Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 34 of 211
Found at i:9097567 original size:144 final size:147
Alignment explanation
Indices: 9097339--9097610 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
9097329 ATGATTATTG
9097339 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
9097404 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
9097469 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
9097488 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
9097550 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
9097611 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:9097585 original size:18 final size:17
Alignment explanation
Indices: 9097564--9097598 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9097554 TTATTATTAA
*
9097564 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9097582 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9097599 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9097673 original size:144 final size:142
Alignment explanation
Indices: 9097351--9097740 Score: 393
Period size: 144 Copynumber: 2.8 Consensus size: 142
9097341 ATTGTTATTT
9097351 AAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTA
1 AAATTTTAATAAGATTA---A-TATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTA
* *
9097416 TTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTT
62 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA--AGAAATTTGTTA
* ** ***
9097481 TGGTAAATTATTTTATTT
125 TGGTAAATTACTCAAACC
*
9097499 AAATTTTAATAAGATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
1 AAATTTTAATAAGATTAATATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
*
9097564 ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A-ATATTCT-TATAT-G-
66 ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAGAAATT-TGT-TATGGT
*
9097624 AATTTACTCAAACC
129 AAATTACTCAAACC
* *** *
9097638 ATAATTATTATTAA-A-T-ATGAT--ACTGT-AA-AATATAA--A-A--T-AACATAATTATTAT
1 A-AATT-TTAATAAGATTAAT-ATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTAT
* *
9097690 TAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
63 TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
9097741 TATTCTTATA
Statistics
Matches: 218, Mismatches: 18, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
129 61 0.28
130 2 0.01
132 1 0.00
133 1 0.00
135 6 0.03
136 2 0.01
137 2 0.01
138 2 0.01
139 11 0.05
140 11 0.05
141 10 0.05
144 91 0.42
145 1 0.00
148 17 0.08
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (142 bp):
AAATTTTAATAAGATTAATATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAGAAATTTGTTATGGTAA
ATTACTCAAACC
Found at i:9097685 original size:129 final size:130
Alignment explanation
Indices: 9097547--9097780 Score: 425
Period size: 129 Copynumber: 1.8 Consensus size: 130
9097537 ATCATATTTA
* *
9097547 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
9097612 TATTCTTATATGAATTTACTCAAACCATAAT-TATTATTAAATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
9097676 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
9097741 TATTCTTATATGAATTTACTCAAATCATAATATATGATTA
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTA
9097781 TAACTAATAT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
129 93 0.93
130 7 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (130 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
Found at i:9097714 original size:18 final size:17
Alignment explanation
Indices: 9097693--9097727 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9097683 TTATTATTAA
9097693 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
9097711 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
9097728 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:9097790 original size:17 final size:16
Alignment explanation
Indices: 9097768--9097814 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
9097758 ACTCAAATCA
9097768 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
9097785 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
9097799 TAAATATATGATTTAA
1 T-AATATATGATTTAA
9097815 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:9097815 original size:17 final size:17
Alignment explanation
Indices: 9097787--9097820 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9097777 ATTATAACTA
*
9097787 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
9097804 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
9097821 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:9097963 original size:93 final size:91
Alignment explanation
Indices: 9097853--9098046 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
9097843 GATTATAGTT
* *
9097853 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
9097916 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
9097946 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
9098011 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
9098037 TATGAATTTA
1 TATGAATTTA
9098047 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:9099459 original size:11 final size:11
Alignment explanation
Indices: 9099445--9099471 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9099435 AAAAATCAAT
9099445 ACAAAAGTTTC
1 ACAAAAGTTTC
9099456 ACAAAAGTTTC
1 ACAAAAGTTTC
9099467 ACAAA
1 ACAAA
9099472 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:9104640 original size:33 final size:33
Alignment explanation
Indices: 9104598--9104664 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
9104588 GTGATGGTAC
9104598 GGCGCAGATAGGGTTGGGAGGAAATGGGGAAGG
1 GGCGCAGATAGGGTTGGGAGGAAATGGGGAAGG
9104631 GGCGCAGATAGGGTTGGGAGGAAATGGGGAAGG
1 GGCGCAGATAGGGTTGGGAGGAAATGGGGAAGG
9104664 G
1 G
9104665 AAATTAGACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.55, T:0.12
Consensus pattern (33 bp):
GGCGCAGATAGGGTTGGGAGGAAATGGGGAAGG
Found at i:9105650 original size:122 final size:121
Alignment explanation
Indices: 9105433--9105778 Score: 584
Period size: 122 Copynumber: 2.8 Consensus size: 121
9105423 TTATTTCGAG
* *
9105433 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
9105498 AAATCGCGCCATCGTGGACGTGATTTTGCTACAGTAGTCATGTAAGAAATATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGTCATGTAAGAAATA-TTTTT
* * *
9105555 TTGACGTTTCAGAGCAAATATTATAAAATCGCTTCTACAAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
9105620 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTTGTCATGTAAGAAATATTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAG-TAGTCATGTAAGAAATATTTTT
9105677 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
9105742 AAATCGCGCCCTCATGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
9105779 CCAGTTTGGG
Statistics
Matches: 208, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
121 2 0.01
122 190 0.91
123 16 0.08
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (121 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGTCATGTAAGAAATATTTTT
Found at i:9108904 original size:10 final size:10
Alignment explanation
Indices: 9108889--9108913 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9108879 CAAATCTAAC
9108889 ATTATGTAAA
1 ATTATGTAAA
9108899 ATTATGTAAA
1 ATTATGTAAA
9108909 ATTAT
1 ATTAT
9108914 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:9108995 original size:29 final size:29
Alignment explanation
Indices: 9108962--9109175 Score: 324
Period size: 29 Copynumber: 7.3 Consensus size: 29
9108952 AAATTATGTA
9108962 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
9108991 AAATTAGGATAGGGTTAGAGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
9109020 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
9109050 AAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
*
9109080 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
9109109 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
9109139 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
9109168 AAATTAGG
1 AAATTAGG
9109176 ATTTTTATTA
Statistics
Matches: 168, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
28 2 0.01
29 88 0.52
30 76 0.45
31 1 0.01
32 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:9109051 original size:59 final size:58
Alignment explanation
Indices: 9108962--9109177 Score: 319
Period size: 59 Copynumber: 3.7 Consensus size: 58
9108952 AAATTATGTA
*
9108962 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTAGAGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTAGGGTTTTTAATT
* *
9109020 AAATTAGGTTAGGG-CAGTGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGATAGGG-TTAGGGTTTTTAATT
* * *
9109080 AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTA--GGGTTTTTAATT
9109139 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGAT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGAT
9109178 TTTTATTACA
Statistics
Matches: 144, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
57 2 0.01
58 14 0.10
59 100 0.69
60 27 0.19
61 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.43
Consensus pattern (58 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTAGGGTTTTTAATT
Found at i:9109075 original size:89 final size:88
Alignment explanation
Indices: 9108962--9109177 Score: 396
Period size: 89 Copynumber: 2.4 Consensus size: 88
9108952 AAATTATGTA
*
9108962 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTAGAGTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAAGGTTAGAGTTTTTAATTAAATTAG
9109027 GTTAGGGCAGTGGGTTTTTAATT
66 GTTAGGGCAGTGGGTTTTTAATT
* *
9109050 AAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTA
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGATAAGGTTAGAGTTTTTAATTAAATTA
9109115 GGTTAGGGCAGTGGGTTTTTAATT
65 GGTTAGGGCAGTGGGTTTTTAATT
9109139 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGAT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGAT
9109178 TTTTATTACA
Statistics
Matches: 123, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
88 38 0.31
89 85 0.69
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.43
Consensus pattern (88 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAAGGTTAGAGTTTTTAATTAAATTAG
GTTAGGGCAGTGGGTTTTTAATT
Found at i:9109287 original size:25 final size:25
Alignment explanation
Indices: 9109178--9109363 Score: 94
Period size: 25 Copynumber: 7.7 Consensus size: 25
9109168 AAATTAGGAT
9109178 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATA-AACTTCTA
*
9109204 TTTTATTATATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
9109227 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
* *
9109249 TTCCTATTATATCAAATAAACTTCTA
1 TT-TTATTACATCAAATAAACTTCTA
9109275 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
9109298 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
**
9109320 TGCGTATTACATCAAATAAACTTCTA
1 T-TTTATTACATCAAATAAACTTCTA
9109346 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
9109364 TAAATTTAAA
Statistics
Matches: 119, Mismatches: 21, Indels: 41
0.66 0.12 0.23
Matches are distributed among these distances:
20 4 0.03
21 21 0.18
22 4 0.03
23 4 0.03
24 8 0.07
25 40 0.34
26 38 0.32
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.39
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:9109288 original size:71 final size:71
Alignment explanation
Indices: 9109181--9109365 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
9109171 TTAGGATTTT
*
9109181 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
*
9109246 CTATTCC
65 CTATGCC
*
9109253 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
*
9109318 TATGCG
66 TATGCC
9109324 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
9109366 AATTTAAATA
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 95 0.88
72 13 0.12
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.38
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:9110463 original size:7 final size:7
Alignment explanation
Indices: 9110453--9110477 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9110443 TTATATACAT
9110453 AATACTA
1 AATACTA
9110460 AATACTA
1 AATACTA
9110467 AATACTA
1 AATACTA
9110474 AATA
1 AATA
9110478 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:9111656 original size:51 final size:51
Alignment explanation
Indices: 9111591--9111749 Score: 291
Period size: 51 Copynumber: 3.1 Consensus size: 51
9111581 TTTAAAAAAT
*
9111591 GAAATTGAGGGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
* *
9111642 GAAATTGAGAGGAAATTGAAAGTAAATATTGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
9111693 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
9111744 GAAATT
1 GAAATT
9111750 TGGAAAGAAA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 103 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
Found at i:9112500 original size:18 final size:19
Alignment explanation
Indices: 9112477--9112512 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9112467 TCTTTTTACG
*
9112477 TAATTAA-TATAAAAATAA
1 TAATTAATTACAAAAATAA
9112495 TAATTAATTACAAAAATA
1 TAATTAATTACAAAAATA
9112513 GTATGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATTAATTACAAAAATAA
Found at i:9115412 original size:37 final size:37
Alignment explanation
Indices: 9115362--9115454 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
9115352 TAATAAGTTG
*
9115362 ACACCCAGTGTCTCATCGGTAAAACCAAAGAAAATTA
1 ACACCCAGTGTCTCATCGATAAAACCAAAGAAAATTA
* * * *
9115399 ACACCCAGTGTCTCATCGATTAAACCGAAGCAAATTG
1 ACACCCAGTGTCTCATCGATAAAACCAAAGAAAATTA
*
9115436 ACACCCAGTGCCTCATCGA
1 ACACCCAGTGTCTCATCGA
9115455 CTCATAGTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.19
Consensus pattern (37 bp):
ACACCCAGTGTCTCATCGATAAAACCAAAGAAAATTA
Found at i:9121423 original size:18 final size:18
Alignment explanation
Indices: 9121396--9121430 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9121386 ATAAAATATT
*
9121396 ATAGGCCCAATCTATTAG
1 ATAGGCCCAATATATTAG
*
9121414 ATAGGTCCAATATATTA
1 ATAGGCCCAATATATTA
9121431 TGTAAGTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
ATAGGCCCAATATATTAG
Found at i:9134411 original size:30 final size:30
Alignment explanation
Indices: 9134370--9134427 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9134360 AATTTTTAAA
*
9134370 ATTTCGGACATCCTAGTATCTACTGGTAGT
1 ATTTCGGACATCCTAATATCTACTGGTAGT
* *
9134400 ATTTTGGACATCCTAATGTCTACTGGTA
1 ATTTCGGACATCCTAATATCTACTGGTA
9134428 ACATAGAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (30 bp):
ATTTCGGACATCCTAATATCTACTGGTAGT
Found at i:9140573 original size:25 final size:24
Alignment explanation
Indices: 9140545--9140740 Score: 73
Period size: 24 Copynumber: 8.0 Consensus size: 24
9140535 ATCCGGGCAA
*
9140545 TATAACGGGAAGCTCATAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
*
9140570 TATAACGGGTAGCTCCAAAGAG-C
1 TATAACGGGAAGCTCCAAAGAGCC
* * ***
9140593 AATTAACGGGTAGCTTTGAAGAG--
1 TA-TAACGGGAAGCTCCAAAGAGCC
* * * *
9140616 TAATTAATGGGAAGCACCGAATAGCC
1 T-A-TAACGGGAAGCTCCAAAGAGCC
* * *
9140642 ATATAACGGAAAG-TTCAAGTGAG-C
1 -TATAACGGGAAGCTCCAA-AGAGCC
9140666 -ACTAACGGGAAGCTCACAAAGAGCC
1 TA-TAACGGGAAGCTC-CAAAGAGCC
* *
9140691 TTTAATCAGGAAGCTCACAAAGAGCC
1 TATAA-CGGGAAGCTC-CAAAGAGCC
* *
9140717 ATATAACAGGACGCT-CATAAGAGC
1 -TATAACGGGAAGCTCCA-AAGAGC
9140741 TGCGGTGTGC
Statistics
Matches: 130, Mismatches: 27, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
22 1 0.01
23 11 0.08
24 48 0.37
25 37 0.28
26 28 0.22
27 5 0.04
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:9140599 original size:24 final size:26
Alignment explanation
Indices: 9140541--9140607 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 26
9140531 GCTTATCCGG
* *
9140541 GCAATATAACGGGAAGCTCATAAAGA
1 GCAATATAACGGGTAGCTCACAAAGA
*
9140567 GC-CTATAACGGGTAGCTC-CAAAGA
1 GCAATATAACGGGTAGCTCACAAAGA
9140591 GCAAT-TAACGGGTAGCT
1 GCAATATAACGGGTAGCT
9140608 TTGAAGAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 19 0.53
25 15 0.42
26 2 0.06
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.18
Consensus pattern (26 bp):
GCAATATAACGGGTAGCTCACAAAGA
Found at i:9140702 original size:26 final size:26
Alignment explanation
Indices: 9140668--9140733 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
9140658 AAGTGAGCAC
* *
9140668 TAACGGGAAGCTCACAAAGAGCC-TT
1 TAACAGGAAGCTCACAAAGAGCCATA
9140693 TAATCAGGAAGCTCACAAAGAGCCATA
1 TAA-CAGGAAGCTCACAAAGAGCCATA
*
9140720 TAACAGGACGCTCA
1 TAACAGGAAGCTCA
9140734 TAAGAGCTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.08
26 29 0.81
27 4 0.11
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (26 bp):
TAACAGGAAGCTCACAAAGAGCCATA
Found at i:9141388 original size:21 final size:21
Alignment explanation
Indices: 9141346--9141389 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
9141336 AGCCCATGAA
* *
9141346 TTCCATGAAATTTTAGAATTT
1 TTCCATGAAATTTAAAAATTT
*
9141367 TTCCATG-AATTTAAAAACTT
1 TTCCATGAAATTTAAAAATTT
9141387 TTC
1 TTC
9141390 AATTTAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (21 bp):
TTCCATGAAATTTAAAAATTT
Found at i:9142705 original size:91 final size:91
Alignment explanation
Indices: 9142588--9142766 Score: 295
Period size: 91 Copynumber: 2.0 Consensus size: 91
9142578 TCAAAATGTC
* *
9142588 AAAAATGTAATTTTACAGCAATTAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTG
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTG
** *
9142653 CATCAGTCAAACACATCCAAATAGTA
66 CATCAACCAAAAACATCCAAATAGTA
* *
9142679 AAAAATGTAACTTTACAGCAAATAAATAATGTGAAAACACTTTCTAAAATCTTCATTTAAGATTG
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTG
9142744 CATCAACCAAAAACATCCAAATA
66 CATCAACCAAAAACATCCAAATA
9142767 ACATAAGGGA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (91 bp):
AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTG
CATCAACCAAAAACATCCAAATAGTA
Found at i:9158001 original size:158 final size:158
Alignment explanation
Indices: 9157713--9158027 Score: 630
Period size: 158 Copynumber: 2.0 Consensus size: 158
9157703 AGCATAATCA
9157713 CATAACCAATTTCATCATTTTACCATAACGTGCTTCTGGCCCAAATCACGACCCAACCAAAAATT
1 CATAACCAATTTCATCATTTTACCATAACGTGCTTCTGGCCCAAATCACGACCCAACCAAAAATT
9157778 GATCGAAATGGGCCCACATGCCCTACTTTTCCAACCTGTGTGGCCCACACGGCCAGGCACACACT
66 GATCGAAATGGGCCCACATGCCCTACTTTTCCAACCTGTGTGGCCCACACGGCCAGGCACACACT
9157843 TGTGTGGCTCACATGGTCAGGCACATGG
131 TGTGTGGCTCACATGGTCAGGCACATGG
9157871 CATAACCAATTTCATCATTTTACCATAACGTGCTTCTGGCCCAAATCACGACCCAACCAAAAATT
1 CATAACCAATTTCATCATTTTACCATAACGTGCTTCTGGCCCAAATCACGACCCAACCAAAAATT
9157936 GATCGAAATGGGCCCACATGCCCTACTTTTCCAACCTGTGTGGCCCACACGGCCAGGCACACACT
66 GATCGAAATGGGCCCACATGCCCTACTTTTCCAACCTGTGTGGCCCACACGGCCAGGCACACACT
9158001 TGTGTGGCTCACATGGTCAGGCACATG
131 TGTGTGGCTCACATGGTCAGGCACATG
9158028 ACTAGGCACA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (158 bp):
CATAACCAATTTCATCATTTTACCATAACGTGCTTCTGGCCCAAATCACGACCCAACCAAAAATT
GATCGAAATGGGCCCACATGCCCTACTTTTCCAACCTGTGTGGCCCACACGGCCAGGCACACACT
TGTGTGGCTCACATGGTCAGGCACATGG
Found at i:9161104 original size:35 final size:37
Alignment explanation
Indices: 9161058--9161129 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
9161048 TACGTATGTT
9161058 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
* *
9161093 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
9161130 TAAAGCTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 10 0.30
36 3 0.09
37 20 0.61
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
Found at i:9161172 original size:52 final size:52
Alignment explanation
Indices: 9161110--9161503 Score: 587
Period size: 52 Copynumber: 7.8 Consensus size: 52
9161100 CACTTTGTTT
** * *
9161110 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
* *
9161162 CTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCAC--T----TTGTCT
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
*
9161208 CTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
*
9161260 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
* * *
9161312 CTTGATCAGATAAGTGTAGCCGAAACTATCACTTTTCAC--T----TTGTCT
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
*
9161358 CTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
9161410 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
*
9161462 CTTGATCAGATAAGTGTAGCCGAAGCTATCACCTATCACTTT
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
9161504 GTCACTTGAT
Statistics
Matches: 310, Mismatches: 20, Indels: 24
0.88 0.06 0.07
Matches are distributed among these distances:
46 83 0.27
48 2 0.01
50 2 0.01
52 223 0.72
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (52 bp):
CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
Found at i:9161222 original size:98 final size:98
Alignment explanation
Indices: 9161093--9161517 Score: 549
Period size: 98 Copynumber: 4.3 Consensus size: 98
9161083 TAAGTGTAGC
** * * *
9161093 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTCCACTT
*
9161158 GTCACTTGATCAGATAAGTGTAGCCGAAACTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
9161191 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTCCACTT
*
9161256 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9161289 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAA-CTATCACTTTTCAC--
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCC-AAAGCTATCACTTATCACTT
* *
9161351 T----TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
59 TCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9161387 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT
9161452 CCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
60 CCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9161491 CACCTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9161518 AGTACTCAAA
Statistics
Matches: 293, Mismatches: 20, Indels: 28
0.86 0.06 0.08
Matches are distributed among these distances:
97 2 0.01
98 205 0.70
100 2 0.01
102 2 0.01
104 80 0.27
105 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:9161381 original size:150 final size:150
Alignment explanation
Indices: 9161110--9161517 Score: 744
Period size: 150 Copynumber: 2.7 Consensus size: 150
9161100 CACTTTGTTT
* * *
9161110 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTTGTCACTTGATCAGATAA
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
9161175 GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
66 GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
9161240 TTATCACTTTCCACTTGTCA
131 TTATCACTTTCCACTTGTCA
9161260 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
*
9161325 GTGTAGCCGAAACTATCACTTTTCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
66 GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
9161390 TTATCACTTTCCACTTGTCA
131 TTATCACTTTCCACTTGTCA
*
9161410 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
* * *
9161475 GTGTAGCCGAAGCTATCACCTATCACTTTGTCACTTGATCAGA
66 GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGA
9161518 AGTACTCAAA
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 249 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (150 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
TTATCACTTTCCACTTGTCA
Found at i:9166058 original size:20 final size:21
Alignment explanation
Indices: 9166033--9166075 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
9166023 ATATTTTAAA
* *
9166033 TTCTTTTTATTTTAT-TTTAT
1 TTCTTTTAATATTATATTTAT
9166053 TTCTTTTAATATTATATTTAT
1 TTCTTTTAATATTATATTTAT
9166074 TT
1 TT
9166076 AAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTTAATATTATATTTAT
Found at i:9172908 original size:17 final size:17
Alignment explanation
Indices: 9172883--9172966 Score: 89
Period size: 17 Copynumber: 4.8 Consensus size: 17
9172873 ATCCAAAAAC
9172883 AAATATATAAAAAATTCA
1 AAAT-TATAAAAAATTCA
*
9172901 AAATTATAAAAAATTAGA
1 AAATTATAAAAAATT-CA
*
9172919 AAATTATAAGAAAAAT-A
1 AAATTATAA-AAAATTCA
*
9172936 TAAATTCTAAAAAATTCA
1 -AAATTATAAAAAATTCA
*
9172954 AAACTATAAAAAA
1 AAATTATAAAAAA
9172967 AATAGTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
17 28 0.50
18 23 0.41
19 5 0.09
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATTATAAAAAATTCA
Found at i:9172912 original size:18 final size:18
Alignment explanation
Indices: 9172886--9172967 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 18
9172876 CAAAAACAAA
9172886 TATATAAAAAATTCAAAAT
1 TATA-AAAAAATTCAAAAT
*
9172905 TAT-AAAAAATTAGAAAAT
1 TATAAAAAAATT-CAAAAT
9172923 TATAAGAAAAA-T-ATAAAT
1 TATAA-AAAAATTCA-AAAT
* *
9172941 TCT-AAAAAATTCAAAAC
1 TATAAAAAAATTCAAAAT
9172958 TATAAAAAAA
1 TATAAAAAAA
9172968 ATAGTTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
16 5 0.10
17 16 0.31
18 21 0.40
19 5 0.10
20 5 0.10
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
TATAAAAAAATTCAAAAT
Found at i:9172968 original size:35 final size:36
Alignment explanation
Indices: 9172901--9172970 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
9172891 AAAAAATTCA
* * *
9172901 AAATTATAAAAAATTAGAAAATTATAAGAAAAATAT
1 AAATTATAAAAAATTACAAAACTATAAAAAAAATAT
*
9172937 AAATTCTAAAAAATT-CAAAACTATAAAAAAAATA
1 AAATTATAAAAAATTACAAAACTATAAAAAAAATA
9172971 GTTAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (36 bp):
AAATTATAAAAAATTACAAAACTATAAAAAAAATAT
Found at i:9174099 original size:4 final size:4
Alignment explanation
Indices: 9174092--9174125 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
9174082 ATATATATAT
9174092 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
9174126 TTTAACAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:9176929 original size:37 final size:37
Alignment explanation
Indices: 9176879--9176951 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
9176869 ACCAATCCTA
9176879 GTGTCTAGCATTAGGATTCAACTACTGTTGACTTACT
1 GTGTCTAGCATTAGGATTCAACTACTGTTGACTTACT
*
9176916 GTGTCTAGCATTAGGATTCAACTATTGTTGACTTAC
1 GTGTCTAGCATTAGGATTCAACTACTGTTGACTTAC
9176952 CAATCCTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (37 bp):
GTGTCTAGCATTAGGATTCAACTACTGTTGACTTACT
Found at i:9183368 original size:27 final size:27
Alignment explanation
Indices: 9183051--9183364 Score: 340
Period size: 27 Copynumber: 11.7 Consensus size: 27
9183041 GCTTGGGCTA
*
9183051 TAAAATTACTGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
* *
9183078 TAAAATTA-TCGAAATACCTTTAATGGG
1 TAAAATTACT-GAAATACCCTTGATGGG
*
9183105 TAAAATTA-TCGAAATGCCCTTGATGGG
1 TAAAATTACT-GAAATACCCTTGATGGG
* *
9183132 TAAAGTTACTGAAATGCCCTTGATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
9183159 TAAAATTACTGAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
* * * *
9183186 TAAAATTACAGAAA-AACCTTAATGAG
1 TAAAATTACTGAAATACCCTTGATGGG
* *
9183212 TAAAATTAAC-AAAATATCC--GATGGG
1 TAAAATT-ACTGAAATACCCTTGATGGG
9183237 TAAAATTA-TCGAAATACCCTTGATGGG
1 TAAAATTACT-GAAATACCCTTGATGGG
** *
9183264 TAAAATTACCAAAATACCCTCT-ATGGA
1 TAAAATTACTGAAATACCCT-TGATGGG
*
9183291 TAGAATTA-TCGAAATACCCTTGATGGG
1 TAAAATTACT-GAAATACCCTTGATGGG
* * *
9183318 TAAAATTTCTAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
9183345 TAAAATTACTGAAATACCCT
1 TAAAATTACTGAAATACCCT
9183365 CGATAGAATA
Statistics
Matches: 242, Mismatches: 32, Indels: 26
0.81 0.11 0.09
Matches are distributed among these distances:
24 1 0.00
25 18 0.07
26 21 0.09
27 199 0.82
28 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTTGATGGG
Found at i:9183593 original size:26 final size:26
Alignment explanation
Indices: 9183517--9183596 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
9183507 GGCTCTGCCA
*
9183517 CACACATACTGATACTGGTGGCTTCGC
1 CACA-ATACTGATACTGGTGGCTTTGC
*
9183544 CACAATTACTGTTACTGGTGGCTTTGC
1 CACAA-TACTGATACTGGTGGCTTTGC
**
9183571 CACATATACTG-TACTGGCAGCTTTGC
1 CACA-ATACTGATACTGGTGGCTTTGC
9183597 TGCGTTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 14 0.30
27 32 0.68
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (26 bp):
CACAATACTGATACTGGTGGCTTTGC
Found at i:9190573 original size:38 final size:40
Alignment explanation
Indices: 9190500--9190587 Score: 126
Period size: 38 Copynumber: 2.2 Consensus size: 40
9190490 TAAAAATTAT
* *
9190500 TTATATTAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACTACAATAAATATAATAAATATTTTA
*
9190540 TTATATTAAAAAAAC-A-AATAAATATAATGAATATTTTA
1 TTATATTAAAAAAACTACAATAAATATAATAAATATTTTA
*
9190578 TTGTATTAAA
1 TTATATTAAA
9190588 TGTAATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 29 0.66
39 1 0.02
40 14 0.32
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (40 bp):
TTATATTAAAAAAACTACAATAAATATAATAAATATTTTA
Found at i:9191243 original size:16 final size:16
Alignment explanation
Indices: 9191212--9191257 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9191202 TTTATTTAAT
*
9191212 TGAATTAAT-TTTAAA
1 TGAATTAATATTAAAA
*
9191227 TGTTATT-ATATTAAAA
1 TG-AATTAATATTAAAA
9191243 TGAATTAATATTAAA
1 TGAATTAATATTAAA
9191258 TTCTTAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (16 bp):
TGAATTAATATTAAAA
Found at i:9191258 original size:15 final size:15
Alignment explanation
Indices: 9191207--9191258 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
9191197 AAGATTTTAT
* *
9191207 TTAATTGAATTAATT
1 TTAAATGAATTAATA
*
9191222 TTAAATGTTATT-ATA
1 TTAAATG-AATTAATA
9191237 TTAAAATGAATTAATA
1 TT-AAATGAATTAATA
9191253 TTAAAT
1 TTAAAT
9191259 TCTTAAGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TTAAATGAATTAATA
Found at i:9191992 original size:14 final size:14
Alignment explanation
Indices: 9191968--9192001 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9191958 CTACTTATAT
*
9191968 TATTCAACATTTTA
1 TATTAAACATTTTA
*
9191982 TGTTAAACATTTTA
1 TATTAAACATTTTA
9191996 TATTAA
1 TATTAA
9192002 GTAAAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (14 bp):
TATTAAACATTTTA
Found at i:9192557 original size:28 final size:28
Alignment explanation
Indices: 9192478--9192557 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 28
9192468 AAATAATAAA
** * *
9192478 TAATAAATTTTAGAAAAATTATTAAATTT
1 TAATAAAAATTAG-AAAATTTTTAAAATT
**
9192507 TAATAAAAATATA-AAAAAATTTAAAATT
1 TAATAAAAAT-TAGAAAATTTTTAAAATT
*
9192535 TATTAAAAATTAGAAAATTTTTA
1 TAATAAAAATTAGAAAATTTTTA
9192558 TAAAAACCGT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
27 2 0.05
28 28 0.70
29 8 0.20
30 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (28 bp):
TAATAAAAATTAGAAAATTTTTAAAATT
Found at i:9192820 original size:28 final size:28
Alignment explanation
Indices: 9192788--9192853 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
9192778 ACATTTTGTG
9192788 TAATTTTTTATGACTT-TAAAAAATTTTA
1 TAATTTTTTAT-ACTTCTAAAAAATTTTA
* *
9192816 TAATTTTTTTATATTTCTATAAAATTTTA
1 TAA-TTTTTTATACTTCTAAAAAATTTTA
*
9192845 CAATTTTTT
1 TAATTTTTT
9192854 CTATATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (28 bp):
TAATTTTTTATACTTCTAAAAAATTTTA
Found at i:9194190 original size:22 final size:24
Alignment explanation
Indices: 9194165--9194210 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
9194155 AACACATTTA
*
9194165 GAGAATTTTTTG-TTT-AAGTTTT
1 GAGAATTATTTGTTTTCAAGTTTT
*
9194187 GAGAGTTATTTGTTTTCAAGTTTT
1 GAGAATTATTTGTTTTCAAGTTTT
9194211 CGGGGTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 3 0.15
24 7 0.35
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.57
Consensus pattern (24 bp):
GAGAATTATTTGTTTTCAAGTTTT
Found at i:9196964 original size:45 final size:44
Alignment explanation
Indices: 9196900--9197050 Score: 144
Period size: 45 Copynumber: 3.4 Consensus size: 44
9196890 TACCAATGGT
* * *
9196900 TGTGGAAACACAAC-AAAATCTCGCAAATAGAATATGCTTATGGC
1 TGTGGATACACAGCAAAAATCTCGCAGATAGAATATGCTT-TGGC
* * * * *
9196944 TGTGGATACATAGTAAAAATCTTGCAGATAAAATTTAT-CTTTAGC
1 TGTGGATACACAGCAAAAATCTCGCAGATAGAA--TATGCTTTGGC
* * *
9196989 TGTGAATACACAGCAAAAATCTCGCAGATAGAATCTGCCTCTGGC
1 TGTGGATACACAGCAAAAATCTCGCAGATAGAATATG-CTTTGGC
*
9197034 TGTGGATACACAACAAA
1 TGTGGATACACAGCAAA
9197051 TTTGCAAATA
Statistics
Matches: 84, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
43 2 0.02
44 10 0.12
45 66 0.79
46 3 0.04
47 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (44 bp):
TGTGGATACACAGCAAAAATCTCGCAGATAGAATATGCTTTGGC
Found at i:9197245 original size:34 final size:34
Alignment explanation
Indices: 9197157--9197255 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 34
9197147 GTAATATGAT
* *
9197157 ATGCTTATAACAGATCAATA-TAGTA-ACAATTAAA
1 ATGCTTATAATAGATCAATACGA-TAGA-AATTAAA
*
9197191 ATGCTTATAATAGATCAATACGATAGAAATTAAT
1 ATGCTTATAATAGATCAATACGATAGAAATTAAA
* * *
9197225 ATGCTTATGATAGATCAATACGGTAGCAATT
1 ATGCTTATAATAGATCAATACGATAGAAATT
9197256 TGTAACCTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
34 55 0.96
35 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (34 bp):
ATGCTTATAATAGATCAATACGATAGAAATTAAA
Found at i:9201791 original size:9 final size:9
Alignment explanation
Indices: 9201769--9201805 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
9201759 TAAAAAGTAT
9201769 TATTTTAT-
1 TATTTTATA
9201777 TATTTTATA
1 TATTTTATA
9201786 TATTTTATA
1 TATTTTATA
*
9201795 TATTTAATA
1 TATTTTATA
9201804 TA
1 TA
9201806 AATTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TATTTTATA
Found at i:9202093 original size:16 final size:17
Alignment explanation
Indices: 9202072--9202104 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9202062 CAATATAAGT
9202072 TTTTAAAATA-ATTTTA
1 TTTTAAAATATATTTTA
*
9202088 TTTTAAATTATATTTTA
1 TTTTAAAATATATTTTA
9202105 ATTCATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATATATTTTA
Found at i:9203455 original size:10 final size:10
Alignment explanation
Indices: 9203413--9203526 Score: 74
Period size: 10 Copynumber: 11.4 Consensus size: 10
9203403 GGGTTTAAAT
9203413 TTTTTTAT-A
1 TTTTTTATAA
*
9203422 TTATTTATATA
1 TTTTTTATA-A
* *
9203433 TTATTTATGA
1 TTTTTTATAA
9203443 TTTTTTATAA
1 TTTTTTATAA
*
9203453 TTTTTTTTAA
1 TTTTTTATAA
**
9203463 TTTTAAAT-A
1 TTTTTTATAA
9203472 TTTTTTATTAA
1 TTTTTTA-TAA
**
9203483 TTTGATA-AA
1 TTTTTTATAA
9203492 TTTTTATATAA
1 TTTTT-TATAA
* *
9203503 GTTTTTATGA
1 TTTTTTATAA
9203513 -TTTTTATAAA
1 TTTTTTAT-AA
9203523 TTTT
1 TTTT
9203527 AAGTTTATAA
Statistics
Matches: 80, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
9 25 0.31
10 31 0.39
11 24 0.30
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.66
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:9203477 original size:17 final size:18
Alignment explanation
Indices: 9203445--9203478 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9203435 ATTTATGATT
*
9203445 TTTTATAATTTTTTTTAA
1 TTTTATAATATTTTTTAA
9203463 TTTTA-AATATTTTTTA
1 TTTTATAATATTTTTTA
9203479 TTAATTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATAATATTTTTTAA
Found at i:9203601 original size:23 final size:22
Alignment explanation
Indices: 9203565--9203613 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
9203555 ATGTTTAATA
*
9203565 TTTTTATGA-TTTTTAATGAATTT
1 TTTTTATAAGTTTTTAA-G-ATTT
9203588 TTTTTATAAGTTTTTAAGATTT
1 TTTTTATAAGTTTTTAAGATTT
9203610 TTTT
1 TTTT
9203614 ACATTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 9 0.38
24 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.67
Consensus pattern (22 bp):
TTTTTATAAGTTTTTAAGATTT
Found at i:9203648 original size:19 final size:18
Alignment explanation
Indices: 9203626--9203755 Score: 65
Period size: 19 Copynumber: 6.9 Consensus size: 18
9203616 ATTATTATAA
9203626 AATTTTAAATATTTTTATT
1 AATTTT-AATATTTTTATT
* *
9203645 AATTTT-ATAATTGATT-TG
1 AATTTTAAT-ATT-TTTATT
9203663 AATTATT-ATATTTTTA-T
1 AATT-TTAATATTTTTATT
* *
9203680 AATATTT-ATAAGTTTATATC
1 AAT-TTTAAT-A-TTTTTATT
9203700 AATTTTAATATTTTT-TT
1 AATTTTAATATTTTTATT
*
9203717 AAATATTTAATAATTTTTATG
1 -AAT-TTTAAT-ATTTTTATT
*
9203738 ATTTTTTAATATTTTTAT
1 A-ATTTTAATATTTTTAT
9203756 GAGATAATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
17 12 0.14
18 20 0.23
19 35 0.40
20 18 0.21
21 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (18 bp):
AATTTTAATATTTTTATT
Found at i:9203652 original size:29 final size:29
Alignment explanation
Indices: 9203589--9203654 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
9203579 AATGAATTTT
* *
9203589 TTTTAT-AAGTTTTTAAGATTTTTTTACA
1 TTTTATAAAATTTTAAAGATTTTTTTACA
*
9203617 TTATTATAAAATTTTAAATATTTTTATTA-A
1 TT-TTATAAAATTTTAAAGATTTTT-TTACA
9203647 TTTTATAA
1 TTTTATAA
9203655 TTGATTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.06
29 10 0.31
30 17 0.53
31 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTTATAAAATTTTAAAGATTTTTTTACA
Found at i:9203756 original size:19 final size:19
Alignment explanation
Indices: 9203425--9203757 Score: 103
Period size: 20 Copynumber: 17.8 Consensus size: 19
9203415 TTTTATATTA
9203425 TTTATATATTATTTATG-ATT
1 TTTA-ATATT-TTTATGAATT
* * *
9203445 TTTTATAATTTTTTTTAATT
1 TTTAAT-ATTTTTATGAATT
* *
9203465 TTAAATATTTTTTATTAATT
1 TTTAATA-TTTTTATGAATT
* *
9203485 TGATAA-ATTTTTATATAAGTT
1 T-TTAATATTTTTAT-GAA-TT
*
9203506 TTT-ATGATTTTTAT-AAAT
1 TTTAAT-ATTTTTATGAATT
* * *
9203524 TTTAA-GTTTATAAGAA-T
1 TTTAATATTTTTATGAATT
*
9203541 TTTAATATTTTT-T-AATG
1 TTTAATATTTTTATGAATT
9203558 TTTAATATTTTTATG-ATT
1 TTTAATATTTTTATGAATT
*
9203576 TTTAATGAATTTT-T---TT
1 TTTAAT-ATTTTTATGAATT
* * * *
9203592 TATAA-GTTTTTAAGATTT
1 TTTAATATTTTTATGAATT
* * * *
9203610 TTTTACATTATTATAAAATT
1 TTTAATATTTTTAT-GAATT
* *
9203630 TTAAATATTTTTATTAATT
1 TTTAATATTTTTATGAATT
**
9203649 TTATAAT-TGATT-TGAATT
1 TT-TAATATTTTTATGAATT
*
9203667 ATT-ATATTTTTAT-AATAT
1 TTTAATATTTTTATGAAT-T
* * *
9203685 TTATAA-GTTTATATCAA-T
1 TT-TAATATTTTTATGAATT
* * *
9203703 TTTAATATTTTTTTAAATA
1 TTTAATATTTTTATGAATT
*
9203722 TTTAATAATTTTTATGATTT
1 TTTAAT-ATTTTTATGAATT
9203742 TTTAATATTTTTATGA
1 TTTAATATTTTTATGA
9203758 GATAATATTA
Statistics
Matches: 228, Mismatches: 54, Indels: 63
0.66 0.16 0.18
Matches are distributed among these distances:
14 4 0.02
16 10 0.04
17 33 0.14
18 44 0.19
19 60 0.26
20 64 0.28
21 13 0.06
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTAATATTTTTATGAATT
Found at i:9208300 original size:23 final size:23
Alignment explanation
Indices: 9208274--9208320 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
9208264 GAAGTGGACG
9208274 GTTTGT-GGAGAGATAGTAGGAGA
1 GTTTGTAGGAGAGA-AGTAGGAGA
* *
9208297 GTTTTTAGGAGAGAATTAGGAGA
1 GTTTGTAGGAGAGAAGTAGGAGA
9208320 G
1 G
9208321 GTTGGGGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (23 bp):
GTTTGTAGGAGAGAAGTAGGAGA
Found at i:9210560 original size:15 final size:14
Alignment explanation
Indices: 9210528--9210562 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9210518 TGGATGTGGG
9210528 TTTTTAAGACGTGA
1 TTTTTAAGACGTGA
9210542 TTTTTAAGAAC-TGA
1 TTTTTAAG-ACGTGA
9210556 TTTTTAA
1 TTTTTAA
9210563 ATATTTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (14 bp):
TTTTTAAGACGTGA
Found at i:9210691 original size:25 final size:25
Alignment explanation
Indices: 9210663--9210714 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
9210653 CTGTTTTTGA
*
9210663 TAGTATAT-CTTGAAACTGCTATAGG
1 TAGTATATAC-TGAAACTACTATAGG
*
9210688 TAGTATATACTGAGACTACTATAGG
1 TAGTATATACTGAAACTACTATAGG
9210713 TA
1 TA
9210715 AATTGTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:9225667 original size:23 final size:23
Alignment explanation
Indices: 9225640--9225687 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9225630 AAACTATACT
9225640 AAAAATAAGAAAGT-AAATAAACA
1 AAAAATAAGAAA-TCAAATAAACA
* *
9225663 AAAAATGAGAAATCAAATAATCA
1 AAAAATAAGAAATCAAATAAACA
9225686 AA
1 AA
9225688 TATGTATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (23 bp):
AAAAATAAGAAATCAAATAAACA
Found at i:9236082 original size:25 final size:25
Alignment explanation
Indices: 9236034--9236102 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
9236024 TCAGTATAGT
* * * *
9236034 CTATCTATAGTAGTCTAAGTATATA
1 CTATCTATAGCAGTTTCAGGATATA
9236059 CTATCTATAGCAGTTTCAGGATATA
1 CTATCTATAGCAGTTTCAGGATATA
*
9236084 CTATC-AAAGACAGTTTCAG
1 CTATCTATAG-CAGTTTCAG
9236103 ATTCAGTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 3 0.08
25 35 0.92
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATCTATAGCAGTTTCAGGATATA
Found at i:9237405 original size:17 final size:18
Alignment explanation
Indices: 9237373--9237407 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9237363 CCATGATGTT
*
9237373 CGCCCGTGTGGGCCCACA
1 CGCCCATGTGGGCCCACA
9237391 CGCCCATGT-GGCCCACA
1 CGCCCATGTGGGCCCACA
9237408 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.46, G:0.29, T:0.11
Consensus pattern (18 bp):
CGCCCATGTGGGCCCACA
Found at i:9238983 original size:11 final size:11
Alignment explanation
Indices: 9238967--9239027 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
9238957 TCAATTATTT
9238967 TCTCAATTTCC
1 TCTCAATTTCC
9238978 TCTCAATTTCC
1 TCTCAATTTCC
* * *
9238989 TCTTAAATTGC
1 TCTCAATTTCC
9239000 TCTCAATTTCC
1 TCTCAATTTCC
*
9239011 TTCTAAATTT-C
1 -TCTCAATTTCC
9239022 TCTCAA
1 TCTCAA
9239028 ATCCCTATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 5 0.12
11 28 0.68
12 8 0.20
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.46
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:9239009 original size:33 final size:33
Alignment explanation
Indices: 9238967--9239029 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
9238957 TCAATTATTT
* *
9238967 TCTCAATTTCC-TCTCAATTTCCTCTTAAATTGC
1 TCTCAATTTCCTTCTAAATTT-CTCTCAAATTGC
9239000 TCTCAATTTCCTTCTAAATTTCTCTCAAAT
1 TCTCAATTTCCTTCTAAATTTCTCTCAAAT
9239030 CCCTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 19 0.70
34 8 0.30
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.46
Consensus pattern (33 bp):
TCTCAATTTCCTTCTAAATTTCTCTCAAATTGC
Found at i:9240795 original size:18 final size:18
Alignment explanation
Indices: 9240772--9240812 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9240762 TTTTCAGATG
* *
9240772 ATCCTAGCCCTTTTATGT
1 ATCCTAACCCTTATATGT
9240790 ATCCTAACCCTTATATGT
1 ATCCTAACCCTTATATGT
*
9240808 TTCCT
1 ATCCT
9240813 TTTTCTAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.44
Consensus pattern (18 bp):
ATCCTAACCCTTATATGT
Found at i:9241099 original size:21 final size:22
Alignment explanation
Indices: 9241053--9241100 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
9241043 CCAACACCGA
9241053 CAACCAGATCCCCTACCAGATG
1 CAACCAGATCCCCTACCAGATG
9241075 -AACCAGAATCCCC-ACCAGA-G
1 CAACCAG-ATCCCCTACCAGATG
9241095 CAACCA
1 CAACCA
9241101 CAACCCCCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.04
21 17 0.71
22 6 0.25
ACGTcount: A:0.38, C:0.42, G:0.12, T:0.08
Consensus pattern (22 bp):
CAACCAGATCCCCTACCAGATG
Found at i:9241108 original size:21 final size:22
Alignment explanation
Indices: 9241053--9241108 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
9241043 CCAACACCGA
* *
9241053 CAACCAGATCCCCTACCAGATG
1 CAACCAGAACCCCCACCAGATG
*
9241075 -AACCAGAATCCCCACCAGA-G
1 CAACCAGAACCCCCACCAGATG
*
9241095 CAACCACAACCCCC
1 CAACCAGAACCCCC
9241109 GCCGAAAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.36, C:0.46, G:0.11, T:0.07
Consensus pattern (22 bp):
CAACCAGAACCCCCACCAGATG
Found at i:9241287 original size:49 final size:49
Alignment explanation
Indices: 9241233--9241329 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
9241223 GTTTATATTA
9241233 ATGTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
9241282 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTT
1 ATGTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATATTATTT
9241330 CTAGTTTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.47
Consensus pattern (49 bp):
ATGTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:9241336 original size:31 final size:31
Alignment explanation
Indices: 9241300--9241361 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
9241290 AAATACAAAA
9241300 TAGTTTATTTTGAATATTTTGATATTATTTC
1 TAGTTTATTTTGAATATTTTGATATTATTTC
9241331 TAGTTTATTTTGAATATTTTGATATTATTTC
1 TAGTTTATTTTGAATATTTTGATATTATTTC
9241362 ATTTAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (31 bp):
TAGTTTATTTTGAATATTTTGATATTATTTC
Found at i:9241347 original size:80 final size:80
Alignment explanation
Indices: 9241251--9241410 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
9241241 AAATAAAAAA
* *
9241251 TAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAAAATAGTTTATTTTGAATA
1 TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
9241316 TTTTGATATTATTTC
66 TTTTGATATTATTTC
*
9241331 TAGTTTATTTTGAATATTTTGATATTATTTCATTTAATAAAATAAAAAATAGTTTATTTTGAATA
1 TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
9241396 TTTTGATATTATTTC
66 TTTTGATATTATTTC
9241411 ATTTAATAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.53
Consensus pattern (80 bp):
TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
TTTTGATATTATTTC
Found at i:9244917 original size:124 final size:125
Alignment explanation
Indices: 9244643--9244926 Score: 480
Period size: 124 Copynumber: 2.3 Consensus size: 125
9244633 AACATGCTAG
9244643 TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
* * * * *
9244708 AGCGTTTTTTTATACTATTTGCTTAGAAACTTCAACTCGAAATTATTTTTTCAGGACCTAC
66 AGCG-TTTTTTATACTACTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGACCTAC
*
9244769 TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
9244834 AGCG-TTTTTATACTACTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGACCTAC
66 AGCGTTTTTTATACTACTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGACCTAC
* *
9244893 TGTAGAAAAAGCGCGTTCACGTGGGAGCGATTTC
1 TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
9244927 CTTAATAAAA
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 81 0.54
126 68 0.46
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
AGCGTTTTTTATACTACTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGACCTAC
Found at i:9247278 original size:38 final size:38
Alignment explanation
Indices: 9247227--9247304 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
9247217 TTTGAAAAAG
9247227 AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
1 AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
9247265 AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
1 AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
9247303 AA
1 AA
9247305 GGAATTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.33
Consensus pattern (38 bp):
AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
Found at i:9248594 original size:160 final size:160
Alignment explanation
Indices: 9248411--9248726 Score: 587
Period size: 160 Copynumber: 2.0 Consensus size: 160
9248401 CTAAGTCTTG
*
9248411 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAATGTACCAT
1 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAACTAAATAGGTCAAACCATAAATGTACCAT
9248476 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATAACAGATAAGC
66 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATAACAGATAAGC
9248541 AAATTAGAACCAATTTATGTTTCCCTAAAA
131 AAATTAGAACCAATTTATGTTTCCCTAAAA
* *
9248571 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAACTAAATATGTCAAACCATAAGTGTACCAT
1 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAACTAAATAGGTCAAACCATAAATGTACCAT
* *
9248636 CCCAATTTAAAATAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATGACAGATAAGC
66 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATAACAGATAAGC
9248701 AAATTAGAACCAATTTATGTTTCCCT
131 AAATTAGAACCAATTTATGTTTCCCT
9248727 CCCCCTACTT
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 151 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (160 bp):
GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAACTAAATAGGTCAAACCATAAATGTACCAT
CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATAACAGATAAGC
AAATTAGAACCAATTTATGTTTCCCTAAAA
Found at i:9255981 original size:3 final size:3
Alignment explanation
Indices: 9255960--9256027 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
9255950 TTATTTATCA
* * * * *
9255960 TAT TAT TAC TAC TAC TAT TAT TAT TAG TAG TAT TA- TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
9256005 TAT TAC T-T TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
9256028 CTACTCATTC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
2 3 0.06
3 49 0.91
4 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:9256450 original size:14 final size:14
Alignment explanation
Indices: 9256433--9256467 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9256423 TTTTATACTT
9256433 TATATATATACACA
1 TATATATATACACA
*
9256447 TATATATATACACC
1 TATATATATACACA
9256461 TATATAT
1 TATATAT
9256468 GCATATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATATATACACA
Found at i:9261694 original size:7 final size:7
Alignment explanation
Indices: 9261682--9261724 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
9261672 GGATTTCAAA
9261682 AAAAATG
1 AAAAATG
9261689 AAAAATG
1 AAAAATG
*
9261696 -AGAATG
1 AAAAATG
9261702 AAAAATG
1 AAAAATG
9261709 AAAAATG
1 AAAAATG
9261716 AAAAATG
1 AAAAATG
9261723 AA
1 AA
9261725 GAAGCTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:9261703 original size:13 final size:13
Alignment explanation
Indices: 9261683--9261724 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
9261673 GATTTCAAAA
9261683 AAAATGAAAAATG
1 AAAATGAAAAATG
*
9261696 AGAATGAAAAATG
1 AAAATGAAAAATG
9261709 AAAAATGAAAAATG
1 -AAAATGAAAAATG
9261723 AA
1 AA
9261725 GAAGCTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:9263092 original size:87 final size:87
Alignment explanation
Indices: 9262943--9263423 Score: 687
Period size: 87 Copynumber: 5.5 Consensus size: 87
9262933 AGATCAGTGA
* *
9262943 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGAAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* *
9263008 CTTTCTGCATTGACAGCGAAGC
66 CTTTCTGCGTTAACAGCGAAGC
* * * *
9263030 AGATCGAAAACAAAGCCTTGCCTCCATCAGTTCCAGTGGAGCTGGTTGAAGATAGCAAATCTTAC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* *
9263095 CTTCCTGCGTTAATAGCGAAGC
66 CTTTCTGCGTTAACAGCGAAGC
* * * *
9263117 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
*
9263182 CTTTCTGCGTTAACAGCGAAGT
66 CTTTCTGCGTTAACAGCGAAGC
9263204 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* * *
9263269 CTTCCTGCATTAATAGCGAAGC
66 CTTTCTGCGTTAACAGCGAAGC
* **
9263291 AGATCGAAAACAAA-CCTTGCCTCCATTGGTTATAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
9263355 C-TTCTTGCGTTAACAGCGAAGC
66 CTTTC-TGCGTTAACAGCGAAGC
* * ** * * *
9263377 AGATCAAAAATAAAATCTTGCCTCCATCGATTACAGTGGAGCGGGTT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTT
9263424 AAAATAAAAG
Statistics
Matches: 350, Mismatches: 42, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
85 2 0.01
86 75 0.21
87 273 0.78
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
CTTTCTGCGTTAACAGCGAAGC
Found at i:9263540 original size:44 final size:44
Alignment explanation
Indices: 9263472--9263559 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
9263462 TAGATCGCAT
* *
9263472 CAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* * *
9263516 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
9263560 TGGATTAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:9263584 original size:44 final size:44
Alignment explanation
Indices: 9263487--9263590 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
9263477 TGAAGCCAGA
* * *
9263487 AATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAAT
* * **
9263531 AATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAG-TAAT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAAT
*
9263574 AGATCTTATCTCTCTGA
1 A-ATCTTATCTCCCTGA
9263591 AGTTACAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.08
44 46 0.92
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAAT
Found at i:9263712 original size:44 final size:43
Alignment explanation
Indices: 9263664--9263864 Score: 142
Period size: 44 Copynumber: 4.7 Consensus size: 43
9263654 AAATCAACCC
* * * *
9263664 TATCTCCCTAAAGTTATAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACC-CAGATCT
* * * * * *
9263708 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACATCGAG-TCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACCCAGATCT
* * * * *
9263749 TATCTCCCT-AAG-CAGTAGTAGAGCAGATAGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTA-CAGTAGAGCAGAT-TAA-AACCCAGATCT
* * *
9263792 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACC-CAGATCT
* *
9263836 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTGAAGTTACAGTAGAGCAGAT
9263865 CGCATCAAGT
Statistics
Matches: 117, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
40 14 0.12
41 11 0.09
42 6 0.05
43 22 0.19
44 64 0.55
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACCCAGATCT
Found at i:9263740 original size:128 final size:127
Alignment explanation
Indices: 9263531--9263953 Score: 587
Period size: 128 Copynumber: 3.3 Consensus size: 127
9263521 TGAAGCTAGT
* * *** * *
9263531 AATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTA
1 AATCCTATCTCCCTAAG-TTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
9263596 CAATAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCTGTAGTGGAGCAGACAGAAGAAATC
65 CAGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
* *
9263659 AACCCTATCTCCCTAAAGTTATAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCT-AAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * *
9263724 CAGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGAAACC
65 CAGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
*
9263787 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCT-AAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * *
9263852 CAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-GAAAGAAATA
65 CAGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG-AAGAAATC
* * * * *
9263915 AATCCTATTTCCCCGAAGTTGCAGTGGAGTGGATAAAAA
1 AATCCTATCT-CCCTAAGTTACAGTGGAGCGGATTAAAA
9263954 TCAATCCTAT
Statistics
Matches: 264, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
127 1 0.00
128 258 0.98
129 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (127 bp):
AATCCTATCTCCCTAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGC
AGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
Found at i:9265594 original size:3 final size:3
Alignment explanation
Indices: 9265588--9265637 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
9265578 TTACTACTGC
* *
9265588 TAT TAT TAT TAG TAT TA- TATT TAT TAT TAC T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
*
9265632 AAT TAT
1 TAT TAT
9265638 CTACTCATTC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 3 0.08
3 33 0.87
4 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9265977 original size:19 final size:19
Alignment explanation
Indices: 9265953--9266061 Score: 164
Period size: 19 Copynumber: 5.7 Consensus size: 19
9265943 AATCTTCAGG
*
9265953 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
9265972 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
9265991 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9266010 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
9266029 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9266048 GATATGCAATCTTA
1 GATATGCAATCTTA
9266062 AAAGATATGA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 79 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9266003 original size:38 final size:38
Alignment explanation
Indices: 9265960--9266061 Score: 186
Period size: 38 Copynumber: 2.7 Consensus size: 38
9265950 AGGGATATGC
*
9265960 AATCTTAAATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
9265998 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
9266036 AATCTTAGATATGATATGCAATCTTA
1 AATCTTAGATATGATATGCAATCTTA
9266062 AAAGATATGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:9266089 original size:22 final size:20
Alignment explanation
Indices: 9265953--9266089 Score: 131
Period size: 19 Copynumber: 6.9 Consensus size: 20
9265943 AATCTTCAGG
*
9265953 GATATGCAATCTTAA-ATAT
1 GATATGTAATCTTAAGATAT
*
9265972 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
* *
9265991 AATATATAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
9266010 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
9266029 GATATATAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
9266048 GATATGCAATCTTAAAAGATAT
1 GATATGTAATCTT--AAGATAT
*
9266070 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTA-AGAT
9266090 TTAATTTGTA
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.01
19 77 0.77
21 1 0.01
22 12 0.12
23 9 0.09
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (20 bp):
GATATGTAATCTTAAGATAT
Found at i:9266766 original size:25 final size:25
Alignment explanation
Indices: 9266702--9266769 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
9266692 TTTTTTGTAG
*
9266702 TATA-ATATAATTATTTTTTTATTTA
1 TATATATATAATTA-TTTTTTATCTA
* *
9266727 TTTATATGTAATTATTTTTTATCTA
1 TATATATATAATTATTTTTTATCTA
* *
9266752 TATGTATATATTTATTTT
1 TATATATATAATTATTTT
9266770 AGTATACATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
25 27 0.77
26 8 0.23
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (25 bp):
TATATATATAATTATTTTTTATCTA
Found at i:9268156 original size:20 final size:20
Alignment explanation
Indices: 9268111--9268148 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9268101 AATTTATATA
*
9268111 TATATATGCGTACATATTCT
1 TATATATGCATACATATTCT
*
9268131 TATATATGCATACTTATT
1 TATATATGCATACATATT
9268149 TTTTTATACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
TATATATGCATACATATTCT
Found at i:9268177 original size:14 final size:14
Alignment explanation
Indices: 9268160--9268194 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9268150 TTTTATACTT
*
9268160 TATATATATACACG
1 TATATATATACACC
9268174 TATATATATACACC
1 TATATATATACACC
9268188 TATATAT
1 TATATAT
9268195 GCATATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (14 bp):
TATATATATACACC
Found at i:9275918 original size:3 final size:3
Alignment explanation
Indices: 9275910--9275949 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9275900 ATTTTTTAGC
9275910 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9275950 GTATATCGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9276070 original size:36 final size:39
Alignment explanation
Indices: 9276023--9276124 Score: 104
Period size: 38 Copynumber: 2.7 Consensus size: 39
9276013 CAATCTTATG
*
9276023 TATATACACATACTTATATATTTTTATA-TTTT-AT-AA
1 TATATATACATACTTATATATTTTTATACTTTTCATGAA
* *
9276059 TCTATATACATATCTATATACATTTTT-TACTTTTCATGAA
1 TATATATACATA-CT-TATATATTTTTATACTTTTCATGAA
* * *
9276099 TATAAATACATATTTATATTTTTTTA
1 TATATATACATACTTATATATTTTTA
9276125 ATATATATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
36 10 0.19
37 4 0.08
38 23 0.44
39 3 0.06
40 12 0.23
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (39 bp):
TATATATACATACTTATATATTTTTATACTTTTCATGAA
Found at i:9282353 original size:175 final size:175
Alignment explanation
Indices: 9282062--9282411 Score: 700
Period size: 175 Copynumber: 2.0 Consensus size: 175
9282052 TCGCTAGCCA
9282062 AATAGTATTTGATGGCCATGATTTCATGCACGTTTTTAATGTCCTGCTACCGACTATGTTTCAAG
1 AATAGTATTTGATGGCCATGATTTCATGCACGTTTTTAATGTCCTGCTACCGACTATGTTTCAAG
9282127 TGAGTACATTTGTAGGAAACAGTCAGATTCTATACTGATCTTCTTTGATTTTAACCATTAATGCA
66 TGAGTACATTTGTAGGAAACAGTCAGATTCTATACTGATCTTCTTTGATTTTAACCATTAATGCA
9282192 TGATTGATATTCGTTTGGGTTGGACAAGTGAATTTAAAGAGTCTT
131 TGATTGATATTCGTTTGGGTTGGACAAGTGAATTTAAAGAGTCTT
9282237 AATAGTATTTGATGGCCATGATTTCATGCACGTTTTTAATGTCCTGCTACCGACTATGTTTCAAG
1 AATAGTATTTGATGGCCATGATTTCATGCACGTTTTTAATGTCCTGCTACCGACTATGTTTCAAG
9282302 TGAGTACATTTGTAGGAAACAGTCAGATTCTATACTGATCTTCTTTGATTTTAACCATTAATGCA
66 TGAGTACATTTGTAGGAAACAGTCAGATTCTATACTGATCTTCTTTGATTTTAACCATTAATGCA
9282367 TGATTGATATTCGTTTGGGTTGGACAAGTGAATTTAAAGAGTCTT
131 TGATTGATATTCGTTTGGGTTGGACAAGTGAATTTAAAGAGTCTT
9282412 GGGTGTATGC
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 175 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.39
Consensus pattern (175 bp):
AATAGTATTTGATGGCCATGATTTCATGCACGTTTTTAATGTCCTGCTACCGACTATGTTTCAAG
TGAGTACATTTGTAGGAAACAGTCAGATTCTATACTGATCTTCTTTGATTTTAACCATTAATGCA
TGATTGATATTCGTTTGGGTTGGACAAGTGAATTTAAAGAGTCTT
Found at i:9287409 original size:18 final size:18
Alignment explanation
Indices: 9287304--9287409 Score: 62
Period size: 18 Copynumber: 6.1 Consensus size: 18
9287294 ATATTTTGAA
* *
9287304 AAATATATAAAAAT-TAT
1 AAATGTATAAATATATAT
*
9287321 -AATGTATATAAT-TAATAA
1 AAATGTATA-AATAT-ATAT
* * * *
9287339 AAATTTACAAATTTATAA
1 AAATGTATAAATATATAT
9287357 AAATGTATAAATATATA-
1 AAATGTATAAATATATAT
* *
9287374 AAA-GAATAAA-AAATTAT
1 AAATGTATAAATATA-TAT
9287391 AAATGTATAAATATATAT
1 AAATGTATAAATATATAT
9287409 A
1 A
9287410 TAATAACTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
15 2 0.03
16 16 0.24
17 8 0.12
18 33 0.49
19 9 0.13
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATGTATAAATATATAT
Found at i:9289012 original size:30 final size:30
Alignment explanation
Indices: 9288978--9289035 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9288968 AGGTGGGATG
* *
9288978 GGAAGTGAATAAAAGTTTTAGGG-GAAAAGT
1 GGAAGGGAATAAAAATTTT-GGGCGAAAAGT
*
9289008 GGAAGGGACTAAAAATTTTGGGCGAAAA
1 GGAAGGGAATAAAAATTTTGGGCGAAAA
9289036 TAAAAGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.43, C:0.03, G:0.33, T:0.21
Consensus pattern (30 bp):
GGAAGGGAATAAAAATTTTGGGCGAAAAGT
Found at i:9289200 original size:30 final size:31
Alignment explanation
Indices: 9289140--9289200 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
9289130 GGGTTGGGAG
* *
9289140 GGGAAGGGAGTAAAGGTTTTAGGGGTAAAGT
1 GGGAAGGGAGTAAAAGTTTTAGGGGAAAAGT
9289171 GGGAA-GGAGTAAAAGTTTT-GAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTAG-GGGAAAAGT
9289201 ACAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 1 0.04
30 21 0.78
31 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTAGGGGAAAAGT
Found at i:9289267 original size:9 final size:9
Alignment explanation
Indices: 9289249--9289285 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9289239 TATAGTTTGA
9289249 TATTCGAAT
1 TATTCGAAT
*
9289258 TATTCAAAT
1 TATTCGAAT
*
9289267 TATTCGAGT
1 TATTCGAAT
9289276 TATTCGAAT
1 TATTCGAAT
9289285 T
1 T
9289286 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9289356 original size:9 final size:9
Alignment explanation
Indices: 9289339--9289369 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9289329 TCGAGTTGAT
9289339 TCGAATAAC
1 TCGAATAAC
*
9289348 TCGATTAAC
1 TCGAATAAC
9289357 TCGAATAAC
1 TCGAATAAC
9289366 TCGA
1 TCGA
9289370 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9289848 original size:14 final size:15
Alignment explanation
Indices: 9289812--9289855 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
9289802 GTTTTGTATA
*
9289812 TATTTTTACATTAATT
1 TATTTTTA-ATTATTT
*
9289828 TATTTTTATTTATTT
1 TATTTTTAATTATTT
9289843 TA-TTTTAATTATT
1 TATTTTTAATTATT
9289856 GTTTTATACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.40
15 7 0.28
16 8 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTAATTATTT
Found at i:9302317 original size:21 final size:21
Alignment explanation
Indices: 9302291--9302330 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9302281 CAAAACAATG
*
9302291 TAGTTTTGTCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
9302312 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
9302331 TAGATAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:9302562 original size:3 final size:3
Alignment explanation
Indices: 9302554--9302590 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9302544 ATTTTAAAGC
9302554 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9302591 GATATTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9302711 original size:21 final size:20
Alignment explanation
Indices: 9302687--9302725 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9302677 TTCAACTTTT
*
9302687 TTATATTTTTTTTAGAAAAAA
1 TTATAATTTTTTTA-AAAAAA
9302708 TTATAATTTTTTTAAAAA
1 TTATAATTTTTTTAAAAA
9302726 TACAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TTATAATTTTTTTAAAAAAA
Found at i:9302762 original size:19 final size:20
Alignment explanation
Indices: 9302738--9302794 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
9302728 CAAATTTTAG
* *
9302738 AATTTTTATAAA-TATTTTT
1 AATTTTTAAAAATTATTTTC
9302757 AA-TTTTAAAAATTATTTTC
1 AATTTTTAAAAATTATTTTC
*
9302776 AATTTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
9302795 GATTATTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.24
19 10 0.30
20 15 0.45
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTC
Found at i:9302787 original size:20 final size:19
Alignment explanation
Indices: 9302738--9302794 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
9302728 CAAATTTTAG
*
9302738 AATTTTTATAAA-TATTTTT
1 AATTTTTA-AAATTATTTTC
*
9302757 AATTTTAAAAATTATTTTC
1 AATTTTTAAAATTATTTTC
9302776 AATTTTTGAAAATTATTTT
1 AATTTTT-AAAATTATTTT
9302795 GATTATTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.09
19 19 0.58
20 11 0.33
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTC
Found at i:9304120 original size:22 final size:22
Alignment explanation
Indices: 9304094--9304152 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
9304084 TCACCACCAA
*
9304094 GGATGTTGCGACACCAGTTAGT
1 GGATGTCGCGACACCAGTTAGT
* * *
9304116 GGATGTCACGACATCGGTTAGT
1 GGATGTCGCGACACCAGTTAGT
*
9304138 GGATGTCGCAACACC
1 GGATGTCGCGACACC
9304153 GAGAACCCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (22 bp):
GGATGTCGCGACACCAGTTAGT
Found at i:9310329 original size:113 final size:111
Alignment explanation
Indices: 9310116--9310441 Score: 396
Period size: 113 Copynumber: 2.9 Consensus size: 111
9310106 AAGAAAAACG
*
9310116 AAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAAA-TT-AAAAAAATT
1 AAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGG-CGGCACCCAGTACAAATTTAAAAAAAATT
9310179 C---TTTTTTT-GTGTCAGAATCAGATATCAGTATACGAAAAAAATA
65 CTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATA
* *
9310222 AAAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCAGGCACACAGTACAAATTTAAAAAAAATT
1 AAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGC-GGCACCCAGTACAAATTTAAAAAAAATT
* * *
9310287 CCTTTTTTTTTTCGTGTCAAAATCAGATATCAGTTTACGAAAAAAATT
65 -CTTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATA
** * *
9310335 TTAAAAAAATTTTTTGGGTGGTGGCCTGTCAATGGGCGGCACCCAGTAC-AATTTAAAAAATATT
1 AAAAAAAAAATTTTTGGGTGCTGGCCTGTCAAT-GGCGGCACCCAGTACAAATTTAAAAAA-A--
*
9310399 ATTTTTTTCTTTTTTTTTTCGTGTCAGAATCAGATATCTGTAT
62 A-----TTCTTTTTTTTTTCGTGTCAGAATCAGATATCAGTAT
9310442 GCCATTCACA
Statistics
Matches: 188, Mismatches: 15, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
105 1 0.01
106 47 0.25
107 2 0.01
108 9 0.05
109 1 0.01
112 18 0.10
113 72 0.38
114 3 0.02
115 1 0.01
119 32 0.17
120 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (111 bp):
AAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCGGCACCCAGTACAAATTTAAAAAAAATTC
TTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATA
Found at i:9310660 original size:112 final size:111
Alignment explanation
Indices: 9310517--9310946 Score: 405
Period size: 114 Copynumber: 4.0 Consensus size: 111
9310507 GATACAAATT
* * *
9310517 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTT-ATTTT
1 TTTTTTTAAAATTTTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAATTTTTTTTTAATTTT
9310581 TTTCGTATACTGATATCTGATTCCGACACGAAAAAAAAGAAAAATATA
66 TTTCGTATACTGATATCTGATTCCGACACGAAAAAAAAGAAAAA-A-A
9310629 TTTTTTTAAAATTTTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTTAATTT
1 TTTTTTTAAAATTTTACTGGGTGCCGACCATTGACAGGCCAGCACCC-AAATTTTTTTTTAATTT
**
9310694 TTTTCGTATACTGATATCTGATTTTGACACGAAAAAAAAGAAAAAAA
65 TTTTCGTATACTGATATCTGATTCCGACACGAAAAAAAAGAAAAAAA
* * * * *
9310741 ---TTTAAAAATTTGTACTGGGAG-CGAGCCATTGACAGGCCAGCACCCAAAAAAAATGTTTTTA
1 TTTTTTTAAAATTT-TACTGGGTGCCGA-CCATTGACAGGCCAGCACCC----AAATTTTTTTTT
* **
9310802 AATCTTTTTT-GTATACTGATATCTAATTTTGACAC-------------AAAA
60 AAT-TTTTTTCGTATACTGATATCTGATTCCGACACGAAAAAAAAGAAAAAAA
* * ** * * * * *
9310841 TTTTTTTTAAATTGTACTGGGTGCC-AGCCATTGACAAACCAGAACCCAATTTTTTTTTTTACTC
1 TTTTTTTAAAATTTTACTGGGTGCCGA-CCATTGACAGGCCAGCACCCAAATTTTTTTTTAATTT
* *
9310905 TTTTCGCATACTGATATCTGATTCTGACACGAAAAAAAAGAA
65 TTTTCGTATACTGATATCTGATTCCGACACGAAAAAAAAGAA
9310947 TTTTTTTAAA
Statistics
Matches: 265, Mismatches: 28, Indels: 52
0.77 0.08 0.15
Matches are distributed among these distances:
97 5 0.02
98 31 0.12
100 4 0.02
102 27 0.10
103 9 0.03
109 13 0.05
110 28 0.11
112 45 0.17
113 50 0.19
114 53 0.20
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (111 bp):
TTTTTTTAAAATTTTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAATTTTTTTTTAATTTT
TTTCGTATACTGATATCTGATTCCGACACGAAAAAAAAGAAAAAAA
Found at i:9311864 original size:43 final size:43
Alignment explanation
Indices: 9311810--9311927 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 43
9311800 TACCACTTAT
* *
9311810 CACTTGTCACTTGTCACCGATTAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
9311853 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
1 CAC-T-T-A----TCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
*
9311903 CACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACCGATCAGA
9311928 AGTACTCAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
43 21 0.32
44 1 0.02
45 1 0.02
47 1 0.02
48 1 0.02
49 1 0.02
50 39 0.60
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (43 bp):
CACTTATCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
Found at i:9311867 original size:50 final size:51
Alignment explanation
Indices: 9311704--9311920 Score: 375
Period size: 51 Copynumber: 4.3 Consensus size: 51
9311694 CGGATCATAT
*
9311704 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
9311755 TTATCACTTCTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
*
9311806 TTATCACTTGTCACTTGTCACCGATTAGATAAGTGTAGCT-AAGCTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
9311856 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
9311906 TTATCACTTGTCACT
1 TTATCACTTGTCACT
9311921 GATCAGAAGT
Statistics
Matches: 159, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
50 74 0.47
51 85 0.53
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:9319036 original size:42 final size:43
Alignment explanation
Indices: 9318990--9319093 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 43
9318980 AGTGCTAAAC
* * * *
9318990 GGAAACTCATAAGGGTTGAACAGAAGCTTATAAGAGCTGAA-T
1 GGAAACCCATAAGGGTTAAACAGAAGCTTAAAAGAGCAGAACT
*
9319032 GGAAACCCATAAGGGTTAAACTGAAGCTTAAAAGAGCAGAACT
1 GGAAACCCATAAGGGTTAAACAGAAGCTTAAAAGAGCAGAACT
*
9319075 -GAAACCCATTAGGGTTAAA
1 GGAAACCCATAAGGGTTAAA
9319094 TGGAAACTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.19
Consensus pattern (43 bp):
GGAAACCCATAAGGGTTAAACAGAAGCTTAAAAGAGCAGAACT
Found at i:9324690 original size:19 final size:18
Alignment explanation
Indices: 9324666--9324701 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
9324656 TAATACATTC
9324666 AAAAAATATTCAAAAAATT
1 AAAAAATATT-AAAAAATT
9324685 AAAAAATATTAAAAAAT
1 AAAAAATATTAAAAAAT
9324702 ATGTCATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAATATTAAAAAATT
Found at i:9324701 original size:10 final size:10
Alignment explanation
Indices: 9324666--9324703 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
9324656 TAATACATTC
9324666 AAAAAATATT
1 AAAAAATATT
*
9324676 CAAAAA-ATT
1 AAAAAATATT
9324685 AAAAAATATT
1 AAAAAATATT
9324695 AAAAAATAT
1 AAAAAATAT
9324704 GTCATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATATT
Found at i:9339488 original size:27 final size:29
Alignment explanation
Indices: 9339458--9339522 Score: 107
Period size: 27 Copynumber: 2.3 Consensus size: 29
9339448 ATATTTGCAA
9339458 ATCAGTGGTGGCTTGTCCACAAAA-T-TT
1 ATCAGTGGTGGCTTGTCCACAAAAGTGTT
9339485 ATCAGTGGTGGCTTGTCCACAAAAGTGTT
1 ATCAGTGGTGGCTTGTCCACAAAAGTGTT
*
9339514 ATTAGTGGT
1 ATCAGTGGT
9339523 AGTTTATCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 24 0.69
28 1 0.03
29 10 0.29
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (29 bp):
ATCAGTGGTGGCTTGTCCACAAAAGTGTT
Found at i:9340311 original size:16 final size:16
Alignment explanation
Indices: 9340287--9340317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9340277 CTTTAGATTC
9340287 AAAACTATAGACTGTG
1 AAAACTATAGACTGTG
*
9340303 AAAATTATAGACTGT
1 AAAACTATAGACTGT
9340318 AGATTGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (16 bp):
AAAACTATAGACTGTG
Found at i:9340325 original size:23 final size:23
Alignment explanation
Indices: 9340294--9340338 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9340284 TTCAAAACTA
*
9340294 TAGACTGTGAAAATTATAGACTG
1 TAGACTGTGAAAACTATAGACTG
*
9340317 TAGATTGTGAAAACTATAGACT
1 TAGACTGTGAAAACTATAGACT
9340339 TTGAAAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (23 bp):
TAGACTGTGAAAACTATAGACTG
Found at i:9340336 original size:16 final size:16
Alignment explanation
Indices: 9340324--9340354 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9340314 CTGTAGATTG
9340324 TGAAAACTATAGACTT
1 TGAAAACTATAGACTT
*
9340340 TGAAAACTCTAGACT
1 TGAAAACTATAGACT
9340355 CTGTAGTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (16 bp):
TGAAAACTATAGACTT
Found at i:9341126 original size:9 final size:9
Alignment explanation
Indices: 9341097--9341126 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
9341087 TGAATTTTAC
9341097 AATTCAAAT
1 AATTCAAAT
*
9341106 AACTCAAAT
1 AATTCAAAT
9341115 AATTCAAAT
1 AATTCAAAT
9341124 AAT
1 AAT
9341127 AGATTGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (9 bp):
AATTCAAAT
Found at i:9341287 original size:21 final size:20
Alignment explanation
Indices: 9341261--9341299 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
9341251 AAAATTAATA
9341261 TTTTAAAAAAGTTTATAAATT
1 TTTTAAAAAAGTTT-TAAATT
9341282 TTTTAAAAAAGTTTTAAA
1 TTTTAAAAAAGTTTTAAA
9341300 AAATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTAAAAAAGTTTTAAATT
Found at i:9341296 original size:11 final size:11
Alignment explanation
Indices: 9341261--9341302 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
9341251 AAAATTAATA
9341261 TTTTAAAAAAG
1 TTTTAAAAAAG
* **
9341272 -TTTATAAATT
1 TTTTAAAAAAG
9341282 TTTTAAAAAAG
1 TTTTAAAAAAG
9341293 TTTTAAAAAA
1 TTTTAAAAAA
9341303 TATATAAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (11 bp):
TTTTAAAAAAG
Done.