Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 259 of 352
Found at i:85390282 original size:27 final size:29
Alignment explanation
Indices: 85390250--85390316 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
85390240 TTATTATTAT
*
85390250 TATTTTCTAATAC-TATATTATGT--GTA
1 TATTTTCTAATACGTATATTATGTACATA
* * *
85390276 TATTTTTTCACACGTATATTATGTACATA
1 TATTTTCTAATACGTATATTATGTACATA
85390305 TATTTTCTAATA
1 TATTTTCTAATA
85390317 TTTTACATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 10 0.32
27 10 0.32
29 11 0.35
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (29 bp):
TATTTTCTAATACGTATATTATGTACATA
Found at i:85390446 original size:14 final size:14
Alignment explanation
Indices: 85390429--85390470 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
85390419 TTTTATAATA
85390429 TTTCATGTATATAT
1 TTTCATGTATATAT
*
85390443 TTTCATGCATATAT
1 TTTCATGTATATAT
* *
85390457 TTTCTTTTATATAT
1 TTTCATGTATATAT
85390471 CGTGTACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (14 bp):
TTTCATGTATATAT
Found at i:85394885 original size:32 final size:34
Alignment explanation
Indices: 85394849--85394913 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
85394839 TAACAGTGGT
*
85394849 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
85394881 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
85394914 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:85395072 original size:137 final size:137
Alignment explanation
Indices: 85394826--85395112 Score: 511
Period size: 137 Copynumber: 2.1 Consensus size: 137
85394816 TATTGGGCCT
**
85394826 AAGCCCATTCAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
85394891 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
85394956 CATATGC
131 CATATGC
* * *
85394963 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTTAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
85395028 AGCCTCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
85395093 CATATGC
131 CATATGC
85395100 AAGCCCATTTGGG
1 AAGCCCATTTGGG
85395113 GAGACTACTC
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:85396851 original size:26 final size:26
Alignment explanation
Indices: 85396815--85396898 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
85396805 CATGAAATTC
85396815 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
85396841 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
85396867 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
85396893 TTATCA
1 TTATCA
85396899 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85400755 original size:20 final size:20
Alignment explanation
Indices: 85400730--85400772 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
85400720 TAATTACTTG
*
85400730 TAAAAATATCATGGAATTGA
1 TAAAAATAGCATGGAATTGA
85400750 TAAAAATAGCATGGAATTGA
1 TAAAAATAGCATGGAATTGA
85400770 TAA
1 TAA
85400773 TGCTTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (20 bp):
TAAAAATAGCATGGAATTGA
Found at i:85406143 original size:26 final size:27
Alignment explanation
Indices: 85406081--85406148 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
85406071 AAGACCTCGT
*
85406081 TTTGTAAAATTA-CCAAAGTACCCCCAG
1 TTTGTAAAATTATCGAAAGTA-CCCCAG
85406108 TTTGTAAAATTATCGAAA-TA-CCCAGG
1 TTTGTAAAATTATCGAAAGTACCCCA-G
85406134 TTTGTAAAATTATCG
1 TTTGTAAAATTATCG
85406149 GATTTCCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
25 4 0.11
26 16 0.42
27 14 0.37
28 4 0.11
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTATCGAAAGTACCCCAG
Found at i:85406188 original size:27 final size:28
Alignment explanation
Indices: 85406110--85406197 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 28
85406100 ACCCCCAGTT
* *
85406110 TGTAAAATTATCGAAATA-CCCAGGT-T
1 TGTAAAATTATCGAAATATCCCATGTAG
* * *
85406136 TGTAAAATTATCG-GATTTCCCTTGTAG
1 TGTAAAATTATCGAAATATCCCATGTAG
*
85406163 TGTAAAATTACCGAAATATCCC-TGTAG
1 TGTAAAATTATCGAAATATCCCATGTAG
*
85406190 GGTAAAAT
1 TGTAAAAT
85406198 GACTGTTTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.04
26 18 0.36
27 24 0.48
28 6 0.12
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (28 bp):
TGTAAAATTATCGAAATATCCCATGTAG
Found at i:85406254 original size:9 final size:9
Alignment explanation
Indices: 85406240--85406266 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
85406230 TGGACTATGA
85406240 ATTTGACTG
1 ATTTGACTG
85406249 ATTTGACTG
1 ATTTGACTG
85406258 ATTTGACTG
1 ATTTGACTG
85406267 TGATTCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
ATTTGACTG
Found at i:85406365 original size:27 final size:27
Alignment explanation
Indices: 85406335--85406437 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
85406325 AAGACCCTAT
*
85406335 TTTGTAAAATTACCAAAATACCCCCAG
1 TTTGTAAAATTACCGAAATACCCCCAG
* * *
85406362 TTTGTAAAATTATCGAAATA-TCCAAG
1 TTTGTAAAATTACCGAAATACCCCCAG
* * * *
85406388 TTTGTAAAATTATCGGATTACCCTC-G
1 TTTGTAAAATTACCGAAATACCCCCAG
85406414 TTGTGTAAAATTACCGAAATACCC
1 TT-TGTAAAATTACCGAAATACCC
85406438 TTGTAGGGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 25 0.40
27 37 0.60
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCCAG
Found at i:85406448 original size:27 final size:27
Alignment explanation
Indices: 85406391--85406451 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
85406381 ATCCAAGTTT
* * * * *
85406391 GTAAAATTATCGGATTACCCTCGTTGT
1 GTAAAATTACCGAAATACCCTCGTAGG
*
85406418 GTAAAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCTCGTAGG
85406445 GTAAAAT
1 GTAAAAT
85406452 GACTGTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGTAGG
Found at i:85408533 original size:29 final size:27
Alignment explanation
Indices: 85408472--85408543 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
85408462 AATGCCTTAT
85408472 TGGTGTGTTAGGGAGGATATACTATAC
1 TGGTGTGTTAGGGAGGATATACTATAC
* * *
85408499 TGGTGTGTTTGGGAGGCTATATTATAC
1 TGGTGTGTTAGGGAGGATATACTATAC
*
85408526 TGGTGTGTTATGGAGGAT
1 TGGTGTGTTAGGGAGGAT
85408544 TTATATTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.06, G:0.36, T:0.38
Consensus pattern (27 bp):
TGGTGTGTTAGGGAGGATATACTATAC
Found at i:85408548 original size:29 final size:27
Alignment explanation
Indices: 85408472--85408552 Score: 101
Period size: 27 Copynumber: 2.9 Consensus size: 27
85408462 AATGCCTTAT
* *
85408472 TGGTGTGTTAGGGAGGATATACTATAC
1 TGGTGTGTTATGGAGGATATATTATAC
*
85408499 TGGTGTGTT-TGGGAGGCTATATTATAC
1 TGGTGTGTTAT-GGAGGATATATTATAC
85408526 TGGTGTGTTATGGAGGATTTATATTAT
1 TGGTGTGTTATGGAGGA--TATATTAT
85408553 TCCGGGTGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 37 0.80
28 1 0.02
29 8 0.17
ACGTcount: A:0.22, C:0.05, G:0.32, T:0.41
Consensus pattern (27 bp):
TGGTGTGTTATGGAGGATATATTATAC
Found at i:85410682 original size:17 final size:19
Alignment explanation
Indices: 85410660--85410703 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
85410650 TTTTACTCAA
*
85410660 GTTTTCAAAT-AAGA-AGG
1 GTTTTCAAATGAAAACAGG
85410677 GTTTTC-AATGAAAACAGG
1 GTTTTCAAATGAAAACAGG
85410695 GTTTTCAAA
1 GTTTTCAAA
85410704 AAACACTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 9 0.39
18 9 0.39
19 2 0.09
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (19 bp):
GTTTTCAAATGAAAACAGG
Found at i:85415662 original size:13 final size:14
Alignment explanation
Indices: 85415633--85415665 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
85415623 TATGATTAGT
85415633 GTTAATTAGACTTA
1 GTTAATTAGACTTA
*
85415647 GTTAATTA-AGTTA
1 GTTAATTAGACTTA
85415660 GTTAAT
1 GTTAAT
85415666 ATTAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (14 bp):
GTTAATTAGACTTA
Found at i:85415977 original size:46 final size:46
Alignment explanation
Indices: 85415884--85415985 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 46
85415874 TTGATTTTCA
* * *
85415884 TAACATATGATTCAATACTAAAATTATTCCAAACTAATATGGTAAG
1 TAACATATGACTCAATACTAAAATCATTCCAAACTAATATGATAAG
* * *
85415930 TAATATATGACTCAATACTAAAATCATTCCCAACTAGTAT-ATCAAG
1 TAACATATGACTCAATACTAAAATCATTCCAAACTAATATGAT-AAG
85415976 TAACATATGA
1 TAACATATGA
85415986 TAAAAAATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 47 0.98
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (46 bp):
TAACATATGACTCAATACTAAAATCATTCCAAACTAATATGATAAG
Found at i:85421823 original size:6 final size:6
Alignment explanation
Indices: 85421812--85421836 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
85421802 AGCAAGAGAG
85421812 AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
85421837 GAGAGAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:85421929 original size:2 final size:2
Alignment explanation
Indices: 85421922--85421953 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
85421912 GAAATCAAAA
85421922 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
85421954 CTAGTTAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:85431382 original size:34 final size:34
Alignment explanation
Indices: 85431344--85431410 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
85431334 ACATCTCTCA
*
85431344 ATAAACCCAGGAAAAAAACCCTTTTCCTCTCGTT
1 ATAAACCCAGAAAAAAAACCCTTTTCCTCTCGTT
*
85431378 ATAAACCCAGAAAAAAAACTCTTTTCCTCTCGT
1 ATAAACCCAGAAAAAAAACCCTTTTCCTCTCGT
85431411 AATGTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.28, G:0.07, T:0.27
Consensus pattern (34 bp):
ATAAACCCAGAAAAAAAACCCTTTTCCTCTCGTT
Found at i:85436102 original size:27 final size:29
Alignment explanation
Indices: 85436062--85436139 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
85436052 TATCTTTATA
**
85436062 TAAAATTA-AATTTTATTTTTTAT-TTTT
1 TAAAATTATAATTTTATTTGGTATATTTT
**
85436089 TAAAATTATTTTTTTATTTGGTATATTTT
1 TAAAATTATAATTTTATTTGGTATATTTT
*
85436118 TAAATTTTATATATTATTATTT
1 TAAA-ATTATA-ATT-TTATTT
85436140 CTTGTCAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 8 0.21
28 11 0.28
29 8 0.21
30 4 0.10
31 2 0.05
32 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (29 bp):
TAAAATTATAATTTTATTTGGTATATTTT
Found at i:85436210 original size:22 final size:23
Alignment explanation
Indices: 85436163--85436210 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
85436153 TTTTTTTATT
* *
85436163 TTTA-TATATATTTTAAGATATA
1 TTTATTATATATTTTAAAAAATA
85436185 -TTATTATAT-TTTTAAAAAATA
1 TTTATTATATATTTTAAAAAATA
85436206 TTTAT
1 TTTAT
85436211 GTATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATTATATATTTTAAAAAATA
Found at i:85436606 original size:18 final size:20
Alignment explanation
Indices: 85436569--85436634 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 20
85436559 TCTTTCAACA
*
85436569 AAAAATACAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
85436589 -AAAATTCAAAAT-ATTTTT
1 AAAAATTCAAAATAATTTTT
*
85436607 AAAAATTCTAAAATTTATCTTTT
1 AAAAATTC-AAAA-TAAT-TTTT
85436630 AAAAA
1 AAAAA
85436635 ATATATAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 6 0.15
19 18 0.45
20 4 0.10
21 1 0.03
22 2 0.05
23 9 0.22
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:85437909 original size:16 final size:15
Alignment explanation
Indices: 85437888--85437917 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
85437878 AGAAAGGACA
85437888 AACAAAGAAAACAAAT
1 AACAAAG-AAACAAAT
85437904 AACAAAGAAACAAA
1 AACAAAGAAACAAA
85437918 AAATAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.13, G:0.07, T:0.03
Consensus pattern (15 bp):
AACAAAGAAACAAAT
Found at i:85439112 original size:27 final size:26
Alignment explanation
Indices: 85438983--85439551 Score: 170
Period size: 26 Copynumber: 22.3 Consensus size: 26
85438973 TTAAACTATT
85438983 TTATTTATTTTAAA---TTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
** * * *
85439006 TTAAACTGTTTTAAATTTTTTTAGATA
1 TT-ATTTATTTTAAATTGTTTTATATA
* *
85439033 -TA-TTATTTTAAATTATTTCATATA
1 TTATTTATTTTAAATTGTTTTATATA
* * * * *
85439057 CTATATACTTTAAATTGCTTTATACA
1 TTATTTATTTTAAATTGTTTTATATA
*
85439083 TTATTTATTTTAAATTTGTTTTATGTA
1 TTATTTATTTTAAA-TTGTTTTATATA
*
85439110 TTATTCATTTTAAATTGTTTTAT-TA
1 TTATTTATTTTAAATTGTTTTATATA
*
85439135 TTACTTTA----AAATT-TTTCATATA
1 TTA-TTTATTTTAAATTGTTTTATATA
** *
85439157 TTATCAATTTCAAA-T-TTTTATAT-
1 TTATTTATTTTAAATTGTTTTATATA
* *
85439180 GTA-TTA-TCT--ATT-TTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
** *
85439201 CCATTTATTTTTTAAGA-TGTTTTTTATA
1 TTATTTA--TTTTAA-ATTGTTTTATATA
* * *
85439229 TTACTTATTTTAAATTTCTTTTTACATA
1 TTATTTATTTTAAA-TT-GTTTTATATA
* * ** *
85439257 ATATTTATTTTAAACTCATTTATACA
1 TTATTTATTTTAAATTGTTTTATATA
* * *
85439283 TTATTTATCTTAAATTATTTTACATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
85439309 TTATTTATTTTAAATTTTTTTCCCCTCGTATA
1 TTATTTATTTTAAA-TTGTTT----T-ATATA
* ****
85439341 TTATTTATTTCAAACTT-TCGCCTATA
1 TTATTTATTTTAAA-TTGTTTTATATA
** * *
85439367 TTACCTATTTTAAATTTTTTTTACATA
1 TTATTTATTTTAAA-TTGTTTTATATA
* * * *
85439394 TAATCTATTTTTAATTGTTTTGTATA
1 TTATTTATTTTAAATTGTTTTATATA
** * * * * *
85439420 TTGCTGATATTAAATTTCTTTTTTCACA
1 TTATTTATTTTAAA-TTGTTTTAT-ATA
**
85439448 TTATTTATTTTAAATTCATTTAT-TA
1 TTATTTATTTTAAATTGTTTTATATA
* * * *
85439473 TCA--T-TTTAAAATTTGTTTTACATT
1 TTATTTATTTTAAA-TTGTTTTATATA
* *
85439497 TTATTTATTTTAATTTGCTTTATA-A
1 TTATTTATTTTAAATTGTTTTATATA
* *
85439522 -T-TTT-TTTAAAATTGTTATATATA
1 TTATTTATTTTAAATTGTTTTATATA
85439545 TTATTTA
1 TTATTTA
85439552 ATTCATTTGT
Statistics
Matches: 388, Mismatches: 114, Indels: 85
0.66 0.19 0.14
Matches are distributed among these distances:
19 1 0.00
20 9 0.02
21 9 0.02
22 33 0.09
23 15 0.04
24 39 0.10
25 20 0.05
26 126 0.32
27 72 0.19
28 44 0.11
31 2 0.01
32 18 0.05
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTTTATATA
Found at i:85439184 original size:26 final size:24
Alignment explanation
Indices: 85439082--85439193 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 24
85439072 TGCTTTATAC
*
85439082 ATTATT-T-ATTTTAAATTTGTTTT
1 ATTATTATCATTTTAAATTT-TTAT
85439105 ATGTATTATTCATTTTAAATTGTTT-T
1 AT-TATTA-TCATTTTAAATT-TTTAT
*
85439131 ATTATTA-C-TTTAAAATTTTTCAT
1 ATTATTATCATTTTAAATTTTT-AT
*
85439154 A-TATTATCAATTTCAAATTTTTAT
1 ATTATTATC-ATTTTAAATTTTTAT
85439178 ATGTATTATCTATTTT
1 AT-TATTATC-ATTTT
85439194 TTATATACCA
Statistics
Matches: 73, Mismatches: 4, Indels: 21
0.74 0.04 0.21
Matches are distributed among these distances:
21 3 0.04
22 13 0.18
23 6 0.08
24 7 0.10
25 16 0.22
26 15 0.21
27 12 0.16
28 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTATTATCATTTTAAATTTTTAT
Found at i:85439519 original size:49 final size:48
Alignment explanation
Indices: 85439447--85439551 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 48
85439437 CTTTTTTCAC
* *
85439447 ATTATTTATTTTAAATTCATTTATTATCATTTTAAAATTTGTTTTACAT
1 ATTATTTATTTTAAATTCATTTATAATCATTTTAAAA-TTGTTATACAT
* * ** *
85439496 TTTATTTATTTTAATTTGC-TTTATAATTTTTTTAAAATTGTTATATAT
1 ATTATTTATTTTAAATT-CATTTATAATCATTTTAAAATTGTTATACAT
85439544 ATTATTTA
1 ATTATTTA
85439552 ATTCATTTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 16 0.34
49 30 0.64
50 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (48 bp):
ATTATTTATTTTAAATTCATTTATAATCATTTTAAAATTGTTATACAT
Found at i:85439859 original size:19 final size:19
Alignment explanation
Indices: 85439831--85439868 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
85439821 ACTCGCTATC
85439831 TTTTTTAAAA-AAGGAAAT
1 TTTTTTAAAATAAGGAAAT
85439849 TTTTTTCAAAATAAGGAAAT
1 TTTTTT-AAAATAAGGAAAT
85439869 ATTTCGCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (19 bp):
TTTTTTAAAATAAGGAAAT
Found at i:85447269 original size:17 final size:18
Alignment explanation
Indices: 85447247--85447282 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
85447237 GGTTCTCAAG
85447247 AATTAAAAA-ATTCAAAA
1 AATTAAAAATATTCAAAA
*
85447264 AATTAAAAATTTTCAAAA
1 AATTAAAAATATTCAAAA
85447282 A
1 A
85447283 TTTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
AATTAAAAATATTCAAAA
Found at i:85447283 original size:17 final size:16
Alignment explanation
Indices: 85447242--85447284 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
85447232 TAAAAGGTTC
*
85447242 TCAAGAATTAAAAAAT
1 TCAAAAATTAAAAAAT
*
85447258 TCAAAAAATTAAAAATTT
1 TC-AAAAATTAAAAA-AT
85447276 TCAAAAATT
1 TCAAAAATT
85447285 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 18 0.78
18 3 0.13
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (16 bp):
TCAAAAATTAAAAAAT
Found at i:85450722 original size:306 final size:303
Alignment explanation
Indices: 85450169--85450762 Score: 745
Period size: 306 Copynumber: 1.9 Consensus size: 303
85450159 GATCACCTCC
* * * *
85450169 GATAAATAAGATTGGCCTTGACATCCAAGTCAATGTTAGGTTTAGTAATATCTTATTGTTTGGGA
1 GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
* * *
85450234 ATTAAATTTCACATGTATGTGCACGAATTGTACTTTGACCTTGAGATCAAATCTAATTTATGGAT
66 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
* * *
85450299 ATGCTTTTCAAAGAATCTTGGGCATAAGTTTTGTGGAGAATTAAATCCCACGAAAAACTTGACAC
131 ATGCTTTTCAAAGAATCTT-GGAATAAGTTTTGTAGAGAATTAAATCCCACAAAAAACTTGACAC
* * * *
85450364 CTATGAGTGTCGAGATTTACCTATAAAAAAGAGCATATATTGACAGATAATGAAAAAAAAAGTTT
195 CTATGAGTATCGAAATTTACCTATAAAAAACAGCATAGATTGACAGATAATG--AAAAAAAGTTT
* * *
85450429 TGAAAAAGAACTACAATGTTCTCCTCAAAACCATTAAGAGATTTTT
258 TAAAAAAGAACTACAATGTTCACCACAAAACCATTAAGAGATTTTT
** * **
85450475 GATAAATAAGATTGGCCTTGACATCCTGGTCGATATTAGATTTAGTCGTATCTTATTATTTAGGA
1 GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
* * * *
85450540 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACTTTGAGATCAAGTCTAATTTTTGTAT
66 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
**
85450605 ATG-TTTTTTAAGAAATCTT-GAATATAGATTTTGTAGAGAATTAAATCCCACAAAAAAC-TGAA
131 ATGCTTTTCAAAG-AATCTTGGAATA-AG-TTTTGTAGAGAATTAAATCCCACAAAAAACTTG-A
* *
85450667 CACCTATGAGTATCGAAATTTTTCCCTA-AAATGAAACTGCATCAGA-T-A-A-ATAATGAAAAA
192 CACCTATGAGTATCGAAA--TTTACCTATAAA--AAACAGCAT-AGATTGACAGATAATGAAAAA
*
85450727 GAGTTTTAAAAAAGAACTACAATGTTCACCACAAAA
252 AAGTTTTAAAAAAGAACTACAATGTTCACCACAAAA
85450763 TGTTGAATGT
Statistics
Matches: 248, Mismatches: 31, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
304 41 0.17
305 11 0.04
306 174 0.70
307 4 0.02
308 8 0.03
309 8 0.03
310 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (303 bp):
GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
ATGCTTTTCAAAGAATCTTGGAATAAGTTTTGTAGAGAATTAAATCCCACAAAAAACTTGACACC
TATGAGTATCGAAATTTACCTATAAAAAACAGCATAGATTGACAGATAATGAAAAAAAGTTTTAA
AAAAGAACTACAATGTTCACCACAAAACCATTAAGAGATTTTT
Found at i:85451023 original size:6 final size:6
Alignment explanation
Indices: 85451012--85451049 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
85451002 TCCAAAAATA
85451012 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
85451050 AGCTTTAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:85456055 original size:18 final size:18
Alignment explanation
Indices: 85456034--85456070 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85456024 GGTTCTCAAG
85456034 AATTAAAAAAATTCAAAA
1 AATTAAAAAAATTCAAAA
**
85456052 AATTAAAAATTTTCAAAA
1 AATTAAAAAAATTCAAAA
85456070 A
1 A
85456071 TTTATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTAAAAAAATTCAAAA
Found at i:85456071 original size:17 final size:17
Alignment explanation
Indices: 85456029--85456072 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
85456019 TAAAAGGTTC
*
85456029 TCAAGAATTAAAAAAAT
1 TCAAAAATTAAAAAAAT
**
85456046 TCAAAAAATTAAAAATTT
1 TC-AAAAATTAAAAAAAT
85456064 TCAAAAATT
1 TCAAAAATT
85456073 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (17 bp):
TCAAAAATTAAAAAAAT
Found at i:85459512 original size:306 final size:303
Alignment explanation
Indices: 85458959--85459552 Score: 745
Period size: 306 Copynumber: 1.9 Consensus size: 303
85458949 GATCACCTCC
* * * *
85458959 GATAAATAAGATTGGCCTTGACATCCAAGTCAATGTTAGGTTTAGTAATATCTTATTGTTTGGGA
1 GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
* * *
85459024 ATTAAATTTCACATGTATGTGCACGAATTGTACTTTGACCTTGAGATCAAATCTAATTTATGGAT
66 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
* * *
85459089 ATGCTTTTCAAAGAATCTTGGGCATAAGTTTTGTGGAGAATTAAATCCCACGAAAAACTTGACAC
131 ATGCTTTTCAAAGAATCTT-GGAATAAGTTTTGTAGAGAATTAAATCCCACAAAAAACTTGACAC
* * * *
85459154 CTATGAGTGTCGAGATTTACCTATAAAAAAGAGCATATATTGACAGATAATGAAAAAAAAAGTTT
195 CTATGAGTATCGAAATTTACCTATAAAAAACAGCATAGATTGACAGATAATG--AAAAAAAGTTT
* * *
85459219 TGAAAAAGAACTACAATGTTCTCCTCAAAACCATTAAGAGATTTTT
258 TAAAAAAGAACTACAATGTTCACCACAAAACCATTAAGAGATTTTT
** * **
85459265 GATAAATAAGATTGGCCTTGACATCCTGGTCGATATTAGATTTAGTCGTATCTTATTATTTAGGA
1 GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
* * * *
85459330 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACTTTGAGATCAAGTCTAATTTTTGTAT
66 ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
**
85459395 ATG-TTTTTTAAGAAATCTT-GAATATAGATTTTGTAGAGAATTAAATCCCACAAAAAAC-TGAA
131 ATGCTTTTCAAAG-AATCTTGGAATA-AG-TTTTGTAGAGAATTAAATCCCACAAAAAACTTG-A
* *
85459457 CACCTATGAGTATCGAAATTTTTCCCTA-AAATGAAACTGCATCAGA-T-A-A-ATAATGAAAAA
192 CACCTATGAGTATCGAAA--TTTACCTATAAA--AAACAGCAT-AGATTGACAGATAATGAAAAA
*
85459517 GAGTTTTAAAAAAGAACTACAATGTTCACCACAAAA
252 AAGTTTTAAAAAAGAACTACAATGTTCACCACAAAA
85459553 TGTTGAATGT
Statistics
Matches: 248, Mismatches: 31, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
304 41 0.17
305 11 0.04
306 174 0.70
307 4 0.02
308 8 0.03
309 8 0.03
310 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (303 bp):
GATAAATAAGATTGGCCTTGACATCCAAGTCAATATTAGATTTAGTAATATCTTATTATTTAGGA
ATCAAATTTCACATGTATGTGCACGAATCGTACTTTAACCTTGAGATCAAATCTAATTTATGGAT
ATGCTTTTCAAAGAATCTTGGAATAAGTTTTGTAGAGAATTAAATCCCACAAAAAACTTGACACC
TATGAGTATCGAAATTTACCTATAAAAAACAGCATAGATTGACAGATAATGAAAAAAAGTTTTAA
AAAAGAACTACAATGTTCACCACAAAACCATTAAGAGATTTTT
Found at i:85459812 original size:6 final size:6
Alignment explanation
Indices: 85459801--85459838 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
85459791 TCCAAAAATA
85459801 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
85459839 AGCTTTAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:85464063 original size:40 final size:40
Alignment explanation
Indices: 85464003--85464186 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
85463993 TATTCGAATG
*
85464003 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
85464043 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
85464083 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
85464123 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
85464163 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
85464187 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:85464136 original size:80 final size:80
Alignment explanation
Indices: 85464003--85464186 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
85463993 TATTCGAATG
* * *
85464003 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
85464067 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
85464083 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
85464148 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
85464163 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
85464187 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:85471464 original size:39 final size:40
Alignment explanation
Indices: 85471262--85471471 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
85471252 TATTCGAATG
* * *
85471262 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
85471302 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
85471342 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
85471382 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * **
85471421 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
85471460 ATATCC-GGCTAA
1 ATATCCGGGCTAA
85471472 ATCCCAAAGA
Statistics
Matches: 146, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 6 0.04
39 51 0.35
40 87 0.60
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:85474304 original size:63 final size:62
Alignment explanation
Indices: 85474203--85474333 Score: 174
Period size: 63 Copynumber: 2.1 Consensus size: 62
85474193 ATCTTTGCTT
* *
85474203 ATTTGCAAATGAATTCATTTCTCATTTTCATTTTCATTTCCATTTT-GAGAAAACCACATTC
1 ATTTCCAAATGAATTCATTTCTCATTTTCATTTTCATTTCCATTTTGGAGAAAACCACAATC
* * ** *
85474264 ATTTCCAAATGATTTTATTTTCTCCATTTTCATTTTCATTTTGATTTTGGAGAAAACCATAATC
1 ATTTCCAAATGAATTCA-TTTCT-CATTTTCATTTTCATTTCCATTTTGGAGAAAACCACAATC
85474328 ATTTCC
1 ATTTCC
85474334 TGAATGTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
61 14 0.23
62 5 0.08
63 22 0.37
64 19 0.32
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (62 bp):
ATTTCCAAATGAATTCATTTCTCATTTTCATTTTCATTTCCATTTTGGAGAAAACCACAATC
Found at i:85476718 original size:36 final size:36
Alignment explanation
Indices: 85476677--85476754 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
85476667 CGAAAGCTAG
85476677 TGTAAGACTTGTCTAGGACATGCATTGGCCTCGAGA
1 TGTAAGACTTGTCTAGGACATGCATTGGCCTCGAGA
*
85476713 TGTAAGACTTGTCTGGGACATGCATTGGCCTCGAGA
1 TGTAAGACTTGTCTAGGACATGCATTGGCCTCGAGA
85476749 TGTAAG
1 TGTAAG
85476755 CTAGTGTAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (36 bp):
TGTAAGACTTGTCTAGGACATGCATTGGCCTCGAGA
Found at i:85479281 original size:19 final size:19
Alignment explanation
Indices: 85479238--85479281 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
85479228 TACAAGCAAC
*
85479238 ACAACATTAATCCAAATAA
1 ACAACATTAATCCAAAAAA
*
85479257 ACAACATTAGTCCAAAAAA
1 ACAACATTAATCCAAAAAA
*
85479276 ATAACA
1 ACAACA
85479282 AAAAAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.20, G:0.02, T:0.18
Consensus pattern (19 bp):
ACAACATTAATCCAAAAAA
Found at i:85482698 original size:37 final size:37
Alignment explanation
Indices: 85482636--85482719 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 37
85482626 ATCATATGAG
*
85482636 AATTTACTAATTACAACTTGAACCAGTAATACAAAATT
1 AATTAACT-ATTACAACTTGAACCAGTAATACAAAATT
* *
85482674 AATTAACTATTACAGCTTGGACCAGTAATACAAAATT
1 AATTAACTATTACAACTTGAACCAGTAATACAAAATT
85482711 AATTAACTA
1 AATTAACTA
85482720 AGTTTTAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
37 36 0.84
38 7 0.16
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (37 bp):
AATTAACTATTACAACTTGAACCAGTAATACAAAATT
Found at i:85489287 original size:46 final size:46
Alignment explanation
Indices: 85489113--85489333 Score: 211
Period size: 46 Copynumber: 4.8 Consensus size: 46
85489103 GAGTTATCGT
* * * *
85489113 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-GATGA
* * * * *
85489159 GAGCTAGTGTAAGACTATGTCTGGGACATGGCACCAACATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGACCTCGAGATGA
*
85489207 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATG-A
* *
85489254 -AGCTAGTGTAAGACATGTTTGGGACATGTATCGA-CTACGAGAT-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGA
* *
85489298 G-TC-AGTGTAAGACTATGTCTGGAACATGGCATCGAC
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGAC
85489334 ATTCTACCCC
Statistics
Matches: 144, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
43 10 0.07
44 13 0.09
45 8 0.06
46 64 0.44
47 25 0.17
48 23 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGA
Found at i:85508312 original size:40 final size:40
Alignment explanation
Indices: 85508268--85508358 Score: 146
Period size: 40 Copynumber: 2.3 Consensus size: 40
85508258 TAACTAAATC
85508268 GTAATAAATTGGAATAAATCAAATAGAACTAAGAACTTAA
1 GTAATAAATTGGAATAAATCAAATAGAACTAAGAACTTAA
* * * *
85508308 GTAATAAATTGGACTAAATCGAATATAACTAAGAACTTAG
1 GTAATAAATTGGAATAAATCAAATAGAACTAAGAACTTAA
85508348 GTAATAAATTG
1 GTAATAAATTG
85508359 AACCAATGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (40 bp):
GTAATAAATTGGAATAAATCAAATAGAACTAAGAACTTAA
Found at i:85511084 original size:26 final size:26
Alignment explanation
Indices: 85511050--85511103 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
85511040 TTCTTTCTAC
* *
85511050 TTGTGGTAGCCTGGAGACCTTATTCT
1 TTGTAGTAGCCTAGAGACCTTATTCT
*
85511076 TTGTAGTAGCTTAGAGACCTTATTCT
1 TTGTAGTAGCCTAGAGACCTTATTCT
85511102 TT
1 TT
85511104 CCTCTCTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (26 bp):
TTGTAGTAGCCTAGAGACCTTATTCT
Found at i:85524590 original size:18 final size:17
Alignment explanation
Indices: 85524562--85524596 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85524552 ATTATTAAGA
*
85524562 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
85524579 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
85524597 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:85524691 original size:120 final size:120
Alignment explanation
Indices: 85524438--85524973 Score: 1011
Period size: 120 Copynumber: 4.5 Consensus size: 120
85524428 TAATAAATGG
85524438 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
*
85524503 -TTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
*
85524557 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
*
85524622 TTTTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
85524677 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
85524742 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
* *
85524797 TAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
*
85524862 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAATAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
85524917 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
85524974 TAAATATGAT
Statistics
Matches: 406, Mismatches: 10, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
119 64 0.16
120 342 0.84
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
Found at i:85524830 original size:18 final size:17
Alignment explanation
Indices: 85524802--85524836 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
85524792 ATTATTAAGA
85524802 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
85524819 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
85524837 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:85525217 original size:16 final size:16
Alignment explanation
Indices: 85525192--85525260 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
85525182 GATTAGCTAT
*
85525192 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
85525208 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
85525225 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
85525241 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
85525257 TACA
1 TACA
85525261 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:85525235 original size:33 final size:32
Alignment explanation
Indices: 85525192--85525260 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
85525182 GATTAGCTAT
85525192 TACACATCTAATCCAATACACCTCTAATCCCAA
1 TACACATCTAATCCAATACACCTCTAAT-CCAA
* *
85525225 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
85525257 TACA
1 TACA
85525261 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:85525373 original size:23 final size:25
Alignment explanation
Indices: 85525345--85525399 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
85525335 GAAAAAGACC
85525345 ATTAATAAATGTAA-T-TAAAAATA
1 ATTAATAAATGTAATTATAAAAATA
* * *
85525368 TTTAATTAATTTAATTATAAAAATA
1 ATTAATAAATGTAATTATAAAAATA
85525393 ATTAATA
1 ATTAATA
85525400 TTAAAATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 11 0.44
24 1 0.04
25 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTAATAAATGTAATTATAAAAATA
Found at i:85532054 original size:18 final size:19
Alignment explanation
Indices: 85532017--85532056 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
85532007 AAATATATAA
*
85532017 AAAAATCATTAAAATGATT
1 AAAAATCATAAAAATGATT
85532036 AAAAATCATAAAAAT-ATT
1 AAAAATCATAAAAATGATT
85532054 AAA
1 AAA
85532057 TTTATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAATCATAAAAATGATT
Found at i:85532165 original size:11 final size:11
Alignment explanation
Indices: 85532145--85532185 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
85532135 AGTTAAAATT
85532145 TTAT-AATAAA
1 TTATAAATAAA
85532155 TTATAAATAAA
1 TTATAAATAAA
*
85532166 TAATAAAT-AA
1 TTATAAATAAA
*
85532176 TTACAAATAA
1 TTATAAATAA
85532186 TAGAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 12 0.46
11 14 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TTATAAATAAA
Found at i:85533077 original size:19 final size:18
Alignment explanation
Indices: 85532972--85533172 Score: 116
Period size: 19 Copynumber: 10.4 Consensus size: 18
85532962 TATAATTTTA
85532972 TTTATAATTTATTAGAACTT
1 TTTATAATTT-TTAGAA-TT
* * * *
85532992 ATTATGATTTTTTATAAGT
1 TTTAT-AATTTTTAGAATT
* * *
85533011 TTTATAATTAATGATAATT
1 TTTATAATT-TTTAGAATT
*
85533030 TTTATAATTTGTATGATGATT
1 TTTATAATTTTTA-GA--ATT
85533051 TATTATAACTTTTTAGAATT
1 T-TTATAA-TTTTTAGAATT
* * *
85533071 TTTATAAGCTTTTATAATA
1 TTTATAA-TTTTTAGAATT
*
85533090 TTTATAAGTTTTGATGAATT
1 TTTATAA-TTTTTA-GAATT
*
85533110 CTTTATAAGTTTTA-AATAT
1 -TTTATAATTTTTAGAAT-T
* **
85533129 TTTTTAATTTTTATTATT
1 TTTATAATTTTTAGAATT
85533147 TTTATAATTTATTAGAATT
1 TTTATAATTT-TTAGAATT
85533166 TTTATAA
1 TTTATAA
85533173 GTTTACATGA
Statistics
Matches: 139, Mismatches: 30, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
18 28 0.20
19 63 0.45
20 20 0.14
21 15 0.11
22 8 0.06
23 5 0.04
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (18 bp):
TTTATAATTTTTAGAATT
Found at i:85533116 original size:21 final size:19
Alignment explanation
Indices: 85533026--85533214 Score: 110
Period size: 19 Copynumber: 9.8 Consensus size: 19
85533016 AATTAATGAT
85533026 AATTTTTATAA-TTTGTATG
1 AATTTTTATAAGTTT-TATG
*
85533045 ATGATTTATTATAACTTTT-TAG
1 A--ATTT-TTATAAGTTTTAT-G
85533067 AATTTTTATAAGCTTTTAT-
1 AATTTTTATAAG-TTTTATG
*
85533086 AATATTTATAAGTTTTGATG
1 AATTTTTATAAGTTTT-ATG
85533106 AATTCTTTATAAGTTTTA--
1 AATT-TTTATAAGTTTTATG
* *
85533124 AATATTTTTTAATTTTTAT-
1 AAT-TTTTATAAGTTTTATG
* *
85533143 TATTTTTATAATTTATTA-G
1 AATTTTTATAAGTT-TTATG
*
85533162 AATTTTTATAAGTTTACATG
1 AATTTTTATAAGTTT-TATG
*
85533182 -ATTTTTA-AATTTTTTATG
1 AATTTTTATAA-GTTTTATG
* *
85533200 TA-TTTTATAAATTTT
1 AATTTTTATAAGTTTT
85533215 TTTAAAAAGT
Statistics
Matches: 138, Mismatches: 13, Indels: 39
0.73 0.07 0.21
Matches are distributed among these distances:
18 43 0.31
19 52 0.38
20 13 0.09
21 18 0.13
22 9 0.07
23 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (19 bp):
AATTTTTATAAGTTTTATG
Found at i:85533140 original size:8 final size:9
Alignment explanation
Indices: 85532972--85533195 Score: 128
Period size: 9 Copynumber: 23.3 Consensus size: 9
85532962 TATAATTTTA
85532972 TTTATAATT
1 TTTATAATT
*
85532981 TATTAGAACTT
1 T-TTATAA-TT
* *
85532992 ATTATGATTT
1 TTTAT-AATT
*
85533002 TTTATAAGT
1 TTTATAATT
85533011 TTTATAATT
1 TTTATAATT
* *
85533020 AATGATAATT
1 -TTTATAATT
85533030 TTTATAATT
1 TTTATAATT
*
85533039 TGTATGATGATT
1 T-T-T-ATAATT
85533051 TATTATAACTT
1 T-TTATAA-TT
*
85533062 TTTAGAATT
1 TTTATAATT
*
85533071 TTTATAAGCT
1 TTTATAA-TT
*
85533081 TTTATAATA
1 TTTATAATT
85533090 TTTATAAGTT
1 TTTATAA-TT
*
85533100 TTGATGAATT
1 TTTAT-AATT
*
85533110 CTTTATAAGT
1 -TTTATAATT
85533120 TTTA-AATAT
1 TTTATAAT-T
*
85533129 TTTTTAATT
1 TTTATAATT
*
85533138 TTTATTATT
1 TTTATAATT
85533147 TTTATAATT
1 TTTATAATT
*
85533156 TATTAGAATT
1 T-TTATAATT
85533166 TTTATAAGTT
1 TTTATAA-TT
** *
85533176 TACATGATT
1 TTTATAATT
85533185 TTTA-AATT
1 TTTATAATT
85533193 TTT
1 TTT
85533196 TATGTATTTT
Statistics
Matches: 162, Mismatches: 37, Indels: 33
0.70 0.16 0.14
Matches are distributed among these distances:
8 8 0.05
9 68 0.42
10 65 0.40
11 14 0.09
12 7 0.04
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (9 bp):
TTTATAATT
Found at i:85533215 original size:10 final size:10
Alignment explanation
Indices: 85533026--85533220 Score: 56
Period size: 9 Copynumber: 20.2 Consensus size: 10
85533016 AATTAATGAT
85533026 AATTTTTAT-
1 AATTTTTATA
*
85533035 AATTTGTATGA
1 AATTTTTAT-A
*
85533046 TGATTTATTATA
1 -AATTT-TTATA
* *
85533058 ACTTTTTA-G
1 AATTTTTATA
85533067 AATTTTTATA
1 AATTTTTATA
**
85533077 AGCTTTTAT-
1 AATTTTTATA
*
85533086 AATATTTATA
1 AATTTTTATA
* * *
85533096 AGTTTTGATG
1 AATTTTTATA
85533106 AATTCTTTAT-
1 AATT-TTTATA
*
85533116 AAGTTTTA-A
1 AATTTTTATA
85533125 ATATTTTT-T-
1 A-ATTTTTATA
85533134 AATTTTTAT-
1 AATTTTTATA
*
85533143 TATTTTTAT-
1 AATTTTTATA
*
85533152 AATTTATTA-G
1 AATTT-TTATA
85533162 AATTTTTATA
1 AATTTTTATA
* **
85533172 AGTTTACAT-
1 AATTTTTATA
*
85533181 GATTTTTA-A
1 AATTTTTATA
* *
85533190 ATTTTTTATG
1 AATTTTTATA
*
85533200 TA-TTTTATA
1 AATTTTTATA
*
85533209 AATTTTTTTA
1 AATTTTTATA
85533219 AA
1 AA
85533221 AAGTATAAGA
Statistics
Matches: 130, Mismatches: 39, Indels: 33
0.64 0.19 0.16
Matches are distributed among these distances:
8 6 0.05
9 60 0.46
10 49 0.38
11 7 0.05
12 5 0.04
13 3 0.02
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (10 bp):
AATTTTTATA
Found at i:85537647 original size:12 final size:12
Alignment explanation
Indices: 85537630--85537655 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85537620 TTTCCTGATT
85537630 TTGCCTTACCAA
1 TTGCCTTACCAA
85537642 TTGCCTTACCAA
1 TTGCCTTACCAA
85537654 TT
1 TT
85537656 CAACAGGCAC
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:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (12 bp):
TTGCCTTACCAA
Found at i:85543048 original size:99 final size:97
Alignment explanation
Indices: 85542947--85543414 Score: 599
Period size: 99 Copynumber: 4.8 Consensus size: 97
85542937 CCTCCTCCTC
85542947 TTCTT-TCTCTTCACCTTCTACCTCATCCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTG
1 TTCTTCTCTCTTCACCTTCTACCTCATCCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTG
85543011 TCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAA
66 TCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAA
* * *
85543043 TTCTTC-ATCTTCATCTTCTACCTCATCCTTGTTCTTCTTTTCTTTCTTCTTCTCCTTTGCTTCT
1 TTCTTCTCTCTTCACCTTCTACCTCATCC---TTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCT
*
85543107 TTGTCTTTCTTCTTTTCTTTTTTTCCCTCTTCTAA
63 TTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAA
* ** *
85543142 TTCTTCT-TCATCTTCTTCTACCTCAT-C--CTTCTTTTCTTTCTTCTTCTCTTTTGCCTCTTTG
1 TTCTTCTCTCTTCACCTTCTACCTCATCCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTG
*
85543203 TCTTTCTCCTTTTCTTTCTTTCCCTCTTCTAA
66 TCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAA
* * * * * *
85543235 TTCTTC-ATCTTCATCTCCTACATCATCCTTCTTCTTCTTCTCTTTCTTCTTTTCCTTTGCTTCT
1 TTCTTCTCTCTTCACCTTCTACCTCATCCTTCTTC-T-TT-TCTTTCTTCTTCTCCTTTGCCTCT
*
85543299 TTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAT
63 TTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAA
* * * * *
85543334 TTCTTCATCTTCATCTCCTTCTACTTTATCCTTATTCTTTTCTTTCTTCTTCTCCTCCTTTGCCT
1 TTCTTC-TC-TCTTCACCTTCTACCTCATCCTTCTTCTTTTCTTTCTTC-T-T-CTCCTTTGCCT
85543399 CTTTGTCTTTCTTCTT
61 CTTTGTCTTTCTTCTT
85543415 CTCTGTCTCT
Statistics
Matches: 325, Mismatches: 29, Indels: 30
0.85 0.08 0.08
Matches are distributed among these distances:
93 83 0.26
94 1 0.00
96 29 0.09
97 1 0.00
98 3 0.01
99 158 0.49
100 3 0.01
101 2 0.01
102 45 0.14
ACGTcount: A:0.06, C:0.32, G:0.02, T:0.59
Consensus pattern (97 bp):
TTCTTCTCTCTTCACCTTCTACCTCATCCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTG
TCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAA
Found at i:85543272 original size:192 final size:194
Alignment explanation
Indices: 85542960--85543410 Score: 690
Period size: 192 Copynumber: 2.3 Consensus size: 194
85542950 TTTCTCTTCA
* *
85542960 CCTTCTACCTCATCCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTTTC
1 CCTTCTACCTCAT-C--CTTCTTTTCTTTCTTCTTCTCTTTTGCCTCTTTGTCTTTCTCCTTTTC
* * * *
85543025 TTTCTTTCCCTCTTCTAATTCTTCATCTTCATCTTCTACCTCATCCTTGTTCTTCTTTTCTTTCT
63 TTTCTTTCCCTCTTCTAATTCTTCATCTTCATCTCCTACATCATCCTTCTTCTTCTTCTCTTTCT
*
85543090 TCTTCTCCTTTGCTTCTTTGTCTTTCTTCTTTTCTTTTTTTCCCTCTTCTAATTC-T-TCTTCAT
128 TCTTCTCCTTTGCTTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAATTCTTATCTTCAT
85543153 CT
193 CT
*
85543155 TCTTCTACCTCATCCTTCTTTTCTTTCTTCTTCTCTTTTGCCTCTTTGTCTTTCTCCTTTTCTTT
1 CCTTCTACCTCATCCTTCTTTTCTTTCTTCTTCTCTTTTGCCTCTTTGTCTTTCTCCTTTTCTTT
85543220 CTTTCCCTCTTCTAATTCTTCATCTTCATCTCCTACATCATCCTTCTTCTTCTTCTCTTTCTTCT
66 CTTTCCCTCTTCTAATTCTTCATCTTCATCTCCTACATCATCCTTCTTCTTCTTCTCTTTCTTCT
* *
85543285 TTTCCTTTGCTTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTATTTCTTCATCTTCATCT
131 TCTCCTTTGCTTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAATTCTT-ATCTTCATCT
* *
85543350 CCTTCTACTTTATCCTTATTCTTTTCTTTCTTCTTCTCCTCCTTTGCCTCTTTGTCTTTCT
1 CCTTCTACCTCATCC---TTCTTTTCTTTCTTCTTCT-CT--TTTGCCTCTTTGTCTTTCT
85543411 TCTTCTCTGT
Statistics
Matches: 234, Mismatches: 13, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
192 159 0.68
193 1 0.00
194 1 0.00
195 33 0.14
198 19 0.08
199 2 0.01
201 19 0.08
ACGTcount: A:0.06, C:0.33, G:0.02, T:0.59
Consensus pattern (194 bp):
CCTTCTACCTCATCCTTCTTTTCTTTCTTCTTCTCTTTTGCCTCTTTGTCTTTCTCCTTTTCTTT
CTTTCCCTCTTCTAATTCTTCATCTTCATCTCCTACATCATCCTTCTTCTTCTTCTCTTTCTTCT
TCTCCTTTGCTTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAATTCTTATCTTCATCT
Found at i:85543657 original size:18 final size:17
Alignment explanation
Indices: 85543634--85543682 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
85543624 TCTCCTTATG
* *
85543634 CTTCTTTTCTTTTTTCTT
1 CTTCTTCTCTTCTTTC-T
85543652 CTTCTTCTCTTCTTTCT
1 CTTCTTCTCTTCTTTCT
*
85543669 CTTCATCATCTTCT
1 CTTCTTC-TCTTCT
85543683 ACCACCTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (17 bp):
CTTCTTCTCTTCTTTCT
Found at i:85543776 original size:9 final size:9
Alignment explanation
Indices: 85543764--85543788 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
85543754 TGTGTTCTTA
85543764 TCATCTTCT
1 TCATCTTCT
85543773 TCATCTTCT
1 TCATCTTCT
85543782 TCATCTT
1 TCATCTT
85543789 TGTGCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (9 bp):
TCATCTTCT
Found at i:85548394 original size:3 final size:3
Alignment explanation
Indices: 85548386--85548630 Score: 126
Period size: 3 Copynumber: 80.7 Consensus size: 3
85548376 TAATTTATGG
* * * * *
85548386 TAT TAT TAT TAT TAT TAT TAT TAGT GACC TAT TAC TAT TCT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT
* * * * * *
85548433 CA- TAC TAT TAT T-T CCTAT T-T TA- TAT TAT TAT TGT TAT CAA CAT
1 TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * **
85548476 ATAT TAT TAT CAT TAAT GTAT TGT TAT TCCC TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT T-AT -TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * * *
85548525 TAT TAT TAT TAT TAT TAC TAT TAT AAA TAT TCT TAT TAT TAC TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
85548573 TTT TAT TCCT T-T TAT TATT TAT TAT CAA TA- TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
85548618 TAT TA- TAT TAT TA
1 TAT TAT TAT TAT TA
85548631 CTACTACTAA
Statistics
Matches: 183, Mismatches: 43, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
2 12 0.07
3 153 0.84
4 16 0.09
5 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:85548616 original size:20 final size:21
Alignment explanation
Indices: 85548584--85548630 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
85548574 TTTATTCCTT
85548584 TTATTATTTATTATCAATATA
1 TTATTATTTATTATCAATATA
* *
85548605 TTATTA-TTATTATTATTATA
1 TTATTATTTATTATCAATATA
85548625 TTATTA
1 TTATTA
85548631 CTACTACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTATTTATTATCAATATA
Found at i:85548967 original size:14 final size:14
Alignment explanation
Indices: 85548950--85548988 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
85548940 AATTTCAATT
85548950 TTTTTTATTTTAGC
1 TTTTTTATTTTAGC
85548964 TTTTTT-TTTTAGC
1 TTTTTTATTTTAGC
* *
85548977 TTATTCATTTTA
1 TTTTTTATTTTA
85548989 CTCATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (14 bp):
TTTTTTATTTTAGC
Found at i:85552835 original size:6 final size:6
Alignment explanation
Indices: 85552824--85552848 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
85552814 ATTTTATAAT
85552824 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
85552849 CAATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:85569666 original size:14 final size:14
Alignment explanation
Indices: 85569647--85569673 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85569637 TATTAAGGCA
85569647 ATAATTAAGAACAC
1 ATAATTAAGAACAC
85569661 ATAATTAAGAACA
1 ATAATTAAGAACA
85569674 AGAACAAGTA
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:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:85571906 original size:15 final size:15
Alignment explanation
Indices: 85571881--85571940 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 15
85571871 AATAAAGTTC
*
85571881 AAAATAAAAAAAACAAA
1 AAAAT-AAAAAAA-ATA
85571898 AAAATAAAAAAAATA
1 AAAATAAAAAAAATA
85571913 AAAATAAAAATAAAGATA
1 AAAAT-AAAA-AAA-ATA
85571931 AAAATAAAAA
1 AAAATAAAAA
85571941 TAAACATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 7 0.18
16 12 0.31
17 12 0.31
18 8 0.21
ACGTcount: A:0.85, C:0.02, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAATAAAAAAAATA
Found at i:85571923 original size:6 final size:6
Alignment explanation
Indices: 85571881--85571956 Score: 81
Period size: 6 Copynumber: 13.3 Consensus size: 6
85571871 AATAAAGTTC
85571881 AAAATA AAAA-A AACAA-A AAAAT- -AAA-A AAAATA AAAATA AAAATA
1 AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
85571925 AAGATA AAAATA AAAATA AACATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
85571957 TGGACTCAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
4 3 0.05
5 8 0.13
6 50 0.82
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:85573629 original size:3 final size:3
Alignment explanation
Indices: 85573621--85573681 Score: 70
Period size: 3 Copynumber: 19.7 Consensus size: 3
85573611 AACAAAAGAC
**
85573621 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT GGACC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --AAT AAT AAT
85573667 AGAT AAT AAT AAT AA
1 A-AT AAT AAT AAT AA
85573682 CAAAGAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:85573693 original size:29 final size:28
Alignment explanation
Indices: 85573633--85573699 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
85573623 TAATAATAAT
* ** **
85573633 AATAATAATAATAATAATAATATGGACC
1 AATAATAATAATAATAATAACAAAGAAA
85573661 AATAATAGATAATAATAATAACAAAGAAA
1 AATAATA-ATAATAATAATAACAAAGAAA
85573690 AATAA-AATAA
1 AATAATAATAA
85573700 ATAACTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 4 0.12
28 8 0.24
29 21 0.64
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (28 bp):
AATAATAATAATAATAATAACAAAGAAA
Found at i:85578345 original size:24 final size:24
Alignment explanation
Indices: 85578313--85578361 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
85578303 GGTTGGTAGC
85578313 TTGTTTTGAAGAATAGCTGAACAT
1 TTGTTTTGAAGAATAGCTGAACAT
85578337 TTGTTTTGAAGAATAGCTGAACAT
1 TTGTTTTGAAGAATAGCTGAACAT
85578361 T
1 T
85578362 CCTTGTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (24 bp):
TTGTTTTGAAGAATAGCTGAACAT
Found at i:85583312 original size:6 final size:6
Alignment explanation
Indices: 85583297--85583335 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
85583287 GCAAATGGAT
*
85583297 CATTTC CATTTT CATTTC CATTTC CATTTC CATTTC CAT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CAT
85583336 ATTTGGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.31, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:85588502 original size:22 final size:23
Alignment explanation
Indices: 85588474--85588524 Score: 95
Period size: 22 Copynumber: 2.3 Consensus size: 23
85588464 TCTATCCACC
85588474 AAAAATTAGGATTTATTTTAGT-
1 AAAAATTAGGATTTATTTTAGTG
85588496 AAAAATTAGGATTTATTTTAGTG
1 AAAAATTAGGATTTATTTTAGTG
85588519 AAAAAT
1 AAAAAT
85588525 CAATATCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (23 bp):
AAAAATTAGGATTTATTTTAGTG
Found at i:85590683 original size:40 final size:40
Alignment explanation
Indices: 85590622--85590729 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
85590612 AGATAGACCG
*
85590622 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* * * * * **
85590662 AATATGCCAAACAGAAGCTCATAAGAGCAGGTCCACCCGC
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
*
85590702 AACACGCC-AATAGAAGCTCATAAGAGCT
1 AACACGCCAAACAGAAGCTCATAAGAGCT
85590730 TAACAAAAGC
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
39 18 0.32
40 38 0.68
ACGTcount: A:0.43, C:0.29, G:0.17, T:0.12
Consensus pattern (40 bp):
AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
Found at i:85592359 original size:17 final size:16
Alignment explanation
Indices: 85592337--85592382 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
85592327 TAATTTTAAG
*
85592337 AAAAATCTATAAAATAT
1 AAAAATATATAAAAT-T
*
85592354 AAAAATATATACAATT
1 AAAAATATATAAAATT
85592370 -AAAATATATAAAA
1 AAAAATATATAAAA
85592383 AGCTTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 12 0.46
16 1 0.04
17 13 0.50
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATATATAAAATT
Found at i:85594813 original size:39 final size:39
Alignment explanation
Indices: 85594759--85595018 Score: 265
Period size: 39 Copynumber: 7.0 Consensus size: 39
85594749 ATTACACTAA
* *
85594759 CACACAGCCTACTAGGCACATAGACCGAATAATCACCGG
1 CACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGG
* ** *
85594798 CACACAGCCTGCTAGGCACATTGCTTGAATAATCATCGG
1 CACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGG
* * *
85594837 CACACAGCTTACTAGGCACATAGCCCGAATAATCACCAG
1 CACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGG
*
85594876 CATACAGCCTGCTAGGCACATAGCCCGAATAA-CA---G
1 CACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGG
* * * *
85594911 ----C-G--TGCTAGGTACATAGCTCGAATAATCACTGA
1 CACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGG
* *
85594943 CACACAACCTGCTAGGCACATAGCCCGAATAATCACCAG
1 CACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGG
* **
85594982 CACACAGCCTGCTAGGCATATAATCCGAATAA-CACCG
1 CACACAGCCTGCTAGGCACATAGCCCGAATAATCACCG
85595019 TATTTCTATT
Statistics
Matches: 180, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
28 21 0.12
29 2 0.01
30 1 0.01
31 1 0.01
35 1 0.01
36 1 0.01
38 6 0.03
39 147 0.82
ACGTcount: A:0.34, C:0.31, G:0.18, T:0.17
Consensus pattern (39 bp):
CACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGG
Found at i:85594919 original size:28 final size:28
Alignment explanation
Indices: 85594879--85594935 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
85594869 TCACCAGCAT
85594879 ACAGCCTGCTAGGCACATAGCCCGAATA
1 ACAGCCTGCTAGGCACATAGCCCGAATA
* * *
85594907 ACAGCGTGCTAGGTACATAGCTCGAATA
1 ACAGCCTGCTAGGCACATAGCCCGAATA
85594935 A
1 A
85594936 TCACTGACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (28 bp):
ACAGCCTGCTAGGCACATAGCCCGAATA
Found at i:85594954 original size:67 final size:67
Alignment explanation
Indices: 85594848--85594974 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
85594838 ACACAGCTTA
* *
85594848 CTAGGCACATAGCCCGAATAATCACCAGCATACAGCCTGCTAGGCACATAGCCCGAATAACAGCG
1 CTAGGCACATAGCCCGAATAATCACCAGCACACAACCTGCTAGGCACATAGCCCGAATAACAGCG
85594913 TG
66 TG
* * *
85594915 CTAGGTACATAGCTCGAATAATCA-CTGACACACAACCTGCTAGGCACATAGCCCGAATAA
1 CTAGGCACATAGCCCGAATAATCACCAG-CACACAACCTGCTAGGCACATAGCCCGAATAA
85594975 TCACCAGCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 2 0.04
67 52 0.96
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.17
Consensus pattern (67 bp):
CTAGGCACATAGCCCGAATAATCACCAGCACACAACCTGCTAGGCACATAGCCCGAATAACAGCG
TG
Found at i:85594989 original size:106 final size:106
Alignment explanation
Indices: 85594801--85595015 Score: 306
Period size: 106 Copynumber: 2.0 Consensus size: 106
85594791 TCACCGGCAC
* * * * *
85594801 ACAGCCTGCTAGGCACATTGCTTGAATAATCATCGGCACACAGCTTACTAGGCACATAGCCCGAA
1 ACAGCCTGCTAGGCACATAGCTCGAATAATCATCGACACACAACCTACTAGGCACATAGCCCGAA
* *
85594866 TAATCACCAGCATACAGCCTGCTAGGCACATAGCCCGAATA
66 TAATCACCAGCACACAGCCTGCTAGGCACATAACCCGAATA
* * *
85594907 ACAGCGTGCTAGGTACATAGCTCGAATAATCA-CTGACACACAACCTGCTAGGCACATAGCCCGA
1 ACAGCCTGCTAGGCACATAGCTCGAATAATCATC-GACACACAACCTACTAGGCACATAGCCCGA
* *
85594971 ATAATCACCAGCACACAGCCTGCTAGGCATATAATCCGAATA
65 ATAATCACCAGCACACAGCCTGCTAGGCACATAACCCGAATA
85595013 ACA
1 ACA
85595016 CCGTATTTCT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 1 0.01
106 95 0.99
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (106 bp):
ACAGCCTGCTAGGCACATAGCTCGAATAATCATCGACACACAACCTACTAGGCACATAGCCCGAA
TAATCACCAGCACACAGCCTGCTAGGCACATAACCCGAATA
Found at i:85597237 original size:61 final size:61
Alignment explanation
Indices: 85597117--85597237 Score: 147
Period size: 61 Copynumber: 2.0 Consensus size: 61
85597107 ATTTGGTCCT
* * ** *
85597117 AAATATAAAAAAAATTAATAAATTTAGCCCTCAATTTTTATAAAATTTATCATTTTAATTC
1 AAATATAAAAAAAATTAATAAATTTAGCCCTCAATATTTACAAAATTTAAAATTATAATTC
* *
85597178 AAATTTAAAAAATAA-TAATAAATTTAGTCCTCAATATTTACAAAA-TTAGAAATTATAATT
1 AAATATAAAAAA-AATTAATAAATTTAGCCCTCAATATTTACAAAATTTA-AAATTATAATT
85597238 TTTAATAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
60 3 0.06
61 46 0.90
62 2 0.04
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.39
Consensus pattern (61 bp):
AAATATAAAAAAAATTAATAAATTTAGCCCTCAATATTTACAAAATTTAAAATTATAATTC
Found at i:85599988 original size:20 final size:21
Alignment explanation
Indices: 85599917--85599988 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
85599907 ATTTAGTCAT
* *
85599917 ATAATA-AA-TTAATAATATA
1 ATAATATAATTTAATATTTTA
*
85599936 ATAAGTATAATTTATTATTTTA
1 ATAA-TATAATTTAATATTTTA
*
85599958 ATAA-ATTATTTAATATTTTA
1 ATAATATAATTTAATATTTTA
85599978 ATAATA-AATTT
1 ATAATATAATTT
85599989 TAAAAATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 4 0.09
20 24 0.56
21 3 0.07
22 12 0.28
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
ATAATATAATTTAATATTTTA
Found at i:85599990 original size:13 final size:14
Alignment explanation
Indices: 85599972--85600013 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
85599962 ATTATTTAAT
85599972 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
85599985 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
85600000 ATTTTAAATAATAT
1 ATTTT-AATAATAT
85600014 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:85599998 original size:16 final size:16
Alignment explanation
Indices: 85599976--85600012 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
85599966 TTTAATATTT
85599976 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
85599993 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
85600008 TAATA
1 TAATA
85600013 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:85600775 original size:16 final size:16
Alignment explanation
Indices: 85600756--85600802 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
85600746 AATTTTTTAA
85600756 TTTAAAAATATATTTT
1 TTTAAAAATATATTTT
*
85600772 TTT-ATAAT-TATTTT
1 TTTAAAAATATATTTT
*
85600786 TATTAAAAATAAATTTT
1 T-TTAAAAATATATTTT
85600803 ATCATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 7 0.28
17 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAAATATATTTT
Found at i:85601689 original size:22 final size:22
Alignment explanation
Indices: 85601648--85601690 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
85601638 TATCTAAATA
*
85601648 ATAATAACAAAATAGTAACAAC
1 ATAATAACAAAATAGCAACAAC
* *
85601670 ATAATAATAAAATGGCAACAA
1 ATAATAACAAAATAGCAACAA
85601691 AACAATGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAATAACAAAATAGCAACAAC
Found at i:85603043 original size:27 final size:26
Alignment explanation
Indices: 85602981--85603092 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
85602971 AGCATGGCTG
* * *
85602981 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
85603007 CCAAATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
85603035 CCAGAACAGA-AGTATGTGGCAGAGCCA
1 CCAGAACAGATA--ATGTGGCAGAGCCA
* *
85603062 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
85603089 CCAG
1 CCAG
85603093 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:85604540 original size:24 final size:24
Alignment explanation
Indices: 85604520--85604584 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
85604510 CCCTTATCTG
85604520 CTCCTAAATCCTATCCTTTATCAA
1 CTCCTAAATCCTATCCTTTATCAA
* *
85604544 CTCCTAAATCCTACCCCTTATCAA
1 CTCCTAAATCCTATCCTTTATCAA
85604568 CTCCTAAATCCTATCCT
1 CTCCTAAATCCTATCCT
85604585 GACAGACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.34
Consensus pattern (24 bp):
CTCCTAAATCCTATCCTTTATCAA
Found at i:85604548 original size:48 final size:47
Alignment explanation
Indices: 85604485--85604584 Score: 121
Period size: 48 Copynumber: 2.1 Consensus size: 47
85604475 CACCTCTTGT
* * **
85604485 TCCTTGATCAGCTCCTAGATTTCCT-CCCTTATCTGCTCCTAAATCCTA
1 TCCTTGATCAACTCCTA-A-ATCCTACCCTTATCAACTCCTAAATCCTA
*
85604533 TCCTTTATCAACTCCTAAATCCTACCCCTTATCAACTCCTAAATCCTA
1 TCCTTGATCAACTCCTAAATCCTA-CCCTTATCAACTCCTAAATCCTA
85604581 TCCT
1 TCCT
85604585 GACAGACTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
46 4 0.09
47 1 0.02
48 40 0.89
ACGTcount: A:0.23, C:0.37, G:0.04, T:0.36
Consensus pattern (47 bp):
TCCTTGATCAACTCCTAAATCCTACCCTTATCAACTCCTAAATCCTA
Found at i:85610872 original size:27 final size:27
Alignment explanation
Indices: 85610834--85610926 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
85610824 AGCATGGCTG
* *
85610834 CCAGAATAGATAAT-GTAACAGAGTCA
1 CCAGAACAGATAATCGTAACAGAGCCA
**
85610860 CCAGAGACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATCGTAACAGAGCCA
* **
85610888 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-CGTAACAGAGCCA
*
85610915 CCAGATCAGATA
1 CCAGAACAGATA
85610927 GTTGTCCAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.14
27 34 0.60
28 15 0.26
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (27 bp):
CCAGAACAGATAATCGTAACAGAGCCA
Found at i:85610889 original size:28 final size:27
Alignment explanation
Indices: 85610852--85610924 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
85610842 GATAATGTAA
*
85610852 CAGAGTCACCAGAGACAGATAAT-CGTGG
1 CAGAGCCACCAGA-ACAGA-AATACGTGG
*
85610880 CAGAGCCACCAGAACAGAAATATGTGG
1 CAGAGCCACCAGAACAGAAATACGTGG
*
85610907 CAGAGCCACCAGATCAGA
1 CAGAGCCACCAGAACAGA
85610925 TAGTTGTCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 26 0.63
28 12 0.29
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.11
Consensus pattern (27 bp):
CAGAGCCACCAGAACAGAAATACGTGG
Found at i:85612385 original size:24 final size:24
Alignment explanation
Indices: 85612358--85612432 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
85612348 CTAGATTTCC
**
85612358 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
85612382 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
85612406 CCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
85612430 TCC
1 TCC
85612433 TGACAGACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.25, C:0.40, G:0.01, T:0.33
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:85627769 original size:19 final size:19
Alignment explanation
Indices: 85627745--85627789 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
85627735 TTAAATTTAA
*
85627745 TTTAATT-TTATATTAATTT
1 TTTAATTATT-TATTAACTT
85627764 TTTAATTATTTATTAACTT
1 TTTAATTATTTATTAACTT
*
85627783 ATTAATT
1 TTTAATT
85627790 GATTCATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATTATTTATTAACTT
Found at i:85628172 original size:19 final size:19
Alignment explanation
Indices: 85628150--85628198 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
85628140 GAAATATATT
85628150 AAAAAAATTCAAATAAC-AA
1 AAAAAAATT-AAATAACGAA
*
85628169 AAAAAAATATAAATTACGAA
1 AAAAAAAT-TAAATAACGAA
85628189 AAAAAAATTA
1 AAAAAAATTA
85628199 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAAAATTAAATAACGAA
Found at i:85628198 original size:14 final size:14
Alignment explanation
Indices: 85628179--85628208 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85628169 AAAAAAATAT
85628179 AAATTACGAAAAAA
1 AAATTACGAAAAAA
*
85628193 AAATTATGAAAAAA
1 AAATTACGAAAAAA
85628207 AA
1 AA
85628209 TTAGAAACTC
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:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (14 bp):
AAATTACGAAAAAA
Found at i:85629725 original size:21 final size:21
Alignment explanation
Indices: 85629700--85629749 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
85629690 TGTAATTGAT
*
85629700 TATTTTTACA-TTATTTTTATA
1 TATTTTTA-ATTTACTTTTATA
85629721 TATTTTTTAATTTACTTTTATA
1 TA-TTTTTAATTTACTTTTATA
85629743 -ATTTTTA
1 TATTTTTA
85629750 TAATATTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 4 0.15
22 16 0.62
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTTTAATTTACTTTTATA
Found at i:85634502 original size:26 final size:26
Alignment explanation
Indices: 85634448--85634504 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
85634438 TCAACTCTCA
*
85634448 TTTTTAATTAAATTTGTATTAAGGGT
1 TTTTTAATTAAATTTGTATTAAGAGT
* *
85634474 TTTTTAATT-AATATTGTATTATGATT
1 TTTTTAATTAAAT-TTGTATTAAGAGT
85634500 TTTTT
1 TTTTT
85634505 GTATTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (26 bp):
TTTTTAATTAAATTTGTATTAAGAGT
Found at i:85635486 original size:52 final size:53
Alignment explanation
Indices: 85635405--85635509 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 53
85635395 ATAGTTTGAG
* *
85635405 TTATTTGAGTTATTCAAATTAACTTGAAT-AAAAAAATCAAACTTTTCGGTTT
1 TTATTTAAGTTATTCAAATTAACTCGAATAAAAAAAATCAAACTTTTCGGTTT
*
85635457 TTATTTAAGTTATTCAGATTAACTCGAATAAAAAAAATCAAACTTTTCGGTTT
1 TTATTTAAGTTATTCAAATTAACTCGAATAAAAAAAATCAAACTTTTCGGTTT
85635510 AACTCGAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 26 0.53
53 23 0.47
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (53 bp):
TTATTTAAGTTATTCAAATTAACTCGAATAAAAAAAATCAAACTTTTCGGTTT
Found at i:85635633 original size:70 final size:70
Alignment explanation
Indices: 85635559--85635733 Score: 307
Period size: 70 Copynumber: 2.5 Consensus size: 70
85635549 TCCGAATAAA
*
85635559 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTTAAAAGTCAAAACC-AT
1 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTACCTTGTCTAAAGTTAAAAGTC-AAACCTAT
85635623 TAAGTT
65 TAAGTT
*
85635629 AAAAGACAAAACTACGTCGTTTTGATAAATGTTTACCTTGTCTAAAGTTAAAAGTCAAACCTATT
1 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTACCTTGTCTAAAGTTAAAAGTCAAACCTATT
85635694 AAGTT
66 AAGTT
*
85635699 AAAAGGCAAAACTACGTCATTTTGATAAATGTTTA
1 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTA
85635734 ATCATTAAGT
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
69 5 0.05
70 95 0.95
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (70 bp):
AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTACCTTGTCTAAAGTTAAAAGTCAAACCTATT
AAGTT
Found at i:85640388 original size:26 final size:27
Alignment explanation
Indices: 85640350--85640410 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
85640340 AAAAACTAAT
*
85640350 AGGAAAATGAAATATTACCTTAGTTGA
1 AGGAGAATGAAATATTACCTTAGTTGA
85640377 AGGAGAAT-AAATATTACCTTAGTTGA
1 AGGAGAATGAAATATTACCTTAGTTGA
85640403 AGGAGAAT
1 AGGAGAAT
85640411 CAAACATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 26 0.79
27 7 0.21
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (27 bp):
AGGAGAATGAAATATTACCTTAGTTGA
Found at i:85641081 original size:87 final size:87
Alignment explanation
Indices: 85640979--85641151 Score: 274
Period size: 87 Copynumber: 2.0 Consensus size: 87
85640969 AAACTTCTAA
* * *
85640979 GTCAAATTATAAATAAGAAAAATATCTCTAGAAATTTACTAAAATAATTTCTTTAGAGAATTTTC
1 GTCAAATTAAAAATAAGAAAAATATCTCTAGAAATTTACTAAAATAATTTCTTCAAAGAATTTTC
85641044 TCTCTACAACTTTCTCTTGAAG
66 TCTCTACAACTTTCTCTTGAAG
* * **
85641066 GTCAAGTTAAAAATAAGAAAAGTATCTCTAGAAATTTTTTAAAATAATTTCTTCAAAGAATTTTC
1 GTCAAATTAAAAATAAGAAAAATATCTCTAGAAATTTACTAAAATAATTTCTTCAAAGAATTTTC
*
85641131 TCTCTATAACTTTCTCTTGAA
66 TCTCTACAACTTTCTCTTGAA
85641152 TTCAAGTGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (87 bp):
GTCAAATTAAAAATAAGAAAAATATCTCTAGAAATTTACTAAAATAATTTCTTCAAAGAATTTTC
TCTCTACAACTTTCTCTTGAAG
Found at i:85641334 original size:69 final size:69
Alignment explanation
Indices: 85641230--85641364 Score: 200
Period size: 69 Copynumber: 2.0 Consensus size: 69
85641220 AATTAAACTT
* * *
85641230 AATCACTTGAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTA
1 AATCACTTGAATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTA
85641295 AGAC
66 AGAC
* * *
85641299 AATCACTTTAATATTAAATTAAAAAAAATAC-TATCAAGATAAGTATTAAATTTAATTTAATATT
1 AATCACTTGAATATTAAATT-AAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATT
85641363 AA
65 AA
85641365 AACTATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 51 0.86
70 8 0.14
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (69 bp):
AATCACTTGAATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTA
AGAC
Found at i:85641380 original size:69 final size:69
Alignment explanation
Indices: 85641239--85641383 Score: 175
Period size: 69 Copynumber: 2.1 Consensus size: 69
85641229 TAATCACTTG
* * * *
85641239 AATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAGACAATCA
1 AATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAACAATCA
***
85641304 CTTT
66 AAAT
* * * *
85641308 AATATTAAATTAAAAAAAATAC-TATCAAGATAAGTATTAAATTTAATTTAATATTAAAACTATT
1 AATATTAAATT-AAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAACAATC
85641372 AAAAT
65 AAAAT
85641377 AATATTA
1 AATATTA
85641384 TTTTTGAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 56 0.88
70 8 0.12
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (69 bp):
AATATTAAATTAAAAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAACAATCA
AAAT
Found at i:85648252 original size:10 final size:10
Alignment explanation
Indices: 85648231--85648264 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
85648221 AACTAAACTC
85648231 TAAAAACCCT
1 TAAAAACCCT
* *
85648241 TACAAACTCT
1 TAAAAACCCT
85648251 TAAAAACCCT
1 TAAAAACCCT
85648261 TAAA
1 TAAA
85648265 CTCTAACCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAAACCCT
Found at i:85648256 original size:20 final size:19
Alignment explanation
Indices: 85648225--85648270 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
85648215 AAAAAAAACT
85648225 AAACTCTAAAAACCCTTAC
1 AAACTCTAAAAACCCTTAC
85648244 AAACTCTTAAAAACCCTT--
1 AAACTC-TAAAAACCCTTAC
85648262 AAACTCTAA
1 AAACTCTAA
85648271 CCCTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.12
18 6 0.23
19 6 0.23
20 11 0.42
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (19 bp):
AAACTCTAAAAACCCTTAC
Found at i:85649300 original size:13 final size:14
Alignment explanation
Indices: 85649269--85649301 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
85649259 AATGCTTTTG
85649269 TAAAATTATAAACA
1 TAAAATTATAAACA
*
85649283 TAAAATTA-AAATA
1 TAAAATTATAAACA
85649296 TAAAAT
1 TAAAAT
85649302 AAGATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAATTATAAACA
Found at i:85666873 original size:34 final size:34
Alignment explanation
Indices: 85666830--85666898 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
85666820 CCCCTAAAGA
85666830 TAGAATTTATACTTAAAAAATAATTTCTCACTAT
1 TAGAATTTATACTTAAAAAATAATTTCTCACTAT
85666864 TAGAATTTATACTTAAAAAATAATTTCTCACTAT
1 TAGAATTTATACTTAAAAAATAATTTCTCACTAT
85666898 T
1 T
85666899 TCGTGCGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (34 bp):
TAGAATTTATACTTAAAAAATAATTTCTCACTAT
Found at i:85685693 original size:23 final size:23
Alignment explanation
Indices: 85685650--85685693 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
85685640 CATCATAATA
*
85685650 TCATCTATTTCATATCACAAAAC
1 TCATCTATATCATATCACAAAAC
*
85685673 TCATC-ATATCATCATCTCAAA
1 TCATCTATATCAT-ATCACAAA
85685694 CCAAACCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (23 bp):
TCATCTATATCATATCACAAAAC
Found at i:85702412 original size:28 final size:29
Alignment explanation
Indices: 85702358--85702412 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
85702348 ACAGGGGTTT
* *
85702358 TCACACGGCCTTGCACACGCCCGTGTCCC
1 TCACACGGCCATGCACACGCCCATGTCCC
85702387 TCACACGGCCATG-ACACGCCCATGTC
1 TCACACGGCCATGCACACGCCCATGTC
85702413 TCAGTCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.18, C:0.45, G:0.20, T:0.16
Consensus pattern (29 bp):
TCACACGGCCATGCACACGCCCATGTCCC
Found at i:85703690 original size:48 final size:48
Alignment explanation
Indices: 85703616--85703983 Score: 398
Period size: 48 Copynumber: 7.7 Consensus size: 48
85703606 TAAATTTCCA
* * * * *
85703616 ATGCCATATCCCAGATATGGTCTTACACTGGCTCACATGTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * * * * * *
85703664 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCGTCTTAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * *
85703712 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * *
85703760 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * * * * *
85703808 ATACCATGTCCCAGACATGGACTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
* * * *
85703856 ATGCCATGTCCCAGGCATGGTCTTACACTAG-TGCACATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATGTCAAGGCCG
* * ** * *
85703904 ATGCCATGTCCCAAACATGGTCTTACACTAACTCTTATAAT-ATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-GTCAAGGCCG
85703952 ATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
85703984 ACATATATCA
Statistics
Matches: 266, Mismatches: 51, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.00
48 262 0.98
49 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAGGCCG
Found at i:85703876 original size:144 final size:144
Alignment explanation
Indices: 85703616--85703983 Score: 501
Period size: 144 Copynumber: 2.6 Consensus size: 144
85703606 TAAATTTCCA
* *
85703616 ATGCCATATCCCAGATATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGACA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
* * *
85703681 TGGTTTTACACTAGCTCTCGTCTTAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT-
66 TGGTCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTAG-TG
* * *
85703745 CACATGTCGA-GGTCG
130 CACATATCAACGCT-G
*
85703760 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATACCATGTCCCAGACA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
* * *
85703825 TGGACTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGGCATGGTCTTACACTAGTGC
66 TGGTCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGTGC
85703890 ACATATCAACGCTG
131 ACATATCAACGCTG
* * ** ** *
85703904 ATGCCATGTCCCAAACATGGTCTTACACTAACTCTTATAAT--ATGGCCGATGCCATGTCCCAGA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACAT-GTCGA-GGCCGATGCCATGTCCCAGA
85703967 CATGGTCTTACACTAGC
64 CATGGTCTTACACTAGC
85703984 ACATATATCA
Statistics
Matches: 199, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
143 2 0.01
144 194 0.97
145 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (144 bp):
ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGTGC
ACATATCAACGCTG
Found at i:85705784 original size:87 final size:86
Alignment explanation
Indices: 85705633--85705883 Score: 421
Period size: 87 Copynumber: 2.9 Consensus size: 86
85705623 TTTATTGGGA
*
85705633 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAG
* *
85705698 GCTTTTAGCGGTGTTTGTGGT
66 GCTTTTAGCGGCGTTTGGGGT
* *
85705719 AAAAGTGCCGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTATGGTAAAAGCGCCGCTAAAGGTCAA
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAA
85705784 GGCTTTTAGCGGCGTTTGGGGT
65 GGCTTTTAGCGGCGTTTGGGGT
* * *
85705806 AAAAGCGCCGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGGAAAAGCGCCGCTAAAGGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAG
85705871 GCTTTTAGCGGCG
66 GCTTTTAGCGGCG
85705884 CTTTTTTTAC
Statistics
Matches: 154, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 73 0.47
87 81 0.53
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAG
GCTTTTAGCGGCGTTTGGGGT
Found at i:85705787 original size:130 final size:131
Alignment explanation
Indices: 85705619--85705883 Score: 435
Period size: 130 Copynumber: 2.0 Consensus size: 131
85705609 AAAAATTTGT
*
85705619 GGCGTTTATTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGC
1 GGCGTTTATTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGTAAAAGCGC
* * * *
85705684 CGCTAAAGGTCAAGGCTTTTAGCGGTGTTTGTGGTAAAAGTGCCGCTAAAGGTCAAGGCTTTTTA
66 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGGAAAAGCGCCGCTAAAGGTCAAGGC-TTTTA
85705749 GC
130 GC
* *
85705751 GGCGTTTA-T-GGTAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGTAAAAGCGC
1 GGCGTTTATTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGTAAAAGCGC
*
85705814 CGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAG
66 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAG
85705879 C
131 C
85705880 GGCG
1 GGCG
85705884 CTTTTTTTAC
Statistics
Matches: 125, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
129 11 0.09
130 105 0.84
131 1 0.01
132 8 0.06
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.25
Consensus pattern (131 bp):
GGCGTTTATTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGTAAAAGCGC
CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAG
C
Found at i:85705905 original size:43 final size:43
Alignment explanation
Indices: 85705633--85705883 Score: 421
Period size: 43 Copynumber: 5.8 Consensus size: 43
85705623 TTTATTGGGA
*
85705633 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
*
85705676 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGTGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
* *
85705719 AAAAGTGCCGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTATGGT
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGT
*
85705763 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
* * *
85705806 AAAAGCGCCGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGGGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
85705849 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
85705884 CTTTTTTTAC
Statistics
Matches: 196, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
43 156 0.80
44 40 0.20
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
Found at i:85705993 original size:31 final size:31
Alignment explanation
Indices: 85705958--85706040 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
85705948 CTTCCTGCAT
* *
85705958 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
85705989 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
85706020 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
85706041 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:85711950 original size:9 final size:9
Alignment explanation
Indices: 85711936--85712125 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
85711926 TATTTAAGTA
85711936 TTATGTAAG
1 TTATGTAAG
85711945 TTATGTAAG
1 TTATGTAAG
*
85711954 TTATGATATG
1 TTATG-TAAG
* * *
85711964 ATATAT-AT
1 TTATGTAAG
*
85711972 TTATGTAAA
1 TTATGTAAG
* *
85711981 TTATAT-AT
1 TTATGTAAG
*
85711989 TTATCTAAG
1 TTATGTAAG
*
85711998 TTATATAAG
1 TTATGTAAG
85712007 TTATGTAAG
1 TTATGTAAG
*
85712016 TTATGTAAA
1 TTATGTAAG
*
85712025 TTATGATATAAAA
1 TTATG---T-AAG
*
85712038 TATATTTAAG
1 T-TATGTAAG
85712048 TATTATGTAAG
1 --TTATGTAAG
85712059 TTATGTAAG
1 TTATGTAAG
* *
85712068 TTATAT-AT
1 TTATGTAAG
*
85712076 TTATCTAAG
1 TTATGTAAG
*
85712085 TTATATAAG
1 TTATGTAAG
*
85712094 TTATGTACG
1 TTATGTAAG
*
85712103 TTTTGTAAG
1 TTATGTAAG
* *
85712112 TTATATAAA
1 TTATGTAAG
85712121 TTATG
1 TTATG
85712126 ATATCAAATA
Statistics
Matches: 139, Mismatches: 31, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
8 16 0.12
9 98 0.71
10 8 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:85712018 original size:71 final size:69
Alignment explanation
Indices: 85711936--85712098 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
85711926 TATTTAAGTA
* * * *
85711936 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
85712000 ATATAAG
64 ATAT-AG
* * *
85712007 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
85712072 ATAT
66 ATAG
* *
85712076 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
85712099 TACGTTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:85712074 original size:87 final size:90
Alignment explanation
Indices: 85711972--85712156 Score: 259
Period size: 96 Copynumber: 2.0 Consensus size: 90
85711962 TGATATATAT
*
85711972 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TA-TGTAAGTTATGTAAATTATGATAT
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
85712034 AAAATATATTTAAGTATTATGTAAG
66 AAAATATATTTAAGTATTATGTAAG
*
85712059 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TGTA----TTGTAAGTTATATAAATTA
* *
85712124 TGATATCAAATATATTTATGTATTATGTAAG
60 TGATATAAAATATATTTAAGTATTATGTAAG
85712155 TT
1 TT
85712157 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
87 34 0.40
90 1 0.01
91 2 0.02
96 48 0.56
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (90 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
AAAATATATTTAAGTATTATGTAAG
Found at i:85712112 original size:114 final size:114
Alignment explanation
Indices: 85711912--85712125 Score: 299
Period size: 114 Copynumber: 1.9 Consensus size: 114
85711902 ACTAGTTATG
* * *
85711912 TATGATATGAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
*
85711977 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
85712026 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
85712089 ATAAGTTATGTACGTTT-TGTAAGTTATATAAATTATG
65 ATAAATTATATA--TTTATCTAAGTTATATAAATTATG
85712126 ATATCAAATA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
112 4 0.05
113 18 0.20
114 63 0.72
115 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:85712164 original size:87 final size:87
Alignment explanation
Indices: 85711972--85712156 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 87
85711962 TGATATATAT
*
85711972 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
85712037 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* * *
85712059 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AAT
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-
*
85712122 TATGATATCAAATATATTTATGT-A-
65 AAT-ATATCAAA-ATA-TTATGTAAG
85712146 TTATGTAAGTT
1 TTATGTAAGTT
85712157 TTTTATTTCA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 70 0.81
88 3 0.03
89 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Done.