Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 74 of 284
Found at i:25269557 original size:17 final size:19
Alignment explanation
Indices: 25269516--25269557 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
25269506 CATATCTTCT
*
25269516 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
25269535 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
25269552 AAGATT
1 AAGATT
25269558 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:25269697 original size:21 final size:20
Alignment explanation
Indices: 25269668--25269707 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25269658 TTGGACTTCG
*
25269668 TTTTTTTTTGGGATTTATTA
1 TTTTTTTTTGGGACTTATTA
*
25269688 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTGGGACTTATT
25269708 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.70
Consensus pattern (20 bp):
TTTTTTTTTGGGACTTATTA
Found at i:25270604 original size:19 final size:19
Alignment explanation
Indices: 25270582--25270624 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
25270572 AAAGATCAGA
25270582 AATAATTAAATAAATATAT
1 AATAATTAAATAAATATAT
25270601 AATAATTAAATAAATATAT
1 AATAATTAAATAAATATAT
25270620 AATAA
1 AATAA
25270625 AAACATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAATTAAATAAATATAT
Found at i:25270623 original size:11 final size:11
Alignment explanation
Indices: 25270590--25270645 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
25270580 GAAATAATTA
25270590 AATAAATATAT
1 AATAAATATAT
25270601 AAT-AAT-TA-
1 AATAAATATAT
25270609 AATAAATATAT
1 AATAAATATAT
* *
25270620 AATAAAAACAT
1 AATAAATATAT
25270631 AATAAA-ATAT
1 AATAAATATAT
*
25270641 TATAA
1 AATAA
25270646 CATAAAACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 3 0.08
9 5 0.13
10 12 0.32
11 18 0.47
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAATATAT
Found at i:25273551 original size:14 final size:14
Alignment explanation
Indices: 25273486--25273601 Score: 55
Period size: 14 Copynumber: 8.1 Consensus size: 14
25273476 ATAAATTTAA
25273486 AATATATAATATA-T
1 AATA-ATAATATATT
*
25273500 AACATATAATATATTT
1 AATA-ATAATATA-TT
25273516 AATGTAACTAATAT-TT
1 AA--TAA-TAATATATT
25273532 AA-AATAATATATT
1 AATAATAATATATT
* * *
25273545 AATAATATTTTATA
1 AATAATAATATATT
*
25273559 AATAA-AAAAT-TT
1 AATAATAATATATT
*
25273571 AA-AATAATATATAA
1 AATAATAATATAT-T
*
25273585 AATTATAACTATATT
1 AATAATAA-TATATT
25273600 AA
1 AA
25273602 AAAGTAAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
11 2 0.03
12 13 0.17
13 9 0.12
14 27 0.35
15 6 0.08
16 12 0.16
17 1 0.01
18 7 0.09
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (14 bp):
AATAATAATATATT
Found at i:25275676 original size:23 final size:22
Alignment explanation
Indices: 25275650--25275702 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 22
25275640 AATGCTTTAA
*
25275650 AATTAATAATATATTAAGTAAAT
1 AATTAATAATATATTAA-CAAAT
25275673 AATTAAT--T-TATTAACAAAT
1 AATTAATAATATATTAACAAAT
25275692 AATTAA-AATAT
1 AATTAATAATAT
25275703 TGTAATGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.38
20 7 0.27
21 2 0.08
23 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTAATAATATATTAACAAAT
Found at i:25282553 original size:17 final size:17
Alignment explanation
Indices: 25282531--25282563 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25282521 GTTCCGAATA
25282531 GCTATTTGCTGCAATTT
1 GCTATTTGCTGCAATTT
*
25282548 GCTATTTGCTTCAATT
1 GCTATTTGCTGCAATT
25282564 CTATTAATAA
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:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (17 bp):
GCTATTTGCTGCAATTT
Found at i:25283209 original size:17 final size:17
Alignment explanation
Indices: 25283187--25283219 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25283177 AATGCGAATA
25283187 GCTGTTTGCTGCAATTT
1 GCTGTTTGCTGCAATTT
25283204 GCTGTTTGCTGCAATT
1 GCTGTTTGCTGCAATT
25283220 CTATTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.45
Consensus pattern (17 bp):
GCTGTTTGCTGCAATTT
Found at i:25284156 original size:15 final size:17
Alignment explanation
Indices: 25284126--25284163 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
25284116 ACAATGCCTA
*
25284126 ATAAAACAAATCAAAAT
1 ATAAAACAAATAAAAAT
25284143 A-AAAAC-AATAAAAAT
1 ATAAAACAAATAAAAAT
25284158 ATAAAA
1 ATAAAA
25284164 ATATTAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 9 0.47
17 1 0.05
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (17 bp):
ATAAAACAAATAAAAAT
Found at i:25284457 original size:38 final size:38
Alignment explanation
Indices: 25284405--25284553 Score: 145
Period size: 38 Copynumber: 3.6 Consensus size: 38
25284395 TAATATAGGG
*
25284405 AATAAAATATAATAATATAATATGTAATAAAATATATA
1 AATAAAATAAAATAATATAATATGTAATAAAATATATA
* *
25284443 AATAAAATAAAATAAAATAATATATATAATAAAAGGAAGATAATATA
1 AATAAAATAAAAT--AAT-ATA-ATAT-GTAATA--AA-AT-ATATA
*
25284490 GGGAATAAAATATAATAATATAATATGTAATAAAATATATA
1 ---AATAAAATAAAATAATATAATATGTAATAAAATATATA
*
25284531 AATAAAATAAAATAAAATAATAT
1 AATAAAATAAAATAATATAATAT
25284554 ATATAATAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
38 33 0.36
40 3 0.03
41 8 0.09
42 6 0.07
43 6 0.07
45 6 0.07
46 6 0.07
47 8 0.09
48 3 0.03
50 12 0.13
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (38 bp):
AATAAAATAAAATAATATAATATGTAATAAAATATATA
Found at i:25284461 original size:28 final size:28
Alignment explanation
Indices: 25284430--25284564 Score: 112
Period size: 28 Copynumber: 4.7 Consensus size: 28
25284420 TATAATATGT
25284430 AATAAAATATATAAATAAAATAAAATAA
1 AATAAAATATATAAATAAAATAAAATAA
* * *
25284458 AATAATATATAT-AATAAAAGGAAGATAA
1 AATAAAATATATAAATAAAA-TAAAATAA
* * * * * **
25284486 TATAGGGAATAAAATATAATAATATAATATGT
1 AATA--AAAT-ATATA-AATAAAATAAAATAA
25284518 AATAAAATATATAAATAAAATAAAATAA
1 AATAAAATATATAAATAAAATAAAATAA
*
25284546 AATAATATATAT-AATAAAA
1 AATAAAATATATAAATAAAA
25284565 GGAAGATAAT
Statistics
Matches: 81, Mismatches: 20, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
27 14 0.17
28 42 0.52
29 4 0.05
30 5 0.06
31 3 0.04
32 7 0.09
33 6 0.07
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (28 bp):
AATAAAATATATAAATAAAATAAAATAA
Found at i:25285836 original size:44 final size:44
Alignment explanation
Indices: 25285372--25285823 Score: 550
Period size: 44 Copynumber: 10.3 Consensus size: 44
25285362 AAACTCCGGA
* * *
25285372 ACGCCAAATCTGTTATCCTCAATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
25285416 ACGCCAAATCTACTATCTTCGATCTGTTCTCTGACAACACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * *
25285460 ATGCCATATTTGCTATCGTT-GATCTGCTCTCTGACCATACAAAG
1 ACGCCAAATCTGCTATC-TTCGATCTGCTCTCTGACAATACAGAG
* * * * *
25285504 ATGCCAAATCAGCTATTTTTGATCTGCTCTCTAACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
25285548 ACGCCAAATCTG-TCATCTTCGGTCTGTTCTCTGACAACACAGAG
1 ACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
25285592 ATGCCAAATCTGCTATCGTT-GATATGCTCTCTGACCATACAGAA
1 ACGCCAAATCTGCTATC-TTCGATCTGCTCTCTGACAATACAGAG
* * *
25285636 ATGCCAAATCAGCTATCTTCGATCTGCTCTCTGACAATATAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * *
25285680 ACGCCAAATTTGCTATTTTTGATCTACTCTCTGACAATATAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
**
25285724 ACGCCAAATCAACTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
25285768 ACACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
25285812 ACGCCAAATCTG
1 ACGCCAAATCTG
25285824 TCACCGGTGA
Statistics
Matches: 344, Mismatches: 58, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
43 5 0.01
44 334 0.97
45 5 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (44 bp):
ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:25302210 original size:21 final size:21
Alignment explanation
Indices: 25302186--25302250 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 21
25302176 GTCTTGAATT
25302186 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
25302207 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
25302232 TGTTAGATATTGAATTTAT
1 TGTTAGATATTGAATTTAT
25302251 CTGGTTGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 13 0.36
22 2 0.06
23 4 0.11
24 2 0.06
25 15 0.42
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.54
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:25303309 original size:26 final size:26
Alignment explanation
Indices: 25303273--25303325 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
25303263 GCAATACATG
* *
25303273 TAAAAACAATTTAAAGTATAAATTTA
1 TAAAAAAAATTTAAAATATAAATTTA
25303299 TAAAAAAAATTTAAAATATAAATTTA
1 TAAAAAAAATTTAAAATATAAATTTA
25303325 T
1 T
25303326 TAATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
TAAAAAAAATTTAAAATATAAATTTA
Found at i:25303480 original size:20 final size:19
Alignment explanation
Indices: 25303436--25303480 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
25303426 TCCAAACATT
*
25303436 AAAAAAGTAAATCATTTCC
1 AAAAAACTAAATCATTTCC
*
25303455 AGAAAACTAAATCATTTTCC
1 AAAAAACTAAATCA-TTTCC
25303475 AAAAAA
1 AAAAAA
25303481 TATTTTACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (19 bp):
AAAAAACTAAATCATTTCC
Found at i:25307317 original size:601 final size:601
Alignment explanation
Indices: 25306175--25307365 Score: 2301
Period size: 601 Copynumber: 2.0 Consensus size: 601
25306165 CCAGTTGGGC
25306175 ATATCAGCAACAACTTCAGGTGGAGGTAAACTTACTGCCGATAGTACTATGAATCGAGGTGTTAG
1 ATATCAGCAACAACTTCAGGTGGAGGTAAACTTACTGCCGATAGTACTATGAATCGAGGTGTTAG
*
25306240 AATGTGGCCCTCCATGTAGCTCATGCACCAGTCATCAGACCAAGCAGAGCAGGTCAAGACCAGAA
66 AATGTGGCCCTCCATGTAGCTCATGCACCAGTCATCAGACCAAGCAGAGCAGGCCAAGACCAGAA
*
25306305 GCTACTGAGCCAAGTGCAGTAGTTTATTTTGTTGTTTCTTTTGTTATTTTTGTCAATGTAACTTA
131 GCTACCGAGCCAAGTGCAGTAGTTTATTTTGTTGTTTCTTTTGTTATTTTTGTCAATGTAACTTA
25306370 TTTTGGTTCATTTTGAACTATATTAGGTAGAAGTTTGATGTATTTCTAATGTGATTGAGCTGTTA
196 TTTTGGTTCATTTTGAACTATATTAGGTAGAAGTTTGATGTATTTCTAATGTGATTGAGCTGTTA
* *
25306435 ACCAGCTTTACTTATGTGTACAAGTTTAGTTTTGTAGGTTCCAATGTATTAGTGGTAGTTGGTGT
261 ACCAGCTTTACTTATGTGTACAAGTTTAGTTTTGTAAGTTCCAATGTATTAGTGGTAGTTGCTGT
*
25306500 AGATTAGTTGACCATATGTTGATTTTGACAAGAAAAAGCTTGGTTTATGTATTGGCATTATGCCT
326 AGATTAGTTGACCATATGTTGATTTTGACAAGAAAAAACTTGGTTTATGTATTGGCATTATGCCT
25306565 TTGTTCATGTTAATGAAAATATCATTAGATTTCATTCATTTTCATGCTCCATTTCTCTTGTTTTC
391 TTGTTCATGTTAATGAAAATATCATTAGATTTCATTCATTTTCATGCTCCATTTCTCTTGTTTTC
25306630 AATTCAGTTCTTGTTCTCAAGCAAATTTCTGCTTTTGTTTCTTCACCAAGTCACGAGGCTTGCTA
456 AATTCAGTTCTTGTTCTCAAGCAAATTTCTGCTTTTGTTTCTTCACCAAGTCACGAGGCTTGCTA
25306695 CACAAGCTTTTGACTCTGCTTGCTTAGCTTTGTTTCAAATCCCCAACAATTGGTATCAAGAGTAT
521 CACAAGCTTTTGACTCTGCTTGCTTAGCTTTGTTTCAAATCCCCAACAATTGGTATCAAGAGTAT
25306760 TTGTCATTGCATATCT
586 TTGTCATTGCATATCT
25306776 ATATCAGCAACAACTTCAGGTGGAGGTAAACTTACTGCCGATAGTACTATGAATCGAGGTGTTAG
1 ATATCAGCAACAACTTCAGGTGGAGGTAAACTTACTGCCGATAGTACTATGAATCGAGGTGTTAG
25306841 AATGTGGCCCTCCATGTAGCTCATGCACCAGTCATCAGACCAAGCAGAGCAGGCCAAGACCAGAA
66 AATGTGGCCCTCCATGTAGCTCATGCACCAGTCATCAGACCAAGCAGAGCAGGCCAAGACCAGAA
* *
25306906 GTTGCCGAGCCAAGTGCAGTAGTTTATTTTGTTGTTTCTTTTGTTATTTTTGTCAATGTAACTTA
131 GCTACCGAGCCAAGTGCAGTAGTTTATTTTGTTGTTTCTTTTGTTATTTTTGTCAATGTAACTTA
*
25306971 TTTTGGTTTATTTTGAACTATATTAGGTAGAAGTTTGATGTATTTCTAATGTGATTGAGCTGTTA
196 TTTTGGTTCATTTTGAACTATATTAGGTAGAAGTTTGATGTATTTCTAATGTGATTGAGCTGTTA
25307036 ACCAGCTTTACTTATGTGTACAAGTTTAGTTTTGTAAGTTCCAATGTATTAGTGGTAGTTGCTGT
261 ACCAGCTTTACTTATGTGTACAAGTTTAGTTTTGTAAGTTCCAATGTATTAGTGGTAGTTGCTGT
25307101 AGATTAGTTGACCATATGTTGATTTTGACAAGAAAAAACTTGGTTTATGTATTGGCATTATGCCT
326 AGATTAGTTGACCATATGTTGATTTTGACAAGAAAAAACTTGGTTTATGTATTGGCATTATGCCT
25307166 TTGTTCATGTTAATGAAAATATCATTAGATTTCATTCATTTTCATGCTCCATTTCTCTTGTTTTC
391 TTGTTCATGTTAATGAAAATATCATTAGATTTCATTCATTTTCATGCTCCATTTCTCTTGTTTTC
*
25307231 AATTCAGTTCTTGTTCTCAAGCAATTTTCTGCTTTTGTTTCTTCACCAAGTCACGAGGCTTGCTA
456 AATTCAGTTCTTGTTCTCAAGCAAATTTCTGCTTTTGTTTCTTCACCAAGTCACGAGGCTTGCTA
25307296 CACAAGCTTTTGACTCTGCTTGCTTAGCTTTGTTTCAAATCCCCAACAATTGGTATCAAGAGTAT
521 CACAAGCTTTTGACTCTGCTTGCTTAGCTTTGTTTCAAATCCCCAACAATTGGTATCAAGAGTAT
25307361 TTGTC
586 TTGTC
25307366 TTAGAGGATT
Statistics
Matches: 581, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
601 581 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (601 bp):
ATATCAGCAACAACTTCAGGTGGAGGTAAACTTACTGCCGATAGTACTATGAATCGAGGTGTTAG
AATGTGGCCCTCCATGTAGCTCATGCACCAGTCATCAGACCAAGCAGAGCAGGCCAAGACCAGAA
GCTACCGAGCCAAGTGCAGTAGTTTATTTTGTTGTTTCTTTTGTTATTTTTGTCAATGTAACTTA
TTTTGGTTCATTTTGAACTATATTAGGTAGAAGTTTGATGTATTTCTAATGTGATTGAGCTGTTA
ACCAGCTTTACTTATGTGTACAAGTTTAGTTTTGTAAGTTCCAATGTATTAGTGGTAGTTGCTGT
AGATTAGTTGACCATATGTTGATTTTGACAAGAAAAAACTTGGTTTATGTATTGGCATTATGCCT
TTGTTCATGTTAATGAAAATATCATTAGATTTCATTCATTTTCATGCTCCATTTCTCTTGTTTTC
AATTCAGTTCTTGTTCTCAAGCAAATTTCTGCTTTTGTTTCTTCACCAAGTCACGAGGCTTGCTA
CACAAGCTTTTGACTCTGCTTGCTTAGCTTTGTTTCAAATCCCCAACAATTGGTATCAAGAGTAT
TTGTCATTGCATATCT
Found at i:25318797 original size:47 final size:47
Alignment explanation
Indices: 25318739--25319180 Score: 742
Period size: 47 Copynumber: 9.4 Consensus size: 47
25318729 CAGCCAAGAC
25318739 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25318786 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25318833 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
25318880 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
25318927 AGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
25318974 AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25319021 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
25319068 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
25319115 AGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAA
* *
25319162 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
25319181 TCCCGAAGGG
Statistics
Matches: 376, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
46 5 0.01
47 369 0.98
48 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:25319357 original size:37 final size:37
Alignment explanation
Indices: 25319299--25319377 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
25319289 CCGAGCTCTA
* *
25319299 AAGACCCGATGACTACATGTGG-GAATTTTGTCCAGGT
1 AAGACCCGATAACTACATGTGGAG-ATTATGTCCAGGT
* * *
25319336 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCAGGT
25319373 AAGAC
1 AAGAC
25319378 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCAGGT
Found at i:25323512 original size:20 final size:22
Alignment explanation
Indices: 25323473--25323512 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
25323463 AACACTAGGT
*
25323473 AATTTGAACATTTTATGACTAA
1 AATTTGAACATTTTACGACTAA
25323495 AATTT-AACA-TTTACGACT
1 AATTTGAACATTTTACGACT
25323513 TGTTAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (22 bp):
AATTTGAACATTTTACGACTAA
Found at i:25341086 original size:11 final size:10
Alignment explanation
Indices: 25341057--25341090 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
25341047 GATGAAATAC
25341057 AAATTATGTT
1 AAATTATGTT
25341067 -AATTATGTT
1 AAATTATGTT
25341076 AAATGTATGTT
1 AAAT-TATGTT
25341087 AAAT
1 AAAT
25341091 ACTTGTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 3 0.14
11 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (10 bp):
AAATTATGTT
Found at i:25351115 original size:13 final size:13
Alignment explanation
Indices: 25351097--25351123 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25351087 TCATCAAAGG
25351097 AAAAAGTTTCTTC
1 AAAAAGTTTCTTC
25351110 AAAAAGTTTCTTC
1 AAAAAGTTTCTTC
25351123 A
1 A
25351124 CGATGTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AAAAAGTTTCTTC
Found at i:25352288 original size:23 final size:23
Alignment explanation
Indices: 25352262--25352307 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
25352252 CACTTTTTTG
25352262 CACAATCCATTTTAAATTTTCCA
1 CACAATCCATTTTAAATTTTCCA
*
25352285 CACACTCCATTTTAAATTTTCCA
1 CACAATCCATTTTAAATTTTCCA
25352308 GGCAAGCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (23 bp):
CACAATCCATTTTAAATTTTCCA
Found at i:25353718 original size:40 final size:40
Alignment explanation
Indices: 25353613--25353718 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
25353603 GCTACTCGTT
* * *
25353613 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
25353653 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
*
25353694 CAAA-GCCTTCGGGACTTTGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25353719 CATCATTCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
39 3 0.05
40 41 0.75
41 11 0.20
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:25355013 original size:23 final size:24
Alignment explanation
Indices: 25354961--25355018 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
25354951 AAAGGATGGA
*
25354961 CACATTTT-TTTTTCTTTTGTTTT
1 CACATTTTCTTTCTCTTTTGTTTT
*
25354984 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTTCTCTTTTGTTTT
25355009 C-CA-TTTCTTT
1 CACATTTTCTTT
25355019 ATTACTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 6 0.19
25 14 0.45
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.71
Consensus pattern (24 bp):
CACATTTTCTTTCTCTTTTGTTTT
Found at i:25359083 original size:33 final size:33
Alignment explanation
Indices: 25359046--25359112 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
25359036 CGATGGTTAG
25359046 AATTGCTAAAAGACTA-TGAGCTTATAATTGACT
1 AATTGCTAAAAGACTACT-AGCTTATAATTGACT
*
25359079 AATTGCTAAAAGACTACTAGTTTATAATTGACT
1 AATTGCTAAAAGACTACTAGCTTATAATTGACT
25359112 A
1 A
25359113 TCATCCGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (33 bp):
AATTGCTAAAAGACTACTAGCTTATAATTGACT
Found at i:25371909 original size:27 final size:26
Alignment explanation
Indices: 25371812--25371920 Score: 85
Period size: 27 Copynumber: 4.1 Consensus size: 26
25371802 AGCAAAGCTG
* * **
25371812 CCAGTAATAATAATGTAGCATAGCTG
1 CCAGTAATAGTAATGTGGCATAGCCA
* * *
25371838 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAATAGT-AATGTGGCATAGCCA
*
25371865 CTAGT-ATCAGTAATTGTGGCATAGCCA
1 CCAGTAAT-AGTAA-TGTGGCATAGCCA
* *
25371892 CCAGTAATAGTGAATGTGACATAGTCA
1 CCAGTAATAGT-AATGTGGCATAGCCA
25371919 CC
1 CC
25371921 TCCATATCAA
Statistics
Matches: 64, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
26 11 0.17
27 49 0.77
28 4 0.06
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (26 bp):
CCAGTAATAGTAATGTGGCATAGCCA
Found at i:25372071 original size:27 final size:27
Alignment explanation
Indices: 25372052--25372213 Score: 243
Period size: 27 Copynumber: 6.0 Consensus size: 27
25372042 GGCATAATCA
*
25372052 TCATTTTACCCTATAGGGGCATTACAG
1 TCATTTTACCCTATAGGGGCATTACGG
* *
25372079 TCATTTTACCCTACAGGGACATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
* * *
25372106 TCATTCTACCTTACAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
*
25372133 TCATTTTACCCTATAAGGGCATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
* *
25372160 TGATTTTACCCTATAGGGGCATTATGG
1 TCATTTTACCCTATAGGGGCATTACGG
25372187 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGCATTACGG
25372214 CCAGATAACG
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGCATTACGG
Found at i:25372787 original size:15 final size:15
Alignment explanation
Indices: 25372767--25372798 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25372757 CTTAATCACT
25372767 TAAACCACAACCACC
1 TAAACCACAACCACC
*
25372782 TAAACCATAACCACC
1 TAAACCACAACCACC
25372797 TA
1 TA
25372799 CTTTGCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (15 bp):
TAAACCACAACCACC
Found at i:25385561 original size:231 final size:231
Alignment explanation
Indices: 25385129--25385571 Score: 542
Period size: 231 Copynumber: 1.9 Consensus size: 231
25385119 AGCCTTCACA
* * * * * *
25385129 TCTTTCAACTCAAATTGTTCTTCTTTCAACTCATACTCGCTCAAGCACTTCTCCAAATATTTCTC
1 TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGCACTTCTCCAAATATTTCTC
* * *
25385194 TTTCACCCCAACTTCCTCCAACTTATCTTTTACTGATTTCTCCATCAACTTAAACTCTTCACATT
66 TTTCAACCCAACTTCCTCCAACTTATCATTTACTCATTTCTCCATCAACTTAAACTCTTCACATT
* * * *
25385259 GCCGCTCACATTGTTTTACACTAACTTCAAGATCTCTGCGACGTTCTTCCAAAGCCTTTTCTTCC
131 GCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGCTTCCAAAGCCTTTTCTTCC
*
25385324 AACTCAAACTCCATACACCGCTTCTCAAAACTCTTC
196 AACTCAAAATCCATACACCGCTTCTCAAAACTCTTC
*
25385360 TCTTTCAACCCAAATTGTTGTTCTCTCAACACAAAATCACTCAAGCGA-TTCTCCAAATCA-TTC
1 TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGC-ACTTCTCCAAAT-ATTTC
* *
25385423 TCGTTT-AACCCAA-TTTCTCCCAACTTATCATTTAC-CACTTTCTCCATCAACTTAAACTCTTT
64 TC-TTTCAACCCAACTTCCT-CCAACTTATCATTTACTCA-TTTCTCCATCAACTTAAACTCTTC
* ** * *
25385485 ACATTGCTGCTCACATTGTTCTACACTAAATTGGAGATCTTTACGAC-TGCGTT-CAAGATCCTT
126 ACATTGCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGC-TTCCAA-AGCCTT
* *
25385548 CTTC-TCTAACTCAAAATCCCTACA
189 -TTCTTCCAACTCAAAATCCATACA
25385572 ACACTTGTCA
Statistics
Matches: 180, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
230 10 0.06
231 162 0.90
232 8 0.04
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (231 bp):
TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGCACTTCTCCAAATATTTCTC
TTTCAACCCAACTTCCTCCAACTTATCATTTACTCATTTCTCCATCAACTTAAACTCTTCACATT
GCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGCTTCCAAAGCCTTTTCTTCC
AACTCAAAATCCATACACCGCTTCTCAAAACTCTTC
Found at i:25386093 original size:7 final size:7
Alignment explanation
Indices: 25386081--25386117 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
25386071 AAAAGGAAAG
25386081 AAAATTA
1 AAAATTA
25386088 AAAATTA
1 AAAATTA
25386095 AAAATTA
1 AAAATTA
25386102 AAAATTA
1 AAAATTA
25386109 AAAATTA
1 AAAATTA
25386116 AA
1 AA
25386118 TTTTTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:25386173 original size:18 final size:19
Alignment explanation
Indices: 25386150--25386185 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25386140 TGCCTTTAAG
*
25386150 GGAGACGGAGATG-GAGAC
1 GGAGACAGAGATGAGAGAC
25386168 GGAGACAGAGATGAGAGA
1 GGAGACAGAGATGAGAGA
25386186 GAAATTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.08, G:0.47, T:0.06
Consensus pattern (19 bp):
GGAGACAGAGATGAGAGAC
Found at i:25387556 original size:16 final size:17
Alignment explanation
Indices: 25387535--25387567 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
25387525 AAGTGGATAT
25387535 TCAACCTTT-ATCTTTC
1 TCAACCTTTCATCTTTC
25387551 TCAACCTTTCATCTTTC
1 TCAACCTTTCATCTTTC
25387568 ATGTTCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.33, G:0.00, T:0.48
Consensus pattern (17 bp):
TCAACCTTTCATCTTTC
Found at i:25387667 original size:14 final size:14
Alignment explanation
Indices: 25387648--25387674 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25387638 TCTAATCTCC
25387648 CTATATATATATAG
1 CTATATATATATAG
25387662 CTATATATATATA
1 CTATATATATATA
25387675 TAAGAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
CTATATATATATAG
Found at i:25389315 original size:24 final size:24
Alignment explanation
Indices: 25389288--25389339 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
25389278 ATGTCTGCAT
25389288 GTCTAAAAC-TTAAAAATTTGCAAA
1 GTCTAAAACATT-AAAATTTGCAAA
* *
25389312 GTCTTAAACATTAAATTTTGCAAA
1 GTCTAAAACATTAAAATTTGCAAA
25389336 GTCT
1 GTCT
25389340 TATAATAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (24 bp):
GTCTAAAACATTAAAATTTGCAAA
Found at i:25398094 original size:40 final size:40
Alignment explanation
Indices: 25398064--25398353 Score: 465
Period size: 40 Copynumber: 7.3 Consensus size: 40
25398054 GGACTAAGAT
* * * *
25398064 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25398104 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25398144 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25398184 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
25398224 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
25398264 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
25398304 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25398343 CCGAAGGCATT
1 CCGAAGGCATT
25398354 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 34 0.14
40 205 0.86
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:25398148 original size:80 final size:80
Alignment explanation
Indices: 25398011--25398353 Score: 467
Period size: 80 Copynumber: 4.3 Consensus size: 80
25398001 TTGAATGCTG
* * * * * * ** *
25398011 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* *
25398074 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTACTAAA
25398091 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
25398156 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
25398171 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
25398236 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* *
25398251 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
25398315 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
25398330 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25398354 TGAACGAGGA
Statistics
Matches: 240, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
79 34 0.14
80 200 0.83
81 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:25398224 original size:120 final size:119
Alignment explanation
Indices: 25398011--25398353 Score: 474
Period size: 120 Copynumber: 2.9 Consensus size: 119
25398001 TTGAATGCTG
* * * * * * ** *
25398011 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-CA
*
25398074 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
63 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
25398131 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* *
25398196 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
25398251 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
25398316 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
66 TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
25398354 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
119 38 0.19
120 157 0.78
121 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:25406142 original size:40 final size:40
Alignment explanation
Indices: 25406112--25406361 Score: 394
Period size: 40 Copynumber: 6.3 Consensus size: 40
25406102 GGACTAAGAT
* * * *
25406112 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25406152 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25406192 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25406232 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
25406272 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
25406312 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25406351 CCGAAGGCATT
1 CCGAAGGCATT
25406362 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 34 0.17
40 165 0.83
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:25406196 original size:80 final size:80
Alignment explanation
Indices: 25406059--25406361 Score: 396
Period size: 80 Copynumber: 3.8 Consensus size: 80
25406049 TTGAATGCTG
* * * * * * * *
25406059 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* * *
25406122 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA
*
25406139 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
25406204 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
*
25406219 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
*
25406284 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
25406299 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATT
25406362 TGAACGAGGA
Statistics
Matches: 202, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
79 35 0.17
80 161 0.80
81 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:25406272 original size:120 final size:119
Alignment explanation
Indices: 25406059--25406361 Score: 410
Period size: 120 Copynumber: 2.5 Consensus size: 119
25406049 TTGAATGCTG
* * * * * * *
25406059 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
25406123 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
25406179 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* * *
25406244 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * *
25406299 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATT
25406362 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
119 35 0.22
120 123 0.76
121 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:25413960 original size:23 final size:23
Alignment explanation
Indices: 25413934--25413977 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25413924 TGTTCTTTTG
25413934 TTTCTTT-TTCTAACTCATTTTCT
1 TTTCTTTCTTC-AACTCATTTTCT
*
25413957 TTTCTTTCTTCAACTTATTTT
1 TTTCTTTCTTCAACTCATTTT
25413978 TCAATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTCTTTCTTCAACTCATTTTCT
Found at i:25418147 original size:45 final size:44
Alignment explanation
Indices: 25418011--25418191 Score: 198
Period size: 45 Copynumber: 4.2 Consensus size: 44
25418001 AACATCTCAA
* *
25418011 ACGTGGTCTTACATGCT-ATCTC-ATATCGATGCCA-CTGTCCCAG
1 ACGTGGTCTTACACG-TAATCACAATATCGATGCCATC-GTCCCAG
*
25418054 ACAG-GGTCTTACACG-AATCA-AATA-CGATGCCAAT-GTCCTAG
1 AC-GTGGTCTTACACGTAATCACAATATCGATGCC-ATCGTCCCAG
* *
25418095 ACATGGTCTTACACGTAATCACATATATCGATGCCATCGTCCCAA
1 ACGTGGTCTTACACGTAATCACA-ATATCGATGCCATCGTCCCAG
*
25418140 ACGTGGTCTTACACGTAATCACATATATCGATGCCATTGTCCCAG
1 ACGTGGTCTTACACGTAATCACA-ATATCGATGCCATCGTCCCAG
25418185 ACGTGGT
1 ACGTGGT
25418192 TTTGCACGAG
Statistics
Matches: 118, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 26 0.22
42 12 0.10
43 13 0.11
44 6 0.05
45 61 0.52
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
ACGTGGTCTTACACGTAATCACAATATCGATGCCATCGTCCCAG
Found at i:25418210 original size:45 final size:45
Alignment explanation
Indices: 25418033--25418191 Score: 220
Period size: 45 Copynumber: 3.6 Consensus size: 45
25418023 ATGCTATCTC
*
25418033 ATATCGATGCCACTGTCCCAGACAG-GGTCTTACACG-AATCA-A-
1 ATATCGATGCCATTGTCCCAGAC-GTGGTCTTACACGTAATCACAT
* * *
25418075 ATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
* *
25418119 ATATCGATGCCATCGTCCCAAACGTGGTCTTACACGTAATCACAT
1 ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
25418164 ATATCGATGCCATTGTCCCAGACGTGGT
1 ATATCGATGCCATTGTCCCAGACGTGGT
25418192 TTTGCACGAG
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
41 28 0.27
42 8 0.08
43 1 0.01
44 3 0.03
45 62 0.61
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (45 bp):
ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
Found at i:25420643 original size:44 final size:47
Alignment explanation
Indices: 25420537--25420643 Score: 130
Period size: 49 Copynumber: 2.3 Consensus size: 47
25420527 CCATATTCTG
* * *
25420537 ATAGAAGTAGTGTAGTAAGGTTGAAACACCTAATTCTAATCAATATCAA
1 ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAA-CAATA-CAA
* *
25420586 ATAGAGGAAGTGTAATAAGGTTGAAAAACCTTATTCTAA-AATA-AA
1 ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAACAATACAA
25420631 ATA-AAGAAGTGTA
1 ATAGAAGAAGTGTA
25420644 GTTCTATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 9 0.17
45 5 0.10
47 4 0.08
49 34 0.65
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (47 bp):
ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAACAATACAA
Found at i:25423555 original size:16 final size:16
Alignment explanation
Indices: 25423536--25423569 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25423526 GAAATTTTGG
*
25423536 AAAAATAATAAAATTA
1 AAAAATAAAAAAATTA
*
25423552 AAAATTAAAAAAATTA
1 AAAAATAAAAAAATTA
25423568 AA
1 AA
25423570 TCAAAGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTA
Found at i:25430205 original size:25 final size:26
Alignment explanation
Indices: 25430161--25430211 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
25430151 GTTAGTATGA
25430161 ATGTAACACCCTTAAATTTCTTAACT
1 ATGTAACACCCTTAAATTTCTTAACT
*
25430187 ATGTAACATCC-TAAATTTCTTAACT
1 ATGTAACACCCTTAAATTTCTTAACT
25430212 TTCTTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (26 bp):
ATGTAACACCCTTAAATTTCTTAACT
Found at i:25432725 original size:24 final size:24
Alignment explanation
Indices: 25432693--25432744 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
25432683 AGGACCTAAG
25432693 TATGTATCTGCATCTAATTATGAA
1 TATGTATCTGCATCTAATTATGAA
*
25432717 TATGTATCTGTATCTAATTATGAA
1 TATGTATCTGCATCTAATTATGAA
25432741 TATG
1 TATG
25432745 ATTTTGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (24 bp):
TATGTATCTGCATCTAATTATGAA
Found at i:25435132 original size:20 final size:18
Alignment explanation
Indices: 25435122--25435176 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
25435112 TACAATTATA
*
25435122 TATATATTTTTATAATTT
1 TATATATTTTTAAAATTT
25435140 TATA-ATTTTTAAAATTT
1 TATATATTTTTAAAATTT
* *
25435157 TTTAAAATTTTTAAAATTT
1 TAT-ATATTTTTAAAATTT
25435176 T
1 T
25435177 GATTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 14 0.42
18 5 0.15
19 14 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTTTTAAAATTT
Found at i:25435149 original size:9 final size:9
Alignment explanation
Indices: 25435097--25435176 Score: 65
Period size: 9 Copynumber: 8.8 Consensus size: 9
25435087 AACTTTTGAT
*
25435097 TAATTATTA
1 TAATTTTTA
25435106 TAA-TTTTA
1 TAATTTTTA
* *
25435114 CAATTATATA
1 TAATT-TTTA
25435124 TATATTTTTA
1 TA-ATTTTTA
25435134 TAA-TTTTA
1 TAATTTTTA
25435142 TAATTTTTA
1 TAATTTTTA
*
25435151 AAATTTTTTA
1 TAA-TTTTTA
*
25435161 AAATTTTTA
1 TAATTTTTA
*
25435170 AAATTTT
1 TAATTTT
25435177 GATTTTTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
8 14 0.23
9 25 0.42
10 18 0.30
11 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TAATTTTTA
Found at i:25435160 original size:10 final size:10
Alignment explanation
Indices: 25435145--25435176 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
25435135 AATTTTATAA
25435145 TTTTTAAAAT
1 TTTTTAAAAT
25435155 TTTTTAAAA-
1 TTTTTAAAAT
25435164 TTTTTAAAAT
1 TTTTTAAAAT
25435174 TTT
1 TTT
25435177 GATTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:25435165 original size:19 final size:19
Alignment explanation
Indices: 25435137--25435176 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
25435127 ATTTTTATAA
*
25435137 TTTTATAATTTTTAAAATT
1 TTTTAAAATTTTTAAAATT
25435156 TTTTAAAATTTTTAAAATT
1 TTTTAAAATTTTTAAAATT
25435175 TT
1 TT
25435177 GATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATTTTTAAAATT
Found at i:25438451 original size:27 final size:26
Alignment explanation
Indices: 25438414--25438769 Score: 365
Period size: 27 Copynumber: 13.3 Consensus size: 26
25438404 AGAGGTCAAT
* * * *
25438414 AAATGATCGAATTACTCCCACATGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
* * *
25438441 AAATGACCGAATTACCCTACAGGGTA
1 AAATGACCGAAATACCCCATAGGGTA
*
25438467 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* * *
25438494 AAATGACCAAAATATCCCTATAGGTTA
1 AAATGACCGAAATA-CCCCATAGGGTA
**
25438521 AAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
25438548 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* **
25438575 AAATAACTAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
25438602 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
25438629 AAATGATCGAAATACTCCCATAGGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
*
25438656 AAATGACTG-AATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
25438682 AAATAACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
25438709 AAATGATCGAAATACCTCCATAGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
* **
25438736 AAATGACTGTTATACCCC-TAGGAGATA
1 AAATGACCGAAATACCCCATAGG-G-TA
25438763 AAATGAC
1 AAATGAC
25438770 TGTTATGGCC
Statistics
Matches: 286, Mismatches: 32, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.01
26 57 0.20
27 217 0.76
28 8 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (26 bp):
AAATGACCGAAATACCCCATAGGGTA
Found at i:25438561 original size:81 final size:81
Alignment explanation
Indices: 25438437--25438742 Score: 417
Period size: 81 Copynumber: 3.8 Consensus size: 81
25438427 ACTCCCACAT
* *
25438437 GGTAAAATGACCGAATTA-CCCTACAGGGTAAAATGA-CTGAAATACCCTCATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATC-GAAATACCCTCATAGGGTAAAATGA
*
25438500 CCAAAATATCCCTATAG
65 CCAAAATACCCCTATAG
* ** * *
25438517 GTTAAAATGACTAAAATACCCCCATAGGGTAAAATGA-CTGAAATACCCTCATAGGGTAAAATAA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATC-GAAATACCCTCATAGGGTAAAATGA
*
25438581 CTAAAATACCCCTATAG
65 CCAAAATACCCCTATAG
25438598 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACTCC-CATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATAC-CCTCATAGGGTAAAATGA
** *
25438662 -CTGAATACCCCCATAG
65 CCAAAATACCCCTATAG
*
25438678 GGTAAAATAACCGAAATACCCCTATAGGGTAAAATGATCGAAATA-CCTCCATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCT-CATAGGGTAAAATGA
25438742 C
65 C
25438743 TGTTATACCC
Statistics
Matches: 201, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
78 2 0.01
80 85 0.42
81 111 0.55
82 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (81 bp):
GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGAC
CAAAATACCCCTATAG
Found at i:25439011 original size:26 final size:26
Alignment explanation
Indices: 25438975--25439051 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
25438965 TTTGCCACAT
* *
25438975 ATACTGTTACTGGCAGCTTTGTTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
25439001 ATACTGATACTGGCAGCTCTGCTGTG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
25439027 ATGCT-ATTACTGGCAGCTTTGCTGC
1 ATACTGA-TACTGGCAGCTTTGCTGC
25439052 AATATTGGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:25439227 original size:28 final size:28
Alignment explanation
Indices: 25439157--25439279 Score: 133
Period size: 28 Copynumber: 4.4 Consensus size: 28
25439147 TATTGCACTG
* *
25439157 CACTATTACTGTATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
25439185 CACTGATT-CTATATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* * * *
25439213 CACTGTTATTGTATTAGGCTAAGGTCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
** *
25439241 TGCTGTTATTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
25439269 CACTG-TACTGT
1 CACTGTTACTGT
25439280 CACTGAATAG
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
27 7 0.09
28 68 0.88
29 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:25442631 original size:40 final size:40
Alignment explanation
Indices: 25442576--25442843 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
25442566 GAGCATTGGA
*
25442576 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
25442616 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
25442656 ATATACCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
25442696 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
25442736 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
25442776 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
25442816 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
25442844 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:25449706 original size:3 final size:3
Alignment explanation
Indices: 25449700--25449730 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25449690 ATTTTTTTTC
25449700 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25449731 GTACATTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25449871 original size:16 final size:16
Alignment explanation
Indices: 25449850--25449883 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
25449840 CATAATTTTT
25449850 ATATACATGTATATAC
1 ATATACATGTATATAC
*
25449866 ATATACATTTATATAC
1 ATATACATGTATATAC
25449882 AT
1 AT
25449884 TTTCCTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATACATGTATATAC
Found at i:25450041 original size:24 final size:23
Alignment explanation
Indices: 25449998--25450069 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
25449988 TTCCTCTACT
*
25449998 TTTTTATATGTATACTTATATATA
1 TTTTTA-ATATATACTTATATATA
* *
25450022 TGTTTTAATATATACATATACATA
1 T-TTTTAATATATACTTATATATA
* *
25450046 TTTTCAA-ATTTACTTATATATA
1 TTTTTAATATATACTTATATATA
25450068 TT
1 TT
25450070 GTACTTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 14 0.35
23 5 0.12
24 16 0.40
25 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTTTAATATATACTTATATATA
Found at i:25454328 original size:14 final size:14
Alignment explanation
Indices: 25454309--25454348 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25454299 TCATATGCTC
25454309 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
*
25454323 AAGAAAAGAAA-AGA
1 AAGAAAA-AAAGAAA
25454337 AAGAAAAAAAGA
1 AAGAAAAAAAGA
25454349 GAGCATGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:25454336 original size:16 final size:17
Alignment explanation
Indices: 25454315--25454348 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
25454305 GCTCAAGAAA
*
25454315 AAAAGAAA-AAGAAAAG
1 AAAAGAAAGAAAAAAAG
25454331 AAAAGAAAGAAAAAAAG
1 AAAAGAAAGAAAAAAAG
25454348 A
1 A
25454349 GAGCATGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAAAAAG
Found at i:25455026 original size:27 final size:26
Alignment explanation
Indices: 25454966--25455026 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
25454956 TCGAAATTCA
*
25454966 TAATTTAATTATAAAATAATTAATTT
1 TAATTAAATTATAAAATAATTAATTT
* *
25454992 GAACTTAAATTATTAAAA-ATTTGAATTT
1 TAA-TTAAATTA-TAAAATAATT-AATTT
25455020 TAATTAA
1 TAATTAA
25455027 TTTTATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 2 0.07
27 14 0.50
28 12 0.43
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (26 bp):
TAATTAAATTATAAAATAATTAATTT
Found at i:25458939 original size:13 final size:13
Alignment explanation
Indices: 25458923--25458948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25458913 GAAAAAAAAA
25458923 CATGAAAATTATT
1 CATGAAAATTATT
25458936 CATGAAAATTATT
1 CATGAAAATTATT
25458949 TTGGCCCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CATGAAAATTATT
Found at i:25461282 original size:68 final size:69
Alignment explanation
Indices: 25461173--25461355 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 69
25461163 ATAAAAATCG
* ** * * *
25461173 TATTAAGGCTCGCAGGATAAAAACCATAGCC-TCGAACATAGTTAGTGAAAGCAAAGC-CCTAGT
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTC-AACATAGTTAGCGAAAGCAAAGCTCCCAGC
25461236 TGTCA
65 TGTCA
** * *
25461241 TATTAAGGCTCACAGGATAAAAGTCGCAGCCTTCAACATAGTTAGCGAGAGCTAAGCTCCCAGCT
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGCGAAAGCAAAGCTCCCAGCT
25461306 GTCA
66 GTCA
** * * *
25461310 TATTAAGGCTCTTAGGATAAAAACCGCAACATCCAACATAGTTAGC
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGC
25461356 CAAAATTGAA
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
68 46 0.48
69 50 0.52
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (69 bp):
TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGCGAAAGCAAAGCTCCCAGCT
GTCA
Found at i:25461588 original size:57 final size:59
Alignment explanation
Indices: 25461368--25461589 Score: 229
Period size: 58 Copynumber: 3.8 Consensus size: 59
25461358 AAATTGAACT
* * * *
25461368 CCCAGCTACGTTATCTTTCAAAAGTTTCTCAAGTATAAAAC-AGCTCGTGGATTCACATC
1 CCCAGCT-GGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * * * *
25461427 CTCAGCTGGTTATCCTTCAAAATTTTCTTAAGTATAAAACT-GCTCGTGGATCTACATC
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * * * * **
25461485 CCTAGCTAGTTATCTTTCAAAATTCTCTTAAGTATGAAA-TAGCTCGCGGATTTTTATC
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * *
25461543 CCCAGTTGGTTATCTTT-GAAATTTTCTCAAGTATAAAGCTA-CTCGCG
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCG
25461590 AATTAATATT
Statistics
Matches: 135, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
57 23 0.17
58 106 0.79
59 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (59 bp):
CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
Found at i:25465434 original size:3 final size:3
Alignment explanation
Indices: 25465428--25465456 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25465418 ATTTTTTTTC
25465428 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25465457 TCCATGTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25465602 original size:16 final size:16
Alignment explanation
Indices: 25465581--25465614 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
25465571 CATAATTTTT
25465581 ATATACATGTATATAC
1 ATATACATGTATATAC
*
25465597 ATATACATTTATATAC
1 ATATACATGTATATAC
25465613 AT
1 AT
25465615 TTTCCTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATACATGTATATAC
Found at i:25465772 original size:24 final size:23
Alignment explanation
Indices: 25465729--25465800 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
25465719 TTCCTCTACT
*
25465729 TTTTTATATGTATACTTATATATA
1 TTTTTA-ATATATACTTATATATA
* *
25465753 TGTTTTAATATATACATATACATA
1 T-TTTTAATATATACTTATATATA
* *
25465777 TTTTCAA-ATTTACTTATATATA
1 TTTTTAATATATACTTATATATA
25465799 TT
1 TT
25465801 GTACTTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 14 0.35
23 5 0.12
24 16 0.40
25 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTTTAATATATACTTATATATA
Found at i:25470059 original size:14 final size:14
Alignment explanation
Indices: 25470040--25470079 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25470030 TCATATGCTC
25470040 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
*
25470054 AAGAAAAGAAA-AGA
1 AAGAAAA-AAAGAAA
25470068 AAGAAAAAAAGA
1 AAGAAAAAAAGA
25470080 GAGCATGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:25470067 original size:16 final size:17
Alignment explanation
Indices: 25470046--25470079 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
25470036 GCTCAAGAAA
*
25470046 AAAAGAAA-AAGAAAAG
1 AAAAGAAAGAAAAAAAG
25470062 AAAAGAAAGAAAAAAAG
1 AAAAGAAAGAAAAAAAG
25470079 A
1 A
25470080 GAGCATGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAAAAAG
Found at i:25470757 original size:27 final size:26
Alignment explanation
Indices: 25470697--25470757 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
25470687 TCGAAATTCA
*
25470697 TAATTTAATTATAAAATAATTAATTT
1 TAATTAAATTATAAAATAATTAATTT
* *
25470723 GAACTTAAATTATTAAAA-ATTTGAATTT
1 TAA-TTAAATTA-TAAAATAATT-AATTT
25470751 TAATTAA
1 TAATTAA
25470758 TTTTATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 2 0.07
27 14 0.50
28 12 0.43
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (26 bp):
TAATTAAATTATAAAATAATTAATTT
Found at i:25474670 original size:13 final size:13
Alignment explanation
Indices: 25474654--25474679 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25474644 GAAAAAAAAA
25474654 CATGAAAATTATT
1 CATGAAAATTATT
25474667 CATGAAAATTATT
1 CATGAAAATTATT
25474680 TTGGCCCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CATGAAAATTATT
Found at i:25477013 original size:68 final size:69
Alignment explanation
Indices: 25476904--25477086 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 69
25476894 ATAAAAATCG
* ** * * *
25476904 TATTAAGGCTCGCAGGATAAAAACCATAGCC-TCGAACATAGTTAGTGAAAGCAAAGC-CCTAGT
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTC-AACATAGTTAGCGAAAGCAAAGCTCCCAGC
25476967 TGTCA
65 TGTCA
** * *
25476972 TATTAAGGCTCACAGGATAAAAGTCGCAGCCTTCAACATAGTTAGCGAGAGCTAAGCTCCCAGCT
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGCGAAAGCAAAGCTCCCAGCT
25477037 GTCA
66 GTCA
** * * *
25477041 TATTAAGGCTCTTAGGATAAAAACCGCAACATCCAACATAGTTAGC
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGC
25477087 CAAAATTGAA
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
68 46 0.48
69 50 0.52
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (69 bp):
TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGCGAAAGCAAAGCTCCCAGCT
GTCA
Found at i:25477319 original size:57 final size:59
Alignment explanation
Indices: 25477099--25477320 Score: 229
Period size: 58 Copynumber: 3.8 Consensus size: 59
25477089 AAATTGAACT
* * * *
25477099 CCCAGCTACGTTATCTTTCAAAAGTTTCTCAAGTATAAAAC-AGCTCGTGGATTCACATC
1 CCCAGCT-GGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * * * *
25477158 CTCAGCTGGTTATCCTTCAAAATTTTCTTAAGTATAAAACT-GCTCGTGGATCTACATC
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * * * * **
25477216 CCTAGCTAGTTATCTTTCAAAATTCTCTTAAGTATGAAA-TAGCTCGCGGATTTTTATC
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * *
25477274 CCCAGTTGGTTATCTTT-GAAATTTTCTCAAGTATAAAGCTA-CTCGCG
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCG
25477321 AATTAATATT
Statistics
Matches: 135, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
57 23 0.17
58 106 0.79
59 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (59 bp):
CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
Found at i:25481500 original size:37 final size:37
Alignment explanation
Indices: 25481441--25481586 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
25481431 AGCTCAGAAG
* * *
25481441 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25481478 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25481515 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
25481552 TAATCTCCACACATAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25481587 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25481860 original size:47 final size:47
Alignment explanation
Indices: 25481798--25482139 Score: 432
Period size: 47 Copynumber: 7.1 Consensus size: 47
25481788 ACACGTTTCG
* * *
25481798 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
25481845 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
25481892 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
25481939 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* **
25481992 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * * *
25482043 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
25482090 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
25482137 CAT
1 CAT
25482140 AAAATCCTAA
Statistics
Matches: 264, Mismatches: 23, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
47 173 0.66
49 4 0.02
51 44 0.17
53 41 0.16
55 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:25481986 original size:53 final size:52
Alignment explanation
Indices: 25481925--25482117 Score: 245
Period size: 51 Copynumber: 3.8 Consensus size: 52
25481915 ACATACGCAT
25481925 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAG
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CATATATATATACAG
* *
25481978 GTTCACATTCATCACATTGGCCATTCGGCCTTATCA-CACATATATATACGG
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
* * ** *
25482029 GTTCACATTCATCACATTGGCCATTCAGCCTTATCA-C----ACATACGCAT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
* *
25482076 GTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATA
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CATA
25482118 CGCATGTTCA
Statistics
Matches: 124, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
47 38 0.31
49 1 0.01
51 49 0.40
53 36 0.29
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (52 bp):
GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
Found at i:25482091 original size:151 final size:147
Alignment explanation
Indices: 25481803--25482117 Score: 471
Period size: 151 Copynumber: 2.2 Consensus size: 147
25481793 TTTCGCATTA
*
25481803 GCCATTCGGCCTTA-C-CAC--ATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGGCCT
1 GCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCT
* * * *
25481862 TATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
66 TATCACATATATACAGGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGT
* *
25481927 TCACATTCATCACATTG
131 TCACATCCATCACAGTG
*
25481944 GCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCT
1 GCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCT
*
25482009 TATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGC
66 TAT--CAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGC
25482074 ATGTTCACATCCATCACAGTG
127 ATGTTCACATCCATCACAGTG
25482095 GCCATTCGGCCTTATCACACATA
1 GCCATTCGGCCTTATCACACATA
25482118 CGCATGTTCA
Statistics
Matches: 154, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
141 14 0.09
142 1 0.01
143 2 0.01
145 6 0.04
146 1 0.01
147 36 0.23
149 2 0.01
151 92 0.60
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (147 bp):
GCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCT
TATCACATATATACAGGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGT
TCACATCCATCACAGTG
Found at i:25487434 original size:43 final size:43
Alignment explanation
Indices: 25487373--25487459 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
25487363 ATTCTCACAT
25487373 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
1 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
*
25487416 TGATATGGAAATCAAAGAAGAAAGCAGAGAGGTCGAATGGAGG
1 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
25487459 T
1 T
25487460 TTACAAGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.08, G:0.33, T:0.15
Consensus pattern (43 bp):
TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
Found at i:25489526 original size:17 final size:17
Alignment explanation
Indices: 25489504--25489537 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25489494 GAAAAATTGG
*
25489504 AGTATTTGTAATCTTTC
1 AGTATTTCTAATCTTTC
25489521 AGTATTTCTAATCTTTC
1 AGTATTTCTAATCTTTC
25489538 TACAGGAGGG
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:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (17 bp):
AGTATTTCTAATCTTTC
Found at i:25490181 original size:73 final size:73
Alignment explanation
Indices: 25490062--25490393 Score: 619
Period size: 73 Copynumber: 4.5 Consensus size: 73
25490052 TATTATTATT
** *
25490062 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
25490127 ATTTTAAG
66 ATTTTAAG
25490135 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
25490200 ATTTTAAG
66 ATTTTAAG
25490208 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
25490273 ATTTTAAG
66 ATTTTAAG
25490281 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
25490346 ATTTTAAG
66 ATTTTAAG
* *
25490354 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTT
25490394 GTCAAGTTGT
Statistics
Matches: 254, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 254 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:25492739 original size:21 final size:21
Alignment explanation
Indices: 25492693--25492739 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
25492683 GTTTTTATTT
*
25492693 TAAAAAATAATTCATAATAAA
1 TAAAAAATAATTAATAATAAA
* *
25492714 CAAAAAATAAATTAAT-ATTAA
1 TAAAAAAT-AATTAATAATAAA
25492735 TAAAA
1 TAAAA
25492740 TGTTATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAAATAATTAATAATAAA
Found at i:25499010 original size:15 final size:15
Alignment explanation
Indices: 25498987--25499017 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25498977 ATATTTTTCT
25498987 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
25499002 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
25499017 T
1 T
25499018 TCTCAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:25499152 original size:23 final size:23
Alignment explanation
Indices: 25499126--25499179 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
25499116 ATTATTTTGA
** *
25499126 ATTTTTAAAATTTATAATGATAT
1 ATTTTTAAAATTTATAAAAAAAT
*
25499149 A-TTTTATAATTTTATAAAAAAAT
1 ATTTTTA-AAATTTATAAAAAAAT
25499172 ATTTTTAA
1 ATTTTTAA
25499180 GCCTTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 5 0.20
23 15 0.60
24 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTTTAAAATTTATAAAAAAAT
Found at i:25499357 original size:7 final size:7
Alignment explanation
Indices: 25499347--25499376 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
25499337 TATTATAATA
25499347 TTCTATT
1 TTCTATT
25499354 TTCTATT
1 TTCTATT
25499361 TTCTATT
1 TTCTATT
25499368 TTCTATT
1 TTCTATT
25499375 TT
1 TT
25499377 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCTATT
Found at i:25499861 original size:13 final size:13
Alignment explanation
Indices: 25499843--25499876 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25499833 TATCTCTAAA
25499843 AATTTTCTAAAAG
1 AATTTTCTAAAAG
* *
25499856 AATTTTTTTAAAG
1 AATTTTCTAAAAG
25499869 AATTTTCT
1 AATTTTCT
25499877 CTCTACAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (13 bp):
AATTTTCTAAAAG
Found at i:25503792 original size:24 final size:25
Alignment explanation
Indices: 25503688--25503795 Score: 111
Period size: 25 Copynumber: 4.4 Consensus size: 25
25503678 ATGTATGCTA
25503688 ATACGAGCTATG-AATCGG-AATGCTC
1 ATACGAGCTA-GAAATCGGTAA-GCTC
25503713 -TCACGAGCTAGAAATCGGTAAGCTC
1 AT-ACGAGCTAGAAATCGGTAAGCTC
* *
25503738 ATACTAGCT-GAGAATTGGTAAGCTC
1 ATACGAGCTAGA-AATCGGTAAGCTC
25503763 -TCACGAG-TAGAAATCGGTAAGCTC
1 AT-ACGAGCTAGAAATCGGTAAGCTC
25503787 ATACGAGCT
1 ATACGAGCT
25503796 GTGGTGTGTC
Statistics
Matches: 70, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
24 23 0.33
25 44 0.63
26 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (25 bp):
ATACGAGCTAGAAATCGGTAAGCTC
Found at i:25506380 original size:16 final size:16
Alignment explanation
Indices: 25506359--25506391 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25506349 TATTAAGAAA
25506359 ATGTTACAAAAATGTG
1 ATGTTACAAAAATGTG
25506375 ATGTTACAAAAATGTG
1 ATGTTACAAAAATGTG
25506391 A
1 A
25506392 AAATAGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
ATGTTACAAAAATGTG
Found at i:25514628 original size:26 final size:26
Alignment explanation
Indices: 25514599--25514662 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
25514589 TTACCCTCAG
*
25514599 TAAAATTTTGATGATTTTACCCCTAA
1 TAAAATTTTGAAGATTTTACCCCTAA
* *
25514625 TAAAATTTTTAAAGATTTTACCCCTAG
1 TAAAA-TTTTGAAGATTTTACCCCTAA
*
25514652 TGAAATTTTGA
1 TAAAATTTTGA
25514663 GAAAATATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (26 bp):
TAAAATTTTGAAGATTTTACCCCTAA
Found at i:25514823 original size:12 final size:12
Alignment explanation
Indices: 25514806--25514830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25514796 AGCAAATGGA
25514806 TCATTTCCATTT
1 TCATTTCCATTT
25514818 TCATTTCCATTT
1 TCATTTCCATTT
25514830 T
1 T
25514831 TGGAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:25517226 original size:25 final size:26
Alignment explanation
Indices: 25517187--25517235 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
25517177 TGTAAATAAG
25517187 AATAATATCTCTAGA-AATTTTCTAA
1 AATAATATCTCTAGAGAATTTTCTAA
* *
25517212 AATAATTTCTTTAGAGAATTTTCT
1 AATAATATCTCTAGAGAATTTTCT
25517236 CTCTACAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (26 bp):
AATAATATCTCTAGAGAATTTTCTAA
Found at i:25518598 original size:13 final size:14
Alignment explanation
Indices: 25518575--25518606 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
25518565 TCCGTCATAG
25518575 AAATACATCCAACA
1 AAATACATCCAACA
25518589 AAAT-CATCCAACA
1 AAATACATCCAACA
25518602 AAATA
1 AAATA
25518607 AAAACATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.59, C:0.25, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATACATCCAACA
Found at i:25520641 original size:20 final size:20
Alignment explanation
Indices: 25520616--25520653 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25520606 CCATTTTCTA
*
25520616 GCTCTGCTGCATGTACCCTT
1 GCTCTGCTGCAAGTACCCTT
25520636 GCTCTGCTGCAAGTACCC
1 GCTCTGCTGCAAGTACCC
25520654 CTAATCCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.37, G:0.21, T:0.29
Consensus pattern (20 bp):
GCTCTGCTGCAAGTACCCTT
Found at i:25521886 original size:41 final size:41
Alignment explanation
Indices: 25521841--25521961 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
25521831 AGTGTTATTC
* * * *
25521841 GGGGTACCGTAGTACAAACAGGGGTATATATGTGCAATTTA
1 GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
* * *
25521882 GGGGTACCAAAGTACAAATAGGGCCATGCATGTGCAATTTA
1 GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
*
25521923 GGGGTA-CGAAAGTACAAATAGGGGCACGTATGTGCAATT
1 GGGGTACCG-AAGTACAAATAGGGGCATGTATGTGCAATT
25521962 CAAATATAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (41 bp):
GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
Found at i:25521946 original size:20 final size:20
Alignment explanation
Indices: 25521880--25521946 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
25521870 ATGTGCAATT
*
25521880 TAGGGGTACCAAAGTACAAA
1 TAGGGGTACGAAAGTACAAA
** * * * * *
25521900 TAGGGCCATGCATGTGCAATT
1 TAGGGGTACGAAAGTACAA-A
25521921 TAGGGGTACGAAAGTACAAA
1 TAGGGGTACGAAAGTACAAA
25521941 TAGGGG
1 TAGGGG
25521947 CACGTATGTG
Statistics
Matches: 31, Mismatches: 15, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.19
Consensus pattern (20 bp):
TAGGGGTACGAAAGTACAAA
Found at i:25524483 original size:10 final size:9
Alignment explanation
Indices: 25524438--25524479 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
25524428 CAACAAATAT
25524438 ACATACATA
1 ACATACATA
25524447 ACATACATA
1 ACATACATA
25524456 ACAGTACATA
1 ACA-TACATA
25524466 ACATAACAT-
1 ACAT-ACATA
25524475 ACATA
1 ACATA
25524480 AACAGTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.03
9 17 0.55
10 13 0.42
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.21
Consensus pattern (9 bp):
ACATACATA
Found at i:25524483 original size:15 final size:15
Alignment explanation
Indices: 25524447--25524480 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
25524437 TACATACATA
25524447 ACAT-ACATAACAGT
1 ACATAACATAACAGT
25524461 ACATAACATAACA-T
1 ACATAACATAACAGT
25524475 ACATAA
1 ACATAA
25524481 ACAGTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (15 bp):
ACATAACATAACAGT
Found at i:25528420 original size:37 final size:37
Alignment explanation
Indices: 25528379--25528455 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
25528369 GATAATCACT
*
25528379 TTAAAATT-AAATTAATA-AAATACTATTAATATAAATA
1 TTAAAATTCAAATTAATATAAAT-CTATTAAAAT-AATA
*
25528416 TT-AAATTCAATTTAATATTAAATCTATTAAAATAATA
1 TTAAAATTCAAATTAATA-TAAATCTATTAAAATAATA
25528453 TTA
1 TTA
25528456 TTTTTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
36 5 0.15
37 16 0.47
38 9 0.26
39 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (37 bp):
TTAAAATTCAAATTAATATAAATCTATTAAAATAATA
Found at i:25530025 original size:15 final size:15
Alignment explanation
Indices: 25530005--25530036 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25529995 TATTCATGTA
*
25530005 AAATATGAAAGACAG
1 AAATATAAAAGACAG
25530020 AAATATAAAAGACAG
1 AAATATAAAAGACAG
25530035 AA
1 AA
25530037 TAATGACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.16, T:0.12
Consensus pattern (15 bp):
AAATATAAAAGACAG
Found at i:25530580 original size:29 final size:29
Alignment explanation
Indices: 25530424--25530584 Score: 93
Period size: 29 Copynumber: 5.6 Consensus size: 29
25530414 TTGTTCCTAT
* *
25530424 ATATGTGAGCCTTTGTGGCGTAACTTGTTG
1 ATATGTGAGCCCTTGTGGCGGAACTTG-TG
* * * *
25530454 -TATGTGAGTCTTTGTGGCAGAA--TATG
1 ATATGTGAGCCCTTGTGGCGGAACTTGTG
** * *
25530480 ATATACGAGCCCTTGTGGTAGTAACTTG-G
1 ATATGTGAGCCCTTGTGG-CGGAACTTGTG
* *
25530509 TATATGTGAG-CCTTGGTGGCCGATCTAT-T-
1 -ATATGTGAGCCCTT-GTGGCGGAACT-TGTG
*
25530538 ATATGTAAGCCCTTGTGGCGGGAACTTGTG
1 ATATGTGAGCCCTTGTGGC-GGAACTTGTG
*
25530568 ATATGTGAGCCTTTGTG
1 ATATGTGAGCCCTTGTG
25530585 ACTATTCTTT
Statistics
Matches: 96, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
26 2 0.02
27 14 0.15
28 16 0.17
29 36 0.38
30 28 0.29
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (29 bp):
ATATGTGAGCCCTTGTGGCGGAACTTGTG
Found at i:25530598 original size:58 final size:58
Alignment explanation
Indices: 25530487--25530606 Score: 136
Period size: 58 Copynumber: 2.1 Consensus size: 58
25530477 ATGATATACG
* * *
25530487 AGCCCTTGTGGTAGTAACTTGGTATATGTGAGCCTTGGTGGCCGATCTATTATATGTA
1 AGCCCTTGTGGCAGGAACTTGGTATATGTGAGCCTTGGTGGACGATCTATTATATGTA
* * * * *
25530545 AGCCCTTGTGGCGGGAACTT-GTGATATGTGAGCCTTTGT-GACTATTCTTTTATATGTG
1 AGCCCTTGTGGCAGGAACTTGGT-ATATGTGAGCCTTGGTGGACGA-TCTATTATATGTA
25530603 AGCC
1 AGCC
25530607 ATCGTGGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
57 5 0.10
58 47 0.90
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (58 bp):
AGCCCTTGTGGCAGGAACTTGGTATATGTGAGCCTTGGTGGACGATCTATTATATGTA
Found at i:25533886 original size:21 final size:21
Alignment explanation
Indices: 25533862--25533903 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25533852 TTTTTTCATT
25533862 AATTGATTAACTA-AATGTTAA
1 AATTGATTAACTATAAT-TTAA
**
25533883 AATTTCTTAACTATAATTTAA
1 AATTGATTAACTATAATTTAA
25533904 TACGACTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
AATTGATTAACTATAATTTAA
Found at i:25535345 original size:27 final size:27
Alignment explanation
Indices: 25535315--25535492 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
25535305 ATATTGAGCC
* *
25535315 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
25535342 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
25535369 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
25535397 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25535424 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
25535451 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
25535478 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25535493 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25535427 original size:55 final size:54
Alignment explanation
Indices: 25535315--25535492 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
25535305 ATATTGAGCC
* * * * *
25535315 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
25535369 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
25535424 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
25535478 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25535493 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:25542539 original size:17 final size:19
Alignment explanation
Indices: 25542517--25542562 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
25542507 TAAAAACTAA
25542517 GATAAATAAA-A-TAGAAC
1 GATAAATAAATATTAGAAC
25542534 GATAAATCAAATATTAGAAC
1 GATAAAT-AAATATTAGAAC
*
25542554 AATAAATAA
1 GATAAATAA
25542563 GGGGAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 3 0.12
20 12 0.48
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (19 bp):
GATAAATAAATATTAGAAC
Found at i:25547126 original size:30 final size:30
Alignment explanation
Indices: 25547092--25547152 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
25547082 TTAAATTAAG
25547092 ATTAAT-TTTCTAAATTTTTTATTAATT-TTA
1 ATTAATATTT-TAAATTTTTTA-TAATTCTTA
*
25547122 ATTAATATTTTAGATTTTTTATAATTCTTA
1 ATTAATATTTTAAATTTTTTATAATTCTTA
25547152 A
1 A
25547153 CAATTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 5 0.18
30 20 0.71
31 3 0.11
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTAATATTTTAAATTTTTTATAATTCTTA
Found at i:25556647 original size:6 final size:6
Alignment explanation
Indices: 25556629--25556665 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
25556619 AAAGGCAAAG
*
25556629 ATAAAA ATGAAAA ATAAAA ATAAAA CTAAAA ATAAAA
1 ATAAAA AT-AAAA ATAAAA ATAAAA ATAAAA ATAAAA
25556666 GTTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:25560954 original size:21 final size:21
Alignment explanation
Indices: 25560930--25560971 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
25560920 TTCTTTAGTG
25560930 TTACTATTTGACTTTGGATCA
1 TTACTATTTGACTTTGGATCA
*
25560951 TTACTGTTTGACTTTGGATCA
1 TTACTATTTGACTTTGGATCA
25560972 ATGCGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (21 bp):
TTACTATTTGACTTTGGATCA
Found at i:25563096 original size:21 final size:21
Alignment explanation
Indices: 25563070--25563120 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
25563060 AGCGGTGGCG
*
25563070 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
25563091 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
25563112 GTGAGATTA
1 GTGAGATTA
25563121 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:25576933 original size:16 final size:17
Alignment explanation
Indices: 25576907--25576944 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
25576897 ATATCTTTCT
25576907 TTAATAATAAATTAAAA
1 TTAATAATAAATTAAAA
*
25576924 TTAA-AATAAATTAAGA
1 TTAATAATAAATTAAAA
25576940 TTAAT
1 TTAAT
25576945 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
TTAATAATAAATTAAAA
Found at i:25576995 original size:30 final size:31
Alignment explanation
Indices: 25576939--25577021 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
25576929 ATAAATTAAG
*
25576939 ATTAATTTTTAAAATTTGTTATTAATT-TTA
1 ATTAATTTTTAAAATTTCTTATTAATTCTTA
*
25576969 ATTAATATTTTAAAGTTTCTTA-TAATTCTTA
1 ATTAAT-TTTTAAAATTTCTTATTAATTCTTA
*
25577000 A-TAATTTTAAATAACTTTCTTA
1 ATTAATTTTTAA-AA-TTTCTTA
25577022 AAAATAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
29 5 0.11
30 16 0.36
31 24 0.53
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.55
Consensus pattern (31 bp):
ATTAATTTTTAAAATTTCTTATTAATTCTTA
Found at i:25588064 original size:15 final size:16
Alignment explanation
Indices: 25588046--25588078 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25588036 TAATTTTTTT
25588046 TTATAAA-ATTATATA
1 TTATAAACATTATATA
*
25588061 TTATAAACTTTATATA
1 TTATAAACATTATATA
25588077 TT
1 TT
25588079 TGGTGCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAAACATTATATA
Found at i:25588398 original size:10 final size:10
Alignment explanation
Indices: 25588385--25588411 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
25588375 TCACTTCTTT
25588385 TGCTCTCAAA
1 TGCTCTCAAA
25588395 TGCTCTCAAA
1 TGCTCTCAAA
25588405 TGCTCTC
1 TGCTCTC
25588412 CTAAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (10 bp):
TGCTCTCAAA
Found at i:25594178 original size:25 final size:24
Alignment explanation
Indices: 25594147--25594243 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 24
25594137 CAACTTGTAT
25594147 GAGCTTACCGATTTACAGCTCGTGA
1 GAGCTTACCGATTT-CAGCTCGTGA
*
25594172 GAGCTTACCGATTCTCAGCTTGT-A
1 GAGCTTACCGATT-TCAGCTCGTGA
* *
25594196 TGAGCTTACCGTTATTT-AGCTCGGGG
1 -GAGCTTACCG--ATTTCAGCTCGTGA
25594222 GAGCTTACCG-TTTACAGCTCGT
1 GAGCTTACCGATTT-CAGCTCGT
25594244 ATGAGCATAC
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.05
24 7 0.12
25 45 0.75
26 2 0.03
27 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.32
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTCGTGA
Found at i:25594217 original size:50 final size:48
Alignment explanation
Indices: 25594140--25594249 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 48
25594130 CATGCCACAA
*
25594140 CTTGTATGAGCTTACCGATTTACAGCTCGTGAGAGCTTACCGATTCT-CAG
1 CTTGTATGAGCTTACCGATTTA-AGCTCGGGAGAGCTTACCG-TT-TACAG
*
25594190 CTTGTATGAGCTTACCGTTATTT-AGCTCGGGGGAGCTTACCGTTTACAG
1 CTTGTATGAGCTTACCG--ATTTAAGCTCGGGAGAGCTTACCGTTTACAG
*
25594239 CTCGTATGAGC
1 CTTGTATGAGC
25594250 ATACACGTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
48 1 0.02
49 15 0.28
50 34 0.63
52 4 0.07
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (48 bp):
CTTGTATGAGCTTACCGATTTAAGCTCGGGAGAGCTTACCGTTTACAG
Found at i:25595417 original size:12 final size:12
Alignment explanation
Indices: 25595400--25595429 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25595390 CTCTAGTTTT
25595400 CACACGGCCTAG
1 CACACGGCCTAG
*
25595412 CACACGGCCTGG
1 CACACGGCCTAG
25595424 CACACG
1 CACACG
25595430 AGCGTGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:25598321 original size:6 final size:6
Alignment explanation
Indices: 25598298--25598342 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
25598288 TCAAGTAAAT
* *
25598298 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA T
25598343 GACTAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
TAAAAA
Found at i:25598328 original size:20 final size:20
Alignment explanation
Indices: 25598294--25598353 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
25598284 ATAATCAAGT
*
25598294 AAATTAAAA-ATTAAATTAA
1 AAATAAAAATATTAAATTAA
*
25598313 AAATAAAAATATTAAAATAA
1 AAATAAAAATATTAAATTAA
*
25598333 AAATAAAAATGACTAAATTAA
1 AAATAAAAAT-ATTAAATTAA
25598354 TGGAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.23
20 19 0.54
21 8 0.23
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATAAAAATATTAAATTAA
Found at i:25608003 original size:27 final size:28
Alignment explanation
Indices: 25607953--25608021 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
25607943 AAATAAAAAA
*
25607953 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
25607981 TTACCAAAATATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
25608008 TTACCAAAATATAT
1 TTACCAAAATATAT
25608022 CAAAAAAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 23 0.59
28 11 0.28
29 5 0.13
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:25608119 original size:27 final size:27
Alignment explanation
Indices: 25608089--25608165 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
25608079 ACGCCAATGG
* *
25608089 CATTGGTGGCACCAAAGGTGCCAAAAC
1 CATTGGCGGCACCAATGGTGCCAAAAC
**
25608116 CATTGGCGGCACCAATGGTGCCAATGC
1 CATTGGCGGCACCAATGGTGCCAAAAC
25608143 CATTGGCGGCACCAATGGTGCCA
1 CATTGGCGGCACCAATGGTGCCA
25608166 TACTGATTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.17
Consensus pattern (27 bp):
CATTGGCGGCACCAATGGTGCCAAAAC
Done.