Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 186 of 195
Found at i:32438974 original size:26 final size:26
Alignment explanation
Indices: 32438924--32438996 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
32438914 ATAATAAATT
32438924 TATTTTAATT-TATC-AGATATATTTTAA
1 TATTTTAATTATATCTA-A-ATATTTT-A
* *
32438951 TATTTT-ATTATATTTAAATATTTTT
1 TATTTTAATTATATCTAAATATTTTA
*
32438976 TATTTTAATTATCTCTAAATA
1 TATTTTAATTATATCTAAATA
32438997 AAATTTTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 6 0.15
26 22 0.56
27 10 0.26
28 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (26 bp):
TATTTTAATTATATCTAAATATTTTA
Found at i:32441132 original size:23 final size:23
Alignment explanation
Indices: 32441102--32441150 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
32441092 AATAATTAGT
32441102 AGTCCTAGTCAAAAACCTTACTA
1 AGTCCTAGTCAAAAACCTTACTA
32441125 AGTCCTAGTCAAAAACCTTACTA
1 AGTCCTAGTCAAAAACCTTACTA
32441148 AGT
1 AGT
32441151 ATAACCTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (23 bp):
AGTCCTAGTCAAAAACCTTACTA
Found at i:32443213 original size:9 final size:9
Alignment explanation
Indices: 32443194--32443227 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
32443184 CTATTTTAAA
32443194 AATTAAAATT
1 AATT-AAATT
32443204 AATTAAATT
1 AATTAAATT
*
32443213 AATTAATTT
1 AATTAAATT
32443222 AATTAA
1 AATTAA
32443228 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTAAATT
Found at i:32448627 original size:242 final size:241
Alignment explanation
Indices: 32448170--32448652 Score: 903
Period size: 242 Copynumber: 2.0 Consensus size: 241
32448160 GCTGTAAATA
* *
32448170 AGTGTTTTCCCACACTCCCCCTCAAGCTAGTGAATAGGTGTTTTTCATTCCCAGCTTGGAAATAA
1 AGTGTTTTCCCAAACTCCCCCTCAAGCTAGTGAATAGGTGTTTTTCATTCCCAGCTTGAAAATAA
32448235 TTTCTTGAAATGTTGCACTGTTGAGACCTTTAGTGAACACATTGCAAGTTGACCCTTGGTTGATA
66 TTTCTTGAAATGTTGCACTGTTGAGACCTTTAGTGAACACATTGCAAGTTGACCCTTGGTTGATA
32448300 CATATGGTATACAAATCAACCCACTGTCTAGTTTTTCTTTTATGAAATGCCGGTCTACTTCAATG
131 CATATGGTATACAAATCAACCCACTGTCTAGTTTTTCTTTTATGAAATGCCGGTCTACTTCAATG
*
32448365 TGTTTTGTTCTATCATGTTGCACAGGATTGTGTGCAATGCTTATTG
196 TGTTTTCTTCTATCATGTTGCACAGGATTGTGTGCAATGCTTATTG
32448411 AGTGTTTTCCCAAACTCCCCCTCAAGCTAGTGAATAGGTGTTTTTCATTCCCAGCTTGAAAATAA
1 AGTGTTTTCCCAAACTCCCCCTCAAGCTAGTGAATAGGTGTTTTTCATTCCCAGCTTGAAAATAA
32448476 TTTCTTGAAATGTTGCACTGTTGAGACCTTTAGTGAACACATCTGCAAGTTGACCCTTGGTTGAT
66 TTTCTTGAAATGTTGCACTGTTGAGACCTTTAGTGAACACAT-TGCAAGTTGACCCTTGGTTGAT
* * *
32448541 ACATATGGTCTACAAATCAACCCACTGTTTAGTTTTTCTTTTATGAAATGCCGGTTTACTTCAAT
130 ACATATGGTATACAAATCAACCCACTGTCTAGTTTTTCTTTTATGAAATGCCGGTCTACTTCAAT
32448606 GTGTTTTCTTCTATCATGTTGCACAGGATTGTGTGCAATGCTTATTG
195 GTGTTTTCTTCTATCATGTTGCACAGGATTGTGTGCAATGCTTATTG
32448653 CAGACTTGTT
Statistics
Matches: 235, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
241 105 0.45
242 130 0.55
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (241 bp):
AGTGTTTTCCCAAACTCCCCCTCAAGCTAGTGAATAGGTGTTTTTCATTCCCAGCTTGAAAATAA
TTTCTTGAAATGTTGCACTGTTGAGACCTTTAGTGAACACATTGCAAGTTGACCCTTGGTTGATA
CATATGGTATACAAATCAACCCACTGTCTAGTTTTTCTTTTATGAAATGCCGGTCTACTTCAATG
TGTTTTCTTCTATCATGTTGCACAGGATTGTGTGCAATGCTTATTG
Found at i:32452199 original size:24 final size:26
Alignment explanation
Indices: 32452154--32452203 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
32452144 TTTGATACTA
32452154 TGTGAAAAAACTAAGAAATAAAATTG
1 TGTGAAAAAACTAAGAAATAAAATTG
* *
32452180 TGTG-AAATACTAA-AAGTAAAATTG
1 TGTGAAAAAACTAAGAAATAAAATTG
32452204 AATGTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 8 0.36
26 4 0.18
ACGTcount: A:0.54, C:0.04, G:0.16, T:0.26
Consensus pattern (26 bp):
TGTGAAAAAACTAAGAAATAAAATTG
Found at i:32463964 original size:75 final size:75
Alignment explanation
Indices: 32463839--32463987 Score: 219
Period size: 75 Copynumber: 2.0 Consensus size: 75
32463829 ACTTAAGTGT
* * * * *
32463839 TCCGCTTTTGCATATTATCATATACTAGCTGCATCTAAGTCGAACTTTTTAAATAGTCTCACCTT
1 TCCGCTTCTGCATATTATCATATACTAGCTGCATCCAAGTCGAACCTTTTAAATAATCTCACCTC
32463904 GGCTCCCCAG
66 GGCTCCCCAG
* *
32463914 TCCGCTTCTGTATATTATCATATACTCA-TTGCATCCAAGTCGAACCTTTTAAATAATCTCACCT
1 TCCGCTTCTGCATATTATCATATACT-AGCTGCATCCAAGTCGAACCTTTTAAATAATCTCACCT
32463978 CGGCTCCCCA
65 CGGCTCCCCA
32463988 ATGTGAGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 65 0.98
76 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (75 bp):
TCCGCTTCTGCATATTATCATATACTAGCTGCATCCAAGTCGAACCTTTTAAATAATCTCACCTC
GGCTCCCCAG
Found at i:32465344 original size:18 final size:18
Alignment explanation
Indices: 32465296--32465344 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
32465286 GTTTAACCAA
*
32465296 CTCTCTCTTCTTTTTTTT
1 CTCTTTCTTCTTTTTTTT
*
32465314 CTCTTTCTGCTTTTTTTT
1 CTCTTTCTTCTTTTTTTT
*
32465332 -TGCTTTTTTCTTT
1 CT-CTTTCTTCTTT
32465345 CTCTGCTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.73
Consensus pattern (18 bp):
CTCTTTCTTCTTTTTTTT
Found at i:32472459 original size:25 final size:25
Alignment explanation
Indices: 32472423--32472470 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
32472413 TGCTTATGAT
* *
32472423 GGTCATATTATTGTTTTGGACTGAG
1 GGTCATACTATTATTTTGGACTGAG
32472448 GGTCATACTATTATTTTGGACTG
1 GGTCATACTATTATTTTGGACTG
32472471 TCATGCAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (25 bp):
GGTCATACTATTATTTTGGACTGAG
Found at i:32483383 original size:99 final size:99
Alignment explanation
Indices: 32483260--32483454 Score: 318
Period size: 99 Copynumber: 2.0 Consensus size: 99
32483250 TTGTTTTTGA
*
32483260 TGTCAACATGGATAGGCAGAGCAGCACCAGACCTTCCACTGTCAACATGGGACATAGAGACATTA
1 TGTCAACATGGATAGGCAGAGCAGCACCAGACCTTCCACTGTCAACATGGGACATAGAGACACTA
32483325 GCTGGCCCAGCACTAAATGGTGGCATATGGCCAC
66 GCTGGCCCAGCACTAAATGGTGGCATATGGCCAC
** ** *
32483359 TGTCAACATGGATAGGTGGAGCAGCACCAGACCTTCCGTTGTCAACATGGGACATAGTGACACTA
1 TGTCAACATGGATAGGCAGAGCAGCACCAGACCTTCCACTGTCAACATGGGACATAGAGACACTA
* *
32483424 GCTGGCCCTGCATTAAATGGTGGCATATGGC
66 GCTGGCCCAGCACTAAATGGTGGCATATGGC
32483455 TACTTTTTTC
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (99 bp):
TGTCAACATGGATAGGCAGAGCAGCACCAGACCTTCCACTGTCAACATGGGACATAGAGACACTA
GCTGGCCCAGCACTAAATGGTGGCATATGGCCAC
Found at i:32497706 original size:33 final size:33
Alignment explanation
Indices: 32497665--32497734 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
32497655 AACTTTGCAG
32497665 TGAC-TGTTTTTTAAAGTATGTGATAAGTTCAA
1 TGACTTGTTTTTTAAAGTATGTGATAAGTTCAA
32497697 TGACTTGTTTTTTAAAGTATGTGATAAGTTCAA
1 TGACTTGTTTTTTAAAGTATGTGATAAGTTCAA
32497730 TGACT
1 TGACT
32497735 CTTCACCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (33 bp):
TGACTTGTTTTTTAAAGTATGTGATAAGTTCAA
Found at i:32498202 original size:23 final size:23
Alignment explanation
Indices: 32498151--32498204 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 23
32498141 TTTGATTCGA
32498151 TTTAAAATTAATAAAATATTATTT
1 TTTAAAA-TAATAAAATATTATTT
32498175 TTTAAAA-AATAAAATATTATTT
1 TTTAAAATAATAAAATATTATTT
*
32498197 TTTTAAAT
1 TTTAAAAT
32498205 TTAAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 21 0.75
24 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAAAATAATAAAATATTATTT
Found at i:32500463 original size:26 final size:25
Alignment explanation
Indices: 32500433--32500486 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
32500423 ATTTTTTTAA
32500433 TTATAAATAAA-AAATTATTAAAAAAT
1 TTAT-AATAAATAAATTA-TAAAAAAT
* *
32500459 TTATATTAAATAAATTATATAAAAT
1 TTATAATAAATAAATTATAAAAAAT
32500484 TTA
1 TTA
32500487 ATATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TTATAATAAATAAATTATAAAAAAT
Found at i:32501356 original size:2 final size:2
Alignment explanation
Indices: 32501351--32501382 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32501341 TTCCCTTGCA
32501351 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
32501383 GCTCCATTCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:32507945 original size:22 final size:23
Alignment explanation
Indices: 32507901--32507946 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
32507891 TATTTTTTTT
* * *
32507901 ATAAAAAATATTGTAATTTTTAA
1 ATAAAAAATATTATAAATATTAA
32507924 ATAAAAAA-ATTATAAATATTAA
1 ATAAAAAATATTATAAATATTAA
32507946 A
1 A
32507947 ATTTTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
ATAAAAAATATTATAAATATTAA
Found at i:32507957 original size:14 final size:13
Alignment explanation
Indices: 32507938--32507970 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
32507928 AAAAATTATA
32507938 AATATTAAAATTTT
1 AATATTAAAA-TTT
32507952 AATATT-AAATTT
1 AATATTAAAATTT
32507964 AATATTA
1 AATATTA
32507971 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.50
13 3 0.17
14 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTAAAATTT
Found at i:32523873 original size:211 final size:211
Alignment explanation
Indices: 32523509--32523931 Score: 837
Period size: 211 Copynumber: 2.0 Consensus size: 211
32523499 TTTAAGACAG
32523509 TTGACCTAAATTATTGACATACAACAATATAACAAGGAATAGGAAATCGTGAGGTCATTTTCTGT
1 TTGACCTAAATTATTGACATACAACAATATAACAAGGAATAGGAAATCGTGAGGTCATTTTCTGT
32523574 GCACAGCAACAAGCCATGTGCAGTTATATCCGATGGTTCAAAAACAATTGCTTAGCTAGAACCAG
66 GCACAGCAACAAGCCATGTGCAGTTATATCCGATGGTTCAAAAACAATTGCTTAGCTAGAACCAG
32523639 AGTTACCTAGTTGGTTACCTCCCCTACAAATTGTGAACTGGATCGCACGATCCGAAACATGGTAT
131 AGTTACCTAGTTGGTTACCTCCCCTACAAATTGTGAACTGGATCGCACGATCCGAAACATGGTAT
*
32523704 AAAAGCAATTTAGTTA
196 AAAAGCAATTTAATTA
32523720 TTGACCTAAATTATTGACATACAACAATATAACAAGGAATAGGAAATCGTGAGGTCATTTTCTGT
1 TTGACCTAAATTATTGACATACAACAATATAACAAGGAATAGGAAATCGTGAGGTCATTTTCTGT
32523785 GCACAGCAACAAGCCATGTGCAGTTATATCCGATGGTTCAAAAACAATTGCTTAGCTAGAACCAG
66 GCACAGCAACAAGCCATGTGCAGTTATATCCGATGGTTCAAAAACAATTGCTTAGCTAGAACCAG
32523850 AGTTACCTAGTTGGTTACCTCCCCTACAAATTGTGAACTGGATCGCACGATCCGAAACATGGTAT
131 AGTTACCTAGTTGGTTACCTCCCCTACAAATTGTGAACTGGATCGCACGATCCGAAACATGGTAT
32523915 AAAAGCAATTTAATTA
196 AAAAGCAATTTAATTA
32523931 T
1 T
32523932 GAAAACAAAC
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 211 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (211 bp):
TTGACCTAAATTATTGACATACAACAATATAACAAGGAATAGGAAATCGTGAGGTCATTTTCTGT
GCACAGCAACAAGCCATGTGCAGTTATATCCGATGGTTCAAAAACAATTGCTTAGCTAGAACCAG
AGTTACCTAGTTGGTTACCTCCCCTACAAATTGTGAACTGGATCGCACGATCCGAAACATGGTAT
AAAAGCAATTTAATTA
Found at i:32526028 original size:20 final size:20
Alignment explanation
Indices: 32526003--32526046 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32525993 CAAATTAAAT
*
32526003 TTAAATATTTTTACA-TTTAA
1 TTAAAT-TTTATACATTTTAA
*
32526023 TTAAATTTTATATATTTTAA
1 TTAAATTTTATACATTTTAA
32526043 TTAA
1 TTAA
32526047 TAAAAATCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAATTTTATACATTTTAA
Found at i:32526085 original size:23 final size:23
Alignment explanation
Indices: 32526055--32526100 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
32526045 AATAAAAATC
*
32526055 TCATAAAT-TTAAAATTAAATTT
1 TCATAAATATAAAAATTAAATTT
32526077 TCATCAAATATAAAAATTAAATTT
1 TCAT-AAATATAAAAATTAAATTT
32526101 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 13 0.62
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
TCATAAATATAAAAATTAAATTT
Found at i:32538747 original size:42 final size:41
Alignment explanation
Indices: 32538684--32538771 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 41
32538674 TTGTTTCCGA
32538684 TTGT-TTTAATTAACCAGTAGAAGGGTAGTTGAAAAATACAC
1 TTGTATTTAATTAACCAGTAGAAGGGTAGTTG-AAAATACAC
*
32538725 TTGTATTTAATTAACCAGTAGAAGGGTAGTTGAATATACAC
1 TTGTATTTAATTAACCAGTAGAAGGGTAGTTGAAAATACAC
32538766 TTGTAT
1 TTGTAT
32538772 CAACAGTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 18 0.40
42 27 0.60
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.35
Consensus pattern (41 bp):
TTGTATTTAATTAACCAGTAGAAGGGTAGTTGAAAATACAC
Found at i:32541651 original size:2 final size:2
Alignment explanation
Indices: 32541644--32541671 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32541634 TCGGAAGAAC
32541644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32541672 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32544738 original size:20 final size:21
Alignment explanation
Indices: 32544699--32544738 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
32544689 TCGAATCAAG
* *
32544699 TTTTTTTATTTATATTAAAAC
1 TTTTTTTATTTACATCAAAAC
32544720 TTTTTTTA-TTACATCAAAA
1 TTTTTTTATTTACATCAAAA
32544739 GATAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTTTATTTACATCAAAAC
Found at i:32546446 original size:46 final size:46
Alignment explanation
Indices: 32546396--32546519 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
32546386 AATGAACAGT
* * * *
32546396 TATAACAACAACAAACAAAGCCTCAATAAAATAGTAATTTTTTAAA
1 TATAACAACAACAAACAAAGCCTAAATAAAATAGTAACTGTCTAAA
* * * *
32546442 TATAACAATAACAAATAAAGTCTAAATAAAACAGTAACTGTCTAAA
1 TATAACAACAACAAACAAAGCCTAAATAAAATAGTAACTGTCTAAA
*
32546488 TTTAACAACAACAAACAAAGCCTAAATAAAAT
1 TATAACAACAACAAACAAAGCCTAAATAAAAT
32546520 CTAAATAGAG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (46 bp):
TATAACAACAACAAACAAAGCCTAAATAAAATAGTAACTGTCTAAA
Found at i:32564738 original size:15 final size:14
Alignment explanation
Indices: 32564718--32564757 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
32564708 GAAATTTTTT
32564718 TAAAAAATGATTTAA
1 TAAAAAAT-ATTTAA
32564733 T-AAAAA-ATTTAA
1 TAAAAAATATTTAA
32564745 TAAAAAAT-TTTAA
1 TAAAAAATATTTAA
32564758 ATCAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 5 0.22
15 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
TAAAAAATATTTAA
Found at i:32564750 original size:13 final size:12
Alignment explanation
Indices: 32564727--32564754 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
32564717 TTAAAAAATG
32564727 ATTTAATAAAAA
1 ATTTAATAAAAA
32564739 ATTTAATAAAAA
1 ATTTAATAAAAA
32564751 ATTT
1 ATTT
32564755 TAAATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:32564756 original size:13 final size:13
Alignment explanation
Indices: 32564718--32564757 Score: 55
Period size: 12 Copynumber: 3.0 Consensus size: 13
32564708 GAAATTTTTT
32564718 TAAAAAATGATTTAA
1 TAAAAAAT--TTTAA
32564733 TAAAAAA-TTTAA
1 TAAAAAATTTTAA
32564745 TAAAAAATTTTAA
1 TAAAAAATTTTAA
32564758 ATCAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
13 5 0.21
15 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
TAAAAAATTTTAA
Found at i:32564905 original size:11 final size:11
Alignment explanation
Indices: 32564879--32564917 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
32564869 TATTTTACTA
32564879 AAAATATTTATTT
1 AAAA-ATTT-TTT
32564892 AAAAATTTTTT
1 AAAAATTTTTT
32564903 -AAAATTTTTT
1 AAAAATTTTTT
32564913 AAAAA
1 AAAAA
32564918 AATTTTACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.40
11 7 0.28
12 4 0.16
13 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAAAATTTTTT
Found at i:32565555 original size:27 final size:27
Alignment explanation
Indices: 32565516--32565572 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
32565506 TATTACTATA
32565516 AATAATAAGTA-TTTGTAATAATTTAAT
1 AATAATAAGTATTTTG-AATAATTTAAT
*
32565543 AATAAT-AGATATTTTGAATATTTTAAT
1 AATAATAAG-TATTTTGAATAATTTAAT
32565570 AAT
1 AAT
32565573 TATGTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 21 0.78
28 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
AATAATAAGTATTTTGAATAATTTAAT
Found at i:32569048 original size:12 final size:12
Alignment explanation
Indices: 32569033--32569062 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
32569023 ATAAAGTTAT
32569033 GCTTGTTAAAAA
1 GCTTGTTAAAAA
32569045 GCTTGTTAAAAA
1 GCTTGTTAAAAA
32569057 GCTTGT
1 GCTTGT
32569063 AACTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (12 bp):
GCTTGTTAAAAA
Found at i:32570731 original size:3 final size:3
Alignment explanation
Indices: 32570723--32570755 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32570713 TTATGTATTC
32570723 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32570756 GTATATCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32571388 original size:29 final size:30
Alignment explanation
Indices: 32571322--32571390 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
32571312 AATTTCCAGA
* *
32571322 TTCCGACGAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAAG-TTGAATT
32571353 TTCCGGCGAAAATTCCGGCCAA-TTGAAGTT
1 TTCCGGCGAAAATTCCGGCCAAGTTGAA-TT
32571383 TT-CGGCGA
1 TTCCGGCGA
32571391 CCTGCCCAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 11 0.31
30 4 0.11
31 20 0.57
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (30 bp):
TTCCGGCGAAAATTCCGGCCAAGTTGAATT
Found at i:32571488 original size:20 final size:20
Alignment explanation
Indices: 32571451--32571488 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32571441 ACTTCCGGTG
* *
32571451 AAATTTCCAGATTTCGGCGA
1 AAATTTCCAGAATCCGGCGA
32571471 AAATTTCCAGAATCCGGC
1 AAATTTCCAGAATCCGGC
32571489 ACCGGTGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCGA
Found at i:32572016 original size:59 final size:60
Alignment explanation
Indices: 32571943--32572488 Score: 677
Period size: 61 Copynumber: 9.1 Consensus size: 60
32571933 ATAAAAATAA
* *
32571943 AAAATTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAAATTTC-AAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
32572004 AAATTTTC--AAAAA-ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
32572061 AAAA----AAAAAATATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAAATTTCAAAAAA-ATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
32572118 -AAATTTCGAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAA
1 AAAATTTC-AAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AGAAAT
*
32572180 ATAAATTTCCAAAAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 A-AAATTT-C---AAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
32572245 CAAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 -AAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
32572306 CAAAATTTCAAAAAAAAATATTTTTGGGGAAAAGCTGAAAGTATCAATTTTCCTTAGAAAT
1 -AAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *** *
32572367 AAATTTTCAAAAAAA-GGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
* * * *
32572426 CAAAATTTC-CAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTACAAAA
1 -AAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
32572485 AAAA
1 AAAA
32572489 AATCATTCTT
Statistics
Matches: 431, Mismatches: 32, Indels: 47
0.85 0.06 0.09
Matches are distributed among these distances:
55 4 0.01
56 4 0.01
57 87 0.20
58 10 0.02
59 114 0.26
60 22 0.05
61 122 0.28
62 5 0.01
64 7 0.02
65 11 0.03
66 1 0.00
67 7 0.02
68 37 0.09
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (60 bp):
AAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:32572264 original size:61 final size:59
Alignment explanation
Indices: 32571934--32572489 Score: 660
Period size: 59 Copynumber: 9.2 Consensus size: 59
32571924 TTTTTTTAAA
* *
32571934 TAAAAATAAAAAATTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAAATTTC-AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
32571997 TAGAAATAAATTTTC--AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *
32572054 CAGAAATAAAA----AAAAAATATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAA-A-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
32572111 CAGAAAT-AAATTTCGAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
*
32572170 TAAAAGAAAAATAAATTTCCAAAAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 T--AA-AAATA-AAATTT-C---AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
32572235 CCT
57 CCT
32572238 TAAAAATCAAAATTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAAATTTCAAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
*
32572299 TAAAAATCAAAATTTCAAAAAAAAATATTTTTGGGGAAAAGCTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAAATTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *** *
32572360 TAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
32572419 TGAAAATCAAAATTTC-CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
*
32572478 TACAAAAAAAAA
1 TA-AAAATAAAA
32572490 ATCATTCTTT
Statistics
Matches: 437, Mismatches: 34, Indels: 48
0.84 0.07 0.09
Matches are distributed among these distances:
55 4 0.01
56 4 0.01
57 87 0.20
58 5 0.01
59 122 0.28
60 19 0.04
61 116 0.27
62 10 0.02
63 6 0.01
64 7 0.02
65 10 0.02
66 3 0.01
67 7 0.02
68 37 0.08
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.32
Consensus pattern (59 bp):
TAAAAATAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:32575515 original size:12 final size:12
Alignment explanation
Indices: 32575498--32575523 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32575488 TTTTGTGAGA
32575498 TTTCTCTAATTG
1 TTTCTCTAATTG
32575510 TTTCTCTAATTG
1 TTTCTCTAATTG
32575522 TT
1 TT
32575524 GATTAACTCT
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:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (12 bp):
TTTCTCTAATTG
Found at i:32606475 original size:28 final size:28
Alignment explanation
Indices: 32606439--32606493 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
32606429 TAAAAATTAA
** *
32606439 ATTAATCAAATTATGTTATTTTATTTTT
1 ATTAATCAAATTAAATTATTTAATTTTT
32606467 ATTAATCAAATTAAATTATTTAATTTT
1 ATTAATCAAATTAAATTATTTAATTTT
32606494 AAAAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTAATCAAATTAAATTATTTAATTTTT
Found at i:32625210 original size:20 final size:20
Alignment explanation
Indices: 32625185--32625226 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
32625175 AGAAAGCTTA
32625185 GTCTGTGACACTAGGCTAGT
1 GTCTGTGACACTAGGCTAGT
32625205 GTCTGTGACACTAGGCTAGT
1 GTCTGTGACACTAGGCTAGT
32625225 GT
1 GT
32625227 GGTTGTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (20 bp):
GTCTGTGACACTAGGCTAGT
Found at i:32626451 original size:66 final size:66
Alignment explanation
Indices: 32626337--32626549 Score: 342
Period size: 66 Copynumber: 3.3 Consensus size: 66
32626327 TATTATTTAT
*
32626337 TTTGGCTGATATATTTTTATTGA--CTATTATTTATTTATTTTATTGTATATATCAACGATTCTA
1 TTTGGCTGATATATTTTTATTGACTCTATTATTTATTTATGTTATTGTATATATCAACGATTCTA
32626400 G
66 G
32626401 TTTGGCTGATATATTTTTATTGACTCTATTATTTATTTATGTTATTGTATATATCAACGATTCTA
1 TTTGGCTGATATATTTTTATTGACTCTATTATTTATTTATGTTATTGTATATATCAACGATTCTA
32626466 G
66 G
* * *
32626467 TTTGGTTGATATATTTTTATTGACTCTATTATTTATTTATGTTATTGCT-TATATCACCTATTCT
1 TTTGGCTGATATATTTTTATTGACTCTATTATTTATTTATGTTATTG-TATATATCAACGATTCT
32626531 AG
65 AG
* *
32626533 TTTAGCTAATATATTTT
1 TTTGGCTGATATATTTT
32626550 ATTTTTGATG
Statistics
Matches: 139, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
64 23 0.17
66 115 0.83
67 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.55
Consensus pattern (66 bp):
TTTGGCTGATATATTTTTATTGACTCTATTATTTATTTATGTTATTGTATATATCAACGATTCTA
G
Found at i:32629488 original size:17 final size:17
Alignment explanation
Indices: 32629466--32629499 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
32629456 TCGTCAGTTA
32629466 CTCAAA-TTCAAATCAAC
1 CTCAAATTTC-AATCAAC
32629483 CTCAAATTTCAATCAAC
1 CTCAAATTTCAATCAAC
32629500 AATCAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (17 bp):
CTCAAATTTCAATCAAC
Found at i:32630126 original size:20 final size:23
Alignment explanation
Indices: 32630091--32630138 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
32630081 ATATTTTGAT
*
32630091 TTTTTATTTGTTAATTT-AT-AA
1 TTTTTATTTGTAAATTTAATAAA
32630112 TTTTTATTTG-AAATTTAATAAA
1 TTTTTATTTGTAAATTTAATAAA
32630134 TTTTT
1 TTTTT
32630139 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
21 12 0.50
22 7 0.29
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTTATTTGTAAATTTAATAAA
Found at i:32631047 original size:21 final size:22
Alignment explanation
Indices: 32631013--32631072 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
32631003 TATAAAATAT
32631013 AATTT-TTT-TAATTTTATT-A
1 AATTTATTTATAATTTTATTAA
32631032 AATTTATTTATAATTTTATTAA
1 AATTTATTTATAATTTTATTAA
*
32631054 AATTTTATTATATTATTTT
1 AA-TTTATT-TATAATTTT
32631073 TATATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 5 0.14
20 3 0.09
21 10 0.29
22 3 0.09
23 6 0.17
24 8 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
AATTTATTTATAATTTTATTAA
Found at i:32631057 original size:11 final size:11
Alignment explanation
Indices: 32631022--32631063 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
32631012 TAATTTTTTT
32631022 AATTTTATT-A
1 AATTTTATTAA
*
32631032 AA-TTTATTTAT
1 AATTTTA-TTAA
32631043 AATTTTATTAA
1 AATTTTATTAA
32631054 AATTTTATTA
1 AATTTTATTA
32631064 TATTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 15 0.56
12 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTTTATTAA
Found at i:32631075 original size:11 final size:10
Alignment explanation
Indices: 32631014--32631082 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 10
32631004 ATAAAATATA
32631014 ATTTTTTTA-
1 ATTTTTTTAT
* *
32631023 ATTTTATTAA
1 ATTTTTTTAT
*
32631033 ATTTATTTAT
1 ATTTTTTTAT
* *
32631043 AATTTTATTAAA
1 -ATTTT-TTTAT
*
32631055 ATTTTATTAT
1 ATTTTTTTAT
32631065 ATTATTTTTAT
1 ATT-TTTTTAT
32631076 ATTTTTT
1 ATTTTTT
32631083 ATTCATATCA
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
9 8 0.18
10 16 0.36
11 18 0.40
12 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTTTTAT
Found at i:32631090 original size:24 final size:23
Alignment explanation
Indices: 32631056--32631101 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
32631046 TTTATTAAAA
* *
32631056 TTTTATTATATTATTTTTATATT
1 TTTTATTATATCATTTTCATATT
32631079 TTTTATTCATATCATTTTCATAT
1 TTTTATT-ATATCATTTTCATAT
32631102 AATATTATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTATTATATCATTTTCATATT
Found at i:32635378 original size:15 final size:15
Alignment explanation
Indices: 32635354--32635403 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
32635344 GAATAAAAAT
*
32635354 TTTAATAATTTTTTA
1 TTTAAAAATTTTTTA
32635369 TTTAAAAATTTTTTAA
1 TTTAAAAATTTTTT-A
32635385 TTATAAAAATTTATTTA
1 TT-TAAAAATTT-TTTA
32635402 TT
1 TT
32635404 AATGGATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 13 0.42
16 3 0.10
17 12 0.39
18 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAAAAATTTTTTA
Found at i:32635404 original size:17 final size:16
Alignment explanation
Indices: 32635360--32635404 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
32635350 AAATTTTAAT
32635360 AATTTTTTATT-TAAA
1 AATTTTTTATTATAAA
32635375 AATTTTTTAATTATAAA
1 AATTTTTT-ATTATAAA
32635392 AATTTATTTATTA
1 AATTT-TTTATTA
32635405 ATGGATTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.30
16 3 0.11
17 13 0.48
18 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTTTTATTATAAA
Found at i:32637129 original size:23 final size:22
Alignment explanation
Indices: 32637087--32637134 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
32637077 GGGTTTCACC
*
32637087 TTTATAAATAAGATATTTTTACT
1 TTTATAAATAAGATACTTTTA-T
*
32637110 TTTATAAATAAGATGCTTTTAT
1 TTTATAAATAAGATACTTTTAT
32637132 TTT
1 TTT
32637135 GGTTTGGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (22 bp):
TTTATAAATAAGATACTTTTAT
Found at i:32641590 original size:22 final size:24
Alignment explanation
Indices: 32641565--32641608 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
32641555 TGTTATCAAG
32641565 AAAATCAT-AGT-TTAAAAATAAA
1 AAAATCATAAGTGTTAAAAATAAA
*
32641587 AAAATTATAAGTGTTAAAAATA
1 AAAATCATAAGTGTTAAAAATA
32641609 TTATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (24 bp):
AAAATCATAAGTGTTAAAAATAAA
Found at i:32641625 original size:14 final size:14
Alignment explanation
Indices: 32641606--32641632 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32641596 AGTGTTAAAA
32641606 ATATTATATTTTAG
1 ATATTATATTTTAG
32641620 ATATTATATTTTA
1 ATATTATATTTTA
32641633 AAAGTAATTA
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:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATATTATATTTTAG
Found at i:32641687 original size:11 final size:12
Alignment explanation
Indices: 32641657--32641698 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
32641647 AATCAAATGA
32641657 ATTAATTTTTAA-
1 ATTAA-TTTTAAT
*
32641669 ATTTATTTTAAT
1 ATTAATTTTAAT
32641681 A-TAATTTTAAT
1 ATTAATTTTAAT
32641692 ATTAATT
1 ATTAATT
32641699 CATTGAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTAATTTTAAT
Found at i:32651429 original size:34 final size:34
Alignment explanation
Indices: 32651385--32651452 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
32651375 AAGTCGTCCT
* *
32651385 TCTTTATTTCTTCGTCTGCCGTTGTCAAGAAACA
1 TCTTTATTTCTTCGTCTACCATTGTCAAGAAACA
* *
32651419 TCTTTGTTTCTTCGTCTATCATTGTCAAGAAACA
1 TCTTTATTTCTTCGTCTACCATTGTCAAGAAACA
32651453 AAGAGCTAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (34 bp):
TCTTTATTTCTTCGTCTACCATTGTCAAGAAACA
Found at i:32667302 original size:22 final size:23
Alignment explanation
Indices: 32667264--32667316 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
32667254 ATATTGACTC
* *
32667264 AAATTTAATAAGAGATTTGTTTG
1 AAATTTATTAAGAGATTTATTTG
*
32667287 AGATTTATTAA-AGATTTATTTG
1 AAATTTATTAAGAGATTTATTTG
32667309 AAATTTAT
1 AAATTTAT
32667317 CAGATATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (23 bp):
AAATTTATTAAGAGATTTATTTG
Found at i:32667433 original size:52 final size:52
Alignment explanation
Indices: 32667341--32667485 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 52
32667331 TGGATAAAAA
* *
32667341 GACTTACAA-AAAAAAATTTTAAGA-GAAAGAAGATTTTTAATAGGTAAGTTT
1 GACTTACAAGAAAAGAATTTTAAAAGGAAAG-AGATTTTTAATAGGTAAGTTT
* * * * *
32667392 GACTTGCAAGAGAAGAATTTTAAAAGGAAAGGGATTCTTAATATGTAAGTTT
1 GACTTACAAGAAAAGAATTTTAAAAGGAAAGAGATTTTTAATAGGTAAGTTT
* * * *
32667444 GACTTATAAGAAAAGAATTCTAAAAGGAGAGTGATTTTTAAT
1 GACTTACAAGAAAAGAATTTTAAAAGGAAAGAGATTTTTAAT
32667486 GGACAAGTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 8 0.10
52 65 0.83
53 5 0.06
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (52 bp):
GACTTACAAGAAAAGAATTTTAAAAGGAAAGAGATTTTTAATAGGTAAGTTT
Found at i:32671431 original size:16 final size:16
Alignment explanation
Indices: 32671411--32671450 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
32671401 CTTAAAATAA
*
32671411 ATTTAATAATATTTAT
1 ATTTAATAAAATTTAT
* *
32671427 TTTTAAAAAAATTTAT
1 ATTTAATAAAATTTAT
32671443 ATTTAATA
1 ATTTAATA
32671451 TACACTGTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTAATAAAATTTAT
Found at i:32676934 original size:15 final size:17
Alignment explanation
Indices: 32676914--32676946 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
32676904 ATACTAGAGT
32676914 TTGAATTT-T-ATTAAA
1 TTGAATTTATGATTAAA
32676929 TTGAATTTATGATTAAA
1 TTGAATTTATGATTAAA
32676946 T
1 T
32676947 AATTATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TTGAATTTATGATTAAA
Found at i:32678346 original size:11 final size:11
Alignment explanation
Indices: 32678327--32678360 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32678317 TTTTTTTGCA
32678327 TTCTTTATTTT
1 TTCTTTATTTT
*
32678338 TTGTTTATTTT
1 TTCTTTATTTT
*
32678349 ATCTTTATTTT
1 TTCTTTATTTT
32678360 T
1 T
32678361 CAAATAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (11 bp):
TTCTTTATTTT
Found at i:32679193 original size:57 final size:57
Alignment explanation
Indices: 32679093--32679202 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
32679083 CTTTACAATG
* * *
32679093 TGTTTAGATTGAGGGAGAAAGAAAGAAAGTAAAGTAAAGTAAAGAAAAATAATACTA
1 TGTTTAGATTGAGGGAGAAAGAAAGAAAGGAAAGAAAAATAAAGAAAAATAATACTA
* * * *
32679150 TGTTTGGATTGAGGGA-AAGGGAAAGAAAGGAAAGAAAAATAAAGGAAAGTAAT
1 TGTTTAGATTGAGGGAGAA-AGAAAGAAAGGAAAGAAAAATAAAGAAAAATAAT
32679203 GAAAATAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 2 0.04
57 43 0.96
ACGTcount: A:0.53, C:0.01, G:0.27, T:0.19
Consensus pattern (57 bp):
TGTTTAGATTGAGGGAGAAAGAAAGAAAGGAAAGAAAAATAAAGAAAAATAATACTA
Found at i:32689263 original size:54 final size:54
Alignment explanation
Indices: 32689181--32689295 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
32689171 AAGAGCGGAA
* * *
32689181 GTCCAAGTCAAGGAGGAGAAGGTCATGCATTTAGTAATGCTGTCACGAACTCGG
1 GTCCAAGTCAAGGAGGAAAAGGTCATGCATTTACTAATGCTGTCACGAACTCAG
** * *
32689235 GTCCAAGTCCTGGAGGAAAAGGTCATGCATTTACTAATGCTTTCATGAACTCAG
1 GTCCAAGTCAAGGAGGAAAAGGTCATGCATTTACTAATGCTGTCACGAACTCAG
32689289 GTCCAAG
1 GTCCAAG
32689296 CTCCGGCGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (54 bp):
GTCCAAGTCAAGGAGGAAAAGGTCATGCATTTACTAATGCTGTCACGAACTCAG
Found at i:32694675 original size:23 final size:22
Alignment explanation
Indices: 32694631--32694693 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
32694621 TAATGTTTGG
*
32694631 TTTTTTATTTTATTTTTATTAATGC
1 TTTTTT-TTTTATGTTTATTAA--C
*
32694656 TTTTTTTTTTGTGTTT-TTAAC
1 TTTTTTTTTTATGTTTATTAAC
*
32694677 TTTTTTTTTTATTTTTA
1 TTTTTTTTTTATGTTTA
32694694 ATTTTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 15 0.45
23 4 0.12
24 8 0.24
25 6 0.18
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTTATGTTTATTAAC
Found at i:32694680 original size:19 final size:18
Alignment explanation
Indices: 32694658--32694700 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
32694648 ATTAATGCTT
*
32694658 TTTTTTTTGTGTTTTTAA
1 TTTTTTTTGTATTTTTAA
*
32694676 CTTTTTTTTTTATTTTTAA
1 -TTTTTTTTGTATTTTTAA
32694695 TTTTTT
1 TTTTTT
32694701 ATTAGATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (18 bp):
TTTTTTTTGTATTTTTAA
Found at i:32694941 original size:20 final size:20
Alignment explanation
Indices: 32694904--32694941 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32694894 AACATTTTTA
*
32694904 TTTTATTTTATTTTTTTGAG
1 TTTTATTTTATTTATTTGAG
32694924 TTTTATTTT-TTTAATTTG
1 TTTTATTTTATTT-ATTTG
32694942 TTTTCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (20 bp):
TTTTATTTTATTTATTTGAG
Found at i:32702970 original size:1 final size:1
Alignment explanation
Indices: 32702964--32702991 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
32702954 TATAACTACG
32702964 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
32702992 ATAGATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:32704004 original size:16 final size:17
Alignment explanation
Indices: 32703983--32704016 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32703973 TATATTGTAA
32703983 TTTATA-TAATTTAATT
1 TTTATATTAATTTAATT
*
32703999 TTTATATTATTTTAATT
1 TTTATATTAATTTAATT
32704016 T
1 T
32704017 GATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATTAATTTAATT
Found at i:32704312 original size:21 final size:23
Alignment explanation
Indices: 32704274--32704321 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
32704264 ATTTCTAATA
32704274 TTTTAAAAATATTAAATT-TATT
1 TTTTAAAAATATTAAATTCTATT
* *
32704296 TTTTAAATAT-TTTAATTCTATT
1 TTTTAAAAATATTAAATTCTATT
32704318 TTTT
1 TTTT
32704322 GAAAGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTAAAAATATTAAATTCTATT
Found at i:32704722 original size:30 final size:30
Alignment explanation
Indices: 32704666--32704724 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
32704656 AAATATTAAA
**
32704666 AAAATTAAAAATATAAAATCTTTCAAAAAT
1 AAAATTAAAAATATAAAATCAATCAAAAAT
*
32704696 AAAATTAAAAATTTTAAAAT-AATCAAAAA
1 AAAATTAAAAA-TATAAAATCAATCAAAAA
32704725 GTAATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (30 bp):
AAAATTAAAAATATAAAATCAATCAAAAAT
Found at i:32705705 original size:21 final size:22
Alignment explanation
Indices: 32705667--32705707 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
32705657 AATTTAATTC
32705667 TATTCGTAATATTATTTTATCT
1 TATTCGTAATATTATTTTATCT
* *
32705689 TATTC-TATTATTTTTTTAT
1 TATTCGTAATATTATTTTAT
32705708 ATATCAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTCGTAATATTATTTTATCT
Found at i:32733858 original size:27 final size:28
Alignment explanation
Indices: 32733806--32733859 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
32733796 TAATATATTA
*
32733806 TAATAAATTTAAAATAAAATATAATAAT
1 TAATAAATTTAAAATAAAATAAAATAAT
* *
32733834 TAAT-AATTTAAAATATATTAAAATAA
1 TAATAAATTTAAAATAAAATAAAATAA
32733860 AATATACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
TAATAAATTTAAAATAAAATAAAATAAT
Found at i:32738909 original size:16 final size:16
Alignment explanation
Indices: 32738875--32738908 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
32738865 AAAATTTTAA
*
32738875 TTTAATCGAATTGATT
1 TTTAATCGAATTAATT
32738891 TTTAATC-AATTAATT
1 TTTAATCGAATTAATT
32738906 TTT
1 TTT
32738909 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAATCGAATTAATT
Found at i:32740245 original size:4 final size:4
Alignment explanation
Indices: 32740236--32740262 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32740226 AAATTTATAA
32740236 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
32740263 CTCTCCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:32741522 original size:18 final size:20
Alignment explanation
Indices: 32741473--32741525 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
32741463 ATTTAAAAAA
*
32741473 ATTATTAAAAAATAAATTAT
1 ATTATTAAATAATAAATTAT
*
32741493 TTTATGTCAAATAAT-AATT-T
1 ATTAT-T-AAATAATAAATTAT
32741513 ATTATTAAATAAT
1 ATTATTAAATAAT
32741526 TAAAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 7 0.25
19 1 0.04
20 9 0.32
21 5 0.18
22 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTATTAAATAATAAATTAT
Found at i:32742738 original size:4 final size:4
Alignment explanation
Indices: 32742729--32742761 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
32742719 ATTCATGAAT
32742729 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
32742762 CTCTCGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:32764953 original size:25 final size:24
Alignment explanation
Indices: 32764906--32764961 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
32764896 TTTATGTATG
*
32764906 AAAATTTATTTTAAATATTTAATA
1 AAAATTTATTTTAAATATATAATA
*
32764930 AAAATTTATTATTAAA-ATAATAATT
1 AAAATTTATT-TTAAATAT-ATAATA
32764955 AAAATTT
1 AAAATTT
32764962 TAAGTCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAATTTATTTTAAATATATAATA
Found at i:32771303 original size:21 final size:22
Alignment explanation
Indices: 32771246--32771303 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
32771236 TAAAAATAAT
**
32771246 ATAATTTAAAATTTTAATAAAA
1 ATAATTTATGATTTTAATAAAA
32771268 ATAATTTATGA-TTTAATAAAA
1 ATAATTTATGATTTTAATAAAA
32771289 A-AATTGTAT-ATTTTA
1 ATAATT-TATGATTTTA
32771304 TATTAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 18 0.56
22 9 0.28
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (22 bp):
ATAATTTATGATTTTAATAAAA
Found at i:32772197 original size:2 final size:2
Alignment explanation
Indices: 32772190--32772216 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32772180 CCAATAAATC
32772190 TA 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 TA T
32772217 TTTAATACCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32774918 original size:2 final size:2
Alignment explanation
Indices: 32774906--32774936 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32774896 AATATAATGC
*
32774906 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32774937 CAAAATAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:32780483 original size:34 final size:34
Alignment explanation
Indices: 32780435--32780503 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
32780425 CTTTGATAAT
*
32780435 ATATATACACCACAAATGACAGCCAATAGAGACA
1 ATATATACAACACAAATGACAGCCAATAGAGACA
* *
32780469 ATATGTACAACACAAATGACGGCCAATAGAGACA
1 ATATATACAACACAAATGACAGCCAATAGAGACA
32780503 A
1 A
32780504 CTTAAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.49, C:0.22, G:0.14, T:0.14
Consensus pattern (34 bp):
ATATATACAACACAAATGACAGCCAATAGAGACA
Found at i:32783008 original size:17 final size:17
Alignment explanation
Indices: 32782963--32783008 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
32782953 TAGCATATGT
*
32782963 TAGAAAATTTAAGAAAA
1 TAGAAAATATAAGAAAA
32782980 TA-AAAATAATAAGAAAGA
1 TAGAAAAT-ATAAGAAA-A
32782998 -AGAAAATATAA
1 TAGAAAATATAA
32783009 TTTTGAAGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.20
17 14 0.56
18 6 0.24
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (17 bp):
TAGAAAATATAAGAAAA
Found at i:32790885 original size:12 final size:12
Alignment explanation
Indices: 32790850--32790889 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
32790840 AAATTTATCT
* *
32790850 AAAAAAAATTAC
1 AAAAAAAATAAA
*
32790862 AAAAAAAGTAAA
1 AAAAAAAATAAA
32790874 AAAAAAAATAAA
1 AAAAAAAATAAA
32790886 AAAA
1 AAAA
32790890 TACAAGGCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:32791113 original size:11 final size:11
Alignment explanation
Indices: 32791074--32791113 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
32791064 TTTTAATATT
*
32791074 AAAAAATTAAC
1 AAAAAATTAAA
*
32791085 AAAAAATAAGAA
1 AAAAAATTA-AA
32791097 AAAAAATTAAA
1 AAAAAATTAAA
32791108 AAAAAA
1 AAAAAA
32791114 AATGATATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:32794446 original size:15 final size:15
Alignment explanation
Indices: 32794426--32794454 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32794416 GCATCATGGC
32794426 TTTCCAGGAAAAATA
1 TTTCCAGGAAAAATA
32794441 TTTCCAGGAAAAAT
1 TTTCCAGGAAAAAT
32794455 GAGAATTCTA
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:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (15 bp):
TTTCCAGGAAAAATA
Found at i:32800775 original size:6 final size:6
Alignment explanation
Indices: 32800764--32800809 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
32800754 GGATGTTATA
* *
32800764 ACATAT ACATAT ACATAC ACATAT --ATTT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
32800810 TTTCCCTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 3 0.09
6 31 0.91
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (6 bp):
ACATAT
Found at i:32802535 original size:21 final size:21
Alignment explanation
Indices: 32802509--32802551 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32802499 CAGTGGAGAA
32802509 TGCACCCTGGCTTCAAGCATG
1 TGCACCCTGGCTTCAAGCATG
32802530 TGCACCCTGGCTTCAAGCATG
1 TGCACCCTGGCTTCAAGCATG
32802551 T
1 T
32802552 ATCACGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.26
Consensus pattern (21 bp):
TGCACCCTGGCTTCAAGCATG
Found at i:32809307 original size:41 final size:41
Alignment explanation
Indices: 32809262--32809343 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
32809252 CCATTATGAA
32809262 AAAAGTCAGATGTATGTTGAGGATAACAAAATTACCAAAGC
1 AAAAGTCAGATGTATGTTGAGGATAACAAAATTACCAAAGC
32809303 AAAAGTCAGATGTATGTTGAGGATAACAAAATTACCAAAGC
1 AAAAGTCAGATGTATGTTGAGGATAACAAAATTACCAAAGC
32809344 CATTATGGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (41 bp):
AAAAGTCAGATGTATGTTGAGGATAACAAAATTACCAAAGC
Found at i:32814962 original size:18 final size:18
Alignment explanation
Indices: 32814939--32814974 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32814929 TGAAATTAAT
* *
32814939 TAAATATTATTTTAAATA
1 TAAATATAATATTAAATA
32814957 TAAATATAATATTAAATA
1 TAAATATAATATTAAATA
32814975 CATATAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATATAATATTAAATA
Found at i:32814994 original size:21 final size:22
Alignment explanation
Indices: 32814954--32814994 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
32814944 ATTATTTTAA
*
32814954 ATATAAATATAATATTAAATAC
1 ATATAAATATAATATAAAATAC
*
32814976 ATATAATTA-AATATAAAAT
1 ATATAAATATAATATAAAAT
32814995 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATAAATATAATATAAAATAC
Found at i:32824279 original size:2 final size:2
Alignment explanation
Indices: 32824272--32824301 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32824262 AATATCATAA
32824272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32824302 TGGGCATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32828910 original size:12 final size:12
Alignment explanation
Indices: 32828882--32828918 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
32828872 GATTCATATG
32828882 TACATAT-TACA
1 TACATATGTACA
32828893 TACATATGTACA
1 TACATATGTACA
*
32828905 TTCATATGTACA
1 TACATATGTACA
32828917 TA
1 TA
32828919 TTACATACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (12 bp):
TACATATGTACA
Found at i:32840198 original size:21 final size:20
Alignment explanation
Indices: 32840174--32840229 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
32840164 ATAAAGGTTT
32840174 CAAAGAAGCTTCAAAGATTAC
1 CAAA-AAGCTTCAAAGATTAC
*
32840195 CAAAAATACTTCAAAGATTAC
1 CAAAAA-GCTTCAAAGATTAC
* *
32840216 CCAAATGCTTCAAA
1 CAAAAAGCTTCAAA
32840230 TGTTACAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 9 0.30
21 21 0.70
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (20 bp):
CAAAAAGCTTCAAAGATTAC
Found at i:32840226 original size:20 final size:21
Alignment explanation
Indices: 32840181--32840229 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
32840171 TTTCAAAGAA
32840181 GCTTCAAAGATTACCAAAAAT
1 GCTTCAAAGATTACCAAAAAT
* *
32840202 ACTTCAAAGATTACC-CAAAT
1 GCTTCAAAGATTACCAAAAAT
32840222 GCTTCAAA
1 GCTTCAAA
32840230 TGTTACAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.24
Consensus pattern (21 bp):
GCTTCAAAGATTACCAAAAAT
Found at i:32840829 original size:21 final size:20
Alignment explanation
Indices: 32840803--32840890 Score: 72
Period size: 21 Copynumber: 4.2 Consensus size: 20
32840793 CTTAGATTAA
32840803 AAAAATATAATAAAAGTTACC
1 AAAAATAT-ATAAAAGTTACC
* * *
32840824 AAAAATATTAGAAAAGTCATC
1 AAAAATA-TATAAAAGTTACC
32840845 AAAAATACT-TCAAAAGTTACC
1 AAAAATA-TAT-AAAAGTTACC
* *
32840866 AAAAATAATTTAAAGGTTA-C
1 AAAAAT-ATATAAAAGTTACC
32840886 AAAAA
1 AAAAA
32840891 ACAACTCAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
20 6 0.11
21 46 0.84
22 3 0.05
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (20 bp):
AAAAATATATAAAAGTTACC
Found at i:32840891 original size:21 final size:21
Alignment explanation
Indices: 32840814--32840952 Score: 70
Period size: 21 Copynumber: 6.7 Consensus size: 21
32840804 AAAATATAAT
* *
32840814 AAAAGTTACCAAAAAT-ATTAG
1 AAAAGTTACAAAAAATAATT-C
* *
32840835 AAAAGTCATC-AAAAATACTTC
1 AAAAGTTA-CAAAAAATAATTC
* *
32840856 AAAAGTTACCAAAAATAATTT
1 AAAAGTTACAAAAAATAATTC
* * *
32840877 AAAGGTTACAAAAAACAACTC
1 AAAAGTTACAAAAAATAATTC
* **
32840898 AAAAATTATTAAAAAT-ATTAC
1 AAAAGTTACAAAAAATAATT-C
* * * *
32840919 AAAAGTAAC-TAAAACACTTC
1 AAAAGTTACAAAAAATAATTC
*
32840939 AAAAGTTACCAAAA
1 AAAAGTTACAAAAA
32840953 CTATCACAAA
Statistics
Matches: 87, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
20 16 0.18
21 68 0.78
22 3 0.03
ACGTcount: A:0.58, C:0.14, G:0.06, T:0.23
Consensus pattern (21 bp):
AAAAGTTACAAAAAATAATTC
Found at i:32840932 original size:20 final size:20
Alignment explanation
Indices: 32840909--32840970 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
32840899 AAAATTATTA
*
32840909 AAAATATTACAAAAGTAACT
1 AAAATATTACAAAAGTTACT
* *
32840929 AAAACACTT-CAAAAGTTACC
1 AAAATA-TTACAAAAGTTACT
*
32840949 AAAACTATCACAAAAGTTACT
1 AAAA-TATTACAAAAGTTACT
32840970 A
1 A
32840971 GAACGCTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAATATTACAAAAGTTACT
Found at i:32840962 original size:41 final size:41
Alignment explanation
Indices: 32840814--32840965 Score: 146
Period size: 42 Copynumber: 3.7 Consensus size: 41
32840804 AAAATATAAT
* * *
32840814 AAAAGTTACCAAAAATATTAGAAAAGTCATCAAAAATACTTC
1 AAAAGTTACCAAAAATATTACAAAAGT-AACAAAAACACTTC
* * *
32840856 AAAAGTTACCAAAAATAATT-TAAAGGTTACAAAAAACAAC-TC
1 AAAAGTTACCAAAAAT-ATTACAAAAGTAAC-AAAAAC-ACTTC
* ** *
32840898 AAAAATTATTAAAAATATTACAAAAGTAACTAAAACACTTC
1 AAAAGTTACCAAAAATATTACAAAAGTAACAAAAACACTTC
* *
32840939 AAAAGTTACCAAAACTATCACAAAAGT
1 AAAAGTTACCAAAAATATTACAAAAGT
32840966 TACTAGAACG
Statistics
Matches: 88, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
40 2 0.02
41 33 0.38
42 48 0.55
43 5 0.06
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (41 bp):
AAAAGTTACCAAAAATATTACAAAAGTAACAAAAACACTTC
Found at i:32840990 original size:41 final size:41
Alignment explanation
Indices: 32840908--32840995 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
32840898 AAAAATTATT
* *
32840908 AAAAATATTACAAAAGTAACTAAAACACTTCAAAAGTTACC
1 AAAAATATCACAAAAGTAACTAAAACACTTCAAAAGATACC
* * * * * *
32840949 AAAACTATCACAAAAGTTACTAGAACGCTTTATAAGATACC
1 AAAAATATCACAAAAGTAACTAAAACACTTCAAAAGATACC
32840990 AAAAAT
1 AAAAAT
32840996 CTTACTAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (41 bp):
AAAAATATCACAAAAGTAACTAAAACACTTCAAAAGATACC
Found at i:32853242 original size:20 final size:20
Alignment explanation
Indices: 32853155--32853242 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
32853145 TATATTTATA
32853155 TAATAAATTAAATAAT-TAAT
1 TAATAAATTAAA-AATATAAT
* * *
32853175 TAATTAATT-TAAACATAAT
1 TAATAAATTAAAAATATAAT
*
32853194 TAATATCA-TAAAAATATAAT
1 TAATA-AATTAAAAATATAAT
* *
32853214 TAA-ACAATTAAAACTATAAA
1 TAATA-AATTAAAAATATAAT
32853234 TAATAAATT
1 TAATAAATT
32853243 TTAAATTTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
18 2 0.04
19 12 0.23
20 37 0.71
21 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAAATTAAAAATATAAT
Found at i:32857770 original size:16 final size:16
Alignment explanation
Indices: 32857738--32857782 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
32857728 CATGAACATA
* *
32857738 TATAAACAAATACATT
1 TATAATCAAATAAATT
32857754 TATAATCAAATAAATT
1 TATAATCAAATAAATT
32857770 TA-AAT-AAATAAAT
1 TATAATCAAATAAAT
32857783 CTTAATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 16 0.59
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
TATAATCAAATAAATT
Found at i:32857793 original size:14 final size:14
Alignment explanation
Indices: 32857740--32857787 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
32857730 TGAACATATA
* *
32857740 TAAACAAATACATT
1 TAAATAAATAAATT
32857754 TATAATCAAATAAATT
1 TA-AAT-AAATAAATT
32857770 TAAATAAATAAATCT
1 TAAATAAATAAAT-T
32857785 TAA
1 TAA
32857788 TGAATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 10 0.34
15 9 0.31
16 10 0.34
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATAAATAAATT
Found at i:32859569 original size:13 final size:14
Alignment explanation
Indices: 32859538--32859573 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
32859528 ATCTTTCACC
32859538 TTCTTTCTTTGCTTT
1 TTCTTT-TTTGCTTT
32859553 TTCTTTTTTGC-TT
1 TTCTTTTTTGCTTT
32859566 TTCTTTTT
1 TTCTTTTT
32859574 CATCATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 5 0.24
15 6 0.29
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (14 bp):
TTCTTTTTTGCTTT
Found at i:32876122 original size:2 final size:2
Alignment explanation
Indices: 32876117--32876151 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32876107 GTGTGTGTGT
32876117 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
32876152 CTGAGAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32892791 original size:23 final size:24
Alignment explanation
Indices: 32892744--32892790 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
32892734 AAGTGATGCA
32892744 ACAACTAATAAAGGAAAAAAAAAAC
1 ACAACTAATAAAGG-AAAAAAAAAC
32892769 ACAACTAATAAAGGAAAAAAAA
1 ACAACTAATAAAGGAAAAAAAA
32892791 CTGAGTGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.72, C:0.11, G:0.09, T:0.09
Consensus pattern (24 bp):
ACAACTAATAAAGGAAAAAAAAAC
Found at i:32894264 original size:52 final size:52
Alignment explanation
Indices: 32894195--32894301 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
32894185 CCCAACCCAA
32894195 AAAGAAAAACAAAATGGAAGATTTTTAGTTCATATATTATATAAACTTTTATT
1 AAAGAAAAACAAAATGGAAGATTTTTAGTTCATATATTATATAAA-TTTTATT
*
32894248 AAAG-AAAATAAAATGGAAGATTTTTAGTTCATATATTATATAAATTTTATT
1 AAAGAAAAACAAAATGGAAGATTTTTAGTTCATATATTATATAAATTTTATT
32894299 AAA
1 AAA
32894302 TATGATTTGC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 10 0.19
52 39 0.74
53 4 0.08
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (52 bp):
AAAGAAAAACAAAATGGAAGATTTTTAGTTCATATATTATATAAATTTTATT
Found at i:32900131 original size:317 final size:318
Alignment explanation
Indices: 32899546--32900183 Score: 1242
Period size: 317 Copynumber: 2.0 Consensus size: 318
32899536 CGGCAAAAAG
*
32899546 GGGGGGGGGTCAGTCTCTACTTAAACTACAAAACATATCTTTTTTTTTTTTTTATCAAGTTTGGA
1 GGGGGGCGGTCAGTCTCTACTTAAACTACAAAACATATC--TTTTTTTTTTTTATCAAGTTTGGA
32899611 CCTTTGAAGTTTTGGGTTACTGAATTGTAGGTCTTTATTTTACTTTTTCTTTGTTGGGTTTTGTT
64 CCTTTGAAGTTTTGGGTTACTGAATTGTAGGTCTTTATTTTACTTTTTCTTTGTTGGGTTTTGTT
32899676 TTCTTATGTTGTTTATTTGTAAGTATGCGAGTTGTATATACTGGAATTTCTGTGCTACAATAAGT
129 TTCTTATGTTGTTTATTTGTAAGTATGCGAGTTGTATATACTGGAATTTCTGTGCTACAATAAGT
32899741 TATTAGAATGTTCAGATTTCGGATCGAAGTTGTAAATCTGTATAATCAGTTTCTGCCTTGTTTTC
194 TATTAGAATGTTCAGATTTCGGATCGAAGTTGTAAATCTGTATAATCAGTTTCTGCCTTGTTTTC
32899806 CCTTAATTCTAAACAAATTTTTACCCTTTTTCTACTTTGCTCGGTAGAACAGACAATGGC
259 CCTTAATTCTAAACAAATTTTTACCCTTTTTCTACTTTGCTCGGTAGAACAGACAATGGC
32899866 GGGGGGCGGTCAGTCTCTACTTAAACTACAAAACATATC-TTTTTTTTTTTATCAAGTTTGGACC
1 GGGGGGCGGTCAGTCTCTACTTAAACTACAAAACATATCTTTTTTTTTTTTATCAAGTTTGGACC
32899930 TTTGAAGTTTTGGGTTACTGAATTGTAGGTCTTTATTTTACTTTTTCTTTGTTGGGTTTTGTTTT
66 TTTGAAGTTTTGGGTTACTGAATTGTAGGTCTTTATTTTACTTTTTCTTTGTTGGGTTTTGTTTT
32899995 CTTATGTTGTTTATTTGTAAGTATGCGAGTTGTATATACTGGAATTTCTGTGCTACAATAAGTTA
131 CTTATGTTGTTTATTTGTAAGTATGCGAGTTGTATATACTGGAATTTCTGTGCTACAATAAGTTA
32900060 TTAGAATGTTCAGATTTCGGATCGAAGTTGTAAATCTGTATAATCAGTTTCTGCCTTGTTTTCCC
196 TTAGAATGTTCAGATTTCGGATCGAAGTTGTAAATCTGTATAATCAGTTTCTGCCTTGTTTTCCC
32900125 TTAATTCTAAACAAATTTTTACCCTTTTTCTACTTTGCTCGGTAGAACAGACAATGGC
261 TTAATTCTAAACAAATTTTTACCCTTTTTCTACTTTGCTCGGTAGAACAGACAATGGC
32900183 G
1 G
32900184 TAGCTTGAGT
Statistics
Matches: 317, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
317 279 0.88
320 38 0.12
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (318 bp):
GGGGGGCGGTCAGTCTCTACTTAAACTACAAAACATATCTTTTTTTTTTTTATCAAGTTTGGACC
TTTGAAGTTTTGGGTTACTGAATTGTAGGTCTTTATTTTACTTTTTCTTTGTTGGGTTTTGTTTT
CTTATGTTGTTTATTTGTAAGTATGCGAGTTGTATATACTGGAATTTCTGTGCTACAATAAGTTA
TTAGAATGTTCAGATTTCGGATCGAAGTTGTAAATCTGTATAATCAGTTTCTGCCTTGTTTTCCC
TTAATTCTAAACAAATTTTTACCCTTTTTCTACTTTGCTCGGTAGAACAGACAATGGC
Found at i:32904992 original size:2 final size:2
Alignment explanation
Indices: 32904985--32905018 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
32904975 AGTAGTAGTT
32904985 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32905019 AACATCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:32905228 original size:15 final size:15
Alignment explanation
Indices: 32905210--32905238 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32905200 ATTTTGCTTC
32905210 TTTTT-TTTTTATTT
1 TTTTTGTTTTTATTT
32905224 TTTTTGTTTTTATTT
1 TTTTTGTTTTTATTT
32905239 GATGTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (15 bp):
TTTTTGTTTTTATTT
Found at i:32915949 original size:44 final size:45
Alignment explanation
Indices: 32915871--32915963 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
32915861 AAGCGCGATA
*
32915871 GTCAGAAATCTTTAATTGTTTTCGAATTGTGCTTTGAT-TTCATT
1 GTCAAAAATCTTTAATTGTTTTCGAATTGTGCTTTGATATTCATT
* *
32915915 GTCAAAAATTTTTAGTTGTTTT-GTAATTGTGCTTTGATATTCATT
1 GTCAAAAATCTTTAATTGTTTTCG-AATTGTGCTTTGATATTCATT
32915960 GTCA
1 GTCA
32915964 TAACCTGCGT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 33 0.75
45 10 0.23
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.51
Consensus pattern (45 bp):
GTCAAAAATCTTTAATTGTTTTCGAATTGTGCTTTGATATTCATT
Found at i:32920234 original size:12 final size:12
Alignment explanation
Indices: 32920200--32920241 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
32920190 TTTAACAACG
*
32920200 AAAATGAATTAT
1 AAAATAAATTAT
*
32920212 AAAAT-TA-TAT
1 AAAATAAATTAT
32920222 AAAATAAATTAT
1 AAAATAAATTAT
32920234 AAAATAAA
1 AAAATAAA
32920242 AATAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 16 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAAATAAATTAT
Found at i:32921874 original size:6 final size:6
Alignment explanation
Indices: 32921863--32921896 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
32921853 GGTGAGTGGG
*
32921863 TTTTTC TTTTTC TTTTTC TTTCT- TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
32921897 TATATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:32921891 original size:17 final size:16
Alignment explanation
Indices: 32921865--32921896 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
32921855 TGAGTGGGTT
32921865 TTTCTTTTTCTTTTTC
1 TTTCTTTTTCTTTTTC
32921881 TTTCTTTTTTCTTTTT
1 TTTC-TTTTTCTTTTT
32921897 TATATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTC
Found at i:32927563 original size:2 final size:2
Alignment explanation
Indices: 32927552--32927581 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32927542 GCAATAACTT
32927552 TA TA -A 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 TA TA TA T
32927582 GTACACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32928656 original size:28 final size:27
Alignment explanation
Indices: 32928600--32928658 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
32928590 TATGCTTCTA
* * *
32928600 TTTTAAATATTTTATTATTATATATAT
1 TTTTAAACATTTCATTATTATATACAT
32928627 TTTTAAACATTTCAGTTATTCATA-ACAT
1 TTTTAAACATTTCA-TTATT-ATATACAT
32928655 TTTT
1 TTTT
32928659 TTTCACACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.44
28 12 0.44
29 3 0.11
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTAAACATTTCATTATTATATACAT
Found at i:32938555 original size:16 final size:15
Alignment explanation
Indices: 32938536--32938566 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
32938526 TTTCTCTCTG
32938536 TTTCTTCTTTTTTTTT
1 TTTCTT-TTTTTTTTT
32938552 TTTCTTTTTTTTTTT
1 TTTCTTTTTTTTTTT
32938567 GCTTTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTCTTTTTTTTTTT
Found at i:32938556 original size:13 final size:13
Alignment explanation
Indices: 32938540--32938571 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32938530 TCTCTGTTTC
32938540 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
32938553 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
*
32938566 TGCTTT
1 TTCTTT
32938572 GGGTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:32942687 original size:36 final size:37
Alignment explanation
Indices: 32942635--32942731 Score: 160
Period size: 36 Copynumber: 2.6 Consensus size: 37
32942625 TCATTATGTG
* * *
32942635 GGTAGGTGGGTGCCTGAATTGTCAATTTGTCAGTGTT
1 GGTAGGTGGGTGCCTGAATTGCCAATTTGTCAATATT
32942672 GGTAGGT-GGTGCCTGAATTGCCAATTTGTCAATATT
1 GGTAGGTGGGTGCCTGAATTGCCAATTTGTCAATATT
32942708 GGTAGGTGGGTGCCTGAATTGCCA
1 GGTAGGTGGGTGCCTGAATTGCCA
32942732 TTGCTCTTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 33 0.59
37 23 0.41
ACGTcount: A:0.19, C:0.13, G:0.34, T:0.34
Consensus pattern (37 bp):
GGTAGGTGGGTGCCTGAATTGCCAATTTGTCAATATT
Found at i:32942858 original size:43 final size:44
Alignment explanation
Indices: 32942782--32942870 Score: 135
Period size: 43 Copynumber: 2.0 Consensus size: 44
32942772 CGAAGAGGAA
*
32942782 AATACTGCAACCATGATTAAATTGGCTACCAAAATGTTTCTATT
1 AATACTGCAACCATGATTAAATTGGCTAACAAAATGTTTCTATT
* **
32942826 AATACTGCAATCAT-ATTCGATTGGCTAACAAAATGTTTCTATT
1 AATACTGCAACCATGATTAAATTGGCTAACAAAATGTTTCTATT
32942869 AA
1 AA
32942871 GATATAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 28 0.68
44 13 0.32
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (44 bp):
AATACTGCAACCATGATTAAATTGGCTAACAAAATGTTTCTATT
Found at i:32945867 original size:41 final size:41
Alignment explanation
Indices: 32945816--32945906 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 41
32945806 TTTATGATAT
* * *
32945816 TATTTCAAAATGTATCAAATTT-AATT-GAATCTAAATATTTA
1 TATTTAAAAAT-T-TCAAATTTAAATTCGAATATAAATAATTA
* *
32945857 TATTTAAAAATTTTAAATTTAAATTCGAATATCAATAATTA
1 TATTTAAAAATTTCAAATTTAAATTCGAATATAAATAATTA
*
32945898 AATTTAAAA
1 TATTTAAAA
32945907 TTGAATATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 7 0.17
40 5 0.12
41 30 0.71
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (41 bp):
TATTTAAAAATTTCAAATTTAAATTCGAATATAAATAATTA
Found at i:32946422 original size:15 final size:14
Alignment explanation
Indices: 32946393--32946427 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
32946383 ATATAATTAG
*
32946393 ATATTTATTATTTT
1 ATATTTATTAATTT
32946407 ATATTATATTAATTT
1 ATATT-TATTAATTT
32946422 ATATTT
1 ATATTT
32946428 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTATTAATTT
Found at i:32946715 original size:18 final size:17
Alignment explanation
Indices: 32946672--32946704 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32946662 TAATATTATT
*
32946672 TAATATAATCTTATTTA
1 TAATATCATCTTATTTA
32946689 TAATATCATCTTATTT
1 TAATATCATCTTATTT
32946705 TATTTTATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATATCATCTTATTTA
Found at i:32946978 original size:20 final size:20
Alignment explanation
Indices: 32946951--32947007 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
32946941 TATAATTGAT
32946951 GTGACATTAATTTTGTTTAC
1 GTGACATTAATTTTGTTTAC
* * **
32946971 GTGGCATTAACTTTACTTAC
1 GTGACATTAATTTTGTTTAC
32946991 GTGACATTAATTTTGTT
1 GTGACATTAATTTTGTT
32947008 GATAATAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (20 bp):
GTGACATTAATTTTGTTTAC
Found at i:32947504 original size:26 final size:27
Alignment explanation
Indices: 32947470--32947522 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
32947460 TTTTCCAATA
32947470 TTTTAATTTTTTAAAAAATAATATTTC
1 TTTTAATTTTTTAAAAAATAATATTTC
* *
32947497 TTTT-ATTTTTTAAGAAATCATATTTC
1 TTTTAATTTTTTAAAAAATAATATTTC
32947523 ACTTTTGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTTAATTTTTTAAAAAATAATATTTC
Found at i:32958636 original size:114 final size:113
Alignment explanation
Indices: 32958396--32958690 Score: 337
Period size: 113 Copynumber: 2.6 Consensus size: 113
32958386 AAAAATGAAG
* * * * * ** *
32958396 TAAATAATCATAATTAATGCGTTTCAAAATCTAAAAATGTAGTATTTAAGTAAGAAAATATAAAA
1 TAAATAATCACAATTACTGCATTTCAAAATCTACAAATGTAATATTCGAGTGAGAAAATATAAAA
* ***
32958461 AAAGTTTACAAGTTGTCAAATGTTGCATTTATGTTCAAAGAAGGGCAA
66 AAAGTTTACAAGTTGTCAAATATTGCATTTATGTTCAAAGAAACACAA
* * *
32958509 TAAATAA-CTACAATTACTACATTTCAAAACCTACAAATGTAATATTCGAGTGAGAAATTATAAA
1 TAAATAATC-ACAATTACTGCATTTCAAAATCTACAAATGTAATATTCGAGTGAGAAAATATAAA
* * * *
32958573 GAAAA-TTTATAAGTTTGTCAATTATTGCATTTTTGTTCAAAGAAACACAC
65 -AAAAGTTTACAAG-TTGTCAAATATTGCATTTATGTTCAAAGAAACACAA
* * *
32958623 TAAATAATCACAATTGCTGCATTTCAAAGTCTAC-AACGTAATATTCGAGTGA-AAAATATAAAA
1 TAAATAATCACAATTACTGCATTTCAAAATCTACAAATGTAATATTCGAGTGAGAAAATATAAAA
32958686 AAAGT
66 AAAGT
32958691 ATTTAATTAG
Statistics
Matches: 152, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
111 4 0.03
112 11 0.07
113 75 0.49
114 61 0.40
115 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (113 bp):
TAAATAATCACAATTACTGCATTTCAAAATCTACAAATGTAATATTCGAGTGAGAAAATATAAAA
AAAGTTTACAAGTTGTCAAATATTGCATTTATGTTCAAAGAAACACAA
Found at i:32958695 original size:114 final size:114
Alignment explanation
Indices: 32958448--32958695 Score: 299
Period size: 114 Copynumber: 2.2 Consensus size: 114
32958438 TATTTAAGTA
* ***
32958448 AGAAAATATAAAAAAAG-TTTACAAGTTGTCAAATGTTGCATTTATGTTCAAAGAAGGGCAATAA
1 AGAAAATATAAAAAAAGATTTACAAGTTGTCAAATATTGCATTTATGTTCAAAGAAACACAATAA
*
32958512 ATAACTACAATTACTACATTTCAAAACCTACAAATGTAATATTCGAGTG
66 ATAACTACAATTACTACATTTCAAAACCTACAAACGTAATATTCGAGTG
* * * * * *
32958561 AGAAATTATAAAGAAA-ATTTATAAGTTTGTCAATTATTGCATTTTTGTTCAAAGAAACACACTA
1 AGAAAATATAAAAAAAGATTTACAAG-TTGTCAAATATTGCATTTATGTTCAAAGAAACACAATA
* * **
32958625 AATAA-TCACAATTGCTGCATTTCAAAGTCTAC-AACGTAATATTCGAGTG
65 AATAACT-ACAATTACTACATTTCAAAACCTACAAACGTAATATTCGAGTG
32958674 A-AAAATATAAAAAAAGTATTTA
1 AGAAAATATAAAAAAAG-ATTTA
32958696 ATTAGAAAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
112 12 0.11
113 39 0.35
114 62 0.55
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (114 bp):
AGAAAATATAAAAAAAGATTTACAAGTTGTCAAATATTGCATTTATGTTCAAAGAAACACAATAA
ATAACTACAATTACTACATTTCAAAACCTACAAACGTAATATTCGAGTG
Done.