Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 105 of 202
Found at i:32102872 original size:24 final size:24
Alignment explanation
Indices: 32102816--32102897 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
32102806 CTCGAGTTCA
* * * *
32102816 AATGATTGTTTTGTCTGTGA-TTA
1 AATGACTGATTTGTCTATGATTTG
*
32102839 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTATGATTT-G
*
32102863 TATGACTGATTTGTCTATGATTTG
1 AATGACTGATTTGTCTATGATTTG
32102887 AATGACTGATT
1 AATGACTGATT
32102898 CTGAGCATGG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 19 0.38
24 28 0.56
25 3 0.06
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTATGATTTG
Found at i:32102999 original size:27 final size:27
Alignment explanation
Indices: 32102961--32103031 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
32102951 ATAGAGGAAG
32102961 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
32102986 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
* *
32103014 TACTATTACTGGTAGCTT
1 TACTGTTACTGGTGGCTT
32103032 TGCTGCGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 1 0.03
26 5 0.12
27 32 0.80
28 2 0.05
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:32103166 original size:32 final size:32
Alignment explanation
Indices: 32103069--32103145 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
32103059 GCTGCCATGC
32103069 TACTGATGGCTTTATGCCGATCATAGTACCGT
1 TACTGATGGCTTTATGCCGATCATAGTACCGT
* *
32103101 TACTAATGGCTTTTTGCCGATCATAGTACCGT
1 TACTGATGGCTTTATGCCGATCATAGTACCGT
32103133 TACTGATGGCTTT
1 TACTGATGGCTTT
32103146 GTATCGACCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTATGCCGATCATAGTACCGT
Found at i:32103224 original size:32 final size:32
Alignment explanation
Indices: 32103188--32103334 Score: 131
Period size: 32 Copynumber: 4.6 Consensus size: 32
32103178 GTCGATTATT
*
32103188 TCACTGTTACTGATGGTTGTGTGCCGATCATA
1 TCACTGCTACTGATGGTTGTGTGCCGATCATA
* * *
32103220 TCACTGCTACTGATGGCT-TGTACC-AGTCATG
1 TCACTGCTACTGATGGTTGTGTGCCGA-TCATA
* * * *
32103251 TTACCGTTACTGATGGCTGTGTGCCGATCATA
1 TCACTGCTACTGATGGTTGTGTGCCGATCATA
* *
32103283 TCACTGCTACTGATGGCTT-TGTGCCAATCACA
1 TCACTGCTACTGATGG-TTGTGTGCCGATCATA
* *
32103315 TTACTG-TACTTATGGCTTGT
1 TCACTGCTACTGATGG-TTGT
32103335 AGCCATTCTG
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
30 1 0.01
31 35 0.38
32 55 0.59
33 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (32 bp):
TCACTGCTACTGATGGTTGTGTGCCGATCATA
Found at i:32103330 original size:63 final size:63
Alignment explanation
Indices: 32103190--32103331 Score: 205
Period size: 63 Copynumber: 2.3 Consensus size: 63
32103180 CGATTATTTC
* * **
32103190 ACTGTTACTGATGGTTGTGTGCCGATCATATCACTGCTACTGATGGCTTGTACCAGTCATGTT
1 ACTGTTACTGATGGCTGTGTGCCGATCATATCACTGCTACTGATGGCTTGTACCAATCACATT
* *
32103253 ACCGTTACTGATGGCTGTGTGCCGATCATATCACTGCTACTGATGGCTTTGTGCCAATCACATT
1 ACTGTTACTGATGGCTGTGTGCCGATCATATCACTGCTACTGATGGC-TTGTACCAATCACATT
*
32103317 ACTG-TACTTATGGCT
1 ACTGTTACTGATGGCT
32103332 TGTAGCCATT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
63 55 0.79
64 15 0.21
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (63 bp):
ACTGTTACTGATGGCTGTGTGCCGATCATATCACTGCTACTGATGGCTTGTACCAATCACATT
Found at i:32103411 original size:26 final size:26
Alignment explanation
Indices: 32103382--32103434 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
32103372 GGCTCTTCAC
* *
32103382 CATTCTAACTACTGGCAGCTCTGCTG
1 CATTATAACTACTGGCAGCTATGCTG
*
32103408 CATTATTACTACTGGCAGCTATGCTG
1 CATTATAACTACTGGCAGCTATGCTG
32103434 C
1 C
32103435 GATATTGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (26 bp):
CATTATAACTACTGGCAGCTATGCTG
Found at i:32103582 original size:28 final size:28
Alignment explanation
Indices: 32103550--32103603 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
32103540 CACATTGATA
* *
32103550 TTGTATCGGGCTTAGGCCCACACTGTTT
1 TTGTATCAGGCTAAGGCCCACACTGTTT
*
32103578 TTGTATTAGGCTAAGGCCCACACTGT
1 TTGTATCAGGCTAAGGCCCACACTGT
32103604 ACTGTTCCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (28 bp):
TTGTATCAGGCTAAGGCCCACACTGTTT
Found at i:32104372 original size:40 final size:39
Alignment explanation
Indices: 32104326--32104467 Score: 151
Period size: 40 Copynumber: 3.6 Consensus size: 39
32104316 TGTTATACTC
* *
32104326 TCTGTCTAGTGTATTCCGGTTGGATTAGCTCTTATAAGCT
1 TCTGTCTAGTGTGTT-CGGTTGGATTAGCTCTTATGAGCT
* *
32104366 TCTGTCTAGCT-TGTTTCAGTTGGATTAGCTTTTATGAGCT
1 TCTGTCTAG-TGTG-TTCGGTTGGATTAGCTCTTATGAGCT
* * * *
32104406 TTTGTTTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCT
1 TCTGTCTAGTGTG-TTCGGTTGGATTAGCTCTTATGAGCT
* *
32104446 TCTATCTGGTGTGTTCGGTTGG
1 TCTGTCTAGTGTGTTCGGTTGG
32104468 TTTGACGATC
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
39 9 0.11
40 73 0.86
41 3 0.04
ACGTcount: A:0.13, C:0.15, G:0.27, T:0.46
Consensus pattern (39 bp):
TCTGTCTAGTGTGTTCGGTTGGATTAGCTCTTATGAGCT
Found at i:32115778 original size:30 final size:29
Alignment explanation
Indices: 32115725--32115842 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
32115715 GTGTGCTAAA
*** * *
32115725 CGATGGTCGAAACCATTTGTTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATATT
*
32115755 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
32115784 TGATGATCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* ** *
32115813 CGATGGTTGTCACCATCCCTTTTCTTATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
32115842 C
1 C
32115843 AATGAGCGTC
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
29 51 0.72
30 20 0.28
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:32116713 original size:24 final size:24
Alignment explanation
Indices: 32116652--32116713 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
32116642 TCTATGATGC
32116652 CTTTGTGGTGTATTTGATAAATAA
1 CTTTGTGGTGTATTTGATAAATAA
** * **
32116676 CTTTGTGGCATATTTGGTAAATGT
1 CTTTGTGGTGTATTTGATAAATAA
32116700 CTTTGTGGTGTATT
1 CTTTGTGGTGTATT
32116714 CTATGTTGCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (24 bp):
CTTTGTGGTGTATTTGATAAATAA
Found at i:32122935 original size:27 final size:27
Alignment explanation
Indices: 32122892--32123036 Score: 122
Period size: 27 Copynumber: 5.3 Consensus size: 27
32122882 ATATAAAAAT
32122892 ATAAAAATATAAAAAATTATTAAATTTC
1 ATAAAAATAT-AAAAATTATTAAATTTC
*
32122920 AATAAAAATAT-AAAATTATTTAAATTTT
1 -ATAAAAATATAAAAATTA-TTAAATTTC
*
32122948 ATTAGAAAT-TAAAAATATATATAAA--TC
1 A-TAAAAATATAAAAAT-TAT-TAAATTTC
* *
32122975 ATAAAAATATAAAAAAATT-GTAAATTTT
1 ATAAAAATAT--AAAAATTATTAAATTTC
*
32123003 ATAAAAATAATAAAAATTA-TAAATTGC
1 ATAAAAAT-ATAAAAATTATTAAATTTC
32123030 ATAAAAA
1 ATAAAAA
32123037 AACTCTTTAA
Statistics
Matches: 96, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
26 10 0.10
27 32 0.33
28 30 0.31
29 24 0.25
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (27 bp):
ATAAAAATATAAAAATTATTAAATTTC
Found at i:32122963 original size:55 final size:55
Alignment explanation
Indices: 32122891--32123036 Score: 167
Period size: 55 Copynumber: 2.6 Consensus size: 55
32122881 AATATAAAAA
**
32122891 TATAAAAATATAAAAAATTATTAAATTTCAATAAAAATATAAAATTATT-TAAATTT
1 TATAAAAATAT-AAAAATTATTAAATTTC-ATAAAAATATAAAAAAATTGTAAATTT
*
32122947 TATTAGAAAT-TAAAAATATATATAAA--TCATAAAAATATAAAAAAATTGTAAATTT
1 TA-TAAAAATATAAAAAT-TAT-TAAATTTCATAAAAATATAAAAAAATTGTAAATTT
*
32123002 TATAAAAATAATAAAAATTA-TAAATTGCATAAAAA
1 TATAAAAAT-ATAAAAATTATTAAATTTCATAAAAA
32123037 AACTCTTTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
53 4 0.05
54 23 0.30
55 27 0.35
56 13 0.17
57 10 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (55 bp):
TATAAAAATATAAAAATTATTAAATTTCATAAAAATATAAAAAAATTGTAAATTT
Found at i:32122989 original size:8 final size:8
Alignment explanation
Indices: 32122878--32122906 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
32122868 ACATGCGAAA
32122878 AAAAATAT
1 AAAAATAT
32122886 AAAAATAT
1 AAAAATAT
32122894 AAAAATAT
1 AAAAATAT
32122902 AAAAA
1 AAAAA
32122907 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:32123243 original size:19 final size:20
Alignment explanation
Indices: 32123198--32123250 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
32123188 TTAGTACGAT
32123198 AATTTTTATAATTCTTTTAC
1 AATTTTTATAATTCTTTTAC
* *
32123218 AAATTTTATATTTC-TTTAC
1 AATTTTTATAATTCTTTTAC
32123237 AATTTTTTATAATT
1 AA-TTTTTATAATT
32123251 TTCTTACGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTTATAATTCTTTTAC
Found at i:32123294 original size:19 final size:19
Alignment explanation
Indices: 32123270--32123311 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32123260 CTTTATAAAG
* *
32123270 TTTTATAAATTTTTTATAT
1 TTTTATAAATATTTAATAT
*
32123289 TTTTATTAATATTTAATAT
1 TTTTATAAATATTTAATAT
32123308 TTTT
1 TTTT
32123312 TTACTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATAAATATTTAATAT
Found at i:32145610 original size:235 final size:228
Alignment explanation
Indices: 32145169--32145633 Score: 682
Period size: 235 Copynumber: 2.0 Consensus size: 228
32145159 TCTGGCAATG
*
32145169 TCTTACCAGAACTTCATTCATTTTGCTCTTTGAAACTAAACGACATACCCTTTTGCTTCCTTCTC
1 TCTTACCAGAACTTCATTCATTTTGCTCTATGAAACTAAACGACATACCCTTTTGCTTCCTTCTC
*
32145234 CTCTACAGGTAAATGGGTTCTGTGCTTTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAAT
66 CTCCACAGGTAAATGGGTTCTGTGCTTTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAAT
* * *
32145299 TTATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATATATGTTCTTAGCCTTTTCAGTTTG
131 TCATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGCCTTTTCAGTTTG
*
32145364 GAGGGTTTTTTTGGGTTTAAATCTATGAGATTT
196 GAGGGTTTTTTTGGGTTTAAATCCATGAGATTT
* * * * *
32145397 TCTTACTAGAAGTTTATTCATTTTGCTCGTAATGAAACTAAATGACATACCCTTTTGCTTCTTTC
1 TCTTACCAGAACTTCATTCATTTTGCTC-T-ATGAAACTAAACGACATACCCTTTTGCTTCCTTC
* * **
32145462 TCCTCCACAGGTAAATGGGTTTTGTGCTCTCTCTCTTTTTTCTTTTCTTTTTTTTTTAACATTTT
64 TCCTCCACAGGTAAATGGGTTCTGTGCT-T-T-T-TTTTTTC-TTTC-TTGTTTTGAAAC-TTTT
32145527 AATGAGAATTCATGGGTT-TTTTTT-GGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGCCTT
122 AATGAGAATTCATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGCCTT
* *
32145590 TTCAGTTTGGAGGTTTTTTTTGGGTTTAAATCCATGGGATTT
187 TTCAGTTTGGAGGGTTTTTTTGGGTTTAAATCCATGAGATTT
32145632 TC
1 TC
32145634 AGGTTAGAGT
Statistics
Matches: 211, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
228 25 0.12
229 1 0.00
230 57 0.27
231 1 0.00
232 1 0.00
233 1 0.00
234 7 0.03
235 82 0.39
236 15 0.07
237 21 0.10
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (228 bp):
TCTTACCAGAACTTCATTCATTTTGCTCTATGAAACTAAACGACATACCCTTTTGCTTCCTTCTC
CTCCACAGGTAAATGGGTTCTGTGCTTTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAAT
TCATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGCCTTTTCAGTTTG
GAGGGTTTTTTTGGGTTTAAATCCATGAGATTT
Found at i:32146437 original size:22 final size:20
Alignment explanation
Indices: 32146391--32146445 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
32146381 CACATTACTT
32146391 ATAATATTTATTATTTATAA
1 ATAATATTTATTATTTATAA
*
32146411 A-AATATTTATTATCTTGTAAA
1 ATAATATTTATTAT-TTAT-AA
*
32146432 ATAATATTTTTTAT
1 ATAATATTTATTAT
32146446 AATTTTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.40
20 4 0.13
21 3 0.10
22 11 0.37
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATAATATTTATTATTTATAA
Found at i:32147734 original size:16 final size:16
Alignment explanation
Indices: 32147713--32147763 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
32147703 TCAATTACTA
32147713 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
*
32147729 ATTACATCTCTATTCC
1 ATTACAACTCTATTCC
*
32147745 ATTAC-AGTCCTATTCC
1 ATTACAACT-CTATTCC
32147761 ATT
1 ATT
32147764 CACCCCAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 1 0.03
16 30 0.97
ACGTcount: A:0.27, C:0.29, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:32148077 original size:77 final size:77
Alignment explanation
Indices: 32147949--32148102 Score: 211
Period size: 77 Copynumber: 2.0 Consensus size: 77
32147939 TTGTTAAGTT
* * * * *
32147949 GAATAGCTTATTACGGGCAACAATGAATATGGCTTGAATTGCCATTCAAAAATCCTCTTTTAGAA
1 GAATAGCTTATTACAGGCAACAATGAATATGGCCTGAATTGCCATTAAAAAATCCTCTCTCAGAA
32148014 TTGGCTATTCAA
66 TTGGCTATTCAA
* * *
32148026 GAATAGCTTATTATAGGCAGCAATGACA-ATGGCCTGAATTGCCATTAAAAAATCCTCTCTCGGA
1 GAATAGCTTATTACAGGCAACAATGA-ATATGGCCTGAATTGCCATTAAAAAATCCTCTCTCAGA
*
32148090 ATTGGTTATTCAA
65 ATTGGCTATTCAA
32148103 CACCATAAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
77 66 0.99
78 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (77 bp):
GAATAGCTTATTACAGGCAACAATGAATATGGCCTGAATTGCCATTAAAAAATCCTCTCTCAGAA
TTGGCTATTCAA
Found at i:32150351 original size:209 final size:209
Alignment explanation
Indices: 32149991--32150411 Score: 693
Period size: 209 Copynumber: 2.0 Consensus size: 209
32149981 TAATTATTTA
32149991 TTTAGATCAAGATAAATCTCAACTAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
1 TTTAGATCAAGATAAATCTCAACTAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
* * **
32150056 ATCGCATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTTCTATATGTAATTGAATTTCT
66 ATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTTCT
32150121 ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTGCA
131 ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTGCA
**
32150186 CATATGTGCCCCTG
196 CATACATGCCCCTG
* * * * *
32150200 TTTAGATCAAGATAAATCTCAA-TCGGAATTAAATCGAGGAAAGGCGAAAATCATGGATTAGCTT
1 TTTAGATCAAGATAAATCTCAACT-AGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGC-T
*
32150264 C-ATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAGTTT
64 CGATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTT
*
32150328 CTACTTGTTTTTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTG
129 CTACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTG
32150393 CACATACATGCCCCTG
194 CACATACATGCCCCTG
32150409 TTT
1 TTT
32150412 GTACTTCGGT
Statistics
Matches: 197, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
208 1 0.01
209 194 0.98
210 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (209 bp):
TTTAGATCAAGATAAATCTCAACTAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
ATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTTCT
ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTGCA
CATACATGCCCCTG
Found at i:32154085 original size:3 final size:3
Alignment explanation
Indices: 32154077--32154115 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
32154067 CACGATTTTC
*
32154077 TAT TAT TAT TAT TA- TAT TATT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
32154116 ATTTTTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:32156201 original size:13 final size:13
Alignment explanation
Indices: 32156183--32156208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32156173 AAAGAGATTT
32156183 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
32156196 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
32156209 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:32156278 original size:19 final size:19
Alignment explanation
Indices: 32156238--32156279 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
32156228 GTCTCTTTTC
* *
32156238 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
32156257 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
32156276 GCAT
1 GCAT
32156280 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:32159184 original size:7 final size:7
Alignment explanation
Indices: 32159159--32159206 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
32159149 GTGATGTGAA
32159159 AAAAATG
1 AAAAATG
32159166 AAAAGATG
1 AAAA-ATG
32159174 -AAAATG
1 AAAAATG
32159180 AAAAATG
1 AAAAATG
32159187 AAAAATG
1 AAAAATG
*
32159194 AAAAGT-
1 AAAAATG
32159200 AAAAATG
1 AAAAATG
32159207 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 8 0.22
7 25 0.69
8 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:32159194 original size:20 final size:21
Alignment explanation
Indices: 32159159--32159206 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
32159149 GTGATGTGAA
32159159 AAAAATGAAAAGATGAAAA-T
1 AAAAATGAAAAGATGAAAAGT
32159179 GAAAAATGAAAA-ATGAAAAGT
1 -AAAAATGAAAAGATGAAAAGT
32159200 AAAAATG
1 AAAAATG
32159207 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAGATGAAAAGT
Found at i:32160628 original size:45 final size:45
Alignment explanation
Indices: 32160559--32160990 Score: 302
Period size: 45 Copynumber: 9.6 Consensus size: 45
32160549 TGGCGTGAAG
32160559 TAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
1 TAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
* * * *** * * *
32160604 CAGATCGAAGA-AAGTAGATATTGTCTTCATGTACTGG-CGTGAAG
1 TAGATCGAAGATAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAA
* *
32160648 TAGGTCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
1 TAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
* *** * * * *
32160693 CAGATCGAAGA-AAGCAGATCTTGTCTTCATGTACTAG-CGTGAAT
1 TAGATCGAAGATAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAA
* *
32160737 TAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAG
1 TAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
* *** * * * *
32160782 TAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAG
1 TAGATCGAA-G-ATAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAA
* * * * * *
32160829 TAGATCAAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAG
1 TAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
* * * * *** * * *
32160874 TAGATCGAAAAAAATAAATCTTGTCTTCATGTACTGG-CGTGAAG
1 TAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
* * * *
32160918 TAGATCAAAGATAACAAATCTTGTCTTCCCATGCTGGTGGCGAAG
1 TAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
* *
32160963 TAGATCG-AGAAAAACAGAACTTGTCTTC
1 TAGATCGAAG-ATAACAGATCTTGTCTTC
32160991 ATGTACTGGC
Statistics
Matches: 294, Mismatches: 81, Indels: 24
0.74 0.20 0.06
Matches are distributed among these distances:
44 120 0.41
45 137 0.47
46 2 0.01
47 16 0.05
48 19 0.06
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (45 bp):
TAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAA
Found at i:32160636 original size:89 final size:89
Alignment explanation
Indices: 32160511--32161028 Score: 741
Period size: 89 Copynumber: 5.8 Consensus size: 89
32160501 GTATTGGCGT
* * *
32160511 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
32160576 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
** * * *
32160600 GAAACAGATCGAAGAAAGTAGATATTGTCTTCATGTACTGGCGTGAAGTAGGTCAAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
32160665 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
** * *
32160689 GAAACAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGAATTAGATCAAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
32160754 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* *
32160778 GAAGTAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAA
1 GAAGTAGATCGAA-G--AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA
* *
32160843 CAGATCTTGTCTCCCCATACTGGTGGT
63 CAGATCTTGTCTTCCCATACTGGTGGC
* * ** * *
32160870 GGAGTAGATCGAAAAAAATAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
*
32160935 ATCTTGTCTTCCCATGCTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* * * * *
32160959 GAAGTAGATCG-AGAAAAACAGAACTTGTCTTCATGTACTGGCGTGAAGTAGATCGAGGATTACA
1 GAAGTAGATCGAAG-AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACA
32161023 GATCTT
65 GATCTT
32161029 ATCTCCCTAA
Statistics
Matches: 384, Mismatches: 41, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
88 1 0.00
89 301 0.78
90 1 0.00
92 81 0.21
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (89 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
ATCTTGTCTTCCCATACTGGTGGC
Found at i:32160897 original size:181 final size:180
Alignment explanation
Indices: 32160511--32161035 Score: 770
Period size: 181 Copynumber: 2.9 Consensus size: 180
32160501 GTATTGGCGT
* *
32160511 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
** * *
32160576 ATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAG--AAAGTAGATATTGTCTTCATGTACT
66 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAAGCAGATCTTGTCTTCATGTACT
* *
32160639 GGCGTGAAGTAGGTCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGC
131 GGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTCCCCATACTGGTGGC
** * * *
32160689 GAAACAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGAATTAGATCAAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
*
32160754 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTAT
66 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA-GAAAAAGCAGATCTTGTCTTCATGTAC
* *
32160819 TGGCGTGAAGTAGATCAAAGACAACAGATCTTGTCTCCCCATACTGGTGGT
130 TGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTCCCCATACTGGTGGC
* * ** *
32160870 GGAGTAGATCGAAAAAAATAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAA
1 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
* *
32160935 ATCTTGTCTTCCCATGCTGGTGGCGAAGTAGATCG-AGAAAAA-CAGAACTTGTCTTCATGTACT
66 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAAGCAGATCTTGTCTTCATGTACT
* * * *
32160998 GGCGTGAAGTAGATCGAGGATTACAGATCTTATCTCCC
131 GGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTCCC
32161036 TAAGCAGTAG
Statistics
Matches: 310, Mismatches: 34, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
178 145 0.47
179 7 0.02
180 1 0.00
181 157 0.51
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (180 bp):
GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAAGCAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTCCCCATACTGGTGGC
Found at i:32161026 original size:270 final size:267
Alignment explanation
Indices: 32160511--32161028 Score: 777
Period size: 270 Copynumber: 1.9 Consensus size: 267
32160501 GTATTGGCGT
* *
32160511 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAACAG
* * * *
32160576 ATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGTAGATATTGTCTTCATGTACTGG
66 ATCTTGTCTCCCCATACTGGTGGCGAAACAGATCGAAAAAAATAAATATTGTCTTCATGTACTGG
* *
32160641 CGTGAAGTAGGTCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAA
131 CGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAA
* * *
32160706 GCAGATCTTGTCTTCATGTACTAGCGTGAATTAGATCAAAGATAACAGATCTTGTCTTCCCATAC
196 ACAGAACTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATAC
32160771 TGGTGGC
261 TGGTGGC
*
32160778 GAAGTAGATCGAAGGAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAA
1 GAAGTAGATCGAA-G--AAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAA
* * ** *
32160843 CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAAAAAATAAATCTTGTCTTCATGTAC
63 CAGATCTTGTCTCCCCATACTGGTGGCGAAACAGATCGAAAAAAATAAATATTGTCTTCATGTAC
* **
32160908 TGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATGCTGGTGGCGAAGTAGATCG-AG
128 TGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAG
* * * *
32160972 AAAAACAGAACTTGTCTTCATGTACTGGCGTGAAGTAGATCGAGGATTACAGATCTT
193 -AAAACAGAACTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAACAGATCTT
32161029 ATCTCCCTAA
Statistics
Matches: 223, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
267 13 0.06
268 1 0.00
269 2 0.01
270 207 0.93
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (267 bp):
GAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAACAG
ATCTTGTCTCCCCATACTGGTGGCGAAACAGATCGAAAAAAATAAATATTGTCTTCATGTACTGG
CGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAA
ACAGAACTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATAC
TGGTGGC
Found at i:32161246 original size:132 final size:132
Alignment explanation
Indices: 32161007--32161369 Score: 586
Period size: 132 Copynumber: 2.8 Consensus size: 132
32160997 TGGCGTGAAG
* * * * * *
32161007 TAGATCGAGGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGGATTT
* *
32161072 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACACTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGAAACACTGG
32161137 AA
131 AA
32161139 TAGATTGAAGATTATAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGGATT
1 TAGATTGAAGATTA-AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGGATT
*
32161203 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGAAACAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGAAACACTG
32161268 GAA
130 GAA
* * *
32161271 TAGATTGAAGATTACAGATC-TATCTCCCTAAGCAGTAGTGGAGCAGATCAGATATGGTAGATTT
1 TAGATTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGGATTT
*
32161335 TACCTCCCTGAGGTTACAGTGGAGTATATTGAAGC
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
32161370 ACTAGTTCCT
Statistics
Matches: 216, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
131 78 0.36
132 136 0.63
133 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
TAGATTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGAAACACTGG
AA
Found at i:32162608 original size:3 final size:3
Alignment explanation
Indices: 32162600--32162638 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
32162590 CACAATTTTC
*
32162600 TAT TAT TAT TAT TA- TAT TATT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
32162639 ATTTTTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:32169783 original size:26 final size:26
Alignment explanation
Indices: 32169747--32169796 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
32169737 AAATGTGAAG
32169747 GGGGTTACTAAGTGCTGATTCCCCAA
1 GGGGTTACTAAGTGCTGATTCCCCAA
*
32169773 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTACTAAGTGCTGATTCCCC
32169797 GAATCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (26 bp):
GGGGTTACTAAGTGCTGATTCCCCAA
Found at i:32169817 original size:33 final size:33
Alignment explanation
Indices: 32169775--32169975 Score: 116
Period size: 33 Copynumber: 5.5 Consensus size: 33
32169765 TTCCCCAAGG
32169775 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
32169808 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAG-
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
* * *
32169849 GGTTTGCTAAGTGTTGATTCCCTGATTCATTGGT
1 GG-TTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
32169883 GGTTGCTAAGTGCTGATTCCACCGTATTTTTTAATGTGAAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A----ATCAT-TG----GT
* *
32169927 GGTTGTTAAGTGTTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
32169960 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
32169976 ATCCACTGAT
Statistics
Matches: 128, Mismatches: 18, Indels: 44
0.67 0.09 0.23
Matches are distributed among these distances:
33 52 0.41
34 10 0.08
35 1 0.01
36 2 0.02
37 4 0.03
38 5 0.04
39 6 0.05
40 2 0.02
41 6 0.05
42 18 0.14
43 3 0.02
44 19 0.15
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:32169859 original size:101 final size:95
Alignment explanation
Indices: 32169678--32169870 Score: 242
Period size: 101 Copynumber: 2.0 Consensus size: 95
32169668 GAATATAAAG
* ** *
32169678 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTGATTCCATTGTATTTTAAATGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGT
*
32169743 GAAGGGGGTTACTAAGTGCTGATTCCCCAA
66 GAAAGGGGTTACTAAGTGCTGATTCCCCAA
* *
32169773 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCC----CA-AGG-GATTGCTAAGTGCTGATCCCACCGTATCTT
* * *
32169838 AAATGTGAAAGGGTTTGCTAAGTGTTGATTCCC
60 AAATGTGAAAGGGGTTACTAAGTGCTGATTCCC
32169871 TGATTCATTG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
95 24 0.29
99 2 0.02
100 2 0.02
101 54 0.66
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (95 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTGATCCCACCGTATCTTAAATGT
GAAAGGGGTTACTAAGTGCTGATTCCCCAA
Found at i:32169867 original size:75 final size:77
Alignment explanation
Indices: 32169771--32169975 Score: 324
Period size: 75 Copynumber: 2.7 Consensus size: 77
32169761 CTGATTCCCC
*
32169771 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTA-T
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
32169835 CTTAAATGTG-A
66 CTTAAATGTGAA
* * * *
32169846 AAGGGTTTGCTAAGTGTTGATTCCCTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
* *
32169911 TTTTAATGTGAA
66 CTTAAATGTGAA
*
32169923 AAGGGGTTGTTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGA
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGA
32169976 ATCCACTGAT
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 58 0.50
76 9 0.08
77 50 0.43
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.35
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
CTTAAATGTGAA
Found at i:32180605 original size:29 final size:29
Alignment explanation
Indices: 32180562--32180627 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
32180552 GTACAATGTT
32180562 AAAGGGATAAATTCAGCTATCGAATACGA
1 AAAGGGATAAATTCAGCTATCGAATACGA
** * *
32180591 AAAGGGATAGCTTCAGCTATCGATTATGA
1 AAAGGGATAAATTCAGCTATCGAATACGA
*
32180620 AAAAGGAT
1 AAAGGGAT
32180628 GGTGACGACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (29 bp):
AAAGGGATAAATTCAGCTATCGAATACGA
Found at i:32180648 original size:29 final size:30
Alignment explanation
Indices: 32180615--32180687 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
32180605 AGCTATCGAT
* *
32180615 TATGAAAAAGGATGGTGACGACCATC-AA-
1 TATGAAAAGGGATGGTAACGACCATCGAAC
32180643 TAATGAAAAGGGATGGTAACGACCATCGAAC
1 T-ATGAAAAGGGATGGTAACGACCATCGAAC
32180674 TATGAAAAGGGATG
1 TATGAAAAGGGATG
32180688 ACTTCGGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 1 0.03
29 23 0.57
30 15 0.38
31 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (30 bp):
TATGAAAAGGGATGGTAACGACCATCGAAC
Found at i:32180701 original size:30 final size:30
Alignment explanation
Indices: 32180667--32180867 Score: 113
Period size: 30 Copynumber: 6.7 Consensus size: 30
32180657 GGTAACGACC
*
32180667 ATCGAACTATGAAAAGGGATGACTTCGGTT
1 ATCGAACTATGAAAAGGGATGACTTCGGCT
* * * * *
32180697 ATCGATCTATGAAATGAGATAACTTCGGTT
1 ATCGAACTATGAAAAGGGATGACTTCGGCT
* * * * *
32180727 AT-GAAATCATGAAAAGGGATG-GTGACGACC
1 ATCGAACT-ATGAAAAGGGATGACT-TCGGCT
* * * * *
32180757 ATCGAACAATGAAAAGGGATGGCTACGACC
1 ATCGAACTATGAAAAGGGATGACTTCGGCT
** *
32180787 ATTAAATTATGAAAAGGGAT-AGCTTCGGCT
1 ATCGAACTATGAAAAGGGATGA-CTTCGGCT
* * * * * *
32180817 GTTGAACTATTAAAAGGGATAACTTTGGGT
1 ATCGAACTATGAAAAGGGATGACTTCGGCT
32180847 ATCGAA-TAATGAAAAGGGATG
1 ATCGAACT-ATGAAAAGGGATG
32180868 GGTCAACCAT
Statistics
Matches: 129, Mismatches: 35, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
29 5 0.04
30 119 0.92
31 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (30 bp):
ATCGAACTATGAAAAGGGATGACTTCGGCT
Found at i:32180799 original size:60 final size:60
Alignment explanation
Indices: 32180613--32180806 Score: 151
Period size: 60 Copynumber: 3.2 Consensus size: 60
32180603 TCAGCTATCG
* * *
32180613 ATTATGAAAAAGGATGGTGACGACCATC-AATAATGAAAAGGGATGG-TAACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCT-ACGACCATCAA
* * * *** * * * * ** * *** *
32180672 ACTATGAAAAGGGATGACT-TCGGTTATCGATCTATGAAATGAGATAACTTCGGTTATGAA
1 ATTATGAAAAGGGATG-GTGACGACCATCGAACAATGAAAAGGGATGGCTACGACCATCAA
* *
32180732 ATCATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACCATTAA
1 ATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACCATCAA
32180792 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
32180807 AGCTTCGGCT
Statistics
Matches: 92, Mismatches: 39, Indels: 7
0.67 0.28 0.05
Matches are distributed among these distances:
59 20 0.22
60 71 0.77
61 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (60 bp):
ATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACCATCAA
Found at i:32180836 original size:90 final size:90
Alignment explanation
Indices: 32180645--32180814 Score: 216
Period size: 90 Copynumber: 1.9 Consensus size: 90
32180635 ACCATCAATA
* * *** **
32180645 ATGAAAAGGGATGGTAACGACCATCGAACTATGAAAAGGGATGACTTCGGTTATCGATCTATGAA
1 ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACTACGACCATAAATCTATGAA
*
32180710 ATGAGATAACTTCGGTTATGAAATC
66 AAGAGATAACTTCGGTTATGAAATC
* *
32180735 ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACCATTAAAT-TATGA
1 ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACTACGACCA-TAAATCTATGA
* *
32180799 AAAGGGATAGCTTCGG
65 AAAGAGATAACTTCGG
32180815 CTGTTGAACT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 64 0.96
91 3 0.04
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACTACGACCATAAATCTATGAA
AAGAGATAACTTCGGTTATGAAATC
Found at i:32182018 original size:42 final size:42
Alignment explanation
Indices: 32181920--32182018 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
32181910 CACGATCTGA
* * *
32181920 CACACGGGCGTGTGAGGTTATTTCGAAGGGTACACGGCCTGG
1 CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
* *
32181962 CACATGGGCGTGTGGGGTTATTTCGAAGGGTGCACGGCATGT
1 CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
32182004 CACATGGGCGTGTGG
1 CACATGGGCGTGTGG
32182019 CTTAGCCGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.17, C:0.19, G:0.40, T:0.23
Consensus pattern (42 bp):
CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
Found at i:32185910 original size:6 final size:6
Alignment explanation
Indices: 32185899--32185982 Score: 53
Period size: 6 Copynumber: 13.0 Consensus size: 6
32185889 TGATCAATTG
* * * *
32185899 AAAGAA AAAGAAAA AAATGAA AATGAGGA AAAG-A AAAGAA AAATAA TAAGAG
1 AAAGAA AAAG--AA AAA-GAA AA--AGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
32185951 AAAGAGA AAAGAA AATGAGA AAAGAA AAAGAA
1 AAAGA-A AAAGAA AAAGA-A AAAGAA AAAGAA
32185983 GAAAAATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.08
6 31 0.51
7 14 0.23
8 9 0.15
9 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:32185970 original size:13 final size:13
Alignment explanation
Indices: 32185954--32186007 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
32185944 ATAAGAGAAA
32185954 GAGAAAAGAAAAT
1 GAGAAAAGAAAAT
32185967 GAGAAAAGAAAA-
1 GAGAAAAGAAAAT
*
32185979 -AGAAGA-AAAAT
1 GAGAAAAGAAAAT
*
32185990 -A-AAAAGAATAT
1 GAGAAAAGAAAAT
32186001 GAGAAAA
1 GAGAAAA
32186008 AAAGTCTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 7 0.21
11 10 0.29
12 1 0.03
13 16 0.47
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (13 bp):
GAGAAAAGAAAAT
Found at i:32185979 original size:19 final size:18
Alignment explanation
Indices: 32185930--32186007 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
32185920 AATGAGGAAA
*
32185930 AGAAAAGAAAAATAATAAG
1 AGAAAAGAAAAAGAA-AAG
32185949 AG-AAAGAGAAAAGAAAATG
1 AGAAAAGA-AAAAGAAAA-G
32185968 AGAAAAGAAAAAG--AAG
1 AGAAAAGAAAAAGAAAAG
* *
32185984 A-AAAATAAAAAGAATATG
1 AGAAAAGAAAAAGAA-AAG
32186002 AGAAAA
1 AGAAAA
32186008 AAAGTCTGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
15 10 0.20
16 2 0.04
17 2 0.04
18 10 0.20
19 20 0.41
20 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AGAAAAGAAAAAGAAAAG
Found at i:32188981 original size:50 final size:50
Alignment explanation
Indices: 32188859--32189053 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
32188849 GATAATAACA
* * ** ** * * * *
32188859 TGCCAAAGCCATGCCCCAGGCATGGTCTTACATGGGATGTTTCTTGT-GC
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* **
32188908 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
32188958 TGCCCATGCCATGTCCCAAATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* *
32189008 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA
32189054 ACCTCAATGA
Statistics
Matches: 119, Mismatches: 26, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
49 37 0.31
50 82 0.69
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
Found at i:32191828 original size:21 final size:20
Alignment explanation
Indices: 32191799--32191841 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
32191789 AGCTCATTCG
*
32191799 AGCTCATTTCAATTTATTTCT
1 AGCTCATTT-AATTTATTGCT
* *
32191820 AGCTTATTTACTTTATTGCT
1 AGCTCATTTAATTTATTGCT
32191840 AG
1 AG
32191842 AATAAACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.51
Consensus pattern (20 bp):
AGCTCATTTAATTTATTGCT
Found at i:32205127 original size:12 final size:12
Alignment explanation
Indices: 32205095--32205132 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
32205085 GGACACACAA
**
32205095 CCGTGTCCCAGC
1 CCGTGTCCGTGC
32205107 CCGTGTCCGTGC
1 CCGTGTCCGTGC
32205119 CCGTGTCCGTGC
1 CCGTGTCCGTGC
32205131 CC
1 CC
32205133 ATATAACTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.03, C:0.47, G:0.29, T:0.21
Consensus pattern (12 bp):
CCGTGTCCGTGC
Found at i:32206053 original size:15 final size:16
Alignment explanation
Indices: 32206024--32206053 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32206014 CAAACATGCT
32206024 TTAACACATTATCAAA
1 TTAACACATTATCAAA
32206040 TTAACACA-TATCAA
1 TTAACACATTATCAA
32206054 TAAGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:32216689 original size:2 final size:2
Alignment explanation
Indices: 32216684--32216708 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32216674 TATGAATAAC
32216684 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32216709 GAGAATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32228990 original size:39 final size:40
Alignment explanation
Indices: 32228881--32228990 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
32228871 GTTTGGATAA
** *
32228881 AAAACGCCGCTAAAAATCGAGCATTAGCGGTGCTTTACAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTACAG
* *
32228921 AAAACGCCACTAAAGATCGAGCATTAGCGGCACTTTA-AGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTACA-G
*
32228961 AAAGCGCCGCTAAAAAT-GAGCATTAGCGGC
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGC
32228991 GTTTTCTAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 14 0.23
40 47 0.77
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTACAG
Found at i:32229010 original size:40 final size:40
Alignment explanation
Indices: 32228880--32229017 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 40
32228870 CGTTTGGATA
* *
32228880 AAAAACGCCGCTAAAAATCGAGCATTAGCGGTGCTTTACA-
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-TTTTCAG
* * * ** *
32228920 TAAAACGCCACTAAAGATCGAGCATTAGCGGCACTTTAAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTCAG
* *
32228960 GAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTCTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTC-AG
* *
32229000 AAAAATGCCGCAAAAAAT
1 AAAAACGCCGCTAAAAAT
32229018 GTAAGCCCAA
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 19 0.25
40 58 0.75
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTCAG
Found at i:32229110 original size:41 final size:41
Alignment explanation
Indices: 32229048--32229327 Score: 303
Period size: 41 Copynumber: 6.9 Consensus size: 41
32229038 TTCTGACCTT
* *
32229048 TCGGGGCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
32229089 TCGGGGCTTTAGTGGCGTTTTTGAAAAAGTGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
32229130 TCTGGCCTTTAGCGGCGTTTTTGAAAAAGCGTCG-TAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
32229170 TCAGGACTTTAGCGGCGTTTTTAAAAAAACGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* ** * **
32229211 TCTGGTATTTAGCGGCG-TTTTCAGAAAATTGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGA-AAAAGCGCCGCTAATGC
* * * * *
32229252 TCTGGCCTTTAGTGGCGTTTTCGAAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
32229293 TCGGTGCTTTAGTGGCATTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
32229328 AAAAATATTT
Statistics
Matches: 200, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
40 40 0.20
41 156 0.78
42 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:32229203 original size:122 final size:123
Alignment explanation
Indices: 32229054--32229327 Score: 374
Period size: 122 Copynumber: 2.2 Consensus size: 123
32229044 CCTTTCGGGG
* * * *
32229054 CTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGGGGCTTTAGTGGCGTTTT-TGAAAAAG
1 CTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGATTTAGCGGCGTTTTCAG-AAAAG
*
32229118 TGCCACTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAAAAGCGTCG-TAATGCTCAGG-A
65 TGCCACTAATGCTCTGGCCTTTAGCGGCGTTTTCGAAAAAGCGTCGCTAATGCTC-GGTA
* * * * *
32229176 CTTTAGCGGCGTTTTTAAAAAAACGCCGCTAATGCTCTGGTATTTAGCGGCGTTTTCAGAAAATT
1 CTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGATTTAGCGGCGTTTTCAGAAAAGT
* * *
32229241 GCCGCTAATGCTCTGGCCTTTAGTGGCGTTTTCGAAAAAGCGTCGCTAATGCTCGGTG
66 GCCACTAATGCTCTGGCCTTTAGCGGCGTTTTCGAAAAAGCGTCGCTAATGCTCGGTA
* *
32229299 CTTTAGTGGCATTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCATTTTTAAAAAAGCGCCGC
32229328 AAAAATATTT
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
122 98 0.74
123 34 0.26
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (123 bp):
CTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGATTTAGCGGCGTTTTCAGAAAAGT
GCCACTAATGCTCTGGCCTTTAGCGGCGTTTTCGAAAAAGCGTCGCTAATGCTCGGTA
Found at i:32230008 original size:27 final size:28
Alignment explanation
Indices: 32229950--32230013 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
32229940 TTATTTAATT
* *
32229950 GGTTTAGGGATTTGGGTTAAAGTTT-AG
1 GGTTTAGGGATTCGGGTTAAAGTTTAAA
* **
32229977 GGGTTAGGGATTCGGGTTAGGGTTTAAA
1 GGTTTAGGGATTCGGGTTAAAGTTTAAA
32230005 GGTTTAGGG
1 GGTTTAGGG
32230014 GTTTAGTGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.20, C:0.02, G:0.42, T:0.36
Consensus pattern (28 bp):
GGTTTAGGGATTCGGGTTAAAGTTTAAA
Found at i:32230016 original size:8 final size:8
Alignment explanation
Indices: 32230005--32230094 Score: 50
Period size: 7 Copynumber: 12.1 Consensus size: 8
32229995 AGGGTTTAAA
32230005 GGTTTAGG
1 GGTTTAGG
*
32230013 GGTTTAGT
1 GGTTTAGG
*
32230021 GGTTTAAG
1 GGTTTAGG
32230029 GG-TTA-G
1 GGTTTAGG
* *
32230035 GATTTA-A
1 GGTTTAGG
32230042 GGTTTAGG
1 GGTTTAGG
*
32230050 GG-TTAAG
1 GGTTTAGG
*
32230057 GGTTTATG
1 GGTTTAGG
*
32230065 GG-TTAAG
1 GGTTTAGG
*
32230072 AG-TTAGG
1 GGTTTAGG
*
32230079 GATTT-GG
1 GGTTTAGG
32230086 GGTTTAGG
1 GGTTTAGG
32230094 G
1 G
32230095 ATTCAAGGGT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
6 2 0.03
7 32 0.52
8 28 0.45
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (8 bp):
GGTTTAGG
Found at i:32230062 original size:15 final size:15
Alignment explanation
Indices: 32229971--32230104 Score: 73
Period size: 15 Copynumber: 9.1 Consensus size: 15
32229961 TTGGGTTAAA
32229971 GTTTAGGGGTT-AGG
1 GTTTAGGGGTTAAGG
* *
32229985 GATT-CGGGTT-AGG
1 GTTTAGGGGTTAAGG
* * *
32229998 GTTTAAAGGTTTAGGG
1 GTTT-AGGGGTTAAGG
*
32230014 GTTTAGTGGTTTAAGG
1 GTTTAG-GGGTTAAGG
**
32230030 G-TTAGGATTTAA-G
1 GTTTAGGGGTTAAGG
32230043 GTTTAGGGGTTAAGG
1 GTTTAGGGGTTAAGG
* *
32230058 GTTTATGGGTTAAGA
1 GTTTAGGGGTTAAGG
* **
32230073 G-TTAGGGATTTGGG
1 GTTTAGGGGTTAAGG
*
32230087 GTTTAGGGATTCAAGG
1 GTTTAGGGGTT-AAGG
32230103 GT
1 GT
32230105 CGGGTTAGGG
Statistics
Matches: 92, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
13 13 0.14
14 27 0.29
15 33 0.36
16 19 0.21
ACGTcount: A:0.21, C:0.01, G:0.41, T:0.37
Consensus pattern (15 bp):
GTTTAGGGGTTAAGG
Found at i:32230088 original size:36 final size:36
Alignment explanation
Indices: 32229965--32230104 Score: 117
Period size: 36 Copynumber: 3.9 Consensus size: 36
32229955 AGGGATTTGG
* * * *
32229965 GTTAAAGTTTAGGGG-TTAGGGATT-CGGGTT-AGG
1 GTTAAGGTTTAGGGGTTTAGGGTTTAAGGGTTAAGA
*
32229998 GTTTAAAGGTTTAGGGGTTTAGTGGTTTAAGGGTTAGGA
1 G-TT-AAGGTTTAGGGGTTTAG-GGTTTAAGGGTTAAGA
* * *
32230037 TTTAAGGTTTAGGGGTTAAGGGTTTATGGGTTAAGA
1 GTTAAGGTTTAGGGGTTTAGGGTTTAAGGGTTAAGA
* *
32230073 GTTAGGGATTT-GGGGTTTAGGGATTCAAGGGT
1 GTTAAGG-TTTAGGGGTTTAGGG-TTTAAGGGT
32230105 CGGGTTAGGG
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
33 1 0.01
34 2 0.02
35 11 0.13
36 33 0.39
37 30 0.35
38 7 0.08
39 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.40, T:0.36
Consensus pattern (36 bp):
GTTAAGGTTTAGGGGTTTAGGGTTTAAGGGTTAAGA
Found at i:32230441 original size:50 final size:50
Alignment explanation
Indices: 32230380--32230644 Score: 503
Period size: 50 Copynumber: 5.3 Consensus size: 50
32230370 AAACCATTTG
*
32230380 ATATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
32230430 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
32230480 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
32230530 ATATATTTAAATATTATTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
32230580 ATATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
32230630 ATATATTTAAATATT
1 ATATATTTAAATATT
32230645 TAAATATTAG
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 211 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (50 bp):
ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
Found at i:32230460 original size:15 final size:14
Alignment explanation
Indices: 32230410--32230610 Score: 60
Period size: 15 Copynumber: 15.6 Consensus size: 14
32230400 AAATAGAATT
*
32230410 AATAAATAAGTTTA
1 AATAAATTAGTTTA
32230424 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
32230439 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
32230451 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
32230460 AATAAATAAGTTTA
1 AATAAATTAGTTTA
32230474 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
32230489 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
32230501 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
32230510 AATAAATAAGTTTA
1 AATAAATTAGTTTA
32230524 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
*
32230539 AAT--ATTATTTTA
1 AATAAATTAGTTTA
*
32230551 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
32230560 AATAAATAAGTTTA
1 AATAAATTAGTTTA
32230574 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
32230589 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
32230601 AATAGAATTA
1 AATA-AATTA
32230611 ATAATTAAGT
Statistics
Matches: 144, Mismatches: 7, Indels: 71
0.65 0.03 0.32
Matches are distributed among these distances:
9 15 0.10
10 6 0.04
11 11 0.08
12 39 0.27
13 6 0.04
14 15 0.10
15 48 0.33
16 4 0.03
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.40
Consensus pattern (14 bp):
AATAAATTAGTTTA
Found at i:32232915 original size:7 final size:8
Alignment explanation
Indices: 32232898--32232922 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
32232888 ATTCAGATTC
32232898 AAAAATAA
1 AAAAATAA
32232906 AAAAATAA
1 AAAAATAA
32232914 AAAAATAA
1 AAAAATAA
32232922 A
1 A
32232923 GGAGGAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:32239681 original size:5 final size:5
Alignment explanation
Indices: 32239668--32239701 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
32239658 TTAAATTTAA
*
32239668 AAATA AAATC AAATC AAATC AAATC AAATAC AAA
1 AAATC AAATC AAATC AAATC AAATC AAAT-C AAA
32239702 CCAAGTGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATC
Found at i:32242958 original size:43 final size:43
Alignment explanation
Indices: 32242837--32243086 Score: 226
Period size: 43 Copynumber: 6.1 Consensus size: 43
32242827 TTAATTTTTT
* * * *
32242837 TAAAAGTCATG-TTTTTAGCGGCGTTTGT-GAAAAAGTGTCGC
1 TAAAGGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
* * ** *
32242878 TAAAAGT--T-ATTTTTATTGCGGGGTTTGTAATAGAAGCGCCGC
1 TAAAGGTCATGATTTTTA--GCGGCGTTTGTGGTAAAAGCGCCGC
32242920 TAAAGGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
1 TAAAGGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
32242963 TAAAGGTCATGATTTTTAGCGGCGTTTGT-GTGAAAAGCGCCGC
1 TAAAGGTCATGATTTTTAGCGGCGTTTGTGGT-AAAAGCGCCGC
* *
32243006 T-AA----A-GA----CAGCGGCGTTTGTGGAAAAAGCGCCGC
1 TAAAGGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
* * * *
32243039 TAAAGATCATGATCTTTAGCGGCGTTTGGGGTAAAAGCACCGC
1 TAAAGGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
32243082 TAAAG
1 TAAAG
32243087 TTAGCGACGT
Statistics
Matches: 173, Mismatches: 17, Indels: 36
0.77 0.08 0.16
Matches are distributed among these distances:
33 24 0.14
34 3 0.02
37 2 0.01
38 2 0.01
39 9 0.05
41 17 0.10
42 18 0.10
43 90 0.52
44 1 0.01
45 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
Found at i:32243022 original size:33 final size:33
Alignment explanation
Indices: 32242980--32243044 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
32242970 CATGATTTTT
32242980 AGCGGCGTTTGTGTG-AAAAGCGCCGCTAAAGAC
1 AGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGAC
32243013 AGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGA
1 AGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGA
32243045 TCATGATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.29, C:0.20, G:0.34, T:0.17
Consensus pattern (33 bp):
AGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAC
Found at i:32243063 original size:76 final size:76
Alignment explanation
Indices: 32242937--32243086 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 76
32242927 CATGATTTTT
* * * *
32242937 AGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGATTTTTAGCGGCGTTT-GTGTGAAAAGC
1 AGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGGGGT-AAAAGC
*
32243001 GCCGCTAAAGAC
65 ACCGCTAAAGAC
32243013 AGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGGGGTAAAAGCA
1 AGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGGGGTAAAAGCA
32243078 CCGCTAAAG
66 CCGCTAAAG
32243087 TTAGCGACGT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
76 65 0.96
77 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (76 bp):
AGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGGGGTAAAAGCA
CCGCTAAAGAC
Found at i:32244294 original size:22 final size:22
Alignment explanation
Indices: 32244266--32244308 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32244256 CAACACCTTA
*
32244266 TTAACATATTTTATTAATTTTT
1 TTAACATAATTTATTAATTTTT
*
32244288 TTAACATAATTTATTCATTTT
1 TTAACATAATTTATTAATTTT
32244309 CATTGTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
TTAACATAATTTATTAATTTTT
Found at i:32244996 original size:20 final size:20
Alignment explanation
Indices: 32244971--32245016 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
32244961 AATAATAATA
32244971 ATAATAATAA-TAATTTTTAT
1 ATAATAA-AATTAATTTTTAT
32244991 ATAATAAAATTTTAATTTTTAT
1 ATAATAAAA--TTAATTTTTAT
32245013 ATAA
1 ATAA
32245017 ATACTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 7 0.30
22 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAATAAAATTAATTTTTAT
Found at i:32244997 original size:3 final size:3
Alignment explanation
Indices: 32244958--32244984 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32244948 AATGGGTGAA
32244958 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
32244985 TTTTATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32245123 original size:32 final size:31
Alignment explanation
Indices: 32245058--32245148 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 31
32245048 ATAAAGATAG
* *
32245058 TAATTTTTATTTAAATATATATAATTTTACA
1 TAATTTTTAATTAAATATATATAAATTTACA
*
32245089 TAATTTTTAATTATAAT-TCATTTAAATTTACA
1 TAATTTTTAATTA-AATAT-ATATAAATTTACA
* *
32245121 TAAATATTTAA-T-AATATAAATAAATTTA
1 T-AATTTTTAATTAAATATATATAAATTTA
32245149 ATTCAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
30 12 0.24
31 14 0.28
32 16 0.32
33 8 0.16
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
TAATTTTTAATTAAATATATATAAATTTACA
Found at i:32245243 original size:30 final size:31
Alignment explanation
Indices: 32245209--32245268 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
32245199 TTAAACCATT
*
32245209 TATATT-ATAATTATAAAAAATTTAATAAAC
1 TATATTAAAAATTATAAAAAATTTAATAAAC
* *
32245239 TATATTAAAAAATTATAAATAATTTTATAA
1 TATATT-AAAAATTATAAAAAATTTAATAA
32245269 CAAATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.24
32 19 0.76
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (31 bp):
TATATTAAAAATTATAAAAAATTTAATAAAC
Found at i:32246172 original size:24 final size:25
Alignment explanation
Indices: 32246145--32246197 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
32246135 CAATAATTTT
32246145 TAATTATTTTTAAAT-TAAATATTA-
1 TAATTATTTTTAAATGTAAAT-TTAG
*
32246169 TAATTATTTTTACATGTAAATTTAG
1 TAATTATTTTTAAATGTAAATTTAG
32246194 TAAT
1 TAAT
32246198 ATTATGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
TAATTATTTTTAAATGTAAATTTAG
Found at i:32246575 original size:67 final size:67
Alignment explanation
Indices: 32246495--32246638 Score: 261
Period size: 67 Copynumber: 2.1 Consensus size: 67
32246485 ATGGTAGTTA
* *
32246495 AAAAATTAGCATAATAACAAATTAACCCTAAATTTTTACATATTATATCAATTTAGTCATCATTT
1 AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATATTATATCAATTTAGTCATAATTT
32246560 TT
66 TT
*
32246562 AAAAATTAACATAATAACAGATTAACCCTAAATTTTTACATATTATATCAATTTAGTCATAATTT
1 AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATATTATATCAATTTAGTCATAATTT
32246627 TT
66 TT
32246629 AAAAATTAAC
1 AAAAATTAAC
32246639 CCTCAAAATT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (67 bp):
AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATATTATATCAATTTAGTCATAATTT
TT
Found at i:32246771 original size:17 final size:17
Alignment explanation
Indices: 32246724--32246789 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
32246714 AAAATATAAT
* *
32246724 AATAAATTTAAATTTTA
1 AATAAATATAAATATTA
* * *
32246741 TATTAATATTAATATTA
1 AATAAATATAAATATTA
32246758 AATAAATATAAATATATTA
1 AATAAATAT-AA-ATATTA
32246777 AATAAATA-AAATA
1 AATAAATATAAATA
32246790 AAAATCCCTC
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
16 3 0.08
17 21 0.54
18 1 0.03
19 14 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAATATAAATATTA
Found at i:32246776 original size:19 final size:18
Alignment explanation
Indices: 32246752--32246789 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
32246742 ATTAATATTA
32246752 ATATTAAATAAATATAAAT
1 ATATTAAATAAATA-AAAT
32246771 ATATTAAATAAATAAAAT
1 ATATTAAATAAATAAAAT
32246789 A
1 A
32246790 AAAATCCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATTAAATAAATAAAAT
Found at i:32246935 original size:30 final size:27
Alignment explanation
Indices: 32246879--32246936 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 27
32246869 GGGGAGGAAG
*
32246879 ATTTTTATTTTTATTTAATATTAATAT
1 ATTTTTATTTTTATTTAATATAAATAT
32246906 ATTTTTATTTTTATTTATAAATATAAATAT
1 ATTTTTATTTTTA-TT-T-AATATAAATAT
32246936 A
1 A
32246937 AAATTTAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 1 0.04
30 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTTATTTTTATTTAATATAAATAT
Found at i:32249598 original size:5 final size:5
Alignment explanation
Indices: 32249590--32249615 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32249580 GAGATGGAAT
32249590 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
32249616 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:32249615 original size:26 final size:26
Alignment explanation
Indices: 32249564--32249615 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
32249554 TGAAGTTTTC
* * *
32249564 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
32249590 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
32249616 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:32250072 original size:17 final size:17
Alignment explanation
Indices: 32250034--32250082 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
32250024 GGGTGAGAAG
32250034 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
32250052 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
32250069 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
32250083 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:32253360 original size:17 final size:17
Alignment explanation
Indices: 32253334--32253371 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
32253324 GGTTCGTCAG
*
32253334 TTGGCGAACTCT-AGGAT
1 TTGGCAAACTCTGA-GAT
32253351 TTGGCAAACTCTGAGAT
1 TTGGCAAACTCTGAGAT
32253368 TTGG
1 TTGG
32253372 TGGACTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (17 bp):
TTGGCAAACTCTGAGAT
Found at i:32256040 original size:32 final size:32
Alignment explanation
Indices: 32255996--32256061 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
32255986 TCTTTTGTTA
*
32255996 AATTAACATTTAATTTAATTATCA-AATTAC-TT
1 AATTAACATTTAA--AAATTATCATAATTACATT
*
32256028 AATTAACCTTTAAAAATTATCATAATTACATT
1 AATTAACATTTAAAAATTATCATAATTACATT
32256060 AA
1 AA
32256062 AATCTATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 8 0.27
31 6 0.20
32 16 0.53
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (32 bp):
AATTAACATTTAAAAATTATCATAATTACATT
Found at i:32256571 original size:20 final size:20
Alignment explanation
Indices: 32256548--32256601 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
32256538 AGTTTTTCCC
*
32256548 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
32256568 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
32256588 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
32256602 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:32256583 original size:30 final size:30
Alignment explanation
Indices: 32256548--32256621 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
32256538 AGTTTTTCCC
32256548 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
32256578 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
32256608 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
32256622 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:32256611 original size:20 final size:20
Alignment explanation
Indices: 32256548--32256612 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
32256538 AGTTTTTCCC
* * * *
32256548 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
32256568 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
32256587 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
32256608 AGCTC
1 AGCTC
32256613 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:32259474 original size:18 final size:18
Alignment explanation
Indices: 32259453--32259496 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
32259443 GAATTTAAAT
*
32259453 TGAAAAAGAAATTGAGAA
1 TGAAAAAGAAATTGAAAA
*
32259471 TGAAAAAAAAATTGAAAA
1 TGAAAAAGAAATTGAAAA
*
32259489 AGAAAAAG
1 TGAAAAAG
32259497 CGAAAAAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (18 bp):
TGAAAAAGAAATTGAAAA
Found at i:32261369 original size:20 final size:20
Alignment explanation
Indices: 32261346--32261399 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
32261336 AGTTTTTCCC
*
32261346 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
32261366 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
32261386 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
32261400 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:32261381 original size:30 final size:30
Alignment explanation
Indices: 32261346--32261419 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
32261336 AGTTTTTCCC
32261346 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
32261376 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
32261406 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
32261420 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:32261409 original size:20 final size:20
Alignment explanation
Indices: 32261346--32261410 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
32261336 AGTTTTTCCC
* * * *
32261346 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
32261366 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
32261385 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
32261406 AGCTC
1 AGCTC
32261411 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:32265025 original size:9 final size:9
Alignment explanation
Indices: 32265013--32265038 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
32265003 AAAAAACATA
32265013 AACTAAAAT
1 AACTAAAAT
32265022 AACTAAAAT
1 AACTAAAAT
32265031 AACTAAAA
1 AACTAAAA
32265039 ATTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:32276160 original size:22 final size:22
Alignment explanation
Indices: 32276103--32276162 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
32276093 ATATATAAAG
**
32276103 CTAAGCTCTCATGGCTAACGTA
1 CTAAGCTCTCATGTTTAACGTA
*
32276125 CTAAGCTCTCATGTTTCACGTA
1 CTAAGCTCTCATGTTTAACGTA
32276147 CTAAGCTCTCATGTTT
1 CTAAGCTCTCATGTTT
32276163 GAACAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (22 bp):
CTAAGCTCTCATGTTTAACGTA
Found at i:32280270 original size:15 final size:15
Alignment explanation
Indices: 32280232--32280260 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32280222 ACGCTTTTCA
32280232 AAAAAAGAAAAGAAG
1 AAAAAAGAAAAGAAG
32280247 AAAAAAGAAAAGAA
1 AAAAAAGAAAAGAA
32280261 AAAGATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAG
Found at i:32280360 original size:16 final size:15
Alignment explanation
Indices: 32280319--32280348 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
32280309 TCAAAATCCA
32280319 AATAAAAATACTCAT
1 AATAAAAATACTCAT
32280334 AATAATAAATACTCA
1 AATAA-AAATACTCA
32280349 GTAAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAAAATACTCAT
Found at i:32281513 original size:28 final size:28
Alignment explanation
Indices: 32281477--32281596 Score: 134
Period size: 28 Copynumber: 4.3 Consensus size: 28
32281467 CAGTAATAGT
** *
32281477 ACAGTGTGGGCCTTAGCCTGATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGAA
* * *
32281505 ACAATGTGGGCTTTAGCCCAACACAGAA
1 ACAGTGTGGGCCTTAGCCCAATACAGAA
* *
32281533 ACCGTGTGGGCCTTAGCCCATTACA-ATA
1 ACAGTGTGGGCCTTAGCCCAATACAGA-A
*
32281561 ATAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTTAGCCCAATACAGAA
*
32281589 ACATTGTG
1 ACAGTGTG
32281597 ATAATGCAAC
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
27 1 0.01
28 72 0.97
29 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGAA
Found at i:32281569 original size:56 final size:56
Alignment explanation
Indices: 32281480--32281590 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
32281470 TAATAGTACA
* * *
32281480 GTGTGGGCCTTAGCCTGATACAGTAACAATGTGGGCTTTAGCCCAACACAGAAACC
1 GTGTGGGCCTTAGCCTCATACAATAACAATGTGGGCCTTAGCCCAACACAGAAACC
* * *
32281536 GTGTGGGCCTTAGCC-CATTACAATAATAGTGTGGGCCTTAGCCCAATACAGAAAC
1 GTGTGGGCCTTAGCCTCA-TACAATAACAATGTGGGCCTTAGCCCAACACAGAAAC
32281591 ATTGTGATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 1 0.02
56 47 0.98
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (56 bp):
GTGTGGGCCTTAGCCTCATACAATAACAATGTGGGCCTTAGCCCAACACAGAAACC
Found at i:32281720 original size:26 final size:26
Alignment explanation
Indices: 32281691--32281745 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
32281681 AACACACCAA
32281691 TATCACAGC-AGAGCTGCCAGTAATAG
1 TATCACAGCGA-AGCTGCCAGTAATAG
**
32281717 TATCGTAGCGAAGCTGCCAGTAATAG
1 TATCACAGCGAAGCTGCCAGTAATAG
32281743 TAT
1 TAT
32281746 ATGTGGCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (26 bp):
TATCACAGCGAAGCTGCCAGTAATAG
Found at i:32281969 original size:27 final size:27
Alignment explanation
Indices: 32281917--32281980 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
32281907 GGGGTATAAT
*
32281917 GGTCATTTTACCCTATGAGGGTATTTC
1 GGTCATTTTACCCTATGAGGGCATTTC
* *
32281944 GGTCATTTTACCCTGTGGGGGCATTTC
1 GGTCATTTTACCCTATGAGGGCATTTC
**
32281971 AATCATTTTA
1 GGTCATTTTA
32281981 TTTGGTCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTCATTTTACCCTATGAGGGCATTTC
Found at i:32282020 original size:27 final size:27
Alignment explanation
Indices: 32281989--32282207 Score: 201
Period size: 27 Copynumber: 8.1 Consensus size: 27
32281979 TATTTGGTCT
*
32281989 TTTTACCCTTCAAGGGTATTTCGATCA
1 TTTTACCCTTCGAGGGTATTTCGATCA
* *
32282016 TTTTACCTTTCGAGGGTATTTCAATCA
1 TTTTACCCTTCGAGGGTATTTCGATCA
* * *
32282043 TTTTACCTTTTGGGGGTATTTCTG-TCA
1 TTTTACCCTTCGAGGGTATTTC-GATCA
* ** *
32282070 TTTTACCTTTTAAGGGTATTTCGGTCA
1 TTTTACCCTTCGAGGGTATTTCGATCA
* * *
32282097 TTTTACCCTTCGGGGGTATTTCAATTA
1 TTTTACCCTTCGAGGGTATTTCGATCA
* *
32282124 TTTTACCCTAT-GAGGGTATGTCGGTCA
1 TTTTACCCT-TCGAGGGTATTTCGATCA
** * *
32282151 TTTTACTGTTCAAGGGTATTTC-AGCCA
1 TTTTACCCTTCGAGGGTATTTCGA-TCA
* *
32282178 TTTTACCCTTCGGGGGTATTTCGATTA
1 TTTTACCCTTCGAGGGTATTTCGATCA
32282205 TTT
1 TTT
32282208 GCCCACAAAT
Statistics
Matches: 154, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 150 0.97
28 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (27 bp):
TTTTACCCTTCGAGGGTATTTCGATCA
Found at i:32282037 original size:67 final size:67
Alignment explanation
Indices: 32281916--32282047 Score: 178
Period size: 67 Copynumber: 2.0 Consensus size: 67
32281906 AGGGGTATAA
* * *
32281916 TGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTGTGGGGGCATTTCAATCATTTTA
1 TGGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTGTGAGGGCATTTCAATCATTTTA
32281981 TT
66 TT
* * *
32281983 TGGTCTTTTTACCCT-TCAAGGGTATTTCGATCATTTTA-CCTTTCGAGGGTATTTCAATCATTT
1 TGGTCATTTTACCCTAT-AAGGGTATTTCGATCATTTTACCCTGT-GAGGGCATTTCAATCATTT
32282046 TA
64 TA
32282048 CCTTTTGGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
66 5 0.09
67 52 0.91
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (67 bp):
TGGTCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTGTGAGGGCATTTCAATCATTTTA
TT
Found at i:32282127 original size:81 final size:81
Alignment explanation
Indices: 32281984--32282207 Score: 297
Period size: 81 Copynumber: 2.8 Consensus size: 81
32281974 CATTTTATTT
* * * * * *
32281984 GGTCTTTTTACCCTTCAAGGGTATTTCGATCATTTTACCTTTCGAGGGTATTTCAATCATTTTAC
1 GGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAATTATTTTAC
* * * *
32282049 CTTTTGGGGGTATTTC
66 CCTATGAGGGTATGTC
* *
32282065 TGTCATTTTACCTTTTAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAATTATTTTAC
1 GGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAATTATTTTAC
32282130 CCTATGAGGGTATGTC
66 CCTATGAGGGTATGTC
* * *
32282146 GGTCATTTTA-CTGTTCAAGGGTATTTCAGCCATTTTACCCTTCGGGGGTATTTCGATTATTT
1 GGTCATTTTACCT-TTCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAATTATTT
32282208 GCCCACAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 2 0.02
81 123 0.98
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (81 bp):
GGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAATTATTTTAC
CCTATGAGGGTATGTC
Found at i:32289970 original size:6 final size:6
Alignment explanation
Indices: 32289959--32289986 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
32289949 TTTTTATTAC
32289959 CAGTAT CAGTAT CAGTAT CAGTAT CAGT
1 CAGTAT CAGTAT CAGTAT CAGTAT CAGT
32289987 TTAGGCCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (6 bp):
CAGTAT
Found at i:32292824 original size:22 final size:22
Alignment explanation
Indices: 32292796--32292879 Score: 132
Period size: 22 Copynumber: 3.8 Consensus size: 22
32292786 TGTTGATAGT
*
32292796 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
32292818 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
32292840 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * *
32292862 ACGAACTAAACCCTCATG
1 ACGTACTAAGCTCTCATG
32292880 GCTCGGTGCA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:32293054 original size:29 final size:29
Alignment explanation
Indices: 32293021--32293084 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
32293011 TAATCCACCA
32293021 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
32293050 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
32293080 CCCAA
1 CCCAA
32293085 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:32293058 original size:30 final size:30
Alignment explanation
Indices: 32293028--32293084 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32293018 CCACCCAACT
32293028 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
32293057 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
32293085 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:32314402 original size:52 final size:52
Alignment explanation
Indices: 32314341--32314441 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
32314331 CATGCACATA
* *
32314341 TTTGAGCTTCAACCGAGCTAGAAAGGAGGTCTTAAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAAGGAGATCTTAAGCTGCTGTCCATTATTG
*
32314393 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAAGGAGATCTTAAGCTGCTGTCCATTA
32314442 CGTTTCCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAAGGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:32327013 original size:30 final size:30
Alignment explanation
Indices: 32326978--32327038 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
32326968 GTGGCTATTC
32326978 GACTAGCTTAAGCTTTGCCTATAAATAGTT
1 GACTAGCTTAAGCTTTGCCTATAAATAGTT
32327008 GACTAGCTTAAGCTTTGCCTATAAATAGTT
1 GACTAGCTTAAGCTTTGCCTATAAATAGTT
32327038 G
1 G
32327039 TTAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (30 bp):
GACTAGCTTAAGCTTTGCCTATAAATAGTT
Found at i:32329896 original size:9 final size:9
Alignment explanation
Indices: 32329884--32329926 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
32329874 GAGTGAAAAC
32329884 AAAAAAGAA
1 AAAAAAGAA
32329893 AAAAATGAGAA
1 AAAAA--AGAA
32329904 AAAGAAAGAA
1 AAA-AAAGAA
*
32329914 AAAAATGAA
1 AAAAAAGAA
32329923 AAAA
1 AAAA
32329927 GAGAGTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 14 0.47
10 7 0.23
11 7 0.23
12 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:32329917 original size:20 final size:20
Alignment explanation
Indices: 32329866--32329928 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
32329856 AAAGAGGGAA
* * *
32329866 AAAGAAAAGAGTGAAAACAAA
1 AAAGAAAAAAATGAAAA-AAG
32329887 AAAGAAAAAAATGAGAAAAAG
1 AAAGAAAAAAATGA-AAAAAG
32329908 AAAGAAAAAAATGAAAAAAG
1 AAAGAAAAAAATGAAAAAAG
32329928 A
1 A
32329929 GAGTGAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.18
21 28 0.74
22 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAAATGAAAAAAG
Found at i:32331803 original size:22 final size:22
Alignment explanation
Indices: 32331773--32331816 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32331763 TTTGGTATTT
32331773 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
32331795 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
32331817 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:32336060 original size:14 final size:14
Alignment explanation
Indices: 32336030--32336059 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
32336020 CAATTTTTCA
32336030 TTCACTTTTTCTTT
1 TTCACTTTTTCTTT
32336044 TTCATCTTTTTCTTT
1 TTCA-CTTTTTCTTT
32336059 T
1 T
32336060 CTCGCTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCACTTTTTCTTT
Found at i:32339479 original size:15 final size:15
Alignment explanation
Indices: 32339454--32339500 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
32339444 AGAAAAGAAT
32339454 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
32339470 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
* *
32339485 AAATATATGAAAATG
1 AAAGAAATGAAAATG
32339500 A
1 A
32339501 GATTTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:32339551 original size:16 final size:16
Alignment explanation
Indices: 32339532--32339587 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
32339522 TGAAAAGCAA
32339532 AAAGAGATTGAAAAAG
1 AAAGAGATTGAAAAAG
32339548 AAAGAGAGTTTG-AAAAG
1 AAAGAGA--TTGAAAAAG
** *
32339565 AAATTGAGTGAAAAAG
1 AAAGAGATTGAAAAAG
*
32339581 AGAGAGA
1 AAAGAGA
32339588 GCTTCAACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 2 0.06
16 16 0.52
17 10 0.32
18 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (16 bp):
AAAGAGATTGAAAAAG
Found at i:32339555 original size:18 final size:18
Alignment explanation
Indices: 32339507--32339588 Score: 57
Period size: 18 Copynumber: 4.8 Consensus size: 18
32339497 ATGAGATTTC
* *
32339507 AAAAACAAA-AGAGAGTG
1 AAAAAGAAAGAGAGATTG
*
32339524 -AAAAGCAAAAAGAGATTG
1 AAAAAG-AAAGAGAGATTG
*
32339542 AAAAAGAAAGAGAGTTTG
1 AAAAAGAAAGAGAGATTG
**
32339560 -AAAAGAAATTGAG--TG
1 AAAAAGAAAGAGAGATTG
*
32339575 AAAAAGAGAGAGAG
1 AAAAAGAAAGAGAG
32339589 CTTCAACAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.04
16 14 0.27
17 14 0.27
18 17 0.33
19 5 0.10
ACGTcount: A:0.60, C:0.02, G:0.27, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAGAGAGATTG
Found at i:32339634 original size:36 final size:34
Alignment explanation
Indices: 32339540--32339620 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 34
32339530 AAAAAGAGAT
* * *
32339540 TGAAAAAGAAAGAGAGTTTGAA-AAGAAATTGAG
1 TGAAAAAGAGAGAGAGCTTCAACAAGAAATTGAG
32339573 TGAAAAAGAGAGAGAGCTTCAACAAGAAA-TGAG
1 TGAAAAAGAGAGAGAGCTTCAACAAGAAATTGAG
*
32339606 TGAAGAAGA-AGAGAG
1 TGAAAAAGAGAGAGAG
32339621 TGCTCAAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 6 0.14
33 31 0.72
34 6 0.14
ACGTcount: A:0.53, C:0.04, G:0.30, T:0.14
Consensus pattern (34 bp):
TGAAAAAGAGAGAGAGCTTCAACAAGAAATTGAG
Found at i:32345504 original size:20 final size:20
Alignment explanation
Indices: 32345479--32345539 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32345469 AGACCGTATA
32345479 CAATTTTTTCTTTCT-TTTTT
1 CAATTTTTT-TTTCTATTTTT
*
32345499 CAATTTTTTTATTTTATTTTT
1 CAATTTTTTT-TTCTATTTTT
*
32345520 CAATTTTTTTTTCAATTTTT
1 CAATTTTTTTTTCTATTTTT
32345540 TTTTCACGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.03
20 20 0.56
21 15 0.42
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (20 bp):
CAATTTTTTTTTCTATTTTT
Found at i:32345525 original size:13 final size:12
Alignment explanation
Indices: 32345493--32345545 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
32345483 TTTTTCTTTC
32345493 TTTTTTCAA--T
1 TTTTTTCAATTT
32345503 TTTTTT--ATTT
1 TTTTTTCAATTT
32345513 TATTTTTCAATTT
1 T-TTTTTCAATTT
32345526 TTTTTTCAATTT
1 TTTTTTCAATTT
32345538 TTTTTTCA
1 TTTTTTCA
32345546 CGAGCCTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
10 8 0.21
11 5 0.13
12 19 0.50
13 5 0.13
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTCAATTT
Found at i:32345539 original size:21 final size:20
Alignment explanation
Indices: 32345479--32345540 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
32345469 AGACCGTATA
32345479 CAATTTTTTCTTTC-TTTTTT
1 CAATTTTTT-TTTCATTTTTT
*
32345499 CAATTTTTTTATT-TTATTTTT
1 CAATTTTTTT-TTCAT-TTTTT
32345520 CAATTTTTTTTTCAATTTTTT
1 CAATTTTTTTTTC-ATTTTTT
32345541 TTTCACGAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 1 0.03
20 14 0.39
21 20 0.56
22 1 0.03
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (20 bp):
CAATTTTTTTTTCATTTTTT
Found at i:32345876 original size:22 final size:22
Alignment explanation
Indices: 32345846--32345889 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32345836 TTTGGTATTT
32345846 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
32345868 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
32345890 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:32348909 original size:20 final size:21
Alignment explanation
Indices: 32348884--32348928 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
32348874 TAGTATGTCT
*
32348884 TGTCCTAAC-CGAATTAATTG
1 TGTCCTAACTCAAATTAATTG
*
32348904 TGTCCTAACTTAAATTAATTG
1 TGTCCTAACTCAAATTAATTG
32348925 TGTC
1 TGTC
32348929 TAGTTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTCCTAACTCAAATTAATTG
Found at i:32349915 original size:21 final size:21
Alignment explanation
Indices: 32349890--32349930 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32349880 ACATTCCATA
*
32349890 ACCAAACCTAAACCATATTCG
1 ACCAAACCTAAACCAAATTCG
* *
32349911 ACCAATCTTAAACCAAATTC
1 ACCAAACCTAAACCAAATTC
32349931 CTTCTATCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (21 bp):
ACCAAACCTAAACCAAATTCG
Found at i:32352765 original size:43 final size:43
Alignment explanation
Indices: 32352705--32352821 Score: 119
Period size: 54 Copynumber: 2.5 Consensus size: 43
32352695 AATCACTTAT
*
32352705 TTATTAAAC-AAAGATGAGTTGAATAAATGTTCAGCAACTCAA
1 TTATTTAACTAAAGATGAGTTGAATAAATGTTCAGCAACTCAA
32352747 TTATTTAACTAAAGATGAGTTTCTTTAAAGTTGAATAAATGTTCAGCAACTCAA
1 TTATTTAACTAAAGAT--G---------AGTTGAATAAATGTTCAGCAACTCAA
32352801 TTATTTAACTAAAGATGAGTT
1 TTATTTAACTAAAGATGAGTT
32352822 TTTTTAAAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 23
0.72 0.01 0.27
Matches are distributed among these distances:
42 8 0.13
43 10 0.16
45 1 0.02
52 1 0.02
54 42 0.68
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (43 bp):
TTATTTAACTAAAGATGAGTTGAATAAATGTTCAGCAACTCAA
Found at i:32352785 original size:54 final size:54
Alignment explanation
Indices: 32352721--32352829 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
32352711 AACAAAGATG
32352721 AGTTGAATAAATGTTCAGCAACTCAATTATTTAACTAAAGATGAGTTTCTTTAA
1 AGTTGAATAAATGTTCAGCAACTCAATTATTTAACTAAAGATGAGTTTCTTTAA
*
32352775 AGTTGAATAAATGTTCAGCAACTCAATTATTTAACTAAAGATGAGTTTTTTTAA
1 AGTTGAATAAATGTTCAGCAACTCAATTATTTAACTAAAGATGAGTTTCTTTAA
32352829 A
1 A
32352830 ATTTTAGTTC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (54 bp):
AGTTGAATAAATGTTCAGCAACTCAATTATTTAACTAAAGATGAGTTTCTTTAA
Found at i:32353124 original size:13 final size:13
Alignment explanation
Indices: 32353096--32353136 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
32353086 TTGTAAATTG
32353096 AAAAAATTTAGAAA
1 AAAAAATTT-GAAA
*
32353110 AAGAAATTTGAAA
1 AAAAAATTTGAAA
32353123 AAAAAATTGTGAAA
1 AAAAAATT-TGAAA
32353137 TAAAGTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (13 bp):
AAAAAATTTGAAA
Done.