Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 41 of 117
Found at i:9804485 original size:10 final size:10
Alignment explanation
Indices: 9804472--9804525 Score: 65
Period size: 10 Copynumber: 5.4 Consensus size: 10
9804462 TTTTGTATTT
*
9804472 TTTTTTCAAA
1 TTTTTTAAAA
*
9804482 TTTTTT-AGA
1 TTTTTTAAAA
9804491 TTTTTTAAAA
1 TTTTTTAAAA
9804501 TTTTTTAAAGA
1 TTTTTTAAA-A
*
9804512 TTTTTTTAAA
1 TTTTTTAAAA
9804522 TTTT
1 TTTT
9804526 CATATATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
9 8 0.21
10 22 0.56
11 9 0.23
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:9804494 original size:21 final size:20
Alignment explanation
Indices: 9804471--9804525 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
9804461 TTTTTGTATT
9804471 TTTTTTTCAAATTTTTT-AGA
1 TTTTTTT-AAATTTTTTAAGA
*
9804491 TTTTTTAAAATTTTTTAAAGA
1 TTTTTTTAAATTTTTT-AAGA
9804512 TTTTTTTAAATTTT
1 TTTTTTTAAATTTT
9804526 CATATATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 9 0.29
20 6 0.19
21 16 0.52
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTTTAAATTTTTTAAGA
Found at i:9807579 original size:12 final size:13
Alignment explanation
Indices: 9807558--9807586 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9807548 TTATTATAAT
9807558 TTTAATTAAAAAA
1 TTTAATTAAAAAA
9807571 TTTAA-TAAAAAA
1 TTTAATTAAAAAA
9807583 TTTA
1 TTTA
9807587 TGTTGAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTAATTAAAAAA
Found at i:9808185 original size:25 final size:24
Alignment explanation
Indices: 9808149--9808198 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
9808139 TATTAATATT
* *
9808149 TAAATATTTATATCATATTTTATA
1 TAAAAATTTATATCATAATTTATA
*
9808173 TAAAAATTATATATTATAATTTATA
1 TAAAAATT-TATATCATAATTTATA
9808198 T
1 T
9808199 TAATATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAAATTTATATCATAATTTATA
Found at i:9808819 original size:21 final size:21
Alignment explanation
Indices: 9808794--9808834 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9808784 TTTATAATTT
9808794 AATAAAATAAAAT-GTTTTTAA
1 AATAAAA-AAAATAGTTTTTAA
*
9808815 AATAAAAAACATAGTTTTTA
1 AATAAAAAAAATAGTTTTTA
9808835 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (21 bp):
AATAAAAAAAATAGTTTTTAA
Found at i:9808931 original size:40 final size:40
Alignment explanation
Indices: 9808882--9808959 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
9808872 GAAAATGATG
* *
9808882 TTTTTAAGATAAAAATACAATCTTTATTGAAAAGATAATA
1 TTTTCAAGATAAAAATACAATCTTTATTGAAAACATAATA
* * *
9808922 TTTTCAAGATAAAAATATAATTTTTATTGTAAACATAA
1 TTTTCAAGATAAAAATACAATCTTTATTGAAAACATAA
9808960 AAAAAACTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (40 bp):
TTTTCAAGATAAAAATACAATCTTTATTGAAAACATAATA
Found at i:9809188 original size:74 final size:74
Alignment explanation
Indices: 9809049--9809189 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 74
9809039 TTCTAAACTA
* * * * *
9809049 AAAATATAATTTGTGTTGAAAATATAAAAAATATATTTTTTTAGAATTCAACAAAGACAATATTT
1 AAAATATAATTTGTGTTGAAAATATAAAAAATATATGTTTTCAAAATTCAACAAAAACAACATTT
9809114 TTAATCTTG
66 TTAATCTTG
* * *
9809123 AAAATACT-ATTTTTGTTGAAAATATAAAGAAATATA-GTTTTCAAAATTCAATAAAAATAACAT
1 AAAATA-TAATTTGTGTTGAAAATATAAA-AAATATATGTTTTCAAAATTCAACAAAAACAACAT
9809186 TTTT
64 TTTT
9809190 GAGATAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
74 49 0.86
75 8 0.14
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.40
Consensus pattern (74 bp):
AAAATATAATTTGTGTTGAAAATATAAAAAATATATGTTTTCAAAATTCAACAAAAACAACATTT
TTAATCTTG
Found at i:9809236 original size:16 final size:17
Alignment explanation
Indices: 9809210--9809252 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
9809200 AATATATAAT
9809210 TTTTGTTAAAAAATGA-C-
1 TTTT-TTAAAAAAT-ATCG
9809227 TTTTTTAAAAAATATCG
1 TTTTTTAAAAAATATCG
9809244 TTTTTTAAA
1 TTTTTTAAA
9809253 CAAAAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.04
16 10 0.42
17 13 0.54
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (17 bp):
TTTTTTAAAAAATATCG
Found at i:9813358 original size:16 final size:17
Alignment explanation
Indices: 9813323--9813362 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9813313 AGTTTATCAA
9813323 AATTTAAA-TGAAAATC
1 AATTTAAATTGAAAATC
*
9813339 AATTTAAATTTAAAAT-
1 AATTTAAATTGAAAATC
9813355 AA-TTAAAT
1 AATTTAAAT
9813363 AGATACAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AATTTAAATTGAAAATC
Found at i:9813433 original size:21 final size:21
Alignment explanation
Indices: 9813395--9813434 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9813385 AAATTTTATT
**
9813395 TAAATGTACTTATGAATTAAA
1 TAAATGTACTTAAAAATTAAA
*
9813416 TAAATGTATTTAAAAATTA
1 TAAATGTACTTAAAAATTA
9813435 TTGGTTATCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (21 bp):
TAAATGTACTTAAAAATTAAA
Found at i:9814583 original size:29 final size:29
Alignment explanation
Indices: 9814551--9814612 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
9814541 AATGTTTTTG
* *
9814551 TTTTAATTAGTTTAATTGAATTAAATTTA
1 TTTTAATTAGTTTAATTAAATTAAATGTA
9814580 TTTTAATTAGTTTAATTAAATTAAATGTA
1 TTTTAATTAGTTTAATTAAATTAAATGTA
9814609 TTTT
1 TTTT
9814613 CTCAATTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (29 bp):
TTTTAATTAGTTTAATTAAATTAAATGTA
Found at i:9815195 original size:29 final size:28
Alignment explanation
Indices: 9815122--9815229 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 28
9815112 TTTTTAATTT
*
9815122 AATTTAATTAAATTTATTTAGCTAATTATTA
1 AATTAAATTAAATTTATTT---TAATTATTA
* *
9815153 AATTACATGT--ATTTATTTTAATTAGTTT
1 AATTAAAT-TAAATTTATTTTAATTA-TTA
9815181 AATTAAATTAAATTTATTTTAATTAATTA
1 AATTAAATTAAATTTATTTTAATT-ATTA
* *
9815210 AATTAAGTTAAATGTATTTT
1 AATTAAATTAAATTTATTTT
9815230 TTCAATTTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
27 7 0.11
28 9 0.14
29 33 0.51
30 9 0.14
31 6 0.09
32 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (28 bp):
AATTAAATTAAATTTATTTTAATTATTA
Found at i:9816459 original size:18 final size:18
Alignment explanation
Indices: 9816432--9816485 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
9816422 TTTATTGATC
9816432 AAAA-TTATATAATTTTT
1 AAAATTTATATAATTTTT
9816449 AAAATTTATATAA--TTT
1 AAAATTTATATAATTTTT
*
9816465 AAATTTTTGATATAATTTTT
1 AAA-ATTT-ATATAATTTTT
9816485 A
1 A
9816486 TAACACAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.19
17 7 0.23
18 14 0.45
20 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AAAATTTATATAATTTTT
Found at i:9818632 original size:21 final size:22
Alignment explanation
Indices: 9818590--9818633 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9818580 TGTGTTAGCC
**
9818590 TCCAAAACGAAGCAAAGTAATT
1 TCCAAAACGAAGCAAACAAATT
9818612 TCCAAAACGAA-CAAACAAATT
1 TCCAAAACGAAGCAAACAAATT
9818633 T
1 T
9818634 TAACACTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.18
Consensus pattern (22 bp):
TCCAAAACGAAGCAAACAAATT
Found at i:9834340 original size:248 final size:248
Alignment explanation
Indices: 9833893--9834385 Score: 887
Period size: 248 Copynumber: 2.0 Consensus size: 248
9833883 ATAAACAAAA
9833893 AGGAGAAATGTTTCATGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTTATTAATAT
1 AGGAGAAATGTTTCATGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTTATTAATAT
* *
9833958 GCTTATGCCTTTTTGTTATGACAAAAAGGGGGAGAAATATTATATGGATAAATTTGCTTGTGCTT
66 GCTTATGCCTTTTTGCTATGACAAAAAGGGGGAGAAATATTATATGGATAAATTTACTTGTGCTT
* * *
9834023 GACATGCATATGTTTGATTGTGCTTATTTGATATATATGCTCTAACATATGTTTAGTGAGTTGTG
131 GACATGCATATGTTTGATTGTACTTATTTGATATATATGCTCTAACATACGTTTAGTGAGTTATG
* * *
9834088 TTGGATTAGGATGCATAAATTAAAGGGGAGTTTTGCCATGCATTGTTTAAGGG
196 TTGGATTAGGATGCATAAATTAAAAGGGAGTTCTGCCATGCATTGCTTAAGGG
*
9834141 AGGAGAAATGTTTCATGAATATATTTGTTAATGATGTCTCTTTGTGTTTATTTGCTTATTAATAT
1 AGGAGAAATGTTTCATGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTTATTAATAT
9834206 GCTTATGCCTTTTTGCTATGACAAAAAGGGGGAGAAATATTATATGGATAAATTTACTTGTGCTT
66 GCTTATGCCTTTTTGCTATGACAAAAAGGGGGAGAAATATTATATGGATAAATTTACTTGTGCTT
* *
9834271 GACATGCATATGTTTGATTGTACTTATTTGATATATATGCTCTAATATACGTTTATTGAGTTATG
131 GACATGCATATGTTTGATTGTACTTATTTGATATATATGCTCTAACATACGTTTAGTGAGTTATG
9834336 TTGGATTAGGATGCATAAATTAAAAGGGAGTTCTGCCATGCATTGCTTAA
196 TTGGATTAGGATGCATAAATTAAAAGGGAGTTCTGCCATGCATTGCTTAA
9834386 AGGGGAGTTT
Statistics
Matches: 234, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
248 234 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (248 bp):
AGGAGAAATGTTTCATGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTTATTAATAT
GCTTATGCCTTTTTGCTATGACAAAAAGGGGGAGAAATATTATATGGATAAATTTACTTGTGCTT
GACATGCATATGTTTGATTGTACTTATTTGATATATATGCTCTAACATACGTTTAGTGAGTTATG
TTGGATTAGGATGCATAAATTAAAAGGGAGTTCTGCCATGCATTGCTTAAGGG
Found at i:9837645 original size:16 final size:17
Alignment explanation
Indices: 9837612--9837644 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9837602 TAATTTACAT
9837612 TTAATTTTACAAAAAAA
1 TTAATTTTACAAAAAAA
*
9837629 TTAATTTTATAAAAAA
1 TTAATTTTACAAAAAA
9837645 TACATCCACA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAATTTTACAAAAAAA
Found at i:9838053 original size:9 final size:9
Alignment explanation
Indices: 9838039--9838071 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9838029 TTTGCCTTTG
9838039 TATATTATA
1 TATATTATA
9838048 TATATTATA
1 TATATTATA
9838057 TATATT-TA
1 TATATTATA
9838065 TA-ATTAT
1 TATATTAT
9838072 TGCAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 3 0.13
8 5 0.22
9 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TATATTATA
Found at i:9841114 original size:20 final size:20
Alignment explanation
Indices: 9841068--9841114 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
9841058 AGTAAAAATG
*
9841068 TAGTTTTTGATTAAAAAATA
1 TAGTTTTTGATTAAAAAACA
*
9841088 TATGTTTTT-ATGTCAAAAACA
1 TA-GTTTTTGAT-TAAAAAACA
9841109 TAGTTT
1 TAGTTT
9841115 AGAAACATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (20 bp):
TAGTTTTTGATTAAAAAACA
Found at i:9854601 original size:16 final size:16
Alignment explanation
Indices: 9854582--9854616 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9854572 TATGATAACA
* *
9854582 TATCTTTAATAATTGG
1 TATCCTTAACAATTGG
9854598 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
9854614 TAT
1 TAT
9854617 GAGCTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:9857739 original size:3 final size:3
Alignment explanation
Indices: 9857731--9857766 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9857721 TTAATTCTTT
9857731 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9857767 GGCTATGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9861726 original size:3 final size:3
Alignment explanation
Indices: 9861718--9861750 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9861708 TTGTGGCTGT
9861718 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9861751 AAAATAAATC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9875091 original size:22 final size:21
Alignment explanation
Indices: 9875053--9875097 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
9875043 TCGTTTGGAG
*
9875053 TTGAAAAAAAATTGTTAAAGC
1 TTGAAAAAAAATCGTTAAAGC
* *
9875074 TTGAAAAACTAATCGTTAGAGC
1 TTGAAAAA-AAATCGTTAAAGC
9875096 TT
1 TT
9875098 TTCTGGGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (21 bp):
TTGAAAAAAAATCGTTAAAGC
Found at i:9878133 original size:2 final size:2
Alignment explanation
Indices: 9878128--9878159 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9878118 GATATATGTT
*
9878128 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9878160 AACTTAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9888024 original size:110 final size:110
Alignment explanation
Indices: 9887910--9888126 Score: 389
Period size: 110 Copynumber: 2.0 Consensus size: 110
9887900 GAAGTATCAT
* *
9887910 AAATCTAAACGTAATAGAAAGTAAAATCAATCATAAAAATATATTGCTATAATATAAATAATTAT
1 AAATCTAAACGTAATAGAAAGTAAAAACAATCATAAAAATATATTACTATAATATAAATAATTAT
*
9887975 GATGGTAATGTAAAATTTTAATTAATTATTGTTTTTGTATATGAC
66 GATGGTAATATAAAATTTTAATTAATTATTGTTTTTGTATATGAC
* *
9888020 AAATCTAAACGTAATAGAAAGTAAAAACAATCATAAAAATATATTATTATAATATAAATAGTTAT
1 AAATCTAAACGTAATAGAAAGTAAAAACAATCATAAAAATATATTACTATAATATAAATAATTAT
9888085 GATGGTAATATAAAATTTTAATTAATTATTGTTTTTGTATAT
66 GATGGTAATATAAAATTTTAATTAATTATTGTTTTTGTATAT
9888127 ATGTATATAT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (110 bp):
AAATCTAAACGTAATAGAAAGTAAAAACAATCATAAAAATATATTACTATAATATAAATAATTAT
GATGGTAATATAAAATTTTAATTAATTATTGTTTTTGTATATGAC
Found at i:9888135 original size:2 final size:2
Alignment explanation
Indices: 9888122--9888152 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9888112 ATTGTTTTTG
*
9888122 TA TA TA TG 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
9888153 GAAAGATAGC
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9888816 original size:21 final size:21
Alignment explanation
Indices: 9888778--9888822 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
9888768 GAACAACCAT
9888778 AATAATATATTATTGTAACATA
1 AATAATATATTA-TGTAACATA
9888800 AATAATTATATTA-GTAACATA
1 AATAA-TATATTATGTAACATA
9888821 AA
1 AA
9888823 ACTTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 5 0.23
23 7 0.32
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
AATAATATATTATGTAACATA
Found at i:9888858 original size:234 final size:231
Alignment explanation
Indices: 9888140--9890463 Score: 948
Period size: 234 Copynumber: 10.0 Consensus size: 231
9888130 TATATATATA
* * * * * ** *
9888140 TATATATATATATGAAAGATAGCTAAAAATTAAAAAATAAATTGATAATGTAAACAAGTAAGAAG
1 TATAAATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTAATAACATAAACAAGTAAGAAA
* * * * * * *
9888205 AAACGTACAATTAGTATTATTTGGCATAAAATGCACAATTAAGAAGTGTCGTAATACACTAAGAA
66 AAATGTAAAATTAGTATAATTTGGCATAAATTG-----GT-AGAAATGTCGTAATATACTAAGAA
* * *
9888270 AAAGTTATAACAATTCTAAACATAATAGAATGTAAGAACAATCATAAGAATATATTATTGTAATA
125 AAAGTTATGACAATTCTAAACATAATAAAATGTAAGAACAA-CATAA-AATATATTATTGTAACA
* * ** *
9888335 TTAATAATTATATT-GACAATTTAAAATTTTAACTAATTATTATT
188 TAAATAATTATATTAG-TAACATAAAATTTTAATTAATTATTATT
* * * * * * * * *
9888379 TTTTAATATATAAGAAAAATAGCTAAAAATTGAAAAACAAA-TAGGTAACATAAAAAAATGA-AA
1 TATAAATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTA-ATAACATAAACAAGTAAGAA
* * * ** * * * *
9888442 AAAATGTAAAATTATTACAATTAGGCATAAAATAAGTAAAAATATCGTAACACT-CTAAGTAAAA
65 AAAATGTAAAATTAGTATAATTTGGCAT-AAATTGGTAGAAATGTCGTAATA-TACTAAGAAAAA
** * * * *
9888506 GCAATGACAATTCTAAACATAATTAAATGTAAGAAC-A-ATAAAAAAAATTATTGTAACTTAAAT
128 GTTATGACAATTCTAAACATAATAAAATGTAAGAACAACATAAAATATATTATTGTAACATAAAT
* * * *
9888569 AATTA-AGTTACTAACGTAAAATTTTAATTATTTATTTTT
193 AATTATA-TTAGTAACATAAAATTTTAATTAATTATTATT
* * **
9888608 TGTAAATATATAAGAAAAATAGATAAAAATT-AAAAATAATTTAATAATGTAAACAAGTAAGAAA
1 TATAAATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTAATAACATAAACAAGTAAGAAA
* * *
9888672 AAATGTAAAATTAGTATAATTTGGCGTAAGATTGGTATGAATTGTCATAATATACTAA-AAATAA
66 AAATGTAAAATTAGTATAATTTGGCATAA-ATTGGTA-GAAATGTCGTAATATACTAAGAAA-AA
*
9888736 GTTATGACAATTTTAAACATAATGAAAAT-TAAGAACAACCATAATAATATATTATTGTAACATA
128 GTTATGACAATTCTAAACATAAT-AAAATGTAAGAACAA-CATAA-AATATATTATTGTAACATA
* *
9888800 AATAATTATATTAGTAACATAAAACTTTAATTAATTATTGTT
190 AATAATTATATTAGTAACATAAAATTTTAATTAATTATTATT
* * ** *
9888842 TATAAATATCTAAGAAAAATA-ACTAGAAATTAAAAAATAAATTGGTAACATAAACAAGTGAGAA
1 TATAAATATATAAGAAAAATAGA-TAAAAATTAAAAAATAAATTAATAACATAAACAAGTAAGAA
* * ** * ** * * *** *
9888906 TAAATGT-AAATTAATACCATTTAGCATAAAATAAGTAAAAAGTGGT-GTAACACGTTAAGAAAG
65 AAAATGTAAAATTAGTATAATTTGGCAT-AAATTGGTAGAAA-T-GTCGTAATATACTAAGAAAA
* * * * * * * * *
9888969 AGTTATGACAGTTATAAATATAATGAAAAAAGTAAAAACAACTGTAAAAAGATATTATTATAAGA
127 AGTTATGACAATTCTAAACATAAT--AAAATGTAAGAACAAC-AT-AAAATATATTATTGTAACA
* * * ** * **
9889034 T-AATAGTTATGTT-GACAATGTAAAATTTTAATTATTTGGTATTCT
188 TAAATAATTATATTAG-TAACATAAAATTTTAATTAATTATTA-T-T
* * ** *
9889079 TGTAAATATATAA-AAAAATAGCT-AAAATTAAAAAGCAAATTCATAACATAAACAAGT--GAAA
1 TATAAATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTAATAACATAAACAAGTAAGAAA
* * * * * *
9889140 AGTAA-GTAAAATTAGTATTATTTAGAATAAAATGGATTAGAAGTGTC-TAATATATTAAGAAAA
66 A--AATGTAAAATTAGTATAATTTGGCATAAATTGG--TAGAAATGTCGTAATATACTAAGAAAA
** ** * * ** * * *
9889203 AACTACAACAATTCTAAATATGATGAAAA-GTAAGAATGATAGTAAAAATATATCATTGCAACAT
127 AGTTATGACAATTCTAAACATAAT-AAAATGTAAGAACAACA-T-AAAATATATTATTGTAACAT
* * * ** *
9889267 AAATAACTACGATGA-TAATGTAAAATTATAATTAATTATTGCTATT
189 AAATAATTA-TATTAGTAACATAAAATTTTAATTAATTA-T--TATT
* * * ** ** *
9889313 ATATATATACATATAAGAAAAATAGTTAGAAATT--AAAA-AAA-TGGTAATGTAAATAAGTAAG
1 -TATA-A-ATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTAATAACATAAACAAGTAAG
* ** * * ** * * *
9889374 AAGAAACATAAAATTAGTATCATTTGGCCTAAAATAAGTAAGAAGTGTCATAACATACTAAGAAA
63 AAAAAATGTAAAATTAGTATAATTTGGCAT-AAATTGGT-AGAAATGTCGTAATATACTAAGAAA
* * * * *
9889439 AAGTTATGAAAATTTTAAACATAATAAAA-GATAAGAACATCCAT--AATGGTATTATTATAACA
126 AAGTTATGACAATTCTAAACATAATAAAATG-TAAGAACA-ACATAAAAT-ATATTATTGTAACA
*
9889501 TAAAT-ATT-TACGTAGATAACATAAAATTTCTTTAATTAATTATTAATTT
188 TAAATAATTATA-TTAG-TAACATAAAA--T-TTTAATTAATTATT-A-TT
* * * * *
9889550 TATAAATATATAAGAAAAATAGCTAATAATTAAAAAGTAAA-TAAGTAAC-TAAACAAATAAGGA
1 TATAAATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTAA-TAACATAAACAAGTAAGAA
** ** * * *
9889613 AAAACATAAAATTTTTATCATTT-GC-T--A----TA-AAA--T-G------AGTAAG--AAAGA
65 AAAATGTAAAATTAGTATAATTTGGCATAAATTGGTAGAAATGTCGTAATATACTAAGAAAAAGT
* * * * *
9889658 TATGATAATTCTAAACATAATGAAGGTAA-G-AATAACTACA-AAAAAATATTATTATAACATAA
130 TATGACAATTCTAAACATAAT-AA---AATGTAAGAACAACATAAAATATATTATTGTAACATAA
* ** * ** *
9889720 ATAATTATGTTAAAAACATAAACTTTTAATTGGTTATTGTTTT
191 ATAATTATATTAGTAACATAAAATTTTAATTAATTA-T-TATT
* * * ** *
9889763 TAAAAATATATAAGAAAAATA-ACTAAAAAGTAAAAAATAAA-TAGATGATGTAAACAAGTGAGA
1 TATAAATATATAAGAAAAATAGA-TAAAAATTAAAAAATAAATTA-ATAACATAAACAAGTAAGA
** * * * * * * *
9889826 AAAACA--TAAAATTTTTATCATTTGCCATAAAATGGATAAGAAGTGTCATAACATAGTATA-AA
64 AAAA-ATGTAAAATTAGTATAATTTGGCATAAATTGG-T-AGAAATGTCGTAATATACTA-AGAA
* * * * * * *
9889888 AAAGCTATAACTATTCTAAACGTAATGAAAA-ATAAGAAAAACTATAAGAAAATATTATTGTAAC
125 AAAGTTATGACAATTCTAAACATAAT-AAAATGTAAGAACAAC-ATAA-AATATATTATTGTAAC
* * ** *
9889952 GTAAATAATTA-AGTATGTAATGT-AAATTTTATTTAATTATTATTT
187 ATAAATAATTATATTA-GTAACATAAAATTTTAATTAATTATTA-TT
* * * * *
9889997 TGTAAATATATAAGCAAAATAGCTAAAAATTAAAAAACAAA-TAGGTAACGA-AAACCAA-T-AG
1 TATAAATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTA-ATAAC-ATAAA-CAAGTAAG
* * * * ** * * * *
9890058 AAATATTGTAAAATTTGTATCATTTGATATAAAATGAGTAAGAAGTGTCGTAACACACACTAAGA
63 AAAAAATGTAAAATTAGTATAATTTGGCATAAATTG-GT-AGAAATGTCGT-A-ATATACTAAGA
* * * * * * * * * *
9890123 ACAAGCTATAACAATTTTAAACGTAATTAAATATATGAATAACTATAAAAAGATATTATTGTAAC
124 AAAAGTTATGACAATTCTAAACATAATAAAATGTAAGAACAAC-AT-AAAATATATTATTGTAAC
* * *
9890188 GTAAATAA--CTA--AGTAACATAAAATTTTAATTAATTATTGTTTT
187 ATAAATAATTATATTAGTAACATAAAATTTTAATTAATTA-T-TATT
* * * * * **
9890231 TATAAATATATAAGAAAAATAGATAAAATTTAAAAAACAAA-TAGGTAATATGAACAAGTGTGAA
1 TATAAATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTA-ATAACATAAACAAGTAAGAA
* * * * * * * * * * * * *
9890295 GAAGTGTAAAATTCGTATCATTTGGTATAAAATGAATAAGAAGTGTCATAACACATTAAAAAAAG
65 AAAATGTAAAATTAGTATAATTTGGCATAAATTG-GT-AGAAATGTCGTAATATACTAAGAAAA-
* * * ** * *
9890360 AGTTATGACAATTTTAAACTTATTGTAATGTAAGAACAACTGTACAAA-AGTATTATTGTAACGT
127 AGTTATGACAATTCTAAACATAATAAAATGTAAGAACAAC-ATA-AAATA-TATTATTGTAACAT
* * ** *
9890424 AAATAATTA-AGTTGGCAATTTAAAGTTTTAATTAATTATT
189 AAATAATTATA-TTAGTAACATAAAATTTTAATTAATTATT
9890464 GTTCATGTAA
Statistics
Matches: 1593, Mismatches: 353, Indels: 281
0.72 0.16 0.13
Matches are distributed among these distances:
213 68 0.04
214 18 0.01
215 26 0.02
216 30 0.02
217 18 0.01
218 1 0.00
219 3 0.00
222 1 0.00
223 1 0.00
224 3 0.00
226 3 0.00
227 1 0.00
228 22 0.01
229 110 0.07
230 46 0.03
231 5 0.00
232 34 0.02
233 142 0.09
234 386 0.24
235 263 0.17
236 180 0.11
237 111 0.07
238 68 0.04
239 53 0.03
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (231 bp):
TATAAATATATAAGAAAAATAGATAAAAATTAAAAAATAAATTAATAACATAAACAAGTAAGAAA
AAATGTAAAATTAGTATAATTTGGCATAAATTGGTAGAAATGTCGTAATATACTAAGAAAAAGTT
ATGACAATTCTAAACATAATAAAATGTAAGAACAACATAAAATATATTATTGTAACATAAATAAT
TATATTAGTAACATAAAATTTTAATTAATTATTATT
Found at i:9890562 original size:234 final size:237
Alignment explanation
Indices: 9890301--9890741 Score: 511
Period size: 234 Copynumber: 1.9 Consensus size: 237
9890291 TGAAGAAGTG
* * * * *
9890301 TAAAATTCGTATCATTTGGTATAAAATGAAT-AAGAAGTGTCATAACACATTAA-AAAAAGAGTT
1 TAAAATTCATATCATTTGGCATAAAATGAATAAAAAAGCGTCATAACACAATAAGAAAAA-A-TT
* * * * * *
9890364 ATGACAATTTTAAACT-TATTGTAATGTAAGAACAACTGTACA-AAAGTATTATTGTAACGTAAA
64 ATGACAATTTTAAA-TGTAATGGAAGGAAAAAACAACTGTA-AGAAAATATTATTGTAACGTAAA
* * * *
9890427 TAATTAAGT-TGGCAATTTAAAGTTTTAATTAATTATTGTTCATGTAACTATATAA-AAAATT-C
127 TAATTAA-TATGGCAATGTAAAATTTTAATTAATTATTATTCATGTAAATATATAAGAAAATTGC
9890489 AATAAATAATAAAAATTTTTTGTAATTTAAACATGTGAGAGAAAACA
191 AATAAATAATAAAAATTTTTTGTAATTTAAACATGTGAGAGAAAACA
* ** * * *
9890536 TAAAATTCATATCA-TTGGCGTAAAATGTTTAAAAAAGCGTCTTAATATAATAAGAAAAAATTAT
1 TAAAATTCATATCATTTGGCATAAAATGAATAAAAAAGCGTCATAACACAATAAGAAAAAATTAT
* *
9890600 GACAATTTTAAATGTAATGGAAGGAAAAAACAATTGTAAGAAAATATTATTGTAATGTAAATAAT
66 GACAATTTTAAATGTAATGGAAGGAAAAAACAACTGTAAGAAAATATTATTGTAACGTAAATAAT
* * ** *
9890665 TAATATTGTAATGTAAAATTTTAATTAATTATTATTTTTGTAAATATATAAGAAAATTGAGTAAT
131 TAATATGGCAATGTAAAATTTTAATTAATTATTATTCATGTAAATATATAAGAAAATT--GCAAT
9890730 AAATAATAAAAA
194 AAATAATAAAAA
9890742 ATTTATTAAC
Statistics
Matches: 169, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
233 3 0.02
234 110 0.65
235 36 0.21
236 5 0.03
238 15 0.09
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (237 bp):
TAAAATTCATATCATTTGGCATAAAATGAATAAAAAAGCGTCATAACACAATAAGAAAAAATTAT
GACAATTTTAAATGTAATGGAAGGAAAAAACAACTGTAAGAAAATATTATTGTAACGTAAATAAT
TAATATGGCAATGTAAAATTTTAATTAATTATTATTCATGTAAATATATAAGAAAATTGCAATAA
ATAATAAAAATTTTTTGTAATTTAAACATGTGAGAGAAAACA
Found at i:9890659 original size:21 final size:21
Alignment explanation
Indices: 9890641--9890681 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9890631 AATTGTAAGA
*
9890641 AAATATTATTGTAATGTAAAT
1 AAATAATATTGTAATGTAAAT
*
9890662 AATTAATATTGTAATGTAAA
1 AAATAATATTGTAATGTAAA
9890682 ATTTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (21 bp):
AAATAATATTGTAATGTAAAT
Found at i:9894054 original size:145 final size:148
Alignment explanation
Indices: 9893835--9894171 Score: 335
Period size: 145 Copynumber: 2.3 Consensus size: 148
9893825 TAGTTTTGTG
* * * * *
9893835 AAACTTTTTAGATCTCAATTTTATAACATTTCATGATTTTTGGTGTATTTAAAATCACAACAATA
1 AAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAACAACA
** **
9893900 TCCCAAAAAGTGTAAAATTA-TCAAAATATTTTTATAAGGGTATTTTTGTAA-TTTG-ATTT-TT
66 TCCCAAAAAGTGTAAAATTACT-AAAATA-CCTTATAAGGGTATTTTCATAATTTTGAATTTCTT
**
9893961 -TTGAGCTCAAAATTTCACA
129 CCCGAGCTCAAAATTTCACA
* * ** *
9893980 AAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTAGCA
1 AAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAACAACA
** * *
9894045 -CCTTGAAAAGTGTGAAATTACTAAAATACCTTATAGGGGTATTTTCATAATTTTGTAATTTGGC
66 TCC-CAAAAAGTGTAAAATTACTAAAATACCTTATAAGGGTATTTTCATAATTTTG-AATTT---
* **
9894109 CTTCCCGAGCTCAGAATTTCATG
126 CTTCCCGAGCTCAAAATTTCACA
* * *
9894132 AAACTTTTCAAAACTTAATTTCATAATATTTCATGATTTT
1 AAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTT
9894172 GAGTGTTTTA
Statistics
Matches: 156, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
144 19 0.12
145 79 0.51
146 1 0.01
147 4 0.03
151 2 0.01
152 51 0.33
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (148 bp):
AAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAACAACA
TCCCAAAAAGTGTAAAATTACTAAAATACCTTATAAGGGTATTTTCATAATTTTGAATTTCTTCC
CGAGCTCAAAATTTCACA
Found at i:9895239 original size:63 final size:62
Alignment explanation
Indices: 9895073--9895252 Score: 177
Period size: 63 Copynumber: 2.9 Consensus size: 62
9895063 TTTATCGACT
** *
9895073 AAAATACCTTGAATAAT-CTTTTAAAAAAAT-GAGAGTGATTATTGAAGGCG-TTTTTGACAG
1 AAAATACCTTGAATAATCCCCTCAAAAAAATGGAG-GTGATTATTGAAGGCGTTTTTTGACAG
* * * * *
9895133 AAAATATCTTGAATAATCCCCTCATAAAAATGGATAGGGGATTATTGAAGGCGTTTTTTTATAG
1 AAAATACCTTGAATAATCCCCTCAAAAAAATGG--AGGTGATTATTGAAGGCGTTTTTTGACAG
* * * * * *
9895197 ATAATGCCTTGAGTAATCCCTTCACAAAAAATGGAGGTGATTATTAAAGGCATTTT
1 AAAATACCTTGAATAATCCCCTCA-AAAAAATGGAGGTGATTATTGAAGGCGTTTT
9895253 CTACCATAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
60 16 0.16
61 9 0.09
62 1 0.01
63 34 0.35
64 29 0.30
65 8 0.08
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (62 bp):
AAAATACCTTGAATAATCCCCTCAAAAAAATGGAGGTGATTATTGAAGGCGTTTTTTGACAG
Found at i:9895716 original size:64 final size:62
Alignment explanation
Indices: 9895619--9895809 Score: 183
Period size: 64 Copynumber: 3.0 Consensus size: 62
9895609 TAATCCACAA
* * *
9895619 AAAAAATTTGGA-AGAGATTATTGAAGGCGTTTTTGGTCGAAAACGCTGTCAATAATCCATTC
1 AAAAAATTTTGAGAGAGATTATTGAAGGCATTTTTGGTCGAAAACGCT-TTAATAATCCATTC
* * * * *
9895681 AATAAATTTTTACGAGAGATTATTGAAGGCATTTTTGATAAGAAACAC-CTTTAATAATCCATAC
1 AAAAAATTTTGA-GAGAGATTATTGAAGGCATTTTTGGT-CGAAA-ACGCTTTAATAATCCATTC
* * * *
9895745 AAAAAATTTTGAG-GGGATTATTGAAGTCATTTTTAG-CTAGAAACGCTTTTAATAACTCCATTC
1 AAAAAATTTTGAGAGAGATTATTGAAGGCATTTTTGGTCGA-AAACGC-TTTAATAA-TCCATTC
9895808 AA
1 AA
9895810 CATTTTGTAA
Statistics
Matches: 104, Mismatches: 17, Indels: 15
0.76 0.12 0.11
Matches are distributed among these distances:
60 3 0.03
61 3 0.03
62 36 0.35
63 9 0.09
64 45 0.43
65 6 0.06
66 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (62 bp):
AAAAAATTTTGAGAGAGATTATTGAAGGCATTTTTGGTCGAAAACGCTTTAATAATCCATTC
Found at i:9895796 original size:62 final size:61
Alignment explanation
Indices: 9895607--9895805 Score: 191
Period size: 62 Copynumber: 3.2 Consensus size: 61
9895597 AAATGCCTTC
* * * * * * * * *
9895607 AATAATCCACAAAAAAAATTTGGAAGAGATTATTGAAGGCGTTTTTGGTCGAAAACGCTGTC
1 AATAATCCATACAAAAAATTTTGAGGAGATTATTGAAGGCATTTTTGATAG-AAACGCTTTT
* * * * *
9895669 AATAATCCATTCAATAAATTTTTACGAGAGATTATTGAAGGCATTTTTGATAAGAAACACCTTT
1 AATAATCCATACAAAAAATTTTGA-G-GAGATTATTGAAGGCATTTTTGAT-AGAAACGCTTTT
* * *
9895733 AATAATCCATACAAAAAATTTTGAGGGGATTATTGAAGTCATTTTTAGCTAGAAACGCTTTT
1 AATAATCCATACAAAAAATTTTGAGGAGATTATTGAAGGCATTTTT-GATAGAAACGCTTTT
9895795 AATAACTCCAT
1 AATAA-TCCAT
9895806 TCAACATTTT
Statistics
Matches: 110, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
62 52 0.47
63 8 0.07
64 49 0.45
65 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.33
Consensus pattern (61 bp):
AATAATCCATACAAAAAATTTTGAGGAGATTATTGAAGGCATTTTTGATAGAAACGCTTTT
Found at i:9897672 original size:21 final size:21
Alignment explanation
Indices: 9897643--9897700 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9897633 CAAAGTTGCG
*
9897643 AGTCATTGCTGTTGCTCATTCA
1 AGTCATTGCTATTGCTCA-TCA
* *
9897665 AG-CATTGCTCTTGGTCATCA
1 AGTCATTGCTATTGCTCATCA
*
9897685 AGTCTTTGCTATTGCT
1 AGTCATTGCTATTGCT
9897701 GCCAATGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 5 0.17
21 23 0.77
22 2 0.07
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (21 bp):
AGTCATTGCTATTGCTCATCA
Found at i:9899710 original size:62 final size:62
Alignment explanation
Indices: 9899634--9900078 Score: 244
Period size: 62 Copynumber: 7.0 Consensus size: 62
9899624 ACCAAAAAAA
* *
9899634 AAAAAACACCTTCAATAATTTTCTTTAAAAATTTTTAGAGGATTATTGAATGCGTTTTTTAT
1 AAAATACACCTTCAATAATTTTCTTTAAAAATTTTTAGAGGATTATTGAAGGCGTTTTTTAT
* *** * * ** * * *
9899696 AAAATATACCTTCAATAATCCCCTGATAAAAAATTAGATAAGATTATTGAAGGCGTTTTCTAT
1 AAAATACACCTTCAATAATTTTCT-TTAAAAATTTTTAGAGGATTATTGAAGGCGTTTTTTAT
* * *
9899759 AAAAAAACACCTTCAATAATTTT-TTT-AAAATTTTTCAAAGGATTATTGAAGGTGTTTTTTTAC
1 -AAAATACACCTTCAATAATTTTCTTTAAAAATTTTT-AGAGGATTATTGAAGGCG-TTTTTTA-
9899822 T
62 T
** * * * * *
9899823 AAAA-ATGCCTTCAATAACTCTC-TAATAAAATTTTGA-AGGAGATTATTGAAGGCATTTTCTT-
1 AAAATACACCTTCAATAATTTTCTTTA-AAAATTTTTAGA-G-GATTATTGAAGGCGTTTT-TTA
*
9899884 C
62 T
* *
9899885 AAAATACACCTTTAATAATTTT-TTATAACAAA-TTTTAGAGGATTATTGAAGGCATTTTTTGTA
1 AAAATACACCTTCAATAATTTTCTT-TAA-AAATTTTTAGAGGATTATTGAAGGC-GTTTTT-T-
*
9899948 AAAAAAA
61 -----AT
* * ** * ** * * *
9899955 AAAAAAAACCTTCAATAATCCTCTAATGAAAAATTAATGGA-GATTATTGAAGGCGTTTTCTAC
1 AAAATACACCTTCAATAATTTTCT--TTAAAAATTTTTAGAGGATTATTGAAGGCGTTTTTTAT
** * * *
9900018 AAAATACGTCTTCAATAATTTT-TTTAAAAAACTTTCAGGGGATTATTGAAGGCGTTTTTTA
1 AAAATACACCTTCAATAATTTTCTTT-AAAAATTTTTAGAGGATTATTGAAGGCGTTTTTTA
9900079 CTAGAAATGC
Statistics
Matches: 282, Mismatches: 70, Indels: 62
0.68 0.17 0.15
Matches are distributed among these distances:
60 1 0.00
61 13 0.05
62 89 0.32
63 88 0.31
64 45 0.16
69 1 0.00
70 21 0.07
71 17 0.06
72 6 0.02
73 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (62 bp):
AAAATACACCTTCAATAATTTTCTTTAAAAATTTTTAGAGGATTATTGAAGGCGTTTTTTAT
Found at i:9899772 original size:126 final size:125
Alignment explanation
Indices: 9899633--9900149 Score: 489
Period size: 125 Copynumber: 4.1 Consensus size: 125
9899623 TACCAAAAAA
*
9899633 AAAAAAACACCTTCAATAATTTTCTTTAAAAATTTTTAGAGGATTATTGAATGCGTTTTTTA-TA
1 AAAAAAACACCTTCAATAATTTT-TTTAAAAATTTTTAGAGGATTATTGAAGGCGTTTTTTACTA
* *
9899697 AAATATACCTTCAATAATCCCCTGATAAAAAATTAGATA-AGATTATTGAAGGCGTTTTCTAT
65 AAA-ATACCTTCAATAATCCTCTAATAAAAAATTAGA-AGAGATTATTGAAGGCGTTTTCTAT
* *
9899759 AAAAAAACACCTTCAATAATTTTTTT-AAAATTTTTCAAAGGATTATTGAAGGTGTTTTTTTACT
1 AAAAAAACACCTTCAATAATTTTTTTAAAAATTTTT-AGAGGATTATTGAAGGCG-TTTTTTACT
* * * *
9899823 AAAAATGCCTTCAATAA-CTCTCTAAT-AAAATTTTGAAGGAGATTATTGAAGGCATTTTCT-T
64 AAAAATACCTTCAATAATC-CTCTAATAAAAAATTAGAA-GAGATTATTGAAGGCGTTTTCTAT
* * * *
9899884 CAAAATACACCTTTAATAATTTTTTATAACAAA-TTTTAGAGGATTATTGAAGGCATTTTTTGTA
1 AAAAAAACACCTTCAATAATTTTTT-TAA-AAATTTTTAGAGGATTATTGAAGGC-GTTTTT-T-
** * * *
9899948 AAAAAAAAAAAAAAACCTTCAATAATCCTCTAATGAAAAATTA-ATGGAGATTATTGAAGGCGTT
61 -----ACTAAAAATACCTTCAATAATCCTCTAATAAAAAATTAGA-AGAGATTATTGAAGGCGTT
9900012 TTCTA-
120 TTCTAT
* * ** * * *
9900017 CAAAATACGTCTTCAATAATTTTTTTAAAAAACTTTCAGGGGATTATTGAAGGCGTTTTTTACTA
1 AAAAAAACACCTTCAATAATTTTTTT-AAAAATTTTTAGAGGATTATTGAAGGCGTTTTTTACTA
* * * * * *
9900082 GAAATGCCTTCAATAATCCAT-TAATAAAAAGTT-GAAGTGGATTATTGAAGGCGTTTGCTGT
65 AAAATACCTTCAATAATCC-TCTAATAAAAAATTAGAAG-AGATTATTGAAGGCGTTTTCTAT
9900143 AAAAAAA
1 AAAAAAA
9900150 AAAATGTCTT
Statistics
Matches: 322, Mismatches: 42, Indels: 54
0.77 0.10 0.13
Matches are distributed among these distances:
124 11 0.03
125 98 0.30
126 94 0.29
127 11 0.03
128 3 0.01
131 1 0.00
132 9 0.03
133 88 0.27
134 7 0.02
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (125 bp):
AAAAAAACACCTTCAATAATTTTTTTAAAAATTTTTAGAGGATTATTGAAGGCGTTTTTTACTAA
AAATACCTTCAATAATCCTCTAATAAAAAATTAGAAGAGATTATTGAAGGCGTTTTCTAT
Found at i:9900006 original size:133 final size:133
Alignment explanation
Indices: 9899830--9900077 Score: 342
Period size: 133 Copynumber: 1.9 Consensus size: 133
9899820 ACTAAAAATG
* *
9899830 CCTTCAATAACTCTCTAATAAAATTTTGAAGGAGATTATTGAAGGCATTTTCTTCAAAATACACC
1 CCTTCAATAACTCTCTAATAAAATATTGAAGGAGATTATTGAAGGCATTTTCTACAAAATACACC
* * *
9899895 TTTAATAATTTTTTATAACAAA-TTTTAGAGGATTATTGAAGGCATTTTTTGTAAAAAAAAAAAA
66 TTCAATAATTTTTT-TAAAAAACTTTCAGAGGATTATTGAAGGCATTTTTTGTAAAAAAAAAAAA
9899959 AAAA
130 AAAA
*
9899963 CCTTCAATAA-TCCTCTAATGAAAA-ATT-AATGGAGATTATTGAAGGCGTTTTCTACAAAATAC
1 CCTTCAATAACT-CTCTAAT-AAAATATTGAA-GGAGATTATTGAAGGCATTTTCTACAAAATAC
** * *
9900025 GTCTTCAATAATTTTTTTAAAAAACTTTCAGGGGATTATTGAAGGCGTTTTTT
63 ACCTTCAATAATTTTTTTAAAAAACTTTCAGAGGATTATTGAAGGCATTTTTT
9900078 ACTAGAAATG
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
132 9 0.09
133 88 0.87
134 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (133 bp):
CCTTCAATAACTCTCTAATAAAATATTGAAGGAGATTATTGAAGGCATTTTCTACAAAATACACC
TTCAATAATTTTTTTAAAAAACTTTCAGAGGATTATTGAAGGCATTTTTTGTAAAAAAAAAAAAA
AAA
Found at i:9905218 original size:13 final size:13
Alignment explanation
Indices: 9905200--9905236 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9905190 CTTCTCAATA
9905200 TCTTTATATATGT
1 TCTTTATATATGT
*
9905213 TCTTTACATATGT
1 TCTTTATATATGT
*
9905226 TTTTTATATAT
1 TCTTTATATAT
9905237 TCGTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (13 bp):
TCTTTATATATGT
Found at i:9906963 original size:160 final size:160
Alignment explanation
Indices: 9906390--9907164 Score: 723
Period size: 161 Copynumber: 4.8 Consensus size: 160
9906380 GTTTACAACT
* * * * *
9906390 TTTTATGCCGTTACAAGGTAATAATGCAAATCT-ACAATTATTGTTCTATTTTAATAGTTTTGAT
1 TTTTATGCCGTTAAAAGG-AAAAATGCAAATTTGA-AATTATTGTTCTATTTTAACAGTTTGGAT
* * * * *
9906454 AGTTTCAATAAATGATATTAAACTTATCCAAATTATTGAACCTT-GTTTACATAGTTGATATGTA
64 AGCTTCAATACATGATATTAAACTTGT-CAAATAATTGAA-CTTGGTTTCCATAGTTGATATG-A
* ** *
9906518 -TGAAAAAG-TTATTGTTTACATCTATTTAGGACA
126 GTGAAAAAGCTAATCATTTACATCTATTTAAGACA
* * * ** *
9906551 TTTTGTGCCATTAATAGGTAAAAATATAAATTTGGACAA--ATTGTTCTATTTTAACAGTTTTGA
1 TTTTATGCCGTTAAAAGG-AAAAATGCAAATTT-GA-AATTATTGTTCTATTTTAACAGTTTGGA
* *
9906614 TAGC-TCTAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCATAGTTGATATGT
63 TAGCTTC-AATACATGATATTAAACTTG-TCAAATAATTGAACTTGGTTTCCATAGTTGATATGA
* * **
9906678 GTGAAAAAGCT-ATCATTTACGTCTGTTTAAGATT
126 GTGAAAAAGCTAATCATTTACATCTATTTAAGACA
* * * * *** * * *
9906712 TTTTGTGCAGTTGAAAGGCAAACATGCAAATTTGTTGTTGTTGTTCTATTTTAACAATTTGCATA
1 TTTTATGCCGTTAAAAGG-AAAAATGCAAATTTGAAATTATTGTTCTATTTTAACAGTTTGGATA
**
9906777 GCTTCAATACATGATATTAAACTTGTCGAAATAATTGAACTTGGTTTTTATAGTTGATATGAGTG
65 GCTTCAATACATGATATTAAACTTGTC-AAATAATTGAACTTGGTTTCCATAGTTGATATGAGTG
* * * *
9906842 AAAAAGCTAAT-GTTTACATTTGTTTAGGACA
129 AAAAAGCTAATCATTTACATCTATTTAAGACA
* * *
9906873 TTTTATGCCGTTAAAAGGCAAAATGCAAATTTGAAACTGTTGTTCTATTTTAACAGTTTGGATAG
1 TTTTATGCCGTTAAAAGGAAAAATGCAAATTTGAAATTATTGTTCTATTTTAACAGTTTGGATAG
* * *
9906938 CTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCTATAGTTGATATGTGTGA
66 CTTCAATACATGATATTAAACTTGT-CAAATAATTGAACTTGGTTTCCATAGTTGATATGAGTGA
** * *
9907003 AAAAG-TTGTCATTTACATATATTTAAGATA
130 AAAAGCTAATCATTTACATCTATTTAAGACA
* * ** * *
9907033 TTTT-TGTCGTTAAAAGGTAAAAATACAAAATTT-CTATTATT-TATCTATTTTAATAGTTTAGA
1 TTTTATGCCGTTAAAAGG-AAAAATGC-AAATTTGAAATTATTGT-TCTATTTTAACAGTTTGGA
* * * * *
9907095 TGGCTTCATTACATAATATTAAACTTTTTCAAATAATTGAACTTGGTTTCCAT-GATTGATATGT
63 TAGCTTCAATACATGATATTAAAC-TTGTCAAATAATTGAACTTGGTTTCCATAG-TTGATATGA
9907159 GTGAAA
126 GTGAAA
9907165 GGCTTAAATA
Statistics
Matches: 512, Mismatches: 83, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
159 16 0.03
160 216 0.42
161 270 0.53
162 6 0.01
163 4 0.01
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (160 bp):
TTTTATGCCGTTAAAAGGAAAAATGCAAATTTGAAATTATTGTTCTATTTTAACAGTTTGGATAG
CTTCAATACATGATATTAAACTTGTCAAATAATTGAACTTGGTTTCCATAGTTGATATGAGTGAA
AAAGCTAATCATTTACATCTATTTAAGACA
Found at i:9907017 original size:321 final size:319
Alignment explanation
Indices: 9906426--9907164 Score: 895
Period size: 321 Copynumber: 2.3 Consensus size: 319
9906416 CAAATCTACA
* * * *
9906426 ATTATTGTTCTATTTTAATAGTTTTGATAGTTTCAATAAATGATATTAAACTTATCCAAATTATT
1 ATTATTGTTCTATTTTAATA-ATTTGATAGCTTCAATACATGATATTAAACTTAT-CAAATAATT
* *
9906491 GAACCTT-GTTTACATAGTTGATATGTATGAAAAAGTTATTGTTTACATCTATTTAGGACATTTT
64 GAA-CTTGGTTTACATAGTTGATATGTATGAAAAAGCTAATGTTTACATCTATTTAGGACATTTT
* * * *
9906555 GTGCCATTAATAGGTAAAAATATAAATTTGGACAAATTGTTCTATTTTAACAGTTTTGATAGCTC
128 ATGCCATTAAAAGGTAAAAATACAAATTTGGACAAATTGTTCTATTTTAACAGTTTGGATAGCTC
*
9906620 TAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAA
193 TAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAA
* * * * * * *
9906685 AGCTATCATTTACGTCTGTTTAAGAT-TTTTTGTGCAGTTGAAAGGCAAACATGC-AAATTTGTT
258 AGCTATCATTTACATATATTTAAGATATTTTTGT-C-GTTAAAAGGCAAAAATACAAAATTT-CT
* * * *
9906748 GTTGTTGTTCTATTTTAACAATTTGCATAGCTTCAATACATGATATTAAACTTGTCGAAATAATT
1 ATTATTGTTCTATTTTAATAATTTG-ATAGCTTCAATACATGATATTAAACTTATC-AAATAATT
** * *
9906813 GAACTTGGTTTTTATAGTTGATATG-AGTGAAAAAGCTAATGTTTACATTTGTTTAGGACATTTT
64 GAACTTGGTTTACATAGTTGATATGTA-TGAAAAAGCTAATGTTTACATCTATTTAGGACATTTT
* * * *
9906877 ATGCCGTTAAAAGG-CAAAATGCAAATTT-GA-AACTGTTGTTCTATTTTAACAGTTTGGATAGC
128 ATGCCATTAAAAGGTAAAAATACAAATTTGGACAA--ATTGTTCTATTTTAACAGTTTGGATAGC
*
9906939 T-TCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCTATAGTTGATATGTGTGA
191 TCT-AATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGA
* * *
9907003 AAAAGTTGTCATTTACATATATTTAAGATATTTTTGTCGTTAAAAGGTAAAAATACAAAATTTCT
255 AAAAGCTATCATTTACATATATTTAAGATATTTTTGTCGTTAAAAGGCAAAAATACAAAATTTCT
* * * * *
9907068 ATTATT-TATCTATTTTAATAGTTTAGATGGCTTCATTACATAATATTAAACTTTTTCAAATAAT
1 ATTATTGT-TCTATTTTAATAATTT-GATAGCTTCAATACATGATATTAAAC-TTATCAAATAAT
* *
9907132 TGAACTTGGTTTCCAT-GATTGATATGTGTGAAA
63 TGAACTTGGTTTACATAG-TTGATATGTATGAAA
9907165 GGCTTAAATA
Statistics
Matches: 358, Mismatches: 45, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
319 4 0.01
320 92 0.26
321 142 0.40
322 120 0.34
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (319 bp):
ATTATTGTTCTATTTTAATAATTTGATAGCTTCAATACATGATATTAAACTTATCAAATAATTGA
ACTTGGTTTACATAGTTGATATGTATGAAAAAGCTAATGTTTACATCTATTTAGGACATTTTATG
CCATTAAAAGGTAAAAATACAAATTTGGACAAATTGTTCTATTTTAACAGTTTGGATAGCTCTAA
TACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGC
TATCATTTACATATATTTAAGATATTTTTGTCGTTAAAAGGCAAAAATACAAAATTTCT
Found at i:9915211 original size:11 final size:11
Alignment explanation
Indices: 9915190--9915226 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
9915180 AGGGGGCAAG
9915190 TAAAAAA-AAA
1 TAAAAAAGAAA
9915200 TAAAAAAGAAA
1 TAAAAAAGAAA
9915211 T-AAAAAGAAA
1 TAAAAAAGAAA
9915221 -AAAAAA
1 TAAAAAA
9915227 ATGGTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 21 0.84
11 4 0.16
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.08
Consensus pattern (11 bp):
TAAAAAAGAAA
Found at i:9915221 original size:17 final size:17
Alignment explanation
Indices: 9915191--9915228 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9915181 GGGGGCAAGT
*
9915191 AAAA-AAAAATAAAAAA
1 AAAATAAAAAGAAAAAA
*
9915207 GAAATAAAAAGAAAAAA
1 AAAATAAAAAGAAAAAA
9915224 AAAAT
1 AAAAT
9915229 GGTTATGACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.87, C:0.00, G:0.05, T:0.08
Consensus pattern (17 bp):
AAAATAAAAAGAAAAAA
Found at i:9917093 original size:80 final size:79
Alignment explanation
Indices: 9916914--9917060 Score: 222
Period size: 80 Copynumber: 1.8 Consensus size: 79
9916904 ACATCAATTA
* * * * *
9916914 ATCATAAGAAAGACGTTTGATTTGCATGTTGCAAAAGCAAAAAGAGTCTTCGCATTTGCATCACT
1 ATCATAAAAAAGACATTTGATTTACATGTTGCAAAAGCAAAAAGAGTCTTCACATTGGCATCACT
9916979 TAAACTTACATATAC
66 T-AACTTACATATAC
* *
9916994 ATCATAAAAAAGACATTTGATTTACATGTTGCAAAAGTAAAAAGAGTTTTCACATTGGCATCACT
1 ATCATAAAAAAGACATTTGATTTACATGTTGCAAAAGCAAAAAGAGTCTTCACATTGGCATCACT
9917059 TA
66 TA
9917061 CTTTTATAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 1 0.02
80 59 0.98
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (79 bp):
ATCATAAAAAAGACATTTGATTTACATGTTGCAAAAGCAAAAAGAGTCTTCACATTGGCATCACT
TAACTTACATATAC
Found at i:9918341 original size:76 final size:72
Alignment explanation
Indices: 9918191--9918395 Score: 200
Period size: 76 Copynumber: 2.8 Consensus size: 72
9918181 GTCATCTCGA
* * * * * *
9918191 TCATATTTA-TTTTTTGATTTATGGTGTCATCCTGGTTGTCCTTTATTTTATGACTTACAATGTT
1 TCATATTTATTTTTTTAACTTATGGTGTCATCCTGGTTGTTCTTTATTTTCTGACTTGCAATATT
**
9918255 GTCTTGG
66 GTCTCAG
* * * *
9918262 TCATGTTTGTTGTATTTTTCAACTTATGGTGTCGTCCTGATTGTTCTTTATTTTCTGACTTGCAA
1 TCATATTT-AT-T-TTTTT-AACTTATGGTGTCATCCTGGTTGTTCTTTATTTTCTGACTTGCAA
9918327 TATAAT-TC-CAG
62 TAT--TGTCTCAG
* **
9918338 TCATATTTATTTTTTTAACTTACGGTGTCATCCTGGTCATTCTTTATTTTCTGACTTG
1 TCATATTTATTTTTTTAACTTATGGTGTCATCCTGGTTGTTCTTTATTTTCTGACTTG
9918396 GGGTGCCATC
Statistics
Matches: 108, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
71 7 0.06
72 37 0.34
73 5 0.05
74 2 0.02
75 6 0.06
76 48 0.44
77 2 0.02
78 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (72 bp):
TCATATTTATTTTTTTAACTTATGGTGTCATCCTGGTTGTTCTTTATTTTCTGACTTGCAATATT
GTCTCAG
Found at i:9918634 original size:36 final size:36
Alignment explanation
Indices: 9917770--9918786 Score: 217
Period size: 36 Copynumber: 28.4 Consensus size: 36
9917760 GCTCATATCT
** * * *
9917770 TTTATTTTTTGACTTATGGTATCATCCTAGTTATTC
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
* * *** * *
9917806 TTTATTTTCTAACTTATAATGTTAT-CTCAGTCATGTTA
1 TTTATTTTTTGACTTGCGATGTCATCCT-AGTCA--TTC
* * * *
9917844 TTTATTTTTTGACTTGCGGTGTTAT-TTCAATCATTC
1 TTTATTTTTTGACTTGCGATGTCATCCT-AGTCATTC
* * * *
9917880 TTTATTTTTTGGCTTGTG--GTACTATCCTGGTCATTT
1 TTTATTTTTTGACTTGCGATGT-C-ATCCTAGTCATTC
** * *
9917916 TTTATTTTTTGACTTATGATATCATCC-CGATCATTC
1 TTTATTTTTTGACTTGCGATGTCATCCTAG-TCATTC
* * * * ** * *
9917952 TTTACTTTCTGACTTGTGGTGTTGTCTTGGTCATTC
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
** * * *
9917988 TTTA-TTTTTGACTTAAGGTATCATCCCAGTCA---
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
* ** ** * *
9918020 -TT-TTTTTTAACTT-ATAGTGTGGTCTTGGTCATT-
1 TTTATTTTTTGACTTGCGA-TGTCATCCTAGTCATTC
* *
9918053 TTCATTTTTTGACTTGC-AGTGTCATCCAAGTCATTC
1 TTTATTTTTTGACTTGCGA-TGTCATCCTAGTCATTC
* ** * ***
9918089 TTTAATTTTTGACTTGCGATGTTGTTCT-GATCGCCC
1 TTTATTTTTTGACTTGCGATGTCATCCTAG-TCATTC
* * * * * *
9918125 TTTATTTTCTAACTTGTGATATCATCCCAGTCATTT
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
* * * *
9918161 TTTAGTTTTTGACTTG-TAGTGTCAT-CTCGATCA-TA
1 TTTATTTTTTGACTTGCGA-TGTCATCCTAG-TCATTC
* ** * * ** *
9918196 TTTATTTTTTGATTTATGGTGTCATCCTGGTTGTCC
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
* * * ** * * *
9918232 TTTATTTTATGACTTACAATGTTGTCTTGGTCATGTTTG
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCA---TTC
** ** * * **
9918271 TTGTATTTTTCAACTTATGGTGTCGTCCT-GATTGTTC
1 TT-TATTTTTTGACTTGCGATGTCATCCTAG-TCATTC
* * * * *
9918308 TTTATTTTCTGACTTGCAATATAATTCC-AGTCA-TA
1 TTTATTTTTTGACTTGCGATGTCA-TCCTAGTCATTC
* * * *
9918343 TTTATTTTTTTAACTTACGGTGTCATCCTGGTCATTC
1 TTTA-TTTTTTGACTTGCGATGTCATCCTAGTCATTC
* * * * *
9918380 TTTATTTTCTGACTTGGGGTGCCATCCTTGTCATTC
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
* * * *
9918416 TTTA-TTTTTGACTTGCTATGTCATCC-CGACCATTT
1 TTTATTTTTTGACTTGCGATGTCATCCTAG-TCATTC
* * ** ** * * **
9918451 TTTATTTTCTAACTTATGGGGTTATTCT-GATCACCC
1 TTTATTTTTTGACTTGCGATGTCATCCTAG-TCATTC
* ** * * *
9918487 TTT-TTTTTTAACTTATGATGTCGTCTTGGTCATTC
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
* ** * * *
9918522 TTTATTTTTTAACTTGCTG-TGTTGT-CTCGAT-AATA
1 TTTATTTTTTGACTTGC-GATGTCATCCTAG-TCATTC
* * *
9918557 TTTATTTTTTGACTTGCAATGTCATCCCAGTCGATTT
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTC-ATTC
* * * *
9918594 TTTATTTTTTGATTTACGGTGTTATCCTAGTCATTC
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
** *
9918630 TTTA-TTTTTGACTTATGATGTCAT-CTCGATCATTC
1 TTTATTTTTTGACTTGCGATGTCATCCTAG-TCATTC
** * * **
9918665 TTTATTTTCGGACTTGCGTTGTCATCCTAATCACCC
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
* *
9918701 TTTATTTTTTGACTTGCAATGTCATTCTAGTCATTC
1 TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
* * * * * *
9918737 TTTATTTTTAGAATTGTGGTGTCATCC-CGATCA-TA
1 TTTATTTTTTGACTTGCGATGTCATCCTAG-TCATTC
9918772 TTTATTTTTTGACTT
1 TTTATTTTTTGACTT
9918787 ACAGTGTCGT
Statistics
Matches: 691, Mismatches: 239, Indels: 103
0.67 0.23 0.10
Matches are distributed among these distances:
30 1 0.00
31 19 0.03
34 7 0.01
35 193 0.28
36 371 0.54
37 49 0.07
38 28 0.04
39 4 0.01
40 19 0.03
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.51
Consensus pattern (36 bp):
TTTATTTTTTGACTTGCGATGTCATCCTAGTCATTC
Found at i:9918669 original size:108 final size:107
Alignment explanation
Indices: 9918480--9918786 Score: 262
Period size: 107 Copynumber: 2.9 Consensus size: 107
9918470 GGTTATTCTG
* ** * * * * *
9918480 ATCACCCTTT-TTTTTTAACTTATGATGTCGTCTTGGTCATTCTTTATTTTTTA-ACTTGCTG-T
1 ATCACCCTTTATTTTTTGACTTACAATGTCATCCTAGTCATTCTTTA-TTTTTAGAATT-ATGAT
** * *
9918542 GTTGTCTCGATAATATTTATTTTTTGACTTGCAATGTCATCCCA
64 GTCATCCCGATCATATTTATTTTTTGACTTGCAATGTCATCCCA
* *** * ** * *
9918586 GTCGATTTTTTATTTTTTGATTTACGGTGTTATCCTAGTCATTCTTTATTTTT-GACTTATGATG
1 ATC-ACCCTTTATTTTTTGACTTACAATGTCATCCTAGTCATTCTTTATTTTTAGAATTATGATG
* * ** ** *
9918650 TCATCTCGATCATTCTTTATTTTCGGACTTGCGTTGTCATCCTA
65 TCATCCCGATCA-TATTTATTTTTTGACTTGCAATGTCATCCCA
* * * *
9918694 ATCACCCTTTATTTTTTGACTTGCAATGTCATTCTAGTCATTCTTTATTTTTAGAATTGTGGTGT
1 ATCACCCTTTATTTTTTGACTTACAATGTCATCCTAGTCATTCTTTATTTTTAGAATTATGATGT
9918759 CATCCCGATCATATTTATTTTTTGACTT
66 CATCCCGATCATATTTATTTTTTGACTT
9918787 ACAGTGTCGT
Statistics
Matches: 156, Mismatches: 39, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
106 4 0.03
107 78 0.50
108 74 0.47
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (107 bp):
ATCACCCTTTATTTTTTGACTTACAATGTCATCCTAGTCATTCTTTATTTTTAGAATTATGATGT
CATCCCGATCATATTTATTTTTTGACTTGCAATGTCATCCCA
Found at i:9918671 original size:143 final size:141
Alignment explanation
Indices: 9918349--9918745 Score: 342
Period size: 143 Copynumber: 2.8 Consensus size: 141
9918339 CATATTTATT
* * * * * * * **
9918349 TTTTTAACTTACGGTGTCATC-CTGGTCATTCTTTATTTTCTG-ACTTGGGGTGCCATCCTTGTC
1 TTTTTAACTTATGATGTCATCTC-GATCATTCTTTATTTTC-GAACTTGCGTTGTCATCATAATC
* * * *
9918412 ATTCTTTA-TTTTTGACTTGCTATGTCATCCC-GACCATTTTTTATTTTCTAACTTATGGGGTTA
64 A--CTTTATTTTTTGACTTGCAATGTCATCCCAG-TCATTTTTTATTTTTTAACTTACGGGGTTA
* *
9918475 TTCTGATCACCCTTTT
126 TCCTGATCACCCTTTA
* * * **
9918491 TTTTTAACTTATGATGTCGTCTTGGTCATTCTTTATTTTTTAACTTGCTGTGTTGTC-TCGATAA
1 TTTTTAACTTATGATGTCATCTCGATCATTCTTTATTTTCGAACTTGC---GTTGTCATC-ATAA
* * *
9918555 T-A-TTTATTTTTTGACTTGCAATGTCATCCCAGTCGATTTTTTATTTTTTGATTTACGGTGTTA
62 TCACTTTATTTTTTGACTTGCAATGTCATCCCAGTC-ATTTTTTATTTTTTAACTTACGGGGTTA
**
9918618 TCCT-AGTCATTCTTTA
126 TCCTGA-TCACCCTTTA
* * *
9918634 TTTTTGACTTATGATGTCATCTCGATCATTCTTTATTTTCGGACTTGCGTTGTCATCCTAATCAC
1 TTTTTAACTTATGATGTCATCTCGATCATTCTTTATTTTCGAACTTGCGTTGTCATCATAATCA-
* * *
9918699 CCTTTATTTTTTGACTTGCAATGTCATTCTAGTCATTCTTTATTTTT
65 -CTTTATTTTTTGACTTGCAATGTCATCCCAGTCATTTTTTATTTTT
9918746 AGAATTGTGG
Statistics
Matches: 206, Mismatches: 34, Indels: 29
0.77 0.13 0.11
Matches are distributed among these distances:
140 10 0.05
141 7 0.03
142 63 0.31
143 87 0.42
144 33 0.16
145 6 0.03
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.51
Consensus pattern (141 bp):
TTTTTAACTTATGATGTCATCTCGATCATTCTTTATTTTCGAACTTGCGTTGTCATCATAATCAC
TTTATTTTTTGACTTGCAATGTCATCCCAGTCATTTTTTATTTTTTAACTTACGGGGTTATCCTG
ATCACCCTTTA
Found at i:9919052 original size:22 final size:22
Alignment explanation
Indices: 9919024--9919102 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
9919014 GCTATAAAAA
9919024 AAAAACAAAAACATAAAAACAC
1 AAAAACAAAAACATAAAAACAC
* *
9919046 AAAAAC-AACACAATCAAAAC-C
1 AAAAACAAAAAC-ATAAAAACAC
* * *
9919067 AAAAAATAAAAAAATTAAAAAGCAA
1 -AAAAACAAAAACA-TAAAAA-CAC
9919092 AAAAACAAAAA
1 AAAAACAAAAA
9919103 GCAAGGGTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
21 5 0.12
22 19 0.44
23 8 0.19
24 11 0.26
ACGTcount: A:0.77, C:0.15, G:0.01, T:0.06
Consensus pattern (22 bp):
AAAAACAAAAACATAAAAACAC
Found at i:9919078 original size:8 final size:8
Alignment explanation
Indices: 9919022--9919102 Score: 54
Period size: 8 Copynumber: 9.6 Consensus size: 8
9919012 ATGCTATAAA
9919022 AAAAAAAC
1 AAAAAAAC
* *
9919030 AAAAACAT
1 AAAAAAAC
*
9919038 AAAAACAC
1 AAAAAAAC
9919046 AAAAACAAC
1 AAAAA-AAC
9919055 ACAATCAAAAC
1 A-AA--AAAAC
* *
9919066 CAAAAAAT
1 AAAAAAAC
*
9919074 AAAAAAAT
1 AAAAAAAC
* *
9919082 TAAAAAGC
1 AAAAAAAC
9919090 AAAAAAAC
1 AAAAAAAC
9919098 AAAAA
1 AAAAA
9919103 GCAAGGGTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
8 45 0.79
9 3 0.05
10 4 0.07
11 3 0.05
12 2 0.04
ACGTcount: A:0.78, C:0.15, G:0.01, T:0.06
Consensus pattern (8 bp):
AAAAAAAC
Found at i:9919752 original size:145 final size:145
Alignment explanation
Indices: 9919576--9919911 Score: 358
Period size: 145 Copynumber: 2.3 Consensus size: 145
9919566 GACTTTTTTG
* * * * * * * * **
9919576 AAACTTTTTAAATCTCAATTTTATAACATTTCATGATTTTTG-GTGCATTTGAAATTATAGTAAT
1 AAAC-TTTTAGATCTTAATTTCATAATATTTCATGATTTTTGAGTGCATCTAAAATCACAACAAT
* * * * * **
9919640 ATCCC-AAGAAGTATGAAATTACCAAAAT-ATCCTTATAGGGGTATTTTCGTAATTTAGCTTTTT
65 ACCCCGAA-AAGTATGAAATTACCAAAATAAT-CTCATAAGAGTATTTTCGTAATTTAGCCTTCC
* *
9919703 CGAGCTC-AGAATTTCATA
128 CGAACTCGA-AATTTCACA
*
9919721 AAACTTTCTAGATCTTAATTTCATAATATTTCAAGA-TTTTGAGTGCATCTAAAATCACAACAAT
1 AAACTTT-TAGATCTTAATTTCATAATATTTCATGATTTTTGAGTGCATCTAAAATCACAACAAT
* * *
9919785 ACCCCGAAAAGTGTGAAATTACCAAAATAATCTCATAAGAGTATTTTTGTAATTTGGCCTTCCCG
65 ACCCCGAAAAGTATGAAATTACCAAAATAATCTCATAAGAGTATTTTCGTAATTTAGCCTTCCCG
*
9919850 AACTCGAAATTTCACG
130 AACTCGAAATTTCACA
*
9919866 AAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTTAGTG
1 AAACTTTT-AGATCTTAATTTCATAATATTTCATGATTTTTGAGTG
9919912 TTTTAAAATC
Statistics
Matches: 158, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
144 9 0.06
145 136 0.86
146 13 0.08
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (145 bp):
AAACTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGAGTGCATCTAAAATCACAACAATA
CCCCGAAAAGTATGAAATTACCAAAATAATCTCATAAGAGTATTTTCGTAATTTAGCCTTCCCGA
ACTCGAAATTTCACA
Found at i:9925444 original size:2 final size:2
Alignment explanation
Indices: 9925437--9925465 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9925427 TCATGTCGTT
9925437 TA 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 TA T
9925466 TGCTTATAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 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):
TA
Found at i:9933439 original size:41 final size:41
Alignment explanation
Indices: 9933367--9933444 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
9933357 TTTCTTTTTG
* * * **
9933367 TCGATGTGAATGTGTCTTCTTGTGTGTGCTTGAGATTGATC
1 TCGATATGAATGTGTCTTATTGCGTACGCTTGAGATTGATC
*
9933408 TCGATATGAATGTGTCTTATTGCGTACGCTTGGGATT
1 TCGATATGAATGTGTCTTATTGCGTACGCTTGAGATT
9933445 AACTGTAACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.42
Consensus pattern (41 bp):
TCGATATGAATGTGTCTTATTGCGTACGCTTGAGATTGATC
Found at i:9942723 original size:11 final size:11
Alignment explanation
Indices: 9942703--9942764 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
9942693 ATTATATCAG
* *
9942703 AATTTTTATTT
1 AATTTATATTA
9942714 AATTTATATTA
1 AATTTATATTA
9942725 AATTTAGATATTA
1 AATTT--ATATTA
*
9942738 AATATATATTA
1 AATTTATATTA
* *
9942749 AGTTTAAATTA
1 AATTTATATTA
9942760 AATTT
1 AATTT
9942765 TTCATAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
11 32 0.76
13 10 0.24
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
AATTTATATTA
Found at i:9942745 original size:24 final size:23
Alignment explanation
Indices: 9942709--9942762 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
9942699 TCAGAATTTT
* *
9942709 TATTTAATTTATATTAAATTTAGA
1 TATTAAATATATATTAAATTTA-A
*
9942733 TATTAAATATATATTAAGTTTAA
1 TATTAAATATATATTAAATTTAA
9942756 -ATTAAAT
1 TATTAAAT
9942763 TTTTCATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 7 0.26
23 1 0.04
24 19 0.70
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TATTAAATATATATTAAATTTAA
Found at i:9943258 original size:22 final size:22
Alignment explanation
Indices: 9943222--9943263 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9943212 ATATTATTTT
9943222 TAAATATAAATATAAAATTAAA
1 TAAATATAAATATAAAATTAAA
*
9943244 TAAATAATAAA-ATAATATTA
1 TAAAT-ATAAATATAAAATTA
9943264 TATATATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATATAAATATAAAATTAAA
Found at i:9946468 original size:14 final size:15
Alignment explanation
Indices: 9946442--9946470 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9946432 AATTGCCAAT
9946442 AAAGGTAAAGAAAAA
1 AAAGGTAAAGAAAAA
9946457 AAAGGT-AAGAAAAA
1 AAAGGTAAAGAAAAA
9946471 GGTGGTGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (15 bp):
AAAGGTAAAGAAAAA
Found at i:9955466 original size:22 final size:22
Alignment explanation
Indices: 9955440--9955483 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9955430 TAAAAAAAAT
* *
9955440 AAAAATATTTTTTTGAACACTTC
1 AAAAA-ATTTCTTTAAACACTTC
9955463 AAAAAATTTCTTTAAACACTT
1 AAAAAATTTCTTTAAACACTT
9955484 TTTTCATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAAAATTTCTTTAAACACTTC
Found at i:9956277 original size:23 final size:23
Alignment explanation
Indices: 9956251--9956297 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9956241 TCTTATTTAA
*
9956251 TTTAATTTAATTTATAATATTAT
1 TTTAATTTAATTTATAATAATAT
* * *
9956274 TTTATTTTATTTTATGATAATAT
1 TTTAATTTAATTTATAATAATAT
9956297 T
1 T
9956298 GTATATCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTAATTTAATTTATAATAATAT
Found at i:9959982 original size:39 final size:40
Alignment explanation
Indices: 9959920--9960000 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
9959910 TAAAGCAGTT
* *
9959920 AAATCTTAAAACATGTAAGAAC-TATTAAACATAAATCTAA
1 AAATCTTAAAACATGCAAAAACATATTAAACA-AAATCTAA
9959960 AAATCTT-AAACATGCAAAAACTATATTAAACAAAATCTAA
1 AAATCTTAAAACATGCAAAAAC-ATATTAAACAAAATCTAA
9960000 A
1 A
9960001 TTAAACTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 12 0.32
40 16 0.43
41 9 0.24
ACGTcount: A:0.57, C:0.14, G:0.04, T:0.26
Consensus pattern (40 bp):
AAATCTTAAAACATGCAAAAACATATTAAACAAAATCTAA
Found at i:9960293 original size:23 final size:23
Alignment explanation
Indices: 9960235--9960296 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
9960225 TGCATAAATT
* **
9960235 TAAAATAACTTAAAAG-AAAACG
1 TAAAAAAACTTAAAAGTAAAAAA
* *
9960257 TAAAAACA-TGAAAAGTAAAAAA
1 TAAAAAAACTTAAAAGTAAAAAA
9960279 TAAAAAAACTTAAAAGTA
1 TAAAAAAACTTAAAAGTA
9960297 GCTAACTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 6 0.19
22 17 0.55
23 8 0.26
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.18
Consensus pattern (23 bp):
TAAAAAAACTTAAAAGTAAAAAA
Found at i:9964922 original size:159 final size:158
Alignment explanation
Indices: 9964695--9964988 Score: 455
Period size: 159 Copynumber: 1.9 Consensus size: 158
9964685 ATAGTAAATG
** *
9964695 GGTTAGAAAATGTTATCCTTCCTATACCGGAATAGCCTCTACCATATAATCGCTTGCATTACACA
1 GGTTAGAAAATGTTATCCTTCCTATACCAAAATAGCCTCTACCATATAATCGCTTGCATCACACA
* * * *
9964760 TCAATTCAAAAGGTAAACTCTAATAAGGCATGCAATGATTGAGGTTGTCACCAATTTTTCTTTTA
66 TCAATTCAAAAGGAAAACTCCAATAAGGCATGAAATGATTGAGGTTGTCACCAATTTTTCTTTCA
9964825 AAGTTAGAAAATGTTGGAAAATGATTGA
131 AAGTTAGAAAATGTTGGAAAATGATTGA
* * * *
9964853 GGTTGGAAAATGTTGTCCTTCCTGTACCCAAAATAGCC-CTCACCATATAATTGCTTGCATCACA
1 GGTTAGAAAATGTTATCCTTCCTATA-CCAAAATAGCCTCT-ACCATATAATCGCTTGCATCACA
*
9964917 TATCAATTCAAAAGGAAAACTCCAATAAGGCATGAAATGATTGAGGTTGTCACCAATTTTTCTTT
64 CATCAATTCAAAAGGAAAACTCCAATAAGGCATGAAATGATTGAGGTTGTCACCAATTTTTCTTT
9964982 CAAAGTT
129 CAAAGTT
9964989 TGGAAGGCAT
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
158 25 0.20
159 97 0.80
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (158 bp):
GGTTAGAAAATGTTATCCTTCCTATACCAAAATAGCCTCTACCATATAATCGCTTGCATCACACA
TCAATTCAAAAGGAAAACTCCAATAAGGCATGAAATGATTGAGGTTGTCACCAATTTTTCTTTCA
AAGTTAGAAAATGTTGGAAAATGATTGA
Found at i:9966624 original size:32 final size:32
Alignment explanation
Indices: 9966585--9966648 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
9966575 AGTCGAAGTC
9966585 TTTGAAAAATAAACAAAGGCATTAAGTTAGTA
1 TTTGAAAAATAAACAAAGGCATTAAGTTAGTA
9966617 TTTGAAAAATAAACAAAGGCATTAAGTTAGTA
1 TTTGAAAAATAAACAAAGGCATTAAGTTAGTA
9966649 CTTACATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (32 bp):
TTTGAAAAATAAACAAAGGCATTAAGTTAGTA
Found at i:9972504 original size:16 final size:17
Alignment explanation
Indices: 9972469--9972504 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9972459 AGTAATTTCT
*
9972469 AAAATGGCAAGTTACTA
1 AAAATGGCAAGTAACTA
9972486 AAAATGGCAAGTAAC-A
1 AAAATGGCAAGTAACTA
9972502 AAA
1 AAA
9972505 TCAAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.17
Consensus pattern (17 bp):
AAAATGGCAAGTAACTA
Found at i:9974479 original size:2 final size:2
Alignment explanation
Indices: 9974472--9974499 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9974462 TTTGTTTTCT
9974472 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
9974500 CCTTTCTTTG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9986189 original size:19 final size:19
Alignment explanation
Indices: 9986167--9986221 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
9986157 TAAGAGTTGG
9986167 TTTGAGGTCTAAGGTTTGA
1 TTTGAGGTCTAAGGTTTGA
* * * *
9986186 TTTGAGATTTGAGGTTTGG
1 TTTGAGGTCTAAGGTTTGA
9986205 TTT-AGGATCTAAGGTTT
1 TTTGAGG-TCTAAGGTTT
9986222 AGCATTTAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.45
Consensus pattern (19 bp):
TTTGAGGTCTAAGGTTTGA
Found at i:9988535 original size:10 final size:10
Alignment explanation
Indices: 9988505--9988551 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
9988495 TTGCATATGT
9988505 TTTGACTAAA
1 TTTGACTAAA
9988515 TTTGA-TCAAA
1 TTTGACT-AAA
9988525 TTTGACTAAA
1 TTTGACTAAA
* *
9988535 TCTGACTAAT
1 TTTGACTAAA
9988545 TTTGACT
1 TTTGACT
9988552 TTGTTTGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 1 0.03
10 30 0.94
11 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (10 bp):
TTTGACTAAA
Found at i:9989096 original size:46 final size:46
Alignment explanation
Indices: 9988925--9989120 Score: 139
Period size: 47 Copynumber: 4.2 Consensus size: 46
9988915 GCTCTACAAG
* * * * * * * *
9988925 TTTGAGAATAAATATAAAAACTCCTCTCATTAAAGGCTACACAACT
1 TTTGAAAATAAATTTAGAAACTCCTATCATCAGAGGTTCCACAACT
* *** * *
9988971 TTATGAAAATAAATTTAGAAACTCCTTTTGCCATAAGTTCCACAA-T
1 TT-TGAAAATAAATTTAGAAACTCCTATCATCAGAGGTTCCACAACT
* * *
9989017 TTTGATAAAGTAAATCT-GAATGCTCCTCA-CATCAGAGGTTCCAGAACT
1 TTTGA-AAA-TAAATTTAGAA-ACTCCT-ATCATCAGAGGTTCCACAACT
*
9989065 TTTGAAAATAAATTTAGAAACTCCTATCATCAGAGGCTT-CACAATT
1 TTTGAAAATAAATTTAGAAACTCCTATCATCAGAGG-TTCCACAACT
*
9989111 TTTGGAAATA
1 TTTGAAAATA
9989121 TAACACAACA
Statistics
Matches: 115, Mismatches: 26, Indels: 18
0.72 0.16 0.11
Matches are distributed among these distances:
45 4 0.03
46 45 0.39
47 60 0.52
48 6 0.05
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (46 bp):
TTTGAAAATAAATTTAGAAACTCCTATCATCAGAGGTTCCACAACT
Found at i:9989624 original size:84 final size:84
Alignment explanation
Indices: 9989341--9989625 Score: 304
Period size: 84 Copynumber: 3.4 Consensus size: 84
9989331 ATCATCATTC
* * * * * * * * * *
9989341 AAATAGATTTAACTTGAAAGATTTATGAATCTTACCTAGAGGACTTAAAGATTATAGC-TAGAAG
1 AAATAGATTTAGCTTAAAAGACTTACGAATCATGCCTAAAGGACTTAGAGATTAT-GCTTGGAGG
*
9989405 TCTTATAAATCTCGACACTT
65 TCTTATAAATCTCGACACTA
* * * * * * * *
9989425 AAATAGATTAAGCTCAACAGACTTATGAATCTTG-CTCAAAGGACTTAGAGATTATGCTCGAAGC
1 AAATAGATTTAGCTTAAAAGACTTACGAATCATGCCT-AAAGGACTTAGAGATTATGCTTGGAGG
*
9989489 TCTTATAAATCTCAACACTA
65 TCTTATAAATCTCGACACTA
* * * * *
9989509 AAATAGATTTAGCTTGAAAGATTTACAAATCATGCCTAAAAGACGTAGAGATTATGCTTGGAGGT
1 AAATAGATTTAGCTTAAAAGACTTACGAATCATGCCTAAAGGACTTAGAGATTATGCTTGGAGGT
*
9989574 CTTATAAATCTTGACACTA
66 CTTATAAATCTCGACACTA
9989593 AAATAGATTTAGCTTAAAAGACTTACGAATCAT
1 AAATAGATTTAGCTTAAAAGACTTACGAATCAT
9989626 TCTTATCTTT
Statistics
Matches: 164, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
83 4 0.02
84 158 0.96
85 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (84 bp):
AAATAGATTTAGCTTAAAAGACTTACGAATCATGCCTAAAGGACTTAGAGATTATGCTTGGAGGT
CTTATAAATCTCGACACTA
Found at i:9989911 original size:37 final size:36
Alignment explanation
Indices: 9989854--9989969 Score: 133
Period size: 36 Copynumber: 3.2 Consensus size: 36
9989844 CTTTGCCCAA
** * *
9989854 AGGTCTTAGCAATAAATTTCTCATATTGATGCCTTG
1 AGGTCTTAGGGATAAATTTCTCATCTTGATGCCTAG
* * * *
9989890 AGGTCTTAGGGATTAAATTTCTTACCTTGATGTCTGG
1 AGGTCTTAGGGA-TAAATTTCTCATCTTGATGCCTAG
* *
9989927 AGGTCATAGGGATAAATTTCTCATCTTGATGCCTAA
1 AGGTCTTAGGGATAAATTTCTCATCTTGATGCCTAG
9989963 AGGTCTT
1 AGGTCTT
9989970 TAAAACTTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
36 35 0.54
37 30 0.46
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (36 bp):
AGGTCTTAGGGATAAATTTCTCATCTTGATGCCTAG
Found at i:9989955 original size:36 final size:36
Alignment explanation
Indices: 9989865--9989960 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 36
9989855 GGTCTTAGCA
* * *
9989865 ATAAATTTCTCATATTGATGCCTTGAGGTCTTAGGG
1 ATAAATTTCTCATCTTGATGCCTGGAGGTCATAGGG
* * *
9989901 ATTAAATTTCTTACCTTGATGTCTGGAGGTCATAGGG
1 A-TAAATTTCTCATCTTGATGCCTGGAGGTCATAGGG
9989938 ATAAATTTCTCATCTTGATGCCT
1 ATAAATTTCTCATCTTGATGCCT
9989961 AAAGGTCTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 20 0.40
37 30 0.60
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (36 bp):
ATAAATTTCTCATCTTGATGCCTGGAGGTCATAGGG
Found at i:9992521 original size:14 final size:14
Alignment explanation
Indices: 9992482--9992526 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
9992472 AAGGTCTAGG
9992482 TTGGGGTTTAGGGT
1 TTGGGGTTTAGGGT
* *
9992496 TT-AGATTATAGGGT
1 TTGGGGTT-TAGGGT
9992510 TTGGGGTTTAGGGT
1 TTGGGGTTTAGGGT
9992524 TTG
1 TTG
9992527 AATTCGGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.12
14 19 0.76
15 3 0.12
ACGTcount: A:0.13, C:0.00, G:0.42, T:0.44
Consensus pattern (14 bp):
TTGGGGTTTAGGGT
Found at i:9992631 original size:50 final size:51
Alignment explanation
Indices: 9992577--9992723 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 51
9992567 AAAATTAATG
9992577 AAATACCATTGATAAAAATGCAAACTTTAATGCATGTGAC-AAAATTACCA
1 AAATACCATTGATAAAAATGCAAACTTTAATGCATGTGACAAAAATTACCA
*
9992627 AAATACCATTGATAAAAATACAAACTTTGATGTATGGGCATAAGGTGACAAAAATTACCA
1 AAATACCATTGATAAAAATGCAAACTTT-A---AT--GCAT---GTGACAAAAATTACCA
* * *
9992687 ACAATGCCATTAATGAAAATGCAAACTTTAATGCATG
1 A-AATACCATTGATAAAAATGCAAACTTTAATGCATG
9992724 GACCATGTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
50 27 0.33
51 1 0.01
52 1 0.01
54 2 0.02
55 4 0.05
56 4 0.05
57 2 0.02
59 5 0.06
60 12 0.15
61 23 0.28
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (51 bp):
AAATACCATTGATAAAAATGCAAACTTTAATGCATGTGACAAAAATTACCA
Found at i:9992712 original size:61 final size:59
Alignment explanation
Indices: 9992612--9992724 Score: 154
Period size: 61 Copynumber: 1.9 Consensus size: 59
9992602 TTTAATGCAT
* * *
9992612 GTGACAAAATTACCAAAATACCATTGATAAAAATACAAACTTTGATGTATGGGCATAAG
1 GTGACAAAATTACCAAAATACCATTAATAAAAATACAAACTTTAATGCATGGGCATAAG
* * *
9992671 GTGACAAAAATTACCAACAATGCCATTAATGAAAATGCAAACTTTAATGCATGG
1 GTGAC-AAAATTACCAA-AATACCATTAATAAAAATACAAACTTTAATGCATGG
9992725 ACCATGTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 5 0.11
60 11 0.24
61 30 0.65
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (59 bp):
GTGACAAAATTACCAAAATACCATTAATAAAAATACAAACTTTAATGCATGGGCATAAG
Found at i:9994001 original size:144 final size:141
Alignment explanation
Indices: 9993721--9994049 Score: 342
Period size: 143 Copynumber: 2.3 Consensus size: 141
9993711 ATTACTAAGT
* * *
9993721 TACCCTTTAAGTGTATTTTAGTAATTTCACACCTTTTGAGGTGGATGAAAGTTTTTAATGCACCA
1 TACCC-TTAAG-GTATTTTAGTAATTTCACACCTTTCGAGGTGGATCAAAGTTTTTAATGCACAA
* * * * *
9993786 AAAATCACCAAATAATATGAAAGCATGATCTATAGCGTTTCATGAAAAATTAACTGTGGGAAGAT
64 AAAATCACCAAATAATATAAAACCATGATATAGAGCGTTTCATGAAAAATTAAATGTGGGAAGAT
9993851 CAAATTACAAAAA
129 CAAATTACAAAAA
* *
9993864 TACCCATTAAGGTCATTTTAGTAATTTCACACCTTTCAAGGTGTGATCAAGGTTTTTAATGCACA
1 TACCC-TTAAGGT-ATTTTAGTAATTTCACACCTTTCGAGGTG-GATCAAAGTTTTTAATGCACA
** * * * * * *
9993929 AAAAATCATGAAATAATATAAAACCATGATATGGAGTGTTT-A-GTAAAA-TACCAATTTTGTAA
63 AAAAATCACCAAATAATATAAAACCATGATATAGAGCGTTTCATGAAAAATTA--AATGTGGGAA
**
9993991 TGATCAAATTACGGAAA
126 -GATCAAATTACAAAAA
* *
9994008 TACTCC-TAAGGATATTTTGGTAATTTTACACCTTTCGAGGTG
1 TAC-CCTTAAGG-TATTTTAGTAATTTCACACCTTTCGAGGTG
9994050 CAATTAGAGT
Statistics
Matches: 155, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
141 2 0.01
142 7 0.05
143 75 0.48
144 69 0.45
145 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (141 bp):
TACCCTTAAGGTATTTTAGTAATTTCACACCTTTCGAGGTGGATCAAAGTTTTTAATGCACAAAA
AATCACCAAATAATATAAAACCATGATATAGAGCGTTTCATGAAAAATTAAATGTGGGAAGATCA
AATTACAAAAA
Found at i:9995015 original size:24 final size:24
Alignment explanation
Indices: 9994978--9995036 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
9994968 TTAGATACTT
* *
9994978 GGATATCACTACCGATA-AAAACTC
1 GGATACCACCACCGA-AGAAAACTC
* *
9995002 GGATACCACCACCGAAGAGAACTT
1 GGATACCACCACCGAAGAAAACTC
9995026 GGATACCACCA
1 GGATACCACCA
9995037 TCAAGTGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.39, C:0.29, G:0.17, T:0.15
Consensus pattern (24 bp):
GGATACCACCACCGAAGAAAACTC
Found at i:9995498 original size:43 final size:44
Alignment explanation
Indices: 9995415--9995527 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 44
9995405 TATGACAAAG
* * ** * *
9995415 ACTCAAAT-TTACTACCAAGATTTGAAAACTTTTTACTTTGAGC
1 ACTCAAATATCACCACCAAGATTTGAAAACTTTAGAATTTGAAC
** *
9995458 ACTCAAATATCATTATCAAGATTTGAAAAC-TTAGAATTTGAAC
1 ACTCAAATATCACCACCAAGATTTGAAAACTTTAGAATTTGAAC
*
9995501 ACTCAGATATCACCACCAAGATTTGAA
1 ACTCAAATATCACCACCAAGATTTGAA
9995528 TGAAATTTGG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 40 0.69
44 18 0.31
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (44 bp):
ACTCAAATATCACCACCAAGATTTGAAAACTTTAGAATTTGAAC
Found at i:9998266 original size:8 final size:7
Alignment explanation
Indices: 9998213--9998250 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
9998203 TCTTTGTTTC
9998213 TTTTT-T
1 TTTTTAT
*
9998219 TTTTCAT
1 TTTTTAT
9998226 TTTTTAT
1 TTTTTAT
9998233 TTTTTAT
1 TTTTTAT
9998240 TTTTTAT
1 TTTTTAT
9998247 TTTT
1 TTTT
9998251 GTCCTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:9998421 original size:72 final size:74
Alignment explanation
Indices: 9998323--9998466 Score: 229
Period size: 76 Copynumber: 1.9 Consensus size: 74
9998313 TAAATCACCT
*
9998323 CTAAATAAGGATAATGTGAGGC-AAAAAAAA-AAAGTCATGTGGAATGAACTTATTTAAGGTGTT
1 CTAAATAAGGATAATGTGAGGCAAAAAAAAAGAAAGTCATGTAGAATGAACTTATTTAAGGTGTT
9998386 AAAGAACCC
66 AAAGAACCC
* *
9998395 CTAAATAAGGTTAATGTGAGGCAAAAAAAAAAAGAAAGTCATGTAGAATGAACTTGTTTAAGGTG
1 CTAAATAAGGATAATGTGAGGC--AAAAAAAAAGAAAGTCATGTAGAATGAACTTATTTAAGGTG
9998460 TTAAAGA
64 TTAAAGA
9998467 GTTTATGTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
72 21 0.32
75 8 0.12
76 36 0.55
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.24
Consensus pattern (74 bp):
CTAAATAAGGATAATGTGAGGCAAAAAAAAAGAAAGTCATGTAGAATGAACTTATTTAAGGTGTT
AAAGAACCC
Found at i:10001445 original size:37 final size:38
Alignment explanation
Indices: 10001404--10001594 Score: 104
Period size: 37 Copynumber: 5.1 Consensus size: 38
10001394 TGACACTTCC
* * **
10001404 ATTAAAATGTGTATGAAATGGAGTGCATATACTA-TTT
1 ATTAAGATGTGCATGAAATAAAGTGCATATACTATTTT
* * *
10001441 ATTAAGATGTGCATGAGATAAAGTGCATGTATTATTTT
1 ATTAAGATGTGCATGAAATAAAGTGCATATACTATTTT
* * * * *
10001479 ATTAAGATGTGCCTGAGATGAAA-TGCATGTATTA-TCT
1 ATTAAGATGTGCATGAAAT-AAAGTGCATATACTATTTT
* * * * * *
10001516 AGTAAGACGTGCATGAGATGGAA-TGCATGTACTA-TCT
1 ATTAAGATGTGCATGAAAT-AAAGTGCATATACTATTTT
* * * * * * *
10001553 ATTGATATGTACAAGAAATGAAGTGCATGTACTATATT
1 ATTAAGATGTGCATGAAATAAAGTGCATATACTATTTT
10001591 ATTA
1 ATTA
10001595 TTTTCAATTC
Statistics
Matches: 126, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
36 3 0.02
37 84 0.67
38 36 0.29
39 3 0.02
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (38 bp):
ATTAAGATGTGCATGAAATAAAGTGCATATACTATTTT
Found at i:10001488 original size:38 final size:38
Alignment explanation
Indices: 10001425--10001594 Score: 159
Period size: 37 Copynumber: 4.5 Consensus size: 38
10001415 TATGAAATGG
* *
10001425 AGTGCATATACTATTTATTAAGATGTGCATGAGAT-AA
1 AGTGCATGTATTATTTATTAAGATGTGCATGAGATGAA
*
10001462 AGTGCATGTATTATTTTATTAAGATGTGCCTGAGATGAA
1 AGTGCATGTATTA-TTTATTAAGATGTGCATGAGATGAA
* * * *
10001501 A-TGCATGTATTATCTAGTAAGACGTGCATGAGATGGA
1 AGTGCATGTATTATTTATTAAGATGTGCATGAGATGAA
* * * * * * *
10001538 A-TGCATGTACTATCTATTGATATGTACAAGAAATG-A
1 AGTGCATGTATTATTTATTAAGATGTGCATGAGATGAA
*
10001574 AGTGCATGTACTATATTATTA
1 AGTGCATGTATTAT-TTATTA
10001595 TTTTCAATTC
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
36 2 0.02
37 70 0.63
38 36 0.32
39 3 0.03
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (38 bp):
AGTGCATGTATTATTTATTAAGATGTGCATGAGATGAA
Found at i:10003491 original size:22 final size:20
Alignment explanation
Indices: 10003437--10003492 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
10003427 TTAAACATGA
10003437 ATAATAAAATATAAATGTATG
1 ATAATAAAATA-AAATGTATG
* *
10003458 ATAAT-TAA-AAAATGCATGTG
1 ATAATAAAATAAAATG--TATG
10003478 ATAATAAAATAAAAT
1 ATAATAAAATAAAAT
10003493 AAAATGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 5 0.18
19 1 0.04
20 10 0.36
21 7 0.25
22 5 0.18
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (20 bp):
ATAATAAAATAAAATGTATG
Found at i:10003525 original size:32 final size:32
Alignment explanation
Indices: 10003486--10003550 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
10003476 TGATAATAAA
*
10003486 ATAAAATAAAATGCAAATGTATGAACGGGATC
1 ATAAAATAAAATGCAAATGCATGAACGGGATC
*
10003518 ATAAAATAAAATGCAAATGCATGAATGGGATC
1 ATAAAATAAAATGCAAATGCATGAACGGGATC
10003550 A
1 A
10003551 AGTTGGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (32 bp):
ATAAAATAAAATGCAAATGCATGAACGGGATC
Found at i:10003600 original size:7 final size:7
Alignment explanation
Indices: 10003575--10003779 Score: 69
Period size: 7 Copynumber: 30.7 Consensus size: 7
10003565 CTTATGGGTT
10003575 GGTTTAG
1 GGTTTAG
*
10003582 GGTCTA-
1 GGTTTAG
10003588 -GTTTAG
1 GGTTTAG
10003594 GGTTTAG
1 GGTTTAG
* * *
10003601 TG-CTAA
1 GGTTTAG
*
10003607 GTTTTAG
1 GGTTTAG
10003614 GGTTTAG
1 GGTTTAG
*
10003621 GTTTTA-
1 GGTTTAG
10003627 GGTTTAG
1 GGTTTAG
*
10003634 TGTTTA-
1 GGTTTAG
10003640 GGTTTAG
1 GGTTTAG
10003647 GGTTT-G
1 GGTTTAG
10003653 GAGTTT-G
1 G-GTTTAG
*
10003660 GTTTTTA-
1 G-GTTTAG
10003667 -GTTT-G
1 GGTTTAG
*
10003672 AGGTCTA-
1 -GGTTTAG
*
10003679 GGTCTA-
1 GGTTTAG
10003685 GGTTTAG
1 GGTTTAG
* *
10003692 GATTTAC
1 GGTTTAG
* *
10003699 GATTTAC
1 GGTTTAG
*
10003706 GATTTAG
1 GGTTTAG
10003713 GGTTT-G
1 GGTTTAG
*
10003719 GTTTTAG
1 GGTTTAG
**
10003726 GAATTAG
1 GGTTTAG
10003733 AGGTTT-G
1 -GGTTTAG
*
10003740 GGTTTTG
1 GGTTTAG
*
10003747 GTTTTAG
1 GGTTTAG
10003754 GGTTTAG
1 GGTTTAG
*
10003761 GGTTTTG
1 GGTTTAG
* *
10003768 GTTTTTG
1 GGTTTAG
10003775 GGTTT
1 GGTTT
10003780 GGGATTTGAG
Statistics
Matches: 149, Mismatches: 34, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
5 7 0.05
6 35 0.23
7 104 0.70
8 3 0.02
ACGTcount: A:0.15, C:0.03, G:0.34, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:10003751 original size:28 final size:28
Alignment explanation
Indices: 10003715--10003838 Score: 99
Period size: 28 Copynumber: 4.4 Consensus size: 28
10003705 CGATTTAGGG
*
10003715 TTTGGTTTTAGGAATTAGAGGTTTGGGT
1 TTTGGGTTTAGGAATTAGAGGTTTGGGT
* ** *
10003743 TTTGGTTTTAGGGTTTAG-GGTTTTGGTT
1 TTTGGGTTTAGGAATTAGAGG-TTTGGGT
* * *
10003771 TTTGGGTTT-GGGATTTGAGGTTTGGAT
1 TTTGGGTTTAGGAATTAGAGGTTTGGGT
* * *
10003798 TTTAGAGTTTAGGTAGTTAGAGGTTTGCGT
1 TTT-GGGTTTAGG-AATTAGAGGTTTGGGT
*
10003828 TTGGGGTTTAG
1 TTTGGGTTTAG
10003839 TTTATGGTTT
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
27 17 0.22
28 37 0.49
29 9 0.12
30 13 0.17
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.48
Consensus pattern (28 bp):
TTTGGGTTTAGGAATTAGAGGTTTGGGT
Found at i:10003753 original size:21 final size:20
Alignment explanation
Indices: 10003708--10003787 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 20
10003698 CGATTTACGA
*
10003708 TTTAGGGTTT-GGTTTTAGGA
1 TTTAGGGTTTGGGTTTT-GGT
*
10003728 ATTAGAGGTTTGGGTTTTGGT
1 TTTAG-GGTTTGGGTTTTGGT
10003749 TTTAGGGTTTAGGGTTTTGGT
1 TTTAGGGTTT-GGGTTTTGGT
* *
10003770 TTTTGGGTTTGGGATTTG
1 TTTAGGGTTTGGGTTTTG
10003788 AGGTTTGGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
20 16 0.31
21 30 0.58
22 6 0.12
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (20 bp):
TTTAGGGTTTGGGTTTTGGT
Found at i:10006004 original size:10 final size:10
Alignment explanation
Indices: 10005991--10006027 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
10005981 AGTTTAACTT
10005991 TGTTTGATCA
1 TGTTTGATCA
10006001 TGTTTGATCA
1 TGTTTGATCA
*
10006011 GGTTTGATCA
1 TGTTTGATCA
*
10006021 AGTTTGA
1 TGTTTGA
10006028 CCTAAGACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (10 bp):
TGTTTGATCA
Found at i:10010300 original size:36 final size:37
Alignment explanation
Indices: 10010217--10010300 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 37
10010207 TGTGTATAAG
* ** *
10010217 ATGGAGTGCATGTACTAATTATTGAGATGTGCATGAG
1 ATGGAGTGCATGTACTAACTATCAAGATGTGCATGAA
* * * *
10010254 ATAGAATGCATGTA-TTACTATCAAGATGTGCATTAA
1 ATGGAGTGCATGTACTAACTATCAAGATGTGCATGAA
10010290 ATGGAGTGCAT
1 ATGGAGTGCAT
10010301 CTAATATCTT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
36 25 0.68
37 12 0.32
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (37 bp):
ATGGAGTGCATGTACTAACTATCAAGATGTGCATGAA
Found at i:10015189 original size:22 final size:21
Alignment explanation
Indices: 10015164--10015240 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
10015154 AAACTCTTCA
10015164 TTTTCTCATTCTTTCCTTTTTT
1 TTTTCTC-TTCTTTCCTTTTTT
* *
10015186 TTTTCTTTTCATT-CTTCTTTGT
1 TTTTCTCTTCTTTCCTT-TTT-T
* *
10015208 TTTTCTTCTTTTTTCCTTTATT
1 TTTTC-TCTTCTTTCCTTTTTT
10015230 TTTTCT-TTCTT
1 TTTTCTCTTCTT
10015241 CCCAACCTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 7 0.16
21 9 0.20
22 18 0.41
23 7 0.16
24 3 0.07
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.75
Consensus pattern (21 bp):
TTTTCTCTTCTTTCCTTTTTT
Found at i:10015199 original size:25 final size:25
Alignment explanation
Indices: 10015169--10015219 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
10015159 CTTCATTTTC
10015169 TCATTCTTTCCTTT-TTTTT-TTCTTT
1 TCATTC-TT-CTTTGTTTTTCTTCTTT
10015194 TCATTCTTCTTTGTTTTTCTTCTTT
1 TCATTCTTCTTTGTTTTTCTTCTTT
10015219 T
1 T
10015220 TTCCTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 4 0.17
24 7 0.29
25 13 0.54
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (25 bp):
TCATTCTTCTTTGTTTTTCTTCTTT
Found at i:10015434 original size:39 final size:40
Alignment explanation
Indices: 10015390--10015466 Score: 106
Period size: 39 Copynumber: 1.9 Consensus size: 40
10015380 TTAAAATAAC
10015390 CTCTTTTTTATTT-TGGTTTTTTCCTC-TT-TTTTTCTTTCT
1 CTCTTTTTTATTTAT--TTTTTTCCTCATTCTTTTTCTTTCT
*
10015429 CTCTTTTTTATTTATTTTTTTTCTCATTCTTTTTCTTT
1 CTCTTTTTTATTTATTTTTTTCCTCATTCTTTTTCTTT
10015467 TCTTTCTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
38 9 0.26
39 15 0.44
40 10 0.29
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (40 bp):
CTCTTTTTTATTTATTTTTTTCCTCATTCTTTTTCTTTCT
Found at i:10015461 original size:15 final size:14
Alignment explanation
Indices: 10015416--10015490 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 14
10015406 TTTTTTCCTC
*
10015416 TTTTTTTCTTTCTCT
1 TTTTTTTCATTCT-T
* *
10015431 CTTTTTT-ATTTATT
1 TTTTTTTCA-TTCTT
10015445 TTTTTTCTCATTCTT
1 TTTTTT-TCATTCTT
*
10015460 TTTCTTTTCTTTCTCT
1 TTT-TTTTCATTCT-T
*
10015476 ATTTTTTCATTCTT
1 TTTTTTTCATTCTT
10015490 T
1 T
10015491 CTACTTCTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 11
0.70 0.14 0.17
Matches are distributed among these distances:
14 7 0.15
15 32 0.70
16 7 0.15
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTCATTCTT
Found at i:10015472 original size:21 final size:21
Alignment explanation
Indices: 10015416--10015482 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
10015406 TTTTTTCCTC
*
10015416 TTTTTTTC-TTTC--TCTCTT
1 TTTTTTTCTTTTCTTTCTCTA
* *
10015434 TTTTATTTATTTTTTTTCTC-A
1 TTTT-TTTCTTTTCTTTCTCTA
10015455 TTCTTTTTCTTTTCTTTCTCTA
1 TT-TTTTTCTTTTCTTTCTCTA
10015477 TTTTTT
1 TTTTTT
10015483 CATTCTTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 3 0.08
21 19 0.50
22 9 0.24
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTCTTTTCTTTCTCTA
Found at i:10015674 original size:11 final size:11
Alignment explanation
Indices: 10015604--10015675 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 11
10015594 CATCAAATCC
10015604 CTTTTTTTTTT
1 CTTTTTTTTTT
*
10015615 CTTTCTTTTCTCT
1 CTTT-TTTT-TTT
10015628 CTTCTTTTTCTTGT
1 CTT-TTTTT-TT-T
*
10015642 CTTCCTTTTTTTAC
1 CTT--TTTTTTT-T
10015656 CTTTTTTTTTT
1 CTTTTTTTTTT
10015667 CTTTTTTTT
1 CTTTTTTTT
10015676 CCCTTCTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 13 0.25
12 11 0.22
13 11 0.22
14 10 0.20
15 6 0.12
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:10021219 original size:18 final size:18
Alignment explanation
Indices: 10021196--10021263 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
10021186 ATATATTTGA
10021196 GGATGATACATTTGTAGT
1 GGATGATACATTTGTAGT
*
10021214 GGATGATACATTTTTAGT
1 GGATGATACATTTGTAGT
** *
10021232 AAATGACACATTTG-AGAT
1 GGATGATACATTTGTAG-T
10021250 GGATGATACATTTG
1 GGATGATACATTTG
10021264 ACGTAAAGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 2 0.05
18 39 0.95
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (18 bp):
GGATGATACATTTGTAGT
Found at i:10021222 original size:51 final size:51
Alignment explanation
Indices: 10021127--10021226 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
10021117 ATACATTCGA
*
10021127 GGTGAAAGATATATTTGAGGATGATACATTTATGCTGGGGGATACATTTAT
1 GGTGAAAGATATATTTGAGGATGATACATTTATGCTGGAGGATACATTTAT
* *
10021178 GGTG-AAGAATATATTTGAGGATGATACATTTGTAG-TGGATGATACATTT
1 GGTGAAAG-ATATATTTGAGGATGATACATTTAT-GCTGGAGGATACATTT
10021227 TTAGTAAATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 3 0.07
51 40 0.91
52 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (51 bp):
GGTGAAAGATATATTTGAGGATGATACATTTATGCTGGAGGATACATTTAT
Found at i:10021253 original size:36 final size:36
Alignment explanation
Indices: 10021198--10021289 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
10021188 ATATTTGAGG
*
10021198 ATGATACATTTGTAG-TGGATGATACATTTTTA-GTAA
1 ATGATACATTTG-AGATGGATGATACA-TTTGACGTAA
*
10021234 ATGACACATTTGAGATGGATGATACATTTGACGTAA
1 ATGATACATTTGAGATGGATGATACATTTGACGTAA
* *
10021270 AGGATACATTTGTGATGGAT
1 ATGATACATTTGAGATGGAT
10021290 AATAACCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 6 0.12
36 43 0.88
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (36 bp):
ATGATACATTTGAGATGGATGATACATTTGACGTAA
Found at i:10023363 original size:3 final size:3
Alignment explanation
Indices: 10023357--10023466 Score: 74
Period size: 3 Copynumber: 38.7 Consensus size: 3
10023347 ATCATATCCG
* *
10023357 TAT TAT TAA TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT TTT TA- TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
** *
10023403 TGG TA- TAT TA- TAT TA- TAT TAT TA- TAGT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * *
10023445 TA- GAT AAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
10023467 ACCTTTCTGT
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
2 15 0.18
3 67 0.79
4 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:10023458 original size:45 final size:44
Alignment explanation
Indices: 10023366--10023464 Score: 103
Period size: 45 Copynumber: 2.2 Consensus size: 44
10023356 GTATTATTAA
* * * *
10023366 TATATTATATTATTATTATTATTATTATTTTTATACTTGGTATAT
1 TATATTATATTATTATTATTATTACTATTATTATA-TAGATATAT
10023411 TATATTATATTATTA-TAGTTATTACTATTATTAT-TAGATAATCAT
1 TATATTATATTATTATTA-TTATTACTATTATTATATAGAT-AT-AT
10023456 TATTATTAT
1 TA-TATTAT
10023465 TAACCTTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.07
44 4 0.09
45 33 0.72
46 6 0.13
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (44 bp):
TATATTATATTATTATTATTATTACTATTATTATATAGATATAT
Found at i:10035314 original size:21 final size:20
Alignment explanation
Indices: 10035288--10035340 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
10035278 TGATTAATTC
10035288 AATTTGCATGTTTCTAAGTTT
1 AATTTGCATGTTTCTAAG-TT
*
10035309 AATTTG-ATTTGATTCTAAGTT
1 AATTTGCA--TGTTTCTAAGTT
10035330 AATTTGC-TGTT
1 AATTTGCATGTT
10035341 CTTTAGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
19 3 0.11
20 1 0.04
21 14 0.52
22 9 0.33
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.53
Consensus pattern (20 bp):
AATTTGCATGTTTCTAAGTT
Found at i:10035379 original size:21 final size:20
Alignment explanation
Indices: 10035324--10035393 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
10035314 GATTTGATTC
* *
10035324 TAAGTTAATTTGC-TGTTCT
1 TAAGTTAGTTTGCATGTTAT
* *
10035343 TTAGTTA-ATT-CATGTTAAGT
1 TAAGTTAGTTTGCATGTT-A-T
10035363 TAA-TTAGTTTGCATGTTAT
1 TAAGTTAGTTTGCATGTTAT
10035382 TAAGTTAGTTTG
1 TAAGTTAGTTTG
10035394 ATTTGGTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
17 1 0.03
18 6 0.15
19 13 0.32
20 14 0.35
21 6 0.15
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (20 bp):
TAAGTTAGTTTGCATGTTAT
Found at i:10051619 original size:21 final size:21
Alignment explanation
Indices: 10051594--10051636 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10051584 AAATTGAAAG
10051594 ATCAACAAGAAAACTATATCT
1 ATCAACAAGAAAACTATATCT
*
10051615 ATCAATAAGAAAACTATATCT
1 ATCAACAAGAAAACTATATCT
10051636 A
1 A
10051637 AATTGCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (21 bp):
ATCAACAAGAAAACTATATCT
Found at i:10057626 original size:6 final size:6
Alignment explanation
Indices: 10057615--10057661 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
10057605 CTTCGGGTAA
** *
10057615 GTTAGG GTTAGG GTTTTG GTATAGG TTTAGG GTTAGG GTTAGG GTTA
1 GTTAGG GTTAGG GTTAGG GT-TAGG GTTAGG GTTAGG GTTAGG GTTA
10057662 AGTTTAAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 31 0.91
7 3 0.09
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (6 bp):
GTTAGG
Found at i:10057651 original size:12 final size:12
Alignment explanation
Indices: 10057616--10057667 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
10057606 TTCGGGTAAG
10057616 TTAGGGTTAGGGT
1 TTAGGGTTA-GGT
*
10057629 TT-TGGTATAGGT
1 TTAGGGT-TAGGT
*
10057641 TTAGGGTTAGGG
1 TTAGGGTTAGGT
*
10057653 TTAGGGTTAAGT
1 TTAGGGTTAGGT
10057665 TTA
1 TTA
10057668 AAGTTTTGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 25 0.78
13 7 0.22
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (12 bp):
TTAGGGTTAGGT
Found at i:10063979 original size:12 final size:12
Alignment explanation
Indices: 10063964--10064066 Score: 56
Period size: 12 Copynumber: 8.8 Consensus size: 12
10063954 TTTGCTTTAA
*
10063964 GGTTTGGGGTTT
1 GGTTTAGGGTTT
10063976 GGTTTAGGGTTT
1 GGTTTAGGGTTT
10063988 -G---A-GGTTT
1 GGTTTAGGGTTT
* * *
10063995 GATTTAGGATAT
1 GGTTTAGGGTTT
* *
10064007 GGGTTAAGGTTT
1 GGTTTAGGGTTT
* *
10064019 GATTTAGGATTT
1 GGTTTAGGGTTT
10064031 AGG-TTAGGGTTT
1 -GGTTTAGGGTTT
10064043 AGGTTTTAGGGTTT
1 -GG-TTTAGGGTTT
*
10064057 GGCTTAGGGT
1 GGTTTAGGGT
10064067 GTAATAGGTG
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
11 2 0.03
12 47 0.70
13 3 0.04
14 9 0.13
ACGTcount: A:0.16, C:0.01, G:0.39, T:0.45
Consensus pattern (12 bp):
GGTTTAGGGTTT
Found at i:10063994 original size:19 final size:19
Alignment explanation
Indices: 10063896--10064002 Score: 83
Period size: 19 Copynumber: 5.5 Consensus size: 19
10063886 AGGGTTAAGG
10063896 TTGGCTTTAGGGTTTGAGGT
1 TTGG-TTTAGGGTTTGAGGT
** * *
10063916 TCAGTTTAAGGTCT-AGGT
1 TTGGTTTAGGGTTTGAGGT
*
10063934 TGGGTTTAGGGTTT-AGGTTTT
1 TTGGTTTAGGGTTTGAGG---T
* * *
10063955 TTGCTTTAAGGTTTGGGGT
1 TTGGTTTAGGGTTTGAGGT
10063974 TTGGTTTAGGGTTTGAGGT
1 TTGGTTTAGGGTTTGAGGT
*
10063993 TTGATTTAGG
1 TTGGTTTAGG
10064003 ATATGGGTTA
Statistics
Matches: 67, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
18 17 0.25
19 34 0.51
20 2 0.03
21 12 0.18
22 2 0.03
ACGTcount: A:0.13, C:0.04, G:0.36, T:0.47
Consensus pattern (19 bp):
TTGGTTTAGGGTTTGAGGT
Found at i:10064019 original size:24 final size:24
Alignment explanation
Indices: 10063989--10064042 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10063979 TTAGGGTTTG
*
10063989 AGGTTTGATTTAGGATATGGGTTA
1 AGGTTTGATTTAGGATATAGGTTA
*
10064013 AGGTTTGATTTAGGATTTAGGTTA
1 AGGTTTGATTTAGGATATAGGTTA
*
10064037 GGGTTT
1 AGGTTT
10064043 AGGTTTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (24 bp):
AGGTTTGATTTAGGATATAGGTTA
Found at i:10066879 original size:14 final size:14
Alignment explanation
Indices: 10066860--10066902 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
10066850 CATGTTTTCA
10066860 CTATTTTTTCTTTT
1 CTATTTTTTCTTTT
* *
10066874 CTATTTTTTATTCT
1 CTATTTTTTCTTTT
*
10066888 CTTTTTCTTTCTTTT
1 CTATTT-TTTCTTTT
10066903 AGAGCTAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (14 bp):
CTATTTTTTCTTTT
Found at i:10072937 original size:193 final size:193
Alignment explanation
Indices: 10072597--10072945 Score: 538
Period size: 193 Copynumber: 1.8 Consensus size: 193
10072587 GGTGAGAAAA
* * * * * * *
10072597 CCTCTTTAAAAGCTCTTTGTACCTTTCCCATACATTAAAAAGAGATTTGACCTCAAATTGCTTAA
1 CCTCCTTAAAAGCACCTTATACCTTTCCCATACATCAAAAAGAGATTCGACCTCAAATTACTTAA
*
10072662 AAGATGTAATGTCATTATGCATCTTGGCTATCTTAGATAGAAGAAAAAAATGGACTAAAACTTTT
66 AAGATGTAATGTCATTACGCATCTTGGCTATCTTAGATAGAAGAAAAAAATGGACTAAAACTTTT
10072727 TGAACTAGGCCATCCCAAGTAGTAATTGAACTAGGAGGTAAAGACACAAGCCAAGTGAGGACG
131 TGAACTAGGCCATCCCAAGTAGTAATTGAACTAGGAGGTAAAGACACAAGCCAAGTGAGGACG
**
10072790 CCTCCTTAAAAGCACCTTATACCTTTCCCATGGATCAAAAAGAGATTCGACCTCAAATTACTTAA
1 CCTCCTTAAAAGCACCTTATACCTTTCCCATACATCAAAAAGAGATTCGACCTCAAATTACTTAA
* * * *
10072855 AAGATGTAATGTCATTACGCATCTTGGCTATCTTAGATGGAGGAAAGAAATGGGCTAAGAA-TTT
66 AAGATGTAATGTCATTACGCATCTTGGCTATCTTAGATAGAAGAAAAAAATGGACTAA-AACTTT
* *
10072919 TTTAACTAGGCTATCCCAAGTAGTAAT
130 TTGAACTAGGCCATCCCAAGTAGTAAT
10072946 CAAATCAGAA
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
193 137 0.99
194 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (193 bp):
CCTCCTTAAAAGCACCTTATACCTTTCCCATACATCAAAAAGAGATTCGACCTCAAATTACTTAA
AAGATGTAATGTCATTACGCATCTTGGCTATCTTAGATAGAAGAAAAAAATGGACTAAAACTTTT
TGAACTAGGCCATCCCAAGTAGTAATTGAACTAGGAGGTAAAGACACAAGCCAAGTGAGGACG
Found at i:10075763 original size:18 final size:18
Alignment explanation
Indices: 10075740--10075783 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10075730 GGCTGGTTTA
10075740 AGGTTTAATGAGTAATTT
1 AGGTTTAATGAGTAATTT
* * *
10075758 AGGTTTCATGGGTAGTTT
1 AGGTTTAATGAGTAATTT
10075776 AGGGTTTA
1 A-GGTTTA
10075784 GAGGGTGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.25, C:0.02, G:0.30, T:0.43
Consensus pattern (18 bp):
AGGTTTAATGAGTAATTT
Found at i:10075807 original size:19 final size:19
Alignment explanation
Indices: 10075688--10075808 Score: 74
Period size: 19 Copynumber: 6.6 Consensus size: 19
10075678 AGAGTCATCA
*
10075688 GTTTCAAGGATGGTTTAGG
1 GTTTCAAGGGTGGTTTAGG
* * *
10075707 GTTT-TATGGT--TTTGGG
1 GTTTCAAGGGTGGTTTAGG
* * *
10075723 GTTTCATGGCTGGTTTAAG
1 GTTTCAAGGGTGGTTTAGG
* **
10075742 GTTT-AATGAGTAATTTA-G
1 GTTTCAA-GGGTGGTTTAGG
* *
10075760 GTTTCATGGGTAGTTTAGG
1 GTTTCAAGGGTGGTTTAGG
10075779 GTTT-AGAGGGTGGTTTAGG
1 GTTTCA-AGGGTGGTTTAGG
10075798 GTTTCAAGGGT
1 GTTTCAAGGGT
10075809 AATGTATGTG
Statistics
Matches: 74, Mismatches: 20, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
16 9 0.12
17 2 0.03
18 18 0.24
19 44 0.59
20 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.36, T:0.42
Consensus pattern (19 bp):
GTTTCAAGGGTGGTTTAGG
Found at i:10076537 original size:20 final size:19
Alignment explanation
Indices: 10076512--10076562 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
10076502 TAATATGAAA
10076512 TTAAAATCTAAAAGTTTTTG
1 TTAAAAT-TAAAAGTTTTTG
*
10076532 TTAAAATTTGAAAGTTTTTG
1 TTAAAA-TTAAAAGTTTTTG
*
10076552 TGAAAATTAAA
1 TTAAAATTAAA
10076563 CCTTGAGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.15
20 22 0.81
21 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (19 bp):
TTAAAATTAAAAGTTTTTG
Found at i:10083558 original size:2 final size:2
Alignment explanation
Indices: 10083551--10083579 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10083541 GTGATGATGC
10083551 TA 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 TA T
10083580 TTGAGGTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 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):
TA
Found at i:10085346 original size:153 final size:153
Alignment explanation
Indices: 10085045--10085324 Score: 445
Period size: 153 Copynumber: 1.8 Consensus size: 153
10085035 GGTACTCAAG
* * *
10085045 GTGAATTATCATTTCAAAATTTATAAACCAATAGTAGTAACTTAAATTTGACTAACAAGTAATTT
1 GTGAATTATCATTTCAAAATTTATAAACCAACAGTAGTAACTTAAATTTGACTAACAAGAAAGTT
* ** * * * *
10085110 TTCCTACAATAACTCAATCAATTAACTATAAGAATCAGATGAATCATCTATGGCATTAATTACTA
66 TTCCAACAATAACTCAATCAACCAACTACAAGAATCAGATGAATCAACTAAGACATTAATTACTA
10085175 CCAACATTAAGAACTGAACAAAT
131 CCAACATTAAGAACTGAACAAAT
10085198 GTGAATTATCATTTCAAAATTTATAAACCAACAGTAGTAACTTAAATTTGACTAACAAGAAAGTT
1 GTGAATTATCATTTCAAAATTTATAAACCAACAGTAGTAACTTAAATTTGACTAACAAGAAAGTT
*
10085263 TTCCAACAAT-ACTTCAATCAACCACCTACAAGAATCAGATGAATCAACTAAGACATTAATTA
66 TTCCAACAATAAC-TCAATCAACCAACTACAAGAATCAGATGAATCAACTAAGACATTAATTA
10085325 GCACCCTCAT
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
152 2 0.02
153 113 0.98
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (153 bp):
GTGAATTATCATTTCAAAATTTATAAACCAACAGTAGTAACTTAAATTTGACTAACAAGAAAGTT
TTCCAACAATAACTCAATCAACCAACTACAAGAATCAGATGAATCAACTAAGACATTAATTACTA
CCAACATTAAGAACTGAACAAAT
Found at i:10088025 original size:22 final size:23
Alignment explanation
Indices: 10087992--10088034 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
10087982 ATTAAATTCA
10087992 TAAAAGATATCATACAATAAATT
1 TAAAAGATATCATACAATAAATT
*
10088015 TAAAA-ATATCATGCAATAAA
1 TAAAAGATATCATACAATAAA
10088035 AACATCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (23 bp):
TAAAAGATATCATACAATAAATT
Found at i:10088036 original size:16 final size:16
Alignment explanation
Indices: 10088015--10088099 Score: 68
Period size: 16 Copynumber: 5.2 Consensus size: 16
10088005 ACAATAAATT
10088015 TAAAAATATCATGCAA
1 TAAAAATATCATGCAA
*
10088031 TAAAAACATCATGCAAGAA
1 TAAAAATATCATGC---AA
10088050 TATAAAATATCATGC-A
1 TA-AAAATATCATGCAA
*
10088066 -AAAATTATCATGTC-A
1 TAAAAATATCATG-CAA
* *
10088081 TAATAACATCATGCAA
1 TAAAAATATCATGCAA
10088097 TAA
1 TAA
10088100 TATAAAATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
14 10 0.18
15 4 0.07
16 27 0.48
19 4 0.07
20 11 0.20
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.26
Consensus pattern (16 bp):
TAAAAATATCATGCAA
Found at i:10088090 original size:50 final size:47
Alignment explanation
Indices: 10088016--10088169 Score: 185
Period size: 50 Copynumber: 3.3 Consensus size: 47
10088006 CAATAAATTT
10088016 AAAAA-TATCATGCAATAAAAACATCATGCAAGAATATAAAATATCATGC
1 AAAAATTATCATGC-AT-AAAACATCATGCAA-AATATAAAATATCATGC
* *
10088065 AAAAATTATCATGTCATAATAACATCATGCAATAATATAAAATATTATAC
1 AAAAATTATCATG-CATAA-AACATCATGCAA-AATATAAAATATCATGC
10088115 AAAAATTATCATGC---AAA-ATCATGC-AAATATAAAATATCATGC
1 AAAAATTATCATGCATAAAACATCATGCAAAATATAAAATATCATGC
*
10088157 AAAAATGATCATG
1 AAAAATTATCATG
10088170 TAAAAGCATG
Statistics
Matches: 96, Mismatches: 6, Indels: 13
0.83 0.05 0.11
Matches are distributed among these distances:
42 27 0.28
43 1 0.01
44 7 0.07
45 2 0.02
46 1 0.01
49 8 0.08
50 49 0.51
51 1 0.01
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (47 bp):
AAAAATTATCATGCATAAAACATCATGCAAAATATAAAATATCATGC
Found at i:10088183 original size:42 final size:42
Alignment explanation
Indices: 10088038--10088187 Score: 165
Period size: 42 Copynumber: 3.3 Consensus size: 42
10088028 CAATAAAAAC
10088038 ATCATGCAAGAATATAAAATATCATGCAAAAATTATCATGTCATAATAA
1 ATCATGC-A-AATATAAAATATCATGCAAAAATTATCATG---T-A-AA
* * *
10088087 CATCATGCAATAATATAAAATATTATACAAAAATTATCATGCAAA
1 -ATCATGC-A-AATATAAAATATCATGCAAAAATTATCATGTAAA
*
10088132 ATCATGCAAATATAAAATATCATGCAAAAATGATCATGTAAA
1 ATCATGCAAATATAAAATATCATGCAAAAATTATCATGTAAA
*
10088174 AGCATGCAAATATA
1 ATCATGCAAATATA
10088188 TATTATAATT
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
42 43 0.47
43 1 0.01
44 7 0.08
45 2 0.02
46 1 0.01
50 37 0.41
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (42 bp):
ATCATGCAAATATAAAATATCATGCAAAAATTATCATGTAAA
Found at i:10089645 original size:16 final size:18
Alignment explanation
Indices: 10089624--10089662 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
10089614 ACTCCATAAT
10089624 CTAAAA-CAAATCCAAG-
1 CTAAAACCAAATCCAAGA
10089640 CTAAAACCAAATCCAAGA
1 CTAAAACCAAATCCAAGA
10089658 CTAAA
1 CTAAA
10089663 TTTGCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.29
17 10 0.48
18 5 0.24
ACGTcount: A:0.56, C:0.26, G:0.05, T:0.13
Consensus pattern (18 bp):
CTAAAACCAAATCCAAGA
Found at i:10089722 original size:18 final size:19
Alignment explanation
Indices: 10089696--10089733 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
10089686 GTTTTTTGTA
10089696 TTTTGTTTTCTAA-TTTTC
1 TTTTGTTTTCTAACTTTTC
* *
10089714 TTTTTTTTTTTAACTTTTC
1 TTTTGTTTTCTAACTTTTC
10089733 T
1 T
10089734 AGTACTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTGTTTTCTAACTTTTC
Found at i:10089781 original size:12 final size:12
Alignment explanation
Indices: 10089764--10089803 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
10089754 AAGTAACATT
*
10089764 AAAATTAAAATC
1 AAAATTAAATTC
10089776 AAAATTCAAATTC
1 AAAATT-AAATTC
*
10089789 AAATTTAAATTC
1 AAAATTAAATTC
10089801 AAA
1 AAA
10089804 TTTTTGAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTAAATTC
Done.