGCCATGGCAACATGATA
* * * * *
75940636 TGAAATGTG-TA-AG-ACCATGGT-
1 TGAAATATGCCATGGCAACATGATA
75940657 TGAAATATGCCATGGCAACATGATA
1 TGAAATATGCCATGGCAACATGATA
75940682 TGAAAT
1 TGAAAT
75940688 GTGTAAGACC
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
21 8 0.22
22 7 0.19
23 2 0.06
24 7 0.19
25 12 0.33
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (25 bp):
TGAAATATGCCATGGCAACATGATA
Found at i:75940798 original size:47 final size:47
Alignment explanation
Indices: 75940543--75940884 Score: 385
Period size: 46 Copynumber: 7.4 Consensus size: 47
75940533 GCTTTCTAAA
** * * *
75940543 ATGAAATGTGTAAGACAATTGTTGAAAGATACCATGGTAACATGA-T
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACT
* *
75940589 ATGAAAT-ATGTAAGACCATTGTTGAAAGATACCATGGCAACATGA-T
1 ATGAAATGA-ATAAGACCATGGTTGAAAGATACCATGGCAACATGACT
** * *
75940635 ATGAAATGTGTAAGACCATGGTTGAAATATGCCATGGCAACATGA-T
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACT
** * * *
75940681 ATGAAATGTGTAAGACCATGGTTGAAATATACCATGGCAACGTAAC-
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACT
*
75940727 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACG
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACT
** *
75940774 GGGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACATGAC-
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACT
** *
75940820 GGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGAC-
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACT
*
75940867 A-GAAAATGAGTAAGACCA
1 ATG-AAATGAATAAGACCA
75940885 CATGTCGAAG
Statistics
Matches: 269, Mismatches: 22, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
46 185 0.69
47 84 0.31
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (47 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACT
Found at i:75941001 original size:26 final size:24
Alignment explanation
Indices: 75940971--75941040 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 24
75940961 ACCAGATGAC
*
75940971 AAATGGTTATATGAATTGGTTATACA
1 AAATGGTTATATGAAAT-GTT-TACA
* *
75940997 AAATGGTTGTGTGAAATGTTTACA
1 AAATGGTTATATGAAATGTTTACA
75941021 AGAATTGGTTATATAGAAAT
1 A-AA-TGGTTATAT-GAAAT
75941041 ATATATGTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 5 0.14
25 5 0.14
26 21 0.58
27 5 0.14
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (24 bp):
AAATGGTTATATGAAATGTTTACA
Found at i:75943591 original size:19 final size:20
Alignment explanation
Indices: 75943569--75943611 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
75943559 AAATAGATAT
75943569 TTATTTA-AATAATAAATTA
1 TTATTTATAATAATAAATTA
* *
75943588 TTA-TTATAATTATTAATTA
1 TTATTTATAATAATAAATTA
75943607 TTATT
1 TTATT
75943612 AATATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 16 0.80
20 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTTATAATAATAAATTA
Found at i:75943596 original size:16 final size:18
Alignment explanation
Indices: 75943583--75943624 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
75943573 TTAAATAATA
75943583 AATTATTATTATAATTATT
1 AATTATTATTATAATTA-T
75943602 AATTATTATTA-ATATTAT
1 AATTATTATTATA-ATTAT
75943620 -ATTAT
1 AATTAT
75943625 GAAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.23
18 2 0.09
19 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTATTATTATAATTAT
Found at i:75944008 original size:9 final size:9
Alignment explanation
Indices: 75943994--75944019 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
75943984 AAATAGATTT
75943994 TTATTATAG
1 TTATTATAG
75944003 TTATTATAG
1 TTATTATAG
75944012 TTATTATA
1 TTATTATA
75944020 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (9 bp):
TTATTATAG
Found at i:75944103 original size:4 final size:4
Alignment explanation
Indices: 75944096--75944124 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
75944086 GCAGTGGAAG
75944096 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
75944125 GGAGAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:75944865 original size:2 final size:2
Alignment explanation
Indices: 75944860--75944885 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75944850 TATATATATA
75944860 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
75944886 AATGAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:75945448 original size:6 final size:6
Alignment explanation
Indices: 75945425--75945471 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
75945415 TGCCGGATAT
* **
75945425 TGTTAC TATTAC CATTAC TGTTAC TG-TAC TG-TAC TGTTAC TGTTAC
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
75945471 T
1 T
75945472 ATTGTTGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
TGTTAC
Found at i:75945618 original size:19 final size:19
Alignment explanation
Indices: 75945596--75945646 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
75945586 AAAGATCGAC
75945596 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* * *
75945615 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAATTTAAT
75945633 T-TTACTGAATAATT
1 TGTTACTGAATAATT
75945647 GACTGTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 10 0.38
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:75947757 original size:17 final size:17
Alignment explanation
Indices: 75947737--75947770 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
75947727 ATTAGTCCCT
75947737 ATTTCAAAATTGAAAAC
1 ATTTCAAAATTGAAAAC
**
75947754 ATTTTTAAATTGAAAAC
1 ATTTCAAAATTGAAAAC
75947771 CTTTTTAACA
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:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTTCAAAATTGAAAAC
Found at i:75947775 original size:17 final size:17
Alignment explanation
Indices: 75947743--75947778 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
75947733 CCCTATTTCA
75947743 AAATTGAAAACATTTTT
1 AAATTGAAAACATTTTT
*
75947760 AAATTGAAAACCTTTTT
1 AAATTGAAAACATTTTT
75947777 AA
1 AA
75947779 CATTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATTGAAAACATTTTT
Found at i:75948221 original size:18 final size:21
Alignment explanation
Indices: 75948181--75948226 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
75948171 TTTTGGTTGG
*
75948181 TTATTATTACTATCATTATTT
1 TTATTATTACTATAATTATTT
75948202 TTATTATT-CT-TAATTA-TT
1 TTATTATTACTATAATTATTT
75948220 TTATTAT
1 TTATTAT
75948227 GGATTTGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 5 0.21
20 2 0.08
21 8 0.33
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATTATTACTATAATTATTT
Found at i:75948935 original size:7 final size:7
Alignment explanation
Indices: 75948918--75948950 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
75948908 ATTGATTCTT
75948918 AAAAGTTC
1 AAAA-TTC
75948926 AAAATTC
1 AAAATTC
75948933 AAAATTC
1 AAAATTC
75948940 AAAATT-
1 AAAATTC
75948946 AAAAT
1 AAAAT
75948951 AATAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 5 0.20
7 16 0.64
8 4 0.16
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (7 bp):
AAAATTC
Found at i:75949687 original size:13 final size:13
Alignment explanation
Indices: 75949655--75949691 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
75949645 AGCTATATAT
75949655 GTTATTTTTTTAA
1 GTTATTTTTTTAA
*
75949668 -TT-GTTTTTTAA
1 GTTATTTTTTTAA
75949679 GTTATTTTTTTAA
1 GTTATTTTTTTAA
75949692 ATTAGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 8 0.40
12 4 0.20
13 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (13 bp):
GTTATTTTTTTAA
Found at i:75950138 original size:17 final size:18
Alignment explanation
Indices: 75950118--75950153 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
75950108 TTAATTTAAA
75950118 TTTAAAATT-TTTTATTT
1 TTTAAAATTATTTTATTT
75950135 TTTAAAATTATTTTATTT
1 TTTAAAATTATTTTATTT
75950153 T
1 T
75950154 GTTGATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAAAATTATTTTATTT
Found at i:75950764 original size:26 final size:26
Alignment explanation
Indices: 75950735--75950844 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
75950725 TGATACAAAT
75950735 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
75950761 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
75950787 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
75950813 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
75950839 TGATAA
1 TGATAA
75950845 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:75952504 original size:27 final size:27
Alignment explanation
Indices: 75952463--75952575 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
75952453 GAGGAAGCGT
*
75952463 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
75952490 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
75952517 TCTGGTGGCTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACAAATATCT-GA
* * * *
75952545 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
75952571 TCTGG
1 TCTGG
75952576 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:75952568 original size:54 final size:54
Alignment explanation
Indices: 75952461--75952575 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
75952451 TGGAGGAAGC
*
75952461 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * *
75952515 GTTCTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCT-GATCTGGTGACTCTGCCACATATATCT
75952569 GTTCTGG
1 GTTCTGG
75952576 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:75956560 original size:26 final size:26
Alignment explanation
Indices: 75956531--75956640 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
75956521 TGATACAAAT
75956531 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
75956557 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
75956583 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
75956609 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
75956635 TGATAA
1 TGATAA
75956641 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:75958296 original size:27 final size:27
Alignment explanation
Indices: 75958255--75958367 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
75958245 GAGGAAGCGT
*
75958255 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
75958282 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
75958309 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
75958337 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
75958363 TCTGG
1 TCTGG
75958368 CAGTCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:75958360 original size:54 final size:54
Alignment explanation
Indices: 75958253--75958367 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
75958243 TGGAGGAAGC
*
75958253 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
75958307 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
75958361 GTTCTGG
1 GTTCTGG
75958368 CAGTCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:75965437 original size:27 final size:25
Alignment explanation
Indices: 75965381--75965456 Score: 71
Period size: 27 Copynumber: 2.9 Consensus size: 25
75965371 ACAAATTTTC
* * **
75965381 TCAAAATTTTATTGAGGGTAAAATTT
1 TCAAAACTTTACTG-GGGTAAAATCA
75965407 TCAAAACTTTACTGGATGGTAAAATCA
1 TCAAAACTTTACTGG--GGTAAAATCA
* *
75965434 TCAAAATTTTATTGGGGTAAAAT
1 TCAAAACTTTACTGGGGTAAAAT
75965457 TGGGATGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
25 9 0.21
26 12 0.29
27 21 0.50
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (25 bp):
TCAAAACTTTACTGGGGTAAAATCA
Found at i:75967758 original size:42 final size:42
Alignment explanation
Indices: 75967712--75967816 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
75967702 CCGCATGGGA
* * * *
75967712 AGCTTCACTGATAAACAGTTTAACATTTAAGCTTACGTAGAG
1 AGCTTCGCTGATAAACAGCTTAACACTTAAGCTAACGTAGAG
* * * *
75967754 AGCTTTGCTAATACAA-AGCTTATCACTTAAGCTAACGTAGGG
1 AGCTTCGCTGATA-AACAGCTTAACACTTAAGCTAACGTAGAG
*
75967796 AGCTTCGCTGATACACAGCTT
1 AGCTTCGCTGATAAACAGCTT
75967817 GTAAAATCAT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.02
42 47 0.94
43 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (42 bp):
AGCTTCGCTGATAAACAGCTTAACACTTAAGCTAACGTAGAG
Found at i:75975898 original size:26 final size:26
Alignment explanation
Indices: 75975862--75975913 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
75975852 CACAACATAG
*
75975862 CCATAATCTCTATCATTGCGGCTTAA
1 CCATAATCTCTATCATTGCGACTTAA
75975888 CCATAATCTCTATCATTGCGACTTAA
1 CCATAATCTCTATCATTGCGACTTAA
75975914 ACCGTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.35
Consensus pattern (26 bp):
CCATAATCTCTATCATTGCGACTTAA
Found at i:75976102 original size:49 final size:49
Alignment explanation
Indices: 75976037--75976348 Score: 199
Period size: 49 Copynumber: 6.6 Consensus size: 49
75976027 ATCAAAGTCG
* *
75976037 ATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAG-GCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGTGCCA
* * * * * * *
75976086 ATGTCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCA
* * **
75976135 ATGCCATGTCCCAGACAGGTCTTACACTGA----CACATATCA-AGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCA
* * * *
75976179 ATGCCATGTCCCAGAAAGGTCTTACACT-AGCT-TGTATATCTCGAG-GCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATC-AGTGCCA
* * * * *
75976228 ATG-CATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTA--AATGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCAGTGCCA
* * * *
75976274 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATA-AT--GTGGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCAGT-GCCA
*
75976322 ATG-CATGTCCCAGACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
75976349 AGCACGCATA
Statistics
Matches: 209, Mismatches: 39, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 8 0.04
46 16 0.08
47 28 0.13
48 56 0.27
49 71 0.34
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCA
Found at i:75976188 original size:98 final size:96
Alignment explanation
Indices: 75975995--75976171 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 96
75975985 GTCGACGTCA
*
75975995 TGTCCTAGACATGGTCTTATACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTCTT
1 TGTCCTAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTCTT
* *
75976060 ACACTGACTTTCATATATCGAGGCCAATGTCG
66 ACACTGAC-TACATATAGCGAGGCCAATGTCG
** ** *
75976092 TGTCCTAGACA-GGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGACAGGTC
1 TGTCCTAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCGATGCCATGTCCCAGACAAGTC
75976156 TTACACTGAC-ACATAT
64 TTACACTGACTACATAT
75976172 CAAGCTGATG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
96 21 0.30
97 12 0.17
98 38 0.54
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
TGTCCTAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTCTT
ACACTGACTACATATAGCGAGGCCAATGTCG
Found at i:75976204 original size:142 final size:140
Alignment explanation
Indices: 75975993--75976300 Score: 374
Period size: 142 Copynumber: 2.2 Consensus size: 140
75975983 ATGTCGACGT
* * * *
75975993 CATGTCCTAGACATGGTCTTATACTGGCTAGCACATCAAAG-TCGATGCCATGTCCCAGACAAGT
1 CATGTCCCAGACATGGTCTTACACTGAC-A-CATATC-AAGCT-GATGCCATGTCCCAGACAAGT
* * *
75976057 CTTACACT-GACTT-TCATATATCGAGGCCAATGTCGTGTCCTAGACAGGTCTTACACTGGCTCT
62 CTTACACTAG-CTTGT-ATATATCGAGGCCAATG-CATGTCCCAGACAGGTCTTACACTAGCTCT
* *
75976120 CATCTATCAGTGTCGATGC
124 CATCTA--AATGCCGATGC
75976139 CATGTCCCAGACA-GGTCTTACACTGACACATATCAAGCTGATGCCATGTCCCAGA-AAGGTCTT
1 CATGTCCCAGACATGGTCTTACACTGACACATATCAAGCTGATGCCATGTCCCAGACAA-GTCTT
* * * *
75976202 ACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTA
65 ACACTAGCTTGTATATATCGAGGCCAATGCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTA
75976267 AATGCCGATGC
130 AATGCCGATGC
75976278 CATGTCCCAGACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
75976301 TTGGCTCTCA
Statistics
Matches: 144, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
139 22 0.15
140 9 0.06
141 33 0.23
142 47 0.33
143 8 0.06
144 1 0.01
145 12 0.08
146 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTGACACATATCAAGCTGATGCCATGTCCCAGACAAGTCTTA
CACTAGCTTGTATATATCGAGGCCAATGCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTAA
ATGCCGATGC
Found at i:75976329 original size:142 final size:141
Alignment explanation
Indices: 75975993--75976351 Score: 365
Period size: 142 Copynumber: 2.5 Consensus size: 141
75975983 ATGTCGACGT
* * * * *
75975993 CATGTCCTAGACATGGTCTTATACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTC
1 CATGTCCCAGACA-GGTCTTACACTGAC-A-CATATCAAGGTCGATGCCATGTCCCAGA-AAGTC
* * *
75976058 TTACACT-GACTTTCATATATCGAGGCCAATGTCGTGTCCTAGACAGGTCTTACACTGGCTCTCA
62 TTACACTAG-CTTTCATATATCGAGGCCAATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCA
* *
75976122 TCTATCAGTGTCGATGC
126 TCTA-CAATGCCGATGC
*
75976139 CATGTCCCAGACAGGTCTTACACTGACACATATCAAGCT-GATGCCATGTCCCAGAAAGGTCTTA
1 CATGTCCCAGACAGGTCTTACACTGACACATATCAAGGTCGATGCCATGTCCCAGAAA-GTCTTA
* * * *
75976203 CACTAGCTTGT-ATATCTCGAGGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
65 CACTAGCTT-TCATATATCGAGGCCAATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATCT
75976266 A-AATGCCGATGC
129 ACAATGCCGATGC
* * * *
75976278 CATGTCCCAGACATGGTCTTACATTGGCTC-TCAT-AATGTGGTCGATG-CATGTCCCAGACATG
1 CATGTCCCAGACA-GGTCTTACACTGACACAT-ATCAA---GGTCGATGCCATGTCCCAGA-AAG
75976340 TCTTACACTAGC
60 TCTTACACTAGC
75976352 ACGCATATCA
Statistics
Matches: 183, Mismatches: 20, Indels: 24
0.81 0.09 0.11
Matches are distributed among these distances:
139 25 0.14
140 15 0.08
141 33 0.18
142 70 0.38
143 15 0.08
144 1 0.01
145 12 0.07
146 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (141 bp):
CATGTCCCAGACAGGTCTTACACTGACACATATCAAGGTCGATGCCATGTCCCAGAAAGTCTTAC
ACTAGCTTTCATATATCGAGGCCAATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTAC
AATGCCGATGC
Found at i:75976335 original size:94 final size:93
Alignment explanation
Indices: 75976092--75976359 Score: 285
Period size: 94 Copynumber: 2.9 Consensus size: 93
75976082 GCCAATGTCG
* * *
75976092 TGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCAGT-GTCGATGCCATGTCCCAGACAGGTC
1 TGTCCCAGACAGGTCTTACACTGGCTCTCAT-AATC-GTGGTCGATG-CATGTCCCAGACATGTC
* *
75976156 TTACACT-G-ACACATATCAAGCTGATGCCA
63 TTACACTAGCACACATATAAAGCCGATGCCA
* * * * * *
75976185 TGTCCCAGAAAGGTCTTACACTAGCT-TGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCT
1 TGTCCCAGACAGGTCTTACACTGGCTCT-CATA-ATCGTGGTCGATGCATGTCCCAGACATGTCT
* * * *
75976249 TACACTAGCTCTCGTCTAAATGCCGATGCCA
64 TACACTAGCACACATATAAA-GCCGATGCCA
*
75976280 TGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGTCGATGCATGTCCCAGACATGTCTT
1 TGTCCCAGACA-GGTCTTACACTGGCTCTCATAATCGTGGTCGATGCATGTCCCAGACATGTCTT
*
75976344 ACACTAGCACGCATAT
65 ACACTAGCACACATAT
75976360 CACCTAAATG
Statistics
Matches: 141, Mismatches: 26, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
92 25 0.18
93 34 0.24
94 45 0.32
95 20 0.14
96 16 0.11
97 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
TGTCCCAGACAGGTCTTACACTGGCTCTCATAATCGTGGTCGATGCATGTCCCAGACATGTCTTA
CACTAGCACACATATAAAGCCGATGCCA
Found at i:75991485 original size:46 final size:46
Alignment explanation
Indices: 75991428--75991597 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
75991418 GGCATCCGAG
*
75991428 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGATCGAA
* * * * *
75991474 CTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G-ATCGAA
* ** *
75991520 GCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 -CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGATCGAA
*
75991567 CTCGTTAAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75991598 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 56 0.57
47 24 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGATCGAA
Found at i:75991578 original size:93 final size:93
Alignment explanation
Indices: 75991418--75991589 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
75991408 GGAATATTTG
* * ** *
75991418 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCATTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTAAG
75991483 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
75991511 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTAAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTAAG
75991576 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
75991590 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTAAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:75993318 original size:18 final size:18
Alignment explanation
Indices: 75993297--75993333 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
75993287 GATTTTCTAA
75993297 GTTTTTCATAAGTTCTCG
1 GTTTTTCATAAGTTCTCG
*
75993315 GTTTTTCATGAGTTCTCG
1 GTTTTTCATAAGTTCTCG
75993333 G
1 G
75993334 GCGTATGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.49
Consensus pattern (18 bp):
GTTTTTCATAAGTTCTCG
Found at i:75993421 original size:24 final size:24
Alignment explanation
Indices: 75993393--75993443 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
75993383 ATGTGTCGGC
75993393 AAAAGCCAAAATGCCGAAAAGTCG
1 AAAAGCCAAAATGCCGAAAAGTCG
75993417 AAAAGCCAAAATGCCGAAAAGTCG
1 AAAAGCCAAAATGCCGAAAAGTCG
75993441 AAA
1 AAA
75993444 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.08
Consensus pattern (24 bp):
AAAAGCCAAAATGCCGAAAAGTCG
Done.