Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 148 of 171
Found at i:44699769 original size:7 final size:7
Alignment explanation
Indices: 44699739--44699799 Score: 83
Period size: 7 Copynumber: 9.1 Consensus size: 7
44699729 TTTTTTTTTC
44699739 TCCTTCT
1 TCCTTCT
*
44699746 TCC-CCT
1 TCCTTCT
44699752 T-CTTC-
1 TCCTTCT
44699757 TCCTTCT
1 TCCTTCT
44699764 TCCTTCT
1 TCCTTCT
44699771 TCCTTCT
1 TCCTTCT
44699778 TCCTTCT
1 TCCTTCT
44699785 TCCTTCT
1 TCCTTCT
*
44699792 TCTTTCT
1 TCCTTCT
44699799 T
1 T
44699800 TGTTTCTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
5 2 0.04
6 8 0.17
7 38 0.79
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (7 bp):
TCCTTCT
Found at i:44699816 original size:20 final size:21
Alignment explanation
Indices: 44699791--44699834 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
44699781 TTCTTCCTTC
44699791 TTCTTTCT-TTGTTT-CTTTTT
1 TTCTTTCTCTT-TTTCCTTTTT
44699811 TTCTTTCTCTTTTTCCTTTTT
1 TTCTTTCTCTTTTTCCTTTTT
44699832 TTC
1 TTC
44699835 CCCTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (21 bp):
TTCTTTCTCTTTTTCCTTTTT
Found at i:44706541 original size:30 final size:30
Alignment explanation
Indices: 44706505--44706567 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
44706495 TCTTAACAAG
*
44706505 CAAATGCCTCTAAAACAGTAACAAAATTAA
1 CAAATGCCTCTAAAACAATAACAAAATTAA
*
44706535 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAACAATAACAAAATTAA
44706565 CAA
1 CAA
44706568 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.19, G:0.05, T:0.21
Consensus pattern (30 bp):
CAAATGCCTCTAAAACAATAACAAAATTAA
Found at i:44708416 original size:23 final size:23
Alignment explanation
Indices: 44708390--44708485 Score: 97
Period size: 23 Copynumber: 4.1 Consensus size: 23
44708380 GCGCCCTTTA
*
44708390 TTTAGCAC-GTTTCGTGCCCTCTG
1 TTTAGCACTGTGT-GTGCCCTCTG
44708413 TTTAGCACTGTGTGTGCCCTCTG
1 TTTAGCACTGTGTGTGCCCTCTG
* *
44708436 TTATTAGTACT-TCGTGTGCACTCTG
1 -T-TTAGCACTGT-GTGTGCCCTCTG
* *
44708461 ATTAGCACTTTGTGTGCCCTCTG
1 TTTAGCACTGTGTGTGCCCTCTG
44708484 TT
1 TT
44708486 ACCCAGCACT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
23 37 0.61
24 6 0.10
25 18 0.30
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (23 bp):
TTTAGCACTGTGTGTGCCCTCTG
Found at i:44708452 original size:25 final size:24
Alignment explanation
Indices: 44708403--44708511 Score: 109
Period size: 25 Copynumber: 4.5 Consensus size: 24
44708393 AGCACGTTTC
44708403 GTGCCCTCTG-T-TTAGCACTGTGT
1 GTGCCCTCTGTTATTAGCACT-TGT
*
44708426 GTGCCCTCTGTTATTAGTACTTCGT
1 GTGCCCTCTGTTATTAGCACTT-GT
*
44708451 GTGCACTCTG--ATTAGCACTTTGT
1 GTGCCCTCTGTTATTAGCAC-TTGT
** *
44708474 GTGCCCTCTGTTACCCAGCACTTAT
1 GTGCCCTCTGTTA-TTAGCACTTGT
44708499 GTGCCCTCTGTTA
1 GTGCCCTCTGTTA
44708512 AGTACTTCTG
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
23 28 0.39
24 4 0.06
25 35 0.49
26 5 0.07
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.39
Consensus pattern (24 bp):
GTGCCCTCTGTTATTAGCACTTGT
Found at i:44708502 original size:48 final size:48
Alignment explanation
Indices: 44708403--44708508 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
44708393 AGCACGTTTC
* ** * *
44708403 GTGCCCTCTGTTTAGCACTGTGTGTGCCCTCTGTTATTAGTACTTCGT
1 GTGCCCTCTGATTAGCACTGTGTGTGCCCTCTGTTACCAGCACTTCAT
* *
44708451 GTGCACTCTGATTAGCACTTTGTGTGCCCTCTGTTACCCAGCACTT-AT
1 GTGCCCTCTGATTAGCACTGTGTGTGCCCTCTGTTA-CCAGCACTTCAT
44708499 GTGCCCTCTG
1 GTGCCCTCTG
44708509 TTAAGTACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 43 0.88
49 6 0.12
ACGTcount: A:0.12, C:0.28, G:0.22, T:0.38
Consensus pattern (48 bp):
GTGCCCTCTGATTAGCACTGTGTGTGCCCTCTGTTACCAGCACTTCAT
Found at i:44710902 original size:22 final size:23
Alignment explanation
Indices: 44710851--44710997 Score: 176
Period size: 23 Copynumber: 6.5 Consensus size: 23
44710841 GCTGGGGAAA
* * *
44710851 CAGTAAGCACACACAGTG-TAAT
1 CAGTAGGCACACATAGTGCAAAT
*
44710873 CCAGTAGGCACACACAGTGC-AAT
1 -CAGTAGGCACACATAGTGCAAAT
44710896 CAGTAGGCACACATAGTGC-AAT
1 CAGTAGGCACACATAGTGCAAAT
44710918 CAGTAGGCACACATAGTGCAAAT
1 CAGTAGGCACACATAGTGCAAAT
*
44710941 CAGTAGGCACACATAATGCAAAT
1 CAGTAGGCACACATAGTGCAAAT
* *
44710964 CAGTAAGCACACAAAGTGCGAAA-
1 CAGTAGGCACACATAGTGC-AAAT
*
44710987 CAGTAAGCACA
1 CAGTAGGCACA
44710998 TGAAGTGCGA
Statistics
Matches: 115, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
22 40 0.35
23 72 0.63
24 3 0.03
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
CAGTAGGCACACATAGTGCAAAT
Found at i:44710982 original size:46 final size:45
Alignment explanation
Indices: 44710851--44710997 Score: 172
Period size: 45 Copynumber: 3.2 Consensus size: 45
44710841 GCTGGGGAAA
* * * * *
44710851 CAGTAAGCACACACAGTGTAATCCAGTAGGCACACACAGTGC-AAT
1 CAGTAGGCACACATAATGCAAT-CAGTAGGCACACAAAGTGCAAAT
* *
44710896 CAGTAGGCACACATAGTGCAATCAGTAGGCACACATAGTGCAAAT
1 CAGTAGGCACACATAATGCAATCAGTAGGCACACAAAGTGCAAAT
*
44710941 CAGTAGGCACACATAATGCAAATCAGTAAGCACACAAAGTGCGAAA-
1 CAGTAGGCACACATAATGC-AATCAGTAGGCACACAAAGTGC-AAAT
*
44710987 CAGTAAGCACA
1 CAGTAGGCACA
44710998 TGAAGTGCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
44 18 0.20
45 40 0.44
46 30 0.33
47 3 0.03
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (45 bp):
CAGTAGGCACACATAATGCAATCAGTAGGCACACAAAGTGCAAAT
Found at i:44710998 original size:67 final size:67
Alignment explanation
Indices: 44710825--44710998 Score: 176
Period size: 67 Copynumber: 2.5 Consensus size: 67
44710815 AAGTACTTAA
* *
44710825 CAGTAAGCACAC-AAGTGCTGGGGAAACAGTAAGCACACACAGTGTAATCCAGTAGGCACACACA
1 CAGTAAGCACACAAAGTGC----GAAACAGTAAG-ACACATAGTGAAATCCAGTAGGCACACACA
*
44710889 GTGCAAT
61 ATGCAAT
* * * * *
44710896 CAGTAGGCACACATAGTGC-AATCAGTAGGCACACATAGTGCAAAT-CAGTAGGCACACATAATG
1 CAGTAAGCACACAAAGTGCGAAACAGTAAG-ACACATAGTG-AAATCCAGTAGGCACACACAATG
44710959 CAAAT
64 C-AAT
44710964 CAGTAAGCACACAAAGTGCGAAACAGTAAG-CACAT
1 CAGTAAGCACACAAAGTGCGAAACAGTAAGACACAT
44710999 GAAGTGCGAA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
67 40 0.46
68 23 0.26
69 8 0.09
71 11 0.13
72 5 0.06
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (67 bp):
CAGTAAGCACACAAAGTGCGAAACAGTAAGACACATAGTGAAATCCAGTAGGCACACACAATGCA
AT
Found at i:44711003 original size:23 final size:23
Alignment explanation
Indices: 44710964--44711040 Score: 127
Period size: 23 Copynumber: 3.3 Consensus size: 23
44710954 TAATGCAAAT
**
44710964 CAGTAAGCACACAAAGTGCGAAA
1 CAGTAAGCACATGAAGTGCGAAA
44710987 CAGTAAGCACATGAAGTGCGAAA
1 CAGTAAGCACATGAAGTGCGAAA
*
44711010 CAGTGAGCACATGAAGTGCGAAA
1 CAGTAAGCACATGAAGTGCGAAA
44711033 CAGTAAGC
1 CAGTAAGC
44711041 GCGCTAGCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (23 bp):
CAGTAAGCACATGAAGTGCGAAA
Found at i:44711495 original size:11 final size:11
Alignment explanation
Indices: 44711468--44711498 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
44711458 TCAGTCTCTA
44711468 ATAATTTTTCT
1 ATAATTTTTCT
44711479 AT-ATTTTTCT
1 ATAATTTTTCT
44711489 ATAATTTTTC
1 ATAATTTTTC
44711499 AAAGTCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (11 bp):
ATAATTTTTCT
Found at i:44713267 original size:20 final size:19
Alignment explanation
Indices: 44713228--44713267 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
44713218 ACTCAGAGAA
*
44713228 ATTTATTCAATTCAATTTG
1 ATTTATTCAATTCAACTTG
*
44713247 ATTTGATTCAATTCGACTTG
1 ATTT-ATTCAATTCAACTTG
44713267 A
1 A
44713268 ATTTCATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTTATTCAATTCAACTTG
Found at i:44717817 original size:50 final size:51
Alignment explanation
Indices: 44717738--44717862 Score: 125
Period size: 50 Copynumber: 2.5 Consensus size: 51
44717728 ATAAATTCTT
* * * *
44717738 TTATTTAATATTTATCT-TTTACTAATTTAA-TTAATTTATA-GATAAAATAA
1 TTATTTAATATGTATCTATTAATTATTTTAATTTAA-TTA-ACGATAAAATAA
*
44717788 TTATTTAATAT-TATC-ACTTAATTATTTTAATTTAATTAACGATAATATAA
1 TTATTTAATATGTATCTA-TTAATTATTTTAATTTAATTAACGATAAAATAA
* *
44717838 TTTTTTATTATGTATCTATTAATTA
1 TTATTTAATATGTATCTATTAATTA
44717863 ATTTGAACTA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
49 5 0.08
50 42 0.67
51 15 0.24
52 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (51 bp):
TTATTTAATATGTATCTATTAATTATTTTAATTTAATTAACGATAAAATAA
Found at i:44718628 original size:28 final size:27
Alignment explanation
Indices: 44718582--44718666 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
44718572 TTAAGATCAC
*
44718582 TATATAAAAATTTTCAATAAATAAAAAA
1 TATAT-AAAATTTTAAATAAATAAAAAA
*
44718610 TATATAAAATTATTAAAT-ATTAAAATAA
1 TATATAAAATT-TTAAATAAATAAAA-AA
*
44718638 -A-ATAAATATTTTAAAAAAATTAAAAAA
1 TATATAAA-ATTTTAAATAAA-TAAAAAA
44718665 TA
1 TA
44718667 ATATTGGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
26 10 0.21
27 19 0.40
28 18 0.38
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (27 bp):
TATATAAAATTTTAAATAAATAAAAAA
Found at i:44718669 original size:28 final size:26
Alignment explanation
Indices: 44718588--44718669 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 26
44718578 TCACTATATA
*
44718588 AAAATTTTCAATAAA-TAAAAAATATAT
1 AAAATTTT-AAAAAATTAAAAAATA-AT
*
44718615 AAAATTATT-AAATATTAAAATAA-AAT
1 AAAATT-TTAAAAAATTAAAA-AATAAT
44718641 AAATATTTTAAAAAAATTAAAAAATAAT
1 AAA-ATTTT-AAAAAATTAAAAAATAAT
44718669 A
1 A
44718670 TTGGTAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
26 10 0.22
27 17 0.38
28 18 0.40
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATTTTAAAAAATTAAAAAATAAT
Found at i:44726989 original size:15 final size:16
Alignment explanation
Indices: 44726971--44727009 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
44726961 ATTTTTAAAA
44726971 TTTT-AAAATTTATAT
1 TTTTAAAAATTTATAT
44726986 TTTTAAAAATTTATA-
1 TTTTAAAAATTTATAT
*
44727001 ATTTAAAAA
1 TTTTAAAAA
44727010 AAAATCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTAAAAATTTATAT
Found at i:44726991 original size:23 final size:23
Alignment explanation
Indices: 44726961--44727005 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
44726951 ATTTAAAAAA
*
44726961 ATTTTTAAAATTTTAAAATTTAT
1 ATTTTTAAAAATTTAAAATTTAT
*
44726984 ATTTTTAAAAATTTATAATTTA
1 ATTTTTAAAAATTTAAAATTTA
44727006 AAAAAAAATC
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTTAAAAATTTAAAATTTAT
Found at i:44727010 original size:16 final size:16
Alignment explanation
Indices: 44726948--44727010 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
44726938 AAATTACAAA
44726948 ATAATTTAAAAAAATTTTT
1 ATAATTT-AAAAAA--TTT
* *
44726967 AAAATTT-TAAAATTT
1 ATAATTTAAAAAATTT
* *
44726982 ATATTTTTAAAAATTT
1 ATAATTTAAAAAATTT
44726998 ATAATTTAAAAAA
1 ATAATTTAAAAAA
44727011 AAATCTAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 8 0.22
16 18 0.50
17 4 0.11
19 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTTAAAAAATTT
Found at i:44742188 original size:13 final size:14
Alignment explanation
Indices: 44742170--44742200 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
44742160 TGAAAATATA
44742170 TTTTGTTTTT-ATT
1 TTTTGTTTTTCATT
44742183 TTTTGTTTTTCATT
1 TTTTGTTTTTCATT
44742197 TTTT
1 TTTT
44742201 AGAAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (14 bp):
TTTTGTTTTTCATT
Found at i:44746671 original size:11 final size:11
Alignment explanation
Indices: 44746655--44746679 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44746645 TCATTAATTA
44746655 TAAAACTTAAT
1 TAAAACTTAAT
44746666 TAAAACTTAAT
1 TAAAACTTAAT
44746677 TAA
1 TAA
44746680 TAATAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAAACTTAAT
Found at i:44753972 original size:16 final size:16
Alignment explanation
Indices: 44753929--44753975 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
44753919 ATTATATTTC
44753929 CATCTTTCT-ATTTTT
1 CATCTTTCTAATTTTT
*
44753944 CTACCTCTT-TAATTTTT
1 C-ATCT-TTCTAATTTTT
44753961 CATCTTTCTAATTTT
1 CATCTTTCTAATTTT
44753976 CTTTCCGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 9 0.35
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (16 bp):
CATCTTTCTAATTTTT
Found at i:44755359 original size:15 final size:15
Alignment explanation
Indices: 44755339--44755370 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44755329 ACTTAATACA
44755339 TTTGTGAAGACAACT
1 TTTGTGAAGACAACT
44755354 TTTGTGAAGACAACT
1 TTTGTGAAGACAACT
44755369 TT
1 TT
44755371 GAAGTGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (15 bp):
TTTGTGAAGACAACT
Found at i:44764040 original size:2 final size:2
Alignment explanation
Indices: 44764029--44764062 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
44764019 TTTAAAATTT
44764029 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44764063 TTTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44765721 original size:25 final size:25
Alignment explanation
Indices: 44765667--44765728 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
44765657 TAATATGAAA
**
44765667 ATATAA-ATATATTAAAATCTATAT
1 ATATAATATATAAAAAAATCTATAT
44765691 AGTATAATATATAAAAAAATCATATCAT
1 A-TATAATATATAAAAAAATC-TAT-AT
*
44765719 ATATCATATA
1 ATATAATATA
44765729 AGATATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.03
25 5 0.16
26 11 0.35
27 11 0.35
28 3 0.10
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (25 bp):
ATATAATATATAAAAAAATCTATAT
Found at i:44773050 original size:7 final size:7
Alignment explanation
Indices: 44773038--44773204 Score: 103
Period size: 7 Copynumber: 24.7 Consensus size: 7
44773028 TTCGAAAAAA
44773038 GTCAACG
1 GTCAACG
44773045 GTCAACG
1 GTCAACG
44773052 GTCAACG
1 GTCAACG
* *
44773059 GCCAA-A
1 GTCAACG
44773065 GTCAACG
1 GTCAACG
44773072 GTCAACG
1 GTCAACG
*
44773079 GTCAATG
1 GTCAACG
*
44773086 GTCAA-A
1 GTCAACG
*
44773092 GTCAATG
1 GTCAACG
*
44773099 GTCAATG
1 GTCAACG
*
44773106 GTCAATG
1 GTCAACG
*
44773113 ATCAACG
1 GTCAACG
*
44773120 GTCAA-A
1 GTCAACG
*
44773126 TTCAACG
1 GTCAACG
**
44773133 GTCAATA
1 GTCAACG
*
44773140 GTCAA-A
1 GTCAACG
*
44773146 GTTAACG
1 GTCAACG
*
44773153 GTCAATG
1 GTCAACG
*
44773160 GTCAA-A
1 GTCAACG
*
44773166 GTCAATG
1 GTCAACG
* *
44773173 GTTAACA
1 GTCAACG
*
44773180 GTCAA-A
1 GTCAACG
*
44773186 GTTAACG
1 GTCAACG
44773193 GTCAACG
1 GTCAACG
44773200 GTCAA
1 GTCAA
44773205 AGTCAACAGC
Statistics
Matches: 125, Mismatches: 29, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
6 28 0.22
7 97 0.78
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (7 bp):
GTCAACG
Found at i:44773070 original size:20 final size:20
Alignment explanation
Indices: 44773045--44773211 Score: 165
Period size: 20 Copynumber: 8.3 Consensus size: 20
44773035 AAAGTCAACG
*
44773045 GTCAACGGTCAACGGCCAAA
1 GTCAACGGTCAACGGTCAAA
*
44773065 GTCAACGGTCAACGGTCAATG
1 GTCAACGGTCAACGGTCAA-A
* * *
44773086 GTCAA-AGTCAATGGTCAATG
1 GTCAACGGTCAACGGTCAA-A
* *
44773106 GTCAATGATCAACGGTCAAA
1 GTCAACGGTCAACGGTCAAA
* **
44773126 TTCAACGGTCAATAGTCAAA
1 GTCAACGGTCAACGGTCAAA
* *
44773146 GTTAACGGTCAATGGTCAAA
1 GTCAACGGTCAACGGTCAAA
* * *
44773166 GTCAATGGTTAACAGTCAAA
1 GTCAACGGTCAACGGTCAAA
*
44773186 GTTAACGGTCAACGGTCAAA
1 GTCAACGGTCAACGGTCAAA
44773206 GTCAAC
1 GTCAAC
44773212 AGCCGATCAA
Statistics
Matches: 119, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
20 104 0.87
21 15 0.13
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (20 bp):
GTCAACGGTCAACGGTCAAA
Found at i:44773111 original size:27 final size:27
Alignment explanation
Indices: 44773035--44773164 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
44773025 TTTTTCGAAA
* *
44773035 AAAGTCAACGGTCAACGGTCAACGGCC
1 AAAGTCAACGGTCAACGGTCAATGGTC
44773062 AAAGTCAACGGTCAACGGTCAATGGTC
1 AAAGTCAACGGTCAACGGTCAATGGTC
* * *
44773089 AAAGTCAATGGTCAATGGTCAATGATC
1 AAAGTCAACGGTCAACGGTCAATGGTC
* ** *
44773116 AACGGTCAA-ATTCAACGGTCAATAGTC
1 AA-AGTCAACGGTCAACGGTCAATGGTC
* *
44773143 AAAGTTAACGGTCAATGGTCAA
1 AAAGTCAACGGTCAACGGTCAA
44773165 AGTCAATGGT
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.05
27 76 0.89
28 5 0.06
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
AAAGTCAACGGTCAACGGTCAATGGTC
Found at i:44773176 original size:27 final size:27
Alignment explanation
Indices: 44773035--44773184 Score: 90
Period size: 27 Copynumber: 5.6 Consensus size: 27
44773025 TTTTTCGAAA
* * ** *
44773035 AAAGTCAACGGTCAACGGTCAACGGCC
1 AAAGTTAACAGTCAACGGTCAATAGTC
* * *
44773062 AAAGTCAACGGTCAACGGTCAATGGTC
1 AAAGTTAACAGTCAACGGTCAATAGTC
* ** *
44773089 AAAGTCAATGGTCAATGGTCAAT-GATC
1 AAAGTTAACAGTCAACGGTCAATAG-TC
* * *
44773116 AACGGTCAA-ATTCAACGGTCAATAGTC
1 AA-AGTTAACAGTCAACGGTCAATAGTC
* *
44773143 AAAGTTAACGGTCAATGGTCAA-AGTC
1 AAAGTTAACAGTCAACGGTCAATAGTC
*
44773169 AATGGTTAACAGTCAA
1 AA-AGTTAACAGTCAA
44773185 AGTTAACGGT
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 11 0.11
27 86 0.83
28 6 0.06
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
AAAGTTAACAGTCAACGGTCAATAGTC
Found at i:44773189 original size:13 final size:14
Alignment explanation
Indices: 44773139--44773197 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 14
44773129 AACGGTCAAT
44773139 AGTCAA-AGTTAAC
1 AGTCAATAGTTAAC
* * *
44773152 GGTCAATGGTCAA-
1 AGTCAATAGTTAAC
*
44773165 AGTCAATGGTTAAC
1 AGTCAATAGTTAAC
44773179 AGTCAA-AGTTAAC
1 AGTCAATAGTTAAC
*
44773192 GGTCAA
1 AGTCAA
44773198 CGGTCAAAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 27 0.73
14 10 0.27
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (14 bp):
AGTCAATAGTTAAC
Found at i:44774094 original size:17 final size:17
Alignment explanation
Indices: 44774074--44774107 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44774064 ATAATTTTTA
44774074 GAGTGTTATAACTCTCC
1 GAGTGTTATAACTCTCC
44774091 GAGTGTTATAACTCTCC
1 GAGTGTTATAACTCTCC
44774108 CCCTTAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (17 bp):
GAGTGTTATAACTCTCC
Found at i:44780396 original size:7 final size:7
Alignment explanation
Indices: 44780384--44780457 Score: 78
Period size: 7 Copynumber: 10.7 Consensus size: 7
44780374 TTCAAAAAAA
44780384 GTCAACG
1 GTCAACG
44780391 GTCAACG
1 GTCAACG
44780398 GTCAACG
1 GTCAACG
**
44780405 GTCAATT
1 GTCAACG
*
44780412 GTCAATG
1 GTCAACG
*
44780419 GTCAATG
1 GTCAACG
*
44780426 GTCAACA
1 GTCAACG
*
44780433 GTCAA-A
1 GTCAACG
44780439 GTCAACG
1 GTCAACG
*
44780446 GTCAATG
1 GTCAACG
44780453 GTCAA
1 GTCAA
44780458 AGTCAACGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
6 6 0.10
7 53 0.90
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (7 bp):
GTCAACG
Found at i:44780403 original size:14 final size:14
Alignment explanation
Indices: 44780384--44780457 Score: 96
Period size: 14 Copynumber: 5.4 Consensus size: 14
44780374 TTCAAAAAAA
*
44780384 GTCAACGGTCAACG
1 GTCAACGGTCAATG
*
44780398 GTCAACGGTCAATT
1 GTCAACGGTCAATG
*
44780412 GTCAATGGTCAATG
1 GTCAACGGTCAATG
* *
44780426 GTCAACAGTCAA-A
1 GTCAACGGTCAATG
44780439 GTCAACGGTCAATG
1 GTCAACGGTCAATG
44780453 GTCAA
1 GTCAA
44780458 AGTCAACGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
13 11 0.22
14 39 0.78
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (14 bp):
GTCAACGGTCAATG
Found at i:44788220 original size:18 final size:19
Alignment explanation
Indices: 44788191--44788243 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
44788181 GGTGATGTTT
*
44788191 TATTTTTTTATATTTGATA
1 TATTTTTATATATTTGATA
***
44788210 TA-TTTTATATA-AAAATA
1 TATTTTTATATATTTGATA
44788227 TATTTTTATATATTTGA
1 TATTTTTATATATTTGA
44788244 ATAAATATAT
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
17 5 0.20
18 17 0.68
19 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TATTTTTATATATTTGATA
Found at i:44788247 original size:26 final size:25
Alignment explanation
Indices: 44788199--44788256 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
44788189 TTTATTTTTT
*
44788199 TATA-TTTGATATATTTTATATAAAAA
1 TATATTTTGATATATTTGATAT--AAA
*
44788225 TATATTTTTATATATTTGA-ATAAA
1 TATATTTTGATATATTTGATATAAA
44788249 TATATTTT
1 TATATTTT
44788257 ATAAAATCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 11 0.38
26 6 0.21
27 12 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (25 bp):
TATATTTTGATATATTTGATATAAA
Found at i:44789670 original size:53 final size:53
Alignment explanation
Indices: 44789561--44789674 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 53
44789551 AAATTTAAAA
* * *
44789561 TTTTTATCAGATAAAAAAGATGGTGTCGACGAAGCATTAGCCAACATCAAATT
1 TTTTTTTCAGATAAAAAAGATGGTGTCGACCAAGCATTAGCCAACACCAAATT
* * * * *
44789614 TTTTTTTCTGATAAAAAATACTGGTGTCGGCCATGCATTGGCCAACACCAAATT
1 TTTTTTTCAGATAAAAAAGA-TGGTGTCGACCAAGCATTAGCCAACACCAAATT
44789668 TTTTTTT
1 TTTTTTT
44789675 TCAAAATATC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 17 0.33
54 35 0.67
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (53 bp):
TTTTTTTCAGATAAAAAAGATGGTGTCGACCAAGCATTAGCCAACACCAAATT
Found at i:44794549 original size:58 final size:58
Alignment explanation
Indices: 44794484--44794593 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
44794474 AAAATAAACT
*
44794484 CAAATATTTTTAAAC-CTAAATATAATTTCATTCTTAAAAAACACTCATAAACTAAATC
1 CAAATATTTTTAAACTC-AAATATAATTTCATTCCTAAAAAACACTCATAAACTAAATC
* * * *
44794542 CAAATATTTTTAAACTCAAATATAATTTTATTCCTAAATAATATTCATAAAC
1 CAAATATTTTTAAACTCAAATATAATTTCATTCCTAAAAAACACTCATAAAC
44794594 AATTTCTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 45 0.98
59 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.37
Consensus pattern (58 bp):
CAAATATTTTTAAACTCAAATATAATTTCATTCCTAAAAAACACTCATAAACTAAATC
Found at i:44798341 original size:16 final size:15
Alignment explanation
Indices: 44798320--44798359 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
44798310 CATTTGGTTC
44798320 GCTGTAATGGAATAG
1 GCTGTAATGGAATAG
44798335 AGCTGTAATGGAATAG
1 -GCTGTAATGGAATAG
44798351 GACTGTAAT
1 G-CTGTAAT
44798360 CAGAAATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (15 bp):
GCTGTAATGGAATAG
Found at i:44798560 original size:26 final size:27
Alignment explanation
Indices: 44798529--44798677 Score: 90
Period size: 32 Copynumber: 5.2 Consensus size: 27
44798519 AATTTTAATG
44798529 ATTATTATTAAATATAATTTAATAAAA
1 ATTATTATTAAATATAATTTAATAAAA
* *
44798556 A-TATTAATT-AATTTAATTATATTTTAACATA
1 ATTATT-ATTAAATATAATT-TA--ATAA-A-A
44798587 ATTATTATTAAATATAATTTAATAAAATA
1 ATTATTATTAAATATAATTTAAT-AAA-A
* * * *
44798616 ATATATAATTTAATAATATTTTTAAT-ATA
1 AT-TATTATTAAAT-ATA-ATTTAATAAAA
*
44798645 ATTATTATTAAAATATGAA-TTAGTAAAA
1 ATTATTATT-AAATAT-AATTTAATAAAA
44798673 ATTAT
1 ATTAT
44798678 AATATATAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
26 12 0.13
27 10 0.11
28 15 0.16
29 16 0.17
30 13 0.14
31 10 0.11
32 18 0.19
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTATTATTAAATATAATTTAATAAAA
Found at i:44798593 original size:58 final size:59
Alignment explanation
Indices: 44798529--44798683 Score: 201
Period size: 58 Copynumber: 2.6 Consensus size: 59
44798519 AATTTTAATG
* *
44798529 ATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATA-TAATTTAATAATATTTTTAACATA
*
44798587 ATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
* *
44798645 ATTATTATTAAAATATGAA-TTAGTAAAAATTATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAT-ATATA
44798684 TAATATTAGA
Statistics
Matches: 86, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
57 20 0.23
58 42 0.49
59 10 0.12
60 9 0.10
61 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:44798605 original size:32 final size:29
Alignment explanation
Indices: 44798529--44798674 Score: 92
Period size: 29 Copynumber: 5.0 Consensus size: 29
44798519 AATTTTAATG
44798529 ATTATTATTAAATATAATT-TAATAAA-A
1 ATTATTATTAAATATAATTATAATAAATA
* *
44798556 A-TATTAATT-AATTTAATTATATTTTAACATA
1 ATTATT-ATTAAATATAATTATA--ATAA-ATA
44798587 ATTATTATTAAATATAATT-TAATAAAATA
1 ATTATTATTAAATATAATTATAAT-AAATA
* * * *
44798616 ATATATAATTTAATAATATTTTTAAT--ATA
1 AT-TATTATTAAAT-ATAATTATAATAAATA
44798645 ATTATTATTAAAATATGAATTAGTAA-AAAT
1 ATTATTATT-AAATAT-AATTA-TAATAAAT
44798675 TATAATATAT
Statistics
Matches: 91, Mismatches: 11, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
26 12 0.13
27 6 0.07
28 8 0.09
29 20 0.22
30 15 0.16
31 14 0.15
32 16 0.18
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
ATTATTATTAAATATAATTATAATAAATA
Found at i:44798676 original size:25 final size:24
Alignment explanation
Indices: 44798648--44798704 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
44798638 TAATATAATT
*
44798648 ATTATTAAAATATGA-ATTAGTAAAA
1 ATTA-TAAAATATAATATTAG-AAAA
*
44798673 ATTATAATATATAATATTAGAAAA
1 ATTATAAAATATAATATTAGAAAA
*
44798697 ATAATAAA
1 ATTATAAA
44798705 TAACCTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (24 bp):
ATTATAAAATATAATATTAGAAAA
Found at i:44811220 original size:39 final size:39
Alignment explanation
Indices: 44811176--44811266 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 39
44811166 TGGGACAAGT
* *
44811176 CTCTTCCAAGAGGTAT-GTCCAATATGAAAAGGGTTGTGA
1 CTCTTCCAAAAGGTATCATCCAATATG-AAAGGGTTGTGA
* *
44811215 CTCTT-CAAAAGGTGTCCATCCAATTTGAAAGGGTTGTGA
1 CTCTTCCAAAAGGTAT-CATCCAATATGAAAGGGTTGTGA
44811254 CTCTT-CAAAAGGT
1 CTCTTCCAAAAGGT
44811267 GTCCATTGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 8 0.17
39 30 0.65
40 8 0.17
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (39 bp):
CTCTTCCAAAAGGTATCATCCAATATGAAAGGGTTGTGA
Found at i:44811267 original size:39 final size:40
Alignment explanation
Indices: 44811193--44811272 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
44811183 AAGAGGTATG
44811193 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
*
44811233 TCCAATTTG-AAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
44811272 T
1 T
44811273 TGAGTGCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (40 bp):
TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
Found at i:44815249 original size:11 final size:11
Alignment explanation
Indices: 44815229--44815303 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
44815219 AAGCCTCTCA
*
44815229 TCTTTCCTTTC
1 TCTTTTCTTTC
*
44815240 TCTTTTCTTTT
1 TCTTTTCTTTC
*
44815251 TCTCATTCATTTC
1 TCT-TTTC-TTTC
44815264 T-TATTTCTTTC
1 TCT-TTTCTTTC
44815275 TCTTTTCTTTTC
1 TCTTTTC-TTTC
* *
44815287 TATTTTCTTCC
1 TCTTTTCTTTC
44815298 TCTTTT
1 TCTTTT
44815304 AATCACACTT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
11 29 0.57
12 18 0.35
13 4 0.08
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.69
Consensus pattern (11 bp):
TCTTTTCTTTC
Found at i:44815290 original size:22 final size:22
Alignment explanation
Indices: 44815236--44815300 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
44815226 TCATCTTTCC
*
44815236 TTTCTCTTTTCTTTTTCTCATTCA
1 TTTCT-TTTTCTTTCTCTC-TTCA
* *
44815260 TTTCTTATTTCTTTCTCTTTTCT
1 TTTCTT-TTTCTTTCTCTCTTCA
*
44815283 TTTCTATTTTCTTCCTCT
1 TTTCT-TTTTCTTTCTCT
44815301 TTTAATCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 19 0.54
24 16 0.46
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCTTTTTCTTTCTCTCTTCA
Found at i:44815708 original size:21 final size:21
Alignment explanation
Indices: 44815674--44815741 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
44815664 ACCCATTAAG
*
44815674 CCCAAATCCTATTTAAACCAAA
1 CCCAAATTC-ATTTAAACCAAA
*
44815696 CCCACATTCATTTAAACCAAA
1 CCCAAATTCATTTAAACCAAA
44815717 CCCAAATTCATTTAAACCAAA
1 CCCAAATTCATTTAAACCAAA
44815738 CCCA
1 CCCA
44815742 TTTGAACCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 36 0.84
22 7 0.16
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCAAATTCATTTAAACCAAA
Found at i:44815743 original size:15 final size:15
Alignment explanation
Indices: 44815725--44815754 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44815715 AACCCAAATT
44815725 CATTTAAACCAAACC
1 CATTTAAACCAAACC
*
44815740 CATTTGAACCAAACC
1 CATTTAAACCAAACC
44815755 AAATGAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:44815834 original size:21 final size:20
Alignment explanation
Indices: 44815791--44815849 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
44815781 AGTCAAACCA
**
44815791 TTGACCGACGTTGATTGGCG
1 TTGACCGACGTTGACCGGCG
*
44815811 TTGACCGACCGTTGACCGGTG
1 TTGACCGA-CGTTGACCGGCG
**
44815832 TTGATTGATCGTTGACCG
1 TTGACCGA-CGTTGACCG
44815850 CTGACCGTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.15, C:0.22, G:0.32, T:0.31
Consensus pattern (20 bp):
TTGACCGACGTTGACCGGCG
Found at i:44815869 original size:13 final size:13
Alignment explanation
Indices: 44815851--44815877 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44815841 CGTTGACCGC
44815851 TGACCGTTGACTT
1 TGACCGTTGACTT
44815864 TGACCGTTGACTT
1 TGACCGTTGACTT
44815877 T
1 T
44815878 TTCGAAAAAC
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:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (13 bp):
TGACCGTTGACTT
Found at i:44816935 original size:3 final size:3
Alignment explanation
Indices: 44816923--44816958 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
44816913 TATTCTATTC
44816923 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
44816959 TTGGGATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:44818096 original size:28 final size:28
Alignment explanation
Indices: 44818001--44818103 Score: 100
Period size: 28 Copynumber: 3.7 Consensus size: 28
44817991 GGCTTTATTG
* * *
44818001 TTTAGGGTTCA-TGTTTAAGGTTACACA
1 TTTAGGGTTTATTATTTAAGGTTACATA
* * * *
44818028 TTTAAGGTTTATCATTTAGGGTTAGATA
1 TTTAGGGTTTATTATTTAAGGTTACATA
* * *
44818056 TTTGGGGGTTATTATTTAAGGTTACATG
1 TTTAGGGTTTATTATTTAAGGTTACATA
*
44818084 TTTAGGGTTTATTGTTTAAG
1 TTTAGGGTTTATTATTTAAG
44818104 CTCACATTTT
Statistics
Matches: 58, Mismatches: 17, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
27 9 0.16
28 49 0.84
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (28 bp):
TTTAGGGTTTATTATTTAAGGTTACATA
Found at i:44818169 original size:28 final size:28
Alignment explanation
Indices: 44818129--44818195 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
44818119 TGGTTATATA
44818129 TTTAGGGTTTATTGCTTAAGATTACATG
1 TTTAGGGTTTATTGCTTAAGATTACATG
* *
44818157 TTTAAGGTTTATTGTTTAAGATTACATG
1 TTTAGGGTTTATTGCTTAAGATTACATG
44818185 TTTAGGGTTTA
1 TTTAGGGTTTA
44818196 GGGTTCCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTTATTGCTTAAGATTACATG
Found at i:44818186 original size:14 final size:14
Alignment explanation
Indices: 44818144--44818188 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
44818134 GGTTTATTGC
44818144 TTAAGATTACATGT
1 TTAAGATTACATGT
* *
44818158 TTAAGGTTTA-TTGT
1 TTAA-GATTACATGT
44818172 TTAAGATTACATGT
1 TTAAGATTACATGT
44818186 TTA
1 TTA
44818189 GGGTTTAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (14 bp):
TTAAGATTACATGT
Found at i:44818530 original size:2 final size:2
Alignment explanation
Indices: 44818523--44818567 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
44818513 TTATTTTCTT
44818523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44818565 TA T
1 TA T
44818568 TTCTTATGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44827257 original size:3 final size:3
Alignment explanation
Indices: 44827249--44827290 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
44827239 CAATGGTGTT
*
44827249 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
44827291 GTGGAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:44829730 original size:61 final size:59
Alignment explanation
Indices: 44829541--44830321 Score: 414
Period size: 59 Copynumber: 13.2 Consensus size: 59
44829531 AAATTTTTGT
* * **
44829541 ATGGCCGACACCCCTTTTTATCAGAT-AAAAAATTCAATTTTTTTGGTGTTGATCATGCC
1 ATGGCCGACACCCCCTTTTATCAGATAAAAAAATTAAATTTTTTTGGTGTTGGCCATG-C
*** * * *
44829600 ATGATTGACA-CCACTATTTATCTGATAAAAAAATT-AATTTTTTTTGTGTTGGCCATGC
1 ATGGCCGACACCCCCT-TTTATCAGATAAAAAAATTAAATTTTTTTGGTGTTGGCCATGC
** *
44829658 AATGGTTGACACCCCCTTTT-TCAGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCTATTGC
1 -ATGGCCGACACCCCCTTTTATCAGATAAAAAAA-TT-AAATTTTTTTGGTGTTGGCCA-TGC
** ** * *
44829720 ATGGCCGACACCCATTTTTATTTGA-ATAAAAAATTAAA-TTTTTGGGTGTTAG-C---C
1 ATGGCCGACACCCCCTTTTATCAGATA-AAAAAATTAAATTTTTTTGGTGTTGGCCATGC
* * * * *
44829774 ATGGTCGACA-CCACTATTTATCTGATAAAACAATCAAATTTTTTT-GTGTTGGCCATGC
1 ATGGCCGACACCCCCT-TTTATCAGATAAAAAAATTAAATTTTTTTGGTGTTGGCCATGC
* * * * * *
44829832 AATGGTCAACACCTCCTTTTTTCAAATAAAAAAATTTCAAATTTTTTTTGTGTTGGCCATTGC
1 -ATGGCCGACACCCCCTTTTATCAGATAAAAAAA-TT-AAATTTTTTTGGTGTTGGCCA-TGC
* * ** * * * *
44829895 ATGACCGATACCCATTTTTATCTGA-ATAAAAAATCAAA-TTTTTGGGTGTTAGCCATGTC
1 ATGGCCGACACCCCCTTTTATCAGATA-AAAAAATTAAATTTTTTTGGTGTTGGCCATG-C
* ** * * *
44829954 ATGGCTGACACCCTTTTATTGTCAGATAAAAAATTTAAATTTTTTTTGTGTTGGCCATGCC
1 ATGGCCGACACCCCCTT-TTATCAGATAAAAAAATTAAATTTTTTTGGTGTTGGCCATG-C
** * * * *
44830015 ATGGCCGACACTCTCTTTTTTATCTAG-T-AAAAAA-T-AATTTTTTTTGTCTTGGTCATAC
1 ATGGCCGACAC-C-CCCTTTTATC-AGATAAAAAAATTAAATTTTTTTGGTGTTGGCCATGC
* * * * * *
44830073 AATGGTCGACATCCTCTTTTTGTCAGAT-AAAAAATTCGAA--TTTTTGGTGTTGGCCATTAC
1 -ATGGCCGACA-CCCCCTTTTATCAGATAAAAAAATT-AAATTTTTTTGGTGTTGGCCA-TGC
* * * * * *
44830133 ATGGCCGACACTCCCTTTTTTATCTGGT-AAAAAATTAATTTTTTTTGGTATTAGCCATGC
1 ATGGCCGACAC-CCC-CTTTTATCAGATAAAAAAATTAAATTTTTTTGGTGTTGGCCATGC
* * * * *
44830193 AATGGCCGACACCCTCTTTTGT--GATAAAAAATTTGAA--TTTTTGGTGTTGGCCATTAC
1 -ATGGCCGACACCCCCTTTTATCAGATAAAAAAATTAAATTTTTTTGGTGTTGGCCA-TGC
* * * * * *
44830250 ATAGTCGACACCCCCTTTTTTAT-ATGGT-AAAAAA-TCAATTTTTTTTGTGTTGGCCATGAA
1 ATGGCCGACACCCCC--TTTTATCA-GATAAAAAAATTAAATTTTTTTGGTGTTGGCCATG-C
*
44830310 ATGGTCGACACC
1 ATGGCCGACACC
44830322 AACTTTCTCT
Statistics
Matches: 562, Mismatches: 108, Indels: 103
0.73 0.14 0.13
Matches are distributed among these distances:
53 4 0.01
54 33 0.06
55 7 0.01
56 26 0.05
57 6 0.01
58 51 0.09
59 177 0.31
60 91 0.16
61 108 0.19
62 49 0.09
63 10 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (59 bp):
ATGGCCGACACCCCCTTTTATCAGATAAAAAAATTAAATTTTTTTGGTGTTGGCCATGC
Found at i:44829740 original size:120 final size:120
Alignment explanation
Indices: 44829541--44830321 Score: 430
Period size: 120 Copynumber: 6.6 Consensus size: 120
44829531 AAATTTTTGT
* * ** *
44829541 ATGGCCGACACCC-CTTTTTATCAGATAAAAAATTC-AATTTTTTTGGTGTTGATCATGCCATGA
1 ATGGTCGACACCCAC-TTTTATCAGATAAAAAAATCAAATTTTTTTGGTGTTGGCCATGCCATGG
** * * *
44829604 TTGACA-CCACTATTTATCTGATAAAAAAATT-AATTTTTTTTGTGTTGGCCATGCA
65 CCGACACCCA-TTTTTATCAGATAAAAAAATTAAATTTTTTTTGTGTTGGCCATGCC
* * *
44829659 ATGGTTGACACCCCCTTTT-TCAGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCTATTG-CAT
1 ATGGTCGACACCCACTTTTATCAGATAAAAAAA--TCAAATTTTTTTGGTGTTGGCCA-TGCCAT
** **
44829722 GGCCGACACCCATTTTTATTTGA-ATAAAAAATTAAA-TTTTTGGGTGTT----A-GCC
63 GGCCGACACCCATTTTTATCAGATA-AAAAAATTAAATTTTTTTTGTGTTGGCCATGCC
* * *
44829774 ATGGTCGACA-CCACTATTTATCTGATAAAACAATCAAATTTTTTT-GTGTTGGCCATGCAATGG
1 ATGGTCGACACCCACT-TTTATCAGATAAAAAAATCAAATTTTTTTGGTGTTGGCCATGCCATGG
* * * *
44829837 TCAACACCTCCTTTTT-TCAAATAAAAAAATTTCAAATTTTTTTTGTGTTGGCCATTG-C
65 CCGACACC-CATTTTTATCAGATAAAAAAA-TT-AAATTTTTTTTGTGTTGGCCA-TGCC
** * * * * * *
44829895 ATGACCGATACCCATTTTTATCTGA-ATAAAAAATCAAA-TTTTTGGGTGTTAGCCATGTCATGG
1 ATGGTCGACACCCACTTTTATCAGATA-AAAAAATCAAATTTTTTTGGTGTTGGCCATGCCATGG
* * * *
44829958 CTGACACCCTTTTATTGTCAGATAAAAAATTTAAATTTTTTTTGTGTTGGCCATGCC
65 CCGACACCCATTT-TTATCAGATAAAAAAATTAAATTTTTTTTGTGTTGGCCATGCC
* ** * * * * *
44830015 ATGGCCGACACTCTCTTTTTTATCTAG-T-AAAAAAT--AATTTTTTTTGTCTTGGTCATACAAT
1 ATGGTCGACAC-C-CACTTTTATC-AGATAAAAAAATCAAATTTTTTTGGTGTTGGCCATGCCAT
* * * * **
44830076 GGTCGACATCCTC-TTTTTGTCAGAT-AAAAAATTCGAA--TTTTTGGTGTTGGCCATTAC
63 GGCCGACA-CC-CATTTTTATCAGATAAAAAAATT-AAATTTTTTTTGTGTTGGCCATGCC
* * * * * * * *
44830133 ATGGCCGACACTCC-CTTTTTTATCTGGT-AAAAAATTAATTTTTTTTGGTATTAGCCATGCAAT
1 ATGGTCGACAC-CCAC--TTTTATCAGATAAAAAAATCAAATTTTTTTGGTGTTGGCCATGCCAT
* * * * **
44830196 GGCCGACACCC-TCTTTTGT--GATAAAAAATTTGAA--TTTTTGGTGTTGGCCATTAC
63 GGCCGACACCCAT-TTTTATCAGATAAAAAAATTAAATTTTTTTTGTGTTGGCCATGCC
* * * * **
44830250 ATAGTCGACACCCCCTTTTTTAT-ATGGT-AAAAAATC-AATTTTTTTTGTGTTGGCCATGAAAT
1 ATGGTCGACACCCAC--TTTTATCA-GATAAAAAAATCAAATTTTTTTGGTGTTGGCCATGCCAT
*
44830312 GGTCGACACC
63 GGCCGACACC
44830322 AACTTTCTCT
Statistics
Matches: 536, Mismatches: 82, Indels: 92
0.75 0.12 0.13
Matches are distributed among these distances:
112 2 0.00
113 27 0.05
114 25 0.05
115 17 0.03
116 54 0.10
117 68 0.13
118 69 0.13
119 23 0.04
120 153 0.29
121 71 0.13
122 26 0.05
123 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (120 bp):
ATGGTCGACACCCACTTTTATCAGATAAAAAAATCAAATTTTTTTGGTGTTGGCCATGCCATGGC
CGACACCCATTTTTATCAGATAAAAAAATTAAATTTTTTTTGTGTTGGCCATGCC
Found at i:44829784 original size:54 final size:54
Alignment explanation
Indices: 44829719--44829830 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
44829709 TTGGCTATTG
* * *
44829719 CATGGCCGACACC-CATTTTTATTTGAATAAAA-AATTAAATTTTTGGGTGTTAGC
1 CATGGCCGACACCAC-TATTTATCTG-ATAAAACAATCAAATTTTTGGGTGTTAGC
* ** *
44829773 CATGGTCGACACCACTATTTATCTGATAAAACAATCAAATTTTTTTGTGTTGGC
1 CATGGCCGACACCACTATTTATCTGATAAAACAATCAAATTTTTGGGTGTTAGC
44829827 CATG
1 CATG
44829831 CAATGGTCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
53 6 0.12
54 42 0.86
55 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (54 bp):
CATGGCCGACACCACTATTTATCTGATAAAACAATCAAATTTTTGGGTGTTAGC
Found at i:44829836 original size:174 final size:175
Alignment explanation
Indices: 44829541--44830018 Score: 586
Period size: 175 Copynumber: 2.7 Consensus size: 175
44829531 AAATTTTTGT
* * * *
44829541 ATGGCCGACACCCCTTTTTATCAG-ATAAAAAATTCAATTTTTTTGGTGTTGATCATGCCATGAT
1 ATGGCCGACACCCATTTTTATCTGAATAAAAAATT-AA-ATTTTTGG-G-TG-TTA-GCCATGAT
* * * **
44829605 TGACACCACTATTTATCTGATAAAAAAATTAATTTTTTTTGTGTTGGCCATGCAATGGTTGACAC
60 CGACACCACTATTTATCTGATAAAAAAATCAAATTTTTTTGTGTTGGCCATGCAATGGTCAACAC
* *
44829670 C-CCCTTTTTCAGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCTATTGC
125 CTCCCTTTTTCAAATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATTGC
* *
44829720 ATGGCCGACACCCATTTTTATTTGAATAAAAAATTAAATTTTTGGGTGTTAGCCATGGTCGACAC
1 ATGGCCGACACCCATTTTTATCTGAATAAAAAATTAAATTTTTGGGTGTTAGCCATGATCGACAC
* *
44829785 CACTATTTATCTGATAAAACAATCAAATTTTTTTGTGTTGGCCATGCAATGGTCAACACCTCCTT
66 CACTATTTATCTGATAAAAAAATCAAATTTTTTTGTGTTGGCCATGCAATGGTCAACACCTCCCT
*
44829850 TTTTCAAATAAAAAAATTTCAAATTTTTTTTGTGTTGGCCATTGC
131 TTTTCAAATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATTGC
* * *
44829895 ATGACCGATACCCATTTTTATCTGAATAAAAAATCAAATTTTTGGGTGTTAGCCATGTCATGGCT
1 ATGGCCGACACCCATTTTTATCTGAATAAAAAATTAAATTTTTGGGTGTTAGCCATG--AT--C-
* * * *
44829960 GACACC-CT-TTTATTGTCAGATAAAAAATTTAAATTTTTTTTGTGTTGGCCATGCCATGG
61 GACACCACTATTTA---TCTGATAAAAAAATCAAA-TTTTTTTGTGTTGGCCATGCAATGG
44830019 CCGACACTCT
Statistics
Matches: 262, Mismatches: 26, Indels: 19
0.85 0.08 0.06
Matches are distributed among these distances:
174 67 0.26
175 100 0.38
176 2 0.01
177 2 0.01
178 11 0.04
179 26 0.10
180 16 0.06
181 14 0.05
182 24 0.09
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (175 bp):
ATGGCCGACACCCATTTTTATCTGAATAAAAAATTAAATTTTTGGGTGTTAGCCATGATCGACAC
CACTATTTATCTGATAAAAAAATCAAATTTTTTTGTGTTGGCCATGCAATGGTCAACACCTCCCT
TTTTCAAATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATTGC
Found at i:44831125 original size:17 final size:17
Alignment explanation
Indices: 44831105--44831159 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
44831095 CAAAAATAAT
44831105 AATTAGAATATATAGGA
1 AATTAGAATATATAGGA
44831122 AATTAGAA-AT-TA--A
1 AATTAGAATATATAGGA
* *
44831135 AATTAAAATATACAGGA
1 AATTAGAATATATAGGA
44831152 AATTAGAA
1 AATTAGAA
44831160 ATTAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 8 0.26
14 2 0.06
15 3 0.10
16 2 0.06
17 16 0.52
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.27
Consensus pattern (17 bp):
AATTAGAATATATAGGA
Found at i:44831139 original size:30 final size:30
Alignment explanation
Indices: 44831105--44831202 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 30
44831095 CAAAAATAAT
* *
44831105 AATTAGAATATATAGGAAATTAGAAATTAA
1 AATTAAAATATACAGGAAATTAGAAATTAA
44831135 AATTAAAATATACAGGAAATTAGAAATTAA
1 AATTAAAATATACAGGAAATTAGAAATTAA
* * * * * *
44831165 ATTTTAAATAAAAACGAAATTACAAATTAA
1 AATTAAAATATACAGGAAATTAGAAATTAA
*
44831195 ATTTAAAA
1 AATTAAAA
44831203 AGTAAACGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (30 bp):
AATTAAAATATACAGGAAATTAGAAATTAA
Found at i:44831210 original size:30 final size:29
Alignment explanation
Indices: 44831120--44831213 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 29
44831110 GAATATATAG
* * *
44831120 GAAATTAGAAATTAAAATTAAAATATACAG
1 GAAATTAGAAATTAAATTTAAAA-ATAAAC
44831150 GAAATTAGAAATTAAATTTTAAATAA-AAAC
1 GAAATTAGAAATTAAA-TTTAAA-AATAAAC
*
44831180 GAAATTACAAATTAAATTTAAAAAGTAAAC
1 GAAATTAGAAATTAAATTTAAAAA-TAAAC
44831210 GAAA
1 GAAA
44831214 AAAAATCAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.04
29 6 0.11
30 41 0.73
31 6 0.11
32 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.27
Consensus pattern (29 bp):
GAAATTAGAAATTAAATTTAAAAATAAAC
Found at i:44831650 original size:12 final size:12
Alignment explanation
Indices: 44831633--44831673 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
44831623 ATGTTTGATA
44831633 TTGGTGCTCCGG
1 TTGGTGCTCCGG
*
44831645 TTGGTGCTTCGG
1 TTGGTGCTCCGG
* *
44831657 TTGGTACTCGGG
1 TTGGTGCTCCGG
44831669 TTGGT
1 TTGGT
44831674 CCTGGGCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.02, C:0.17, G:0.41, T:0.39
Consensus pattern (12 bp):
TTGGTGCTCCGG
Found at i:44831754 original size:36 final size:36
Alignment explanation
Indices: 44831673--44831761 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 36
44831663 CTCGGGTTGG
* *
44831673 TCCTGGGCCTCGTAATCGGGCTCGTCAGTGGGCTCCT
1 TCCTGGG-CTCGTAATCGAGCTCGTCAGTGGGCTCCA
* * *
44831710 TCGTGGGCTCGTACTCGAGCTCGTCATTGGGCT-CA
1 TCCTGGGCTCGTAATCGAGCTCGTCAGTGGGCTCCA
*
44831745 TCCTCGGGCTCGGAATC
1 TCCT-GGGCTCGTAATC
44831762 TAAATTGGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
35 4 0.09
36 33 0.77
37 6 0.14
ACGTcount: A:0.10, C:0.31, G:0.31, T:0.27
Consensus pattern (36 bp):
TCCTGGGCTCGTAATCGAGCTCGTCAGTGGGCTCCA
Found at i:44832423 original size:20 final size:21
Alignment explanation
Indices: 44832398--44832439 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
44832388 TTTTTAAAAA
*
44832398 TTCGAAAATA-TAAAAAATAT
1 TTCGAAAATAGAAAAAAATAT
44832418 TTCGAAAATAGAAAAAAATAT
1 TTCGAAAATAGAAAAAAATAT
44832439 T
1 T
44832440 ATAAAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.29
Consensus pattern (21 bp):
TTCGAAAATAGAAAAAAATAT
Found at i:44833480 original size:22 final size:22
Alignment explanation
Indices: 44833455--44833511 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
44833445 GGGGTGTTGG
*
44833455 TGAGCTGGAATTTCGGTTTTGA
1 TGAGCTGGAATTTCGGTTTAGA
*
44833477 TGAGCTGGAATTTCGGTTTAGG
1 TGAGCTGGAATTTCGGTTTAGA
*
44833499 TGAGCTGAAATTT
1 TGAGCTGGAATTT
44833512 GGGTGGTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.21, C:0.09, G:0.32, T:0.39
Consensus pattern (22 bp):
TGAGCTGGAATTTCGGTTTAGA
Found at i:44833840 original size:86 final size:85
Alignment explanation
Indices: 44833604--44833900 Score: 406
Period size: 86 Copynumber: 3.5 Consensus size: 85
44833594 TAAATTTAAA
* * *
44833604 ATTTGATAAAAATTGTAATATAATAATAA-TTTTTAATTTAAATATTCAAATTTGGTAAATAATG
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTTATTTAAATATTAAAATTTGATAAATAATG
*
44833668 TATTATCAAATCAACTCATT
66 TATTGTCAAATCAACTCATT
* * * ** *
44833688 ATTTAATAAAAAATTTTAATACAATAATAATAATCTT-TTT---TATTAAAATTTGATAAATAAT
1 ATTTGAT-AAAAATTGTAATATAATAATAATTTTTTTATTTAAATATTAAAATTTGATAAATAAT
44833749 GTATTGTCAAATCAACTCATT
65 GTATTGTCAAATCAACTCATT
*
44833770 ATTTGATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATATTAAAATTTAATAAATAAT
1 ATTTGATAAAAATTGTAATATAATAATAAT-TTTTTTATTTAAATATTAAAATTTGATAAATAAT
*
44833835 GTATTGTCAAATCAACACATT
65 GTATTGTCAAATCAACTCATT
* *
44833856 ATTTGATATAAATTGAAATATAATAATAATATTTTTTATTTAAAT
1 ATTTGATAAAAATTGTAATATAATAATAAT-TTTTTTATTTAAAT
44833901 GATGTTAAAT
Statistics
Matches: 185, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
81 21 0.11
82 48 0.26
83 3 0.02
84 6 0.03
85 23 0.12
86 84 0.45
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (85 bp):
ATTTGATAAAAATTGTAATATAATAATAATTTTTTTATTTAAATATTAAAATTTGATAAATAATG
TATTGTCAAATCAACTCATT
Found at i:44834037 original size:17 final size:17
Alignment explanation
Indices: 44834015--44834048 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44834005 AAACGTTTAC
*
44834015 ATTAATTTTCAACTTAA
1 ATTAATTTTCAAATTAA
44834032 ATTAATTTTCAAATTAA
1 ATTAATTTTCAAATTAA
44834049 TTTTTACATA
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:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAATTTTCAAATTAA
Found at i:44839686 original size:62 final size:57
Alignment explanation
Indices: 44839554--44839744 Score: 165
Period size: 62 Copynumber: 3.3 Consensus size: 57
44839544 AAATTTTTAT
* * * ** * *
44839554 TTTTTATCAGATAAAAAAGTTAATATCAACCAAGCATTGGCCAACACAAAAAAA-AA
1 TTTTTATCTGATAAAAAAGGTGATGCCGACCAAGCATTGACCAACACAAAAAAATAA
* * * *
44839610 --TTTATCAGATAAAAAAGGTGATGCCGGCCAATGTA-TGACCAACACTAAAAAAAATTAGTT
1 TTTTTATCTGATAAAAAAGGTGATGCCGACCAA-GCATTGACCAACAC--AAAAAAA-TA--A
* * * *
44839670 TTTTTATCTGATAAAAATGGTGGTGTCGACCAAGCATTGGCCAACACAAAAAAATAA
1 TTTTTATCTGATAAAAAAGGTGATGCCGACCAAGCATTGACCAACACAAAAAAATAA
44839727 TTTTTATCTGATAAAAAA
1 TTTTTATCTGATAAAAAA
44839745 ATTAGCGTCG
Statistics
Matches: 107, Mismatches: 18, Indels: 19
0.74 0.12 0.13
Matches are distributed among these distances:
54 34 0.32
55 2 0.02
56 7 0.07
57 17 0.16
58 1 0.01
59 2 0.02
60 7 0.07
61 2 0.02
62 35 0.33
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.27
Consensus pattern (57 bp):
TTTTTATCTGATAAAAAAGGTGATGCCGACCAAGCATTGACCAACACAAAAAAATAA
Found at i:44839809 original size:53 final size:55
Alignment explanation
Indices: 44839715--44839834 Score: 163
Period size: 53 Copynumber: 2.2 Consensus size: 55
44839705 ATTGGCCAAC
* * * *
44839715 ACAAAAAAATAATTTTTATCTGATAAAAAAATTAGCGTCGGCTAATGTATGGCTA
1 ACAAAAAAATAATATTTATCTGATAAAAAAAATAGCATCGGCTAATGTATGGCCA
*
44839770 ACAAAAAAA-AA-ATTTATCTGATAAAAAAAATGGCATCGGCTAATGTATGGCCA
1 ACAAAAAAATAATATTTATCTGATAAAAAAAATAGCATCGGCTAATGTATGGCCA
44839823 ACACTAAAAAAT
1 ACA--AAAAAAT
44839835 TTTGCTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
53 40 0.70
54 2 0.04
55 15 0.26
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.26
Consensus pattern (55 bp):
ACAAAAAAATAATATTTATCTGATAAAAAAAATAGCATCGGCTAATGTATGGCCA
Found at i:44839951 original size:172 final size:172
Alignment explanation
Indices: 44839583--44839953 Score: 439
Period size: 172 Copynumber: 2.2 Consensus size: 172
44839573 TTAATATCAA
**
44839583 CCAAGCATTGGCCAACACAAAAAAAAATTTATCAGATAAAAAAGGTGATGCCGGCCAATGTATGA
1 CCAAGCATTGGCCAACACAAAAAAAAATTTATCAGATAAAAAAAATGAT-CCGGCCAATGTATGA
* * * *
44839648 CCAACACTAAAAAAAATTAGTTTTTTTATCTGATAAAAATGGTGGTGTCGACCAAGCATTGGCCA
65 CCAACACTAAAAAAAATTAGCTTTTTTATCAGATAAAAATAGTGGTGTCGACCAAGAATTGGCCA
* * *
44839713 ACACAAAAAAATAATTTTTATCTGATAAAAAAATTAGCGTCGG
130 ACACAAAAAAACAATTGTTATCTAATAAAAAAATTAGCGTCGG
* * * * *
44839756 CTAATGTA-TGGCTAACA-AAAAAAAAATTTATCTGATAAAAAAAATGGCAT-CGGCTAATGTAT
1 CCAA-GCATTGGCCAACACAAAAAAAAATTTATCAGATAAAAAAAAT-G-ATCCGGCCAATGTAT
* * * *
44839818 GGCCAACACT-AAAAAATTTTGCTTTTTTATCAGATAAAAA-AGTGGTGTCGACTAAGAATTGGC
63 GACCAACACTAAAAAAAATTAGCTTTTTTATCAGATAAAAATAGTGGTGTCGACCAAGAATTGGC
* * * *
44839881 CAACACCAAAAAACAATATGTTATCTAATAAAAAGA-TGGTGTCGG
128 CAACACAAAAAAACAAT-TGTTATCTAATAAAAAAATTAGCGTCGG
*
44839926 CCAAGCATTAGCCAACACCAAAAAAAAA
1 CCAAGCATTGGCCAACA-CAAAAAAAAA
44839954 AATTTTTATG
Statistics
Matches: 165, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
169 2 0.01
170 52 0.32
171 41 0.25
172 54 0.33
173 12 0.07
174 4 0.02
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (172 bp):
CCAAGCATTGGCCAACACAAAAAAAAATTTATCAGATAAAAAAAATGATCCGGCCAATGTATGAC
CAACACTAAAAAAAATTAGCTTTTTTATCAGATAAAAATAGTGGTGTCGACCAAGAATTGGCCAA
CACAAAAAAACAATTGTTATCTAATAAAAAAATTAGCGTCGG
Found at i:44839982 original size:59 final size:59
Alignment explanation
Indices: 44839841--44840128 Score: 214
Period size: 58 Copynumber: 4.9 Consensus size: 59
44839831 AAATTTTGCT
* * * * *
44839841 TTTTTATCAGATAAAAAAG-TGGTGTCGACTAAGAATTGGCCAACACCAAAAAACAATA
1 TTTTTATCTGATAAAAAAGATGGTGTCGACCAAGAATTAGCCAACACCAAAAAAAAAAA
* * * *
44839899 -TGTTATCTAAT-AAAAAGATGGTGTCGGCCAAGCATTAGCCAACACCAAAAAAAAAAA
1 TTTTTATCTGATAAAAAAGATGGTGTCGACCAAGAATTAGCCAACACCAAAAAAAAAAA
* * * * * * * * *
44839956 TTTTTATGTGATAAAAAAGATTGTGTCTACCAAGCATCAGCCAAAACC-CAAAAAATAT
1 TTTTTATCTGATAAAAAAGATGGTGTCGACCAAGAATTAGCCAACACCAAAAAAAAAAA
* * * *** *
44840014 TTTTTATCTGATAAAAAA-AGTAGTGTC-AGTCAATGAATGA-CCAACACCAAAAAATTTTAT
1 TTTTTATCTGATAAAAAAGA-TGGTGTCGA-CCAA-GAATTAGCCAACACCAAAAAA-AAAAA
* * * *
44840074 TTTTTAT-TAGATAAAAAAGCTGATGTCGATCAAGTATTAGCCAACACCAAAAAAA
1 TTTTTATCT-GATAAAAAAGATGGTGTCGACCAAGAATTAGCCAACACCAAAAAAA
44840129 TTGATGTCGG
Statistics
Matches: 183, Mismatches: 35, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
56 6 0.03
57 43 0.23
58 48 0.26
59 43 0.23
60 42 0.23
61 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (59 bp):
TTTTTATCTGATAAAAAAGATGGTGTCGACCAAGAATTAGCCAACACCAAAAAAAAAAA
Found at i:44840118 original size:60 final size:58
Alignment explanation
Indices: 44839337--44840127 Score: 215
Period size: 57 Copynumber: 13.7 Consensus size: 58
44839327 AAAAAATCTT
* * * * * * *
44839337 ATAAAAAAGTTGGTGTCAACCAGGCATTTGCCAACACTAAAAAAATATTTTTTATC-AG
1 ATAAAAAAG-TGATGTCGACCAAGAATTAGCCAACACCAAAAAATTATTTTTTATCTAG
* *** * * * * *
44839395 ATAAAAAAAAT-AGTGTCGGGTAAGTATTAGTCAACTCCAAAAAAATATTTTTTATAT-G
1 AT-AAAAAAGTGA-TGTCGACCAAGAATTAGCCAACACCAAAAAATTATTTTTTATCTAG
* *
44839453 ATAAAAAAATGGTGTCGACCAA-ACATTTA-CCAACACC----AATT-TTTTTTATCT-G
1 ATAAAAAAGTGATGTCGACCAAGA-A-TTAGCCAACACCAAAAAATTATTTTTTATCTAG
* * * * * * *
44839505 ATAAAAAAGTGGTATCGATCAATACA-TGGCCAATACCAAAAATTTTTATTTTTTATC-AG
1 ATAAAAAAGTGATGTCGACCAAGA-ATTAGCCAACACCAAAAA--ATTATTTTTTATCTAG
* * * * * **
44839564 ATAAAAAAGTTAATATCAACCAAGCATTGGCCAACA-CAAAAAA--A-AATTTATC-AG
1 ATAAAAAAG-TGATGTCGACCAAGAATTAGCCAACACCAAAAAATTATTTTTTATCTAG
* * * * *
44839618 ATAAAAAAGGTGATGCCGGCCAATGTATGA-CCAACACTAAAAAAAATTAGTTTTTTTATCT-G
1 ATAAAAAA-GTGATGTCGACCAA-GAATTAGCCAACAC--CAAAAAATTA--TTTTTTATCTAG
* * * * * *
44839680 ATAAAAATGGTGGTGTCGACCAAGCATTGGCCAACA-CAAAAAAATAATTTTTATCT-G
1 ATAAAAA-AGTGATGTCGACCAAGAATTAGCCAACACCAAAAAATTATTTTTTATCTAG
* * * * * * * * **
44839737 ATAAAAAAATTAGCGTCGGCTAATGTA-TGGCTAACA--AAAAAA--A-AATTTATCT-G
1 ATAAAAAAGTGA-TGTCGACCAA-GAATTAGCCAACACCAAAAAATTATTTTTTATCTAG
* *** * * * * * *
44839790 ATAAAAAAAATGGCATCGGCTAATGTA-TGGCCAACACTAAAAAATTTTGCTTTTTTATC-AG
1 AT-AAAAAAGTGATGTCGACCAA-GAATTAGCCAACACCAAAAAA--TT-ATTTTTTATCTAG
* * * ** * *
44839851 ATAAAAAAGTGGTGTCGACTAAGAATTGGCCAACACCAAAAAACAATATGTTATCTA-
1 ATAAAAAAGTGATGTCGACCAAGAATTAGCCAACACCAAAAAATTATTTTTTATCTAG
* * * ** * *
44839908 AT-AAAAAGATGGTGTCGGCCAAGCATTAGCCAACACCAAAAAAAAAAATTTTTATGT-G
1 ATAAAAAAG-TGATGTCGACCAAGAATTAGCCAACACC-AAAAAATTATTTTTTATCTAG
* * * *
44839966 ATAAAAAAGATTG-TGTCTACCAAGCATCAGCCAAAACCCAAAAAA-TATTTTTTATCT-G
1 ATAAAAAAG--TGATGTCGACCAAGAATTAGCCAACA-CCAAAAAATTATTTTTTATCTAG
* *
44840024 ATAAAAAAAGT-AGTGTC-AGTCAATGAATGA-CCAACACCAAAAAATTTTATTTTTTAT-TAG
1 AT-AAAAAAGTGA-TGTCGA-CCAA-GAATTAGCCAACACCAAAAAA--TTATTTTTTATCTAG
* *
44840084 ATAAAAAAGCTGATGTCGATCAAGTATTAGCCAACACCAAAAAA
1 ATAAAAAAG-TGATGTCGACCAAGAATTAGCCAACACCAAAAAA
44840128 ATTGATGTCG
Statistics
Matches: 558, Mismatches: 111, Indels: 126
0.70 0.14 0.16
Matches are distributed among these distances:
51 1 0.00
52 36 0.06
53 37 0.07
54 39 0.07
55 11 0.02
56 14 0.03
57 103 0.18
58 86 0.15
59 97 0.17
60 89 0.16
61 14 0.03
62 31 0.06
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.28
Consensus pattern (58 bp):
ATAAAAAAGTGATGTCGACCAAGAATTAGCCAACACCAAAAAATTATTTTTTATCTAG
Found at i:44840124 original size:117 final size:114
Alignment explanation
Indices: 44839811--44840127 Score: 264
Period size: 117 Copynumber: 2.7 Consensus size: 114
44839801 GGCATCGGCT
* * * * *
44839811 AATGTATGGCCAACACTAAAAAATTTTGCTTTTTTATCAGATAAAAAAGTGGTGTCGACTAAGAA
1 AATGAATGACCAACACCAAAAAATTTT-ATTTTTTATTAGATAAAAAAGT-GTGTCGAC-AAGAA
* * * *
44839876 TTGGCCAACACCAAAAAACAATATGTTATCTAATAAAAAGATGGTGTCGGCC
63 TTAGCCAACACCAAAAAACAATATGTTATCTAATAAAAAAATAGTGTCAGCC
* * *** * *
44839928 AA-GCATTAGCCAACACCAAAAAA-AAAAATTTTTATGT-GATAAAAAAGATTGTGTCTACCAAG
1 AATGAATGA-CCAACACCAAAAAATTTTATTTTTTAT-TAGATAAAAAAG--TGTGTCGA-CAAG
* * * * * * * *
44839990 CATCAGCCAAAACCCAAAAAA-TATTTTTTATCTGATAAAAAAAGTAGTGTCAGTC
61 AATTAGCCAACA-CCAAAAAACAATATGTTATCTAATAAAAAAA-TAGTGTCAGCC
*
44840045 AATGAATGACCAACACCAAAAAATTTTATTTTTTATTAGATAAAAAAGCTGATGTCGATCAAGTA
1 AATGAATGACCAACACCAAAAAATTTTATTTTTTATTAGATAAAAAAG-TG-TGTCGA-CAAGAA
44840110 TTAGCCAACACCAAAAAA
63 TTAGCCAACACCAAAAAA
44840128 ATTGATGTCG
Statistics
Matches: 154, Mismatches: 35, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
115 17 0.11
116 37 0.24
117 60 0.39
118 40 0.26
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (114 bp):
AATGAATGACCAACACCAAAAAATTTTATTTTTTATTAGATAAAAAAGTGTGTCGACAAGAATTA
GCCAACACCAAAAAACAATATGTTATCTAATAAAAAAATAGTGTCAGCC
Found at i:44840200 original size:60 final size:59
Alignment explanation
Indices: 44840133--44840315 Score: 189
Period size: 60 Copynumber: 3.1 Consensus size: 59
44840123 AAAAAATTGA
*
44840133 TGTCGGCCAATGCATGGCTAATACTAAAAAAATTTATTATTTTATCAGAT-AAAATGATGG
1 TGTCGGCCAATGCATGGCCAATACT-AAAAAATTTATT-TTTTATCAGATAAAAATGATGG
* * * * * *
44840193 TGTCGGCCAA-ACATTGGCCAATAGT---AAATTT-TTTTTTATCTGATAAAAAAGGTAG
1 TGTCGGCCAATGCA-TGGCCAATACTAAAAAATTTATTTTTTATCAGATAAAAATGATGG
* * * *
44840248 TATCGGCCAATGCATGGCCAAAACTAAAAAGTTTATTTTTTTATCAGATAAAAATGATGA
1 TGTCGGCCAATGCATGGCCAATACTAAAAAATTTA-TTTTTTATCAGATAAAAATGATGG
44840308 TGTCGGCC
1 TGTCGGCC
44840316 GAGCATTGGA
Statistics
Matches: 97, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
54 10 0.10
55 27 0.28
56 8 0.08
58 5 0.05
59 2 0.02
60 45 0.46
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (59 bp):
TGTCGGCCAATGCATGGCCAATACTAAAAAATTTATTTTTTATCAGATAAAAATGATGG
Found at i:44840337 original size:60 final size:58
Alignment explanation
Indices: 44840130--44840337 Score: 148
Period size: 60 Copynumber: 3.6 Consensus size: 58
44840120 CCAAAAAAAT
*
44840130 TGATGTCGGCCAATGCA-TGGCTAATACTAA-AAAAATTTATTATTTTATCAGAT-AAAATGA
1 TGATGTCGGCCAA-GCATTGGC--A-AC-AACAAAAATTTATTTTTTTATCAGATAAAAATGA
* * * * * * *
44840190 TGGTGTCGGCCAAACATTGGC--CAATAGTAAA-TT-TTTTTTTATCTGATAAAAAAGG
1 TGATGTCGGCCAAGCATTGGCAACAACA-AAAATTTATTTTTTTATCAGATAAAAATGA
*
44840245 T-AGTATCGGCCAATGCA-TGGCCAA-AACTAAAAAGTTTATTTTTTTATCAGATAAAAATGA
1 TGA-TGTCGGCCAA-GCATTGG-CAACAAC-AAAAA-TTTATTTTTTTATCAGATAAAAATGA
*
44840305 TGATGTCGGCCGAGCATTGGACAACAACAAAAA
1 TGATGTCGGCCAAGCATTGG-CAACAACAAAAA
44840338 AATATTATTT
Statistics
Matches: 114, Mismatches: 18, Indels: 32
0.70 0.11 0.20
Matches are distributed among these distances:
54 14 0.12
55 22 0.19
56 6 0.05
57 5 0.04
58 1 0.01
59 7 0.06
60 55 0.48
61 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (58 bp):
TGATGTCGGCCAAGCATTGGCAACAACAAAAATTTATTTTTTTATCAGATAAAAATGA
Found at i:44840562 original size:60 final size:61
Alignment explanation
Indices: 44840438--44840574 Score: 160
Period size: 61 Copynumber: 2.3 Consensus size: 61
44840428 GCATTAACCA
*
44840438 ACAAAAAAAA-TA--TTTTTATTAGATAAAAAAAGGTGATATCGGTTAATGGATGACCAAT
1 ACAAAAAAAATTATTTTTTTATTAGATAAAAAAAGGTGATATCGGTTAATGGATGACCAAC
* * * *
44840496 ACCAAAAAAAATTATTTTTTTATTAGAT-AAAAATGGTGATGTCGGTTAA-GTATTGGCCAAC
1 A-CAAAAAAAATTATTTTTTTATTAGATAAAAAAAGGTGATATCGGTTAATGGA-TGACCAAC
*
44840557 ACAAAAAGAATT-TTTTTT
1 ACAAAAAAAATTATTTTTT
44840575 ATCTGATAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
58 1 0.01
59 15 0.22
60 14 0.21
61 26 0.38
62 12 0.18
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (61 bp):
ACAAAAAAAATTATTTTTTTATTAGATAAAAAAAGGTGATATCGGTTAATGGATGACCAAC
Found at i:44841022 original size:59 final size:58
Alignment explanation
Indices: 44840943--44841329 Score: 270
Period size: 59 Copynumber: 6.6 Consensus size: 58
44840933 ATCAGATAAA
** *
44840943 CCAACACCAAAAAAAATATTTTTTATTTGACAAAAAAGGTGGTGTCGACCAAGCATTTG
1 CCAACA-CAAAAAAAATATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCATTTG
* * * * * *
44841002 CCAATATTAAAAAAAATATTTTTTATCTGATTAAAAAA-TTGGTGTTGACCAATGCA-TGG
1 CCAACA-CAAAAAAAATATTTTTTATCAGA-TAAAAAAGGTGGTGTCGACCAA-GCATTTG
* * * * * * * *
44841061 CTAATACAAAAAAATTATTTTTTTATTAGAGAAAAAAGGTGGTGTCGATCAAGTATTAG
1 CCAACACAAAAAAAATA-TTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCATTTG
* * *
44841120 CCAACACCAAAAAAATATTTTTTATCAGAT-AAAATGGTGGTGTCGGCCAATGCA--TG
1 CCAACACAAAAAAAATATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAA-GCATTTG
** ** * * *
44841176 ACCAACATTAAAAATTTATTTTTTATCAGATAAAAATGATGGTGTCGACCAAGCA-TCG
1 -CCAACACAAAAAAAATATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCATTTG
* ** * * * * *
44841234 ACTAACACCGAAAAAATA-TTTTTATCTGAT-AAAAAGGTAGTGCCGGCCAATGCA-TGG
1 -CCAACACAAAAAAAATATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAA-GCATTTG
* *
44841291 CCAACATTAAAAAAATTTATTTTTTTATCAGATAAAAAA
1 CCAACA-CAAAAAAA-ATA-TTTTTTATCAGATAAAAAA
44841330 ATAATTTTTT
Statistics
Matches: 257, Mismatches: 56, Indels: 28
0.75 0.16 0.08
Matches are distributed among these distances:
56 21 0.08
57 67 0.26
58 63 0.25
59 81 0.32
60 20 0.08
61 5 0.02
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (58 bp):
CCAACACAAAAAAAATATTTTTTATCAGATAAAAAAGGTGGTGTCGACCAAGCATTTG
Found at i:44841199 original size:58 final size:58
Alignment explanation
Indices: 44841137--44841327 Score: 203
Period size: 57 Copynumber: 3.3 Consensus size: 58
44841127 CAAAAAAATA
44841137 TTTTTTATCAGATAAAATGGTGGTGTCGGCCAATGCATGACCAACATTAAAAATTTA-
1 TTTTTTATCAGATAAAATGGTGGTGTCGGCCAATGCATGACCAACATTAAAAATTTAT
* * * **
44841194 TTTTTTATCAGATAAAAATGATGGTGTCGACCAA-GCATCGACTAACACCGAAAAA---AT
1 TTTTTTATCAGAT-AAAATGGTGGTGTCGGCCAATGCAT-GACCAACA-TTAAAAATTTAT
* * * * * *
44841251 ATTTTTATCTGATAAAAAGGTAGTGCCGGCCAATGCATGGCCAACATTAAAAAAATTTAT
1 TTTTTTATCAGATAAAATGGTGGTGTCGGCCAATGCATGACCAACATT--AAAAATTTAT
44841311 TTTTTTATCAGATAAAA
1 TTTTTTATCAGATAAAA
44841328 AAATAATTTT
Statistics
Matches: 106, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
56 22 0.21
57 37 0.35
58 25 0.24
59 5 0.05
60 17 0.16
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (58 bp):
TTTTTTATCAGATAAAATGGTGGTGTCGGCCAATGCATGACCAACATTAAAAATTTAT
Found at i:44841254 original size:115 final size:116
Alignment explanation
Indices: 44840974--44841329 Score: 385
Period size: 115 Copynumber: 3.1 Consensus size: 116
44840964 TTTATTTGAC
* ** * **
44840974 AAAAAAGGTGGTGTCGACCAAGCATTTGCCAATATTAAAAAAAATATTTTTTATCTGATTAAAAA
1 AAAAAAGATGGTGTCGACCAAGCATGAGCCAACA-CCAAAAAAATATTTTTTATCTGA-TAAAAA
** * * * * ** * * *
44841039 ATTGGTGTTGACCAATGCATGGCTAATACAAAAAAATTATTTTTTTATTAGAG
64 GGTGGTGTCGGCCAATGCATGGCCAACATTAAAAATTTATTTTTTTATCAGAT
* * * * * *
44841092 AAAAAAGGTGGTGTCGATCAAGTATTAGCCAACACCAAAAAAATATTTTTTATCAGATAAAATGG
1 AAAAAAGATGGTGTCGACCAAGCATGAGCCAACACCAAAAAAATATTTTTTATCTGATAAAAAGG
*
44841157 TGGTGTCGGCCAATGCATGACCAACATTAAAAATTTA-TTTTTTATCAGAT
66 TGGTGTCGGCCAATGCATGGCCAACATTAAAAATTTATTTTTTTATCAGAT
* * *
44841207 AAAAATGATGGTGTCGACCAAGCATCGA-CTAACACCGAAAAAATA-TTTTTATCTGATAAAAAG
1 AAAAAAGATGGTGTCGACCAAGCAT-GAGCCAACACCAAAAAAATATTTTTTATCTGATAAAAAG
* *
44841270 GTAGTGCCGGCCAATGCATGGCCAACATTAAAAAAATTTATTTTTTTATCAGAT
65 GTGGTGTCGGCCAATGCATGGCCAACATT--AAAAATTTATTTTTTTATCAGAT
44841324 AAAAAA
1 AAAAAA
44841330 ATAATTTTTT
Statistics
Matches: 201, Mismatches: 33, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
114 42 0.21
115 47 0.23
116 44 0.22
117 38 0.19
118 30 0.15
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (116 bp):
AAAAAAGATGGTGTCGACCAAGCATGAGCCAACACCAAAAAAATATTTTTTATCTGATAAAAAGG
TGGTGTCGGCCAATGCATGGCCAACATTAAAAATTTATTTTTTTATCAGAT
Found at i:44841416 original size:59 final size:59
Alignment explanation
Indices: 44841324--44841547 Score: 260
Period size: 59 Copynumber: 3.9 Consensus size: 59
44841314 TTTATCAGAT
* * * *
44841324 AAAAAAATAATTTTTTATTAGATAAAAATAGTGGTGCCAGCCAAGCATTAGTCAAAATA
1 AAAAAAATTATTTTTTATTAGATAAAAAAAGTGGTGTCGGCCAAGCATTAGTCAAAATA
* * * * *
44841383 AAAAAAATTATTTTTTATTAGATAAAAAAAGTGGTGTCGACTAATGGA-TGGTCAACATA
1 AAAAAAATTATTTTTTATTAGATAAAAAAAGTGGTGTCGGCCAA-GCATTAGTCAAAATA
* * ** * *
44841442 AAAAAAATTATTTTTTATCATATAAAAAAAGTAATGTTGGCCAAGCATT-GGC-AAATA
1 AAAAAAATTATTTTTTATTAGATAAAAAAAGTGGTGTCGGCCAAGCATTAGTCAAAATA
*
44841499 AAAAAAA-TATTTTTTATTTGATAAAAAAA-TGGTGTCGGCCAAGCATTAG
1 AAAAAAATTATTTTTTATTAGATAAAAAAAGTGGTGTCGGCCAAGCATTAG
44841548 CCAATGAATG
Statistics
Matches: 137, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
55 15 0.11
56 20 0.15
57 11 0.08
58 4 0.03
59 85 0.62
60 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (59 bp):
AAAAAAATTATTTTTTATTAGATAAAAAAAGTGGTGTCGGCCAAGCATTAGTCAAAATA
Found at i:44841446 original size:118 final size:114
Alignment explanation
Indices: 44841324--44841535 Score: 289
Period size: 118 Copynumber: 1.8 Consensus size: 114
44841314 TTTATCAGAT
* * ** *
44841324 AAAAAAATAATTTTTTATTAGATAAAAATAGTGGTGCCAGCCAAGCATTAGTCAAAATAAAAAAA
1 AAAAAAATAATTTTTTATCAGATAAAAAAAGTAATGCCAGCCAAGCATT-GGC-AAATAAAAAAA
44841389 ATTATTTTTTATTAGATAAAAAAAGTGGTGTCGACTAATGGATGGTCAACATA
64 A-TATTTTTTATTAGATAAAAAAA-TGGTGTCGACTAATGGATGGTCAACATA
* * ***
44841442 AAAAAAATTATTTTTTATCATATAAAAAAAGTAATGTTGGCCAAGCATTGGCAAATAAAAAAAAT
1 AAAAAAATAATTTTTTATCAGATAAAAAAAGTAATGCCAGCCAAGCATTGGCAAATAAAAAAAAT
*
44841507 ATTTTTTATTTGATAAAAAAATGGTGTCG
66 ATTTTTTATTAGATAAAAAAATGGTGTCG
44841536 GCCAAGCATT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
114 8 0.10
115 21 0.25
116 12 0.14
117 2 0.02
118 40 0.48
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (114 bp):
AAAAAAATAATTTTTTATCAGATAAAAAAAGTAATGCCAGCCAAGCATTGGCAAATAAAAAAAAT
ATTTTTTATTAGATAAAAAAATGGTGTCGACTAATGGATGGTCAACATA
Found at i:44841927 original size:14 final size:15
Alignment explanation
Indices: 44841908--44841946 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
44841898 ACTAATGTAC
*
44841908 TAATTAAAT-TAAAT
1 TAATTAAATATAAAG
44841922 TAATTAAATATAAAG
1 TAATTAAATATAAAG
44841937 TAA-TAAATAT
1 TAATTAAATAT
44841947 GTTGTGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAATTAAATATAAAG
Found at i:44843886 original size:19 final size:20
Alignment explanation
Indices: 44843832--44843897 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
44843822 ATTACATATT
**
44843832 ATAATTATAAAAAT-TTTAA
1 ATAATTATAATTATATTTAA
* *
44843851 TTAGATTA-AATTTTATTTAA
1 ATA-ATTATAATTATATTTAA
44843871 AT-ATTATAATTATATTTAA
1 ATAATTATAATTATATTTAA
44843890 ATAATTAT
1 ATAATTAT
44843898 GGTTAATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
18 4 0.11
19 18 0.49
20 15 0.41
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAATTATAATTATATTTAA
Found at i:44847470 original size:39 final size:40
Alignment explanation
Indices: 44847408--44847483 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
44847398 ATTTAATGTC
* * *
44847408 GATCTTATTTTTATAATTAAGTTTTAGATATGATTAAGTA
1 GATCCTATTTTTATAATTAAGTTTTAAATATAATTAAGTA
*
44847448 GATCCTATTTTTA-ATTTAAGTTTTAAATATAATTAA
1 GATCCTATTTTTATAATTAAGTTTTAAATATAATTAA
44847484 ATAAATCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 20 0.62
40 12 0.38
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (40 bp):
GATCCTATTTTTATAATTAAGTTTTAAATATAATTAAGTA
Found at i:44848896 original size:14 final size:14
Alignment explanation
Indices: 44848877--44848908 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
44848867 CGTCCAACAT
44848877 AAAAAAAAAAAAGA
1 AAAAAAAAAAAAGA
*
44848891 AAAAAAAAAGAAGA
1 AAAAAAAAAAAAGA
44848905 AAAA
1 AAAA
44848909 GAAAGAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGA
Found at i:44848913 original size:13 final size:11
Alignment explanation
Indices: 44848879--44848915 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
44848869 TCCAACATAA
44848879 AAAAAAAAAAG
1 AAAAAAAAAAG
44848890 AAAAAAAAAAG
1 AAAAAAAAAAG
44848901 AAGAAAAAGAAAG
1 AA-AAAAA-AAAG
44848914 AA
1 AA
44848916 TAGTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 5 0.21
13 6 0.25
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:44852097 original size:31 final size:31
Alignment explanation
Indices: 44852052--44852112 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
44852042 CATTTTTTAA
*
44852052 ATGTGTACAATTGAATCAAAATAAAAGTTTT
1 ATGTATACAATTGAATCAAAATAAAAGTTTT
* *
44852083 ATGTATACATTTGAATCAAAATGAAAGTTT
1 ATGTATACAATTGAATCAAAATAAAAGTTT
44852113 AATGAGTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (31 bp):
ATGTATACAATTGAATCAAAATAAAAGTTTT
Found at i:44854307 original size:30 final size:30
Alignment explanation
Indices: 44854206--44854604 Score: 422
Period size: 30 Copynumber: 13.4 Consensus size: 30
44854196 GGAAAGTGTA
* *
44854206 AGGGTTAAAAATGTAATTTT-GAAAAAATTT-
1 AGGGTT-AAAATGTAATTTTAG-AGAAGTTTG
* * *
44854236 AGGGTTAAAATGCAATTTTAG-GAAATTTT
1 AGGGTTAAAATGTAATTTTAGAGAAGTTTG
* *
44854265 AGAGGTTTAAATGTGATTTTAGAGAAGTTTG
1 AG-GGTTAAAATGTAATTTTAGAGAAGTTTG
*** * * **
44854296 AAAATTAAAATGTAATTTT-GTAAAAGATCA
1 AGGGTTAAAATGTAATTTTAG-AGAAGTTTG
*
44854326 AGGTTTAAAATGTAATTTTAGAGAAGTTTG
1 AGGGTTAAAATGTAATTTTAGAGAAGTTTG
*
44854356 A-GG-TAAAATGTAATTTTAGAGAAGTTCG
1 AGGGTTAAAATGTAATTTTAGAGAAGTTTG
* *
44854384 AGGGTGAAAATGTAATTTAAGAGAAGTTT-
1 AGGGTTAAAATGTAATTTTAGAGAAGTTTG
*
44854413 AGGGTTAAAATGTAATTTTAGAGAAGTTCG
1 AGGGTTAAAATGTAATTTTAGAGAAGTTTG
* *
44854443 AGGGTCATAATGTAATTTTAGAGAAGTTT-
1 AGGGTTAAAATGTAATTTTAGAGAAGTTTG
* *
44854472 AGGGGTTAAAATGTAAATTT-GAAGAAGTTCAG
1 A-GGGTTAAAATGTAATTTTAG-AGAAGTT-TG
*
44854504 AGGGTTACAATGTAATTTTAGAGAAGTTTG
1 AGGGTTAAAATGTAATTTTAGAGAAGTTTG
*
44854534 AGGGTTAAAATGTAATTTTGGAGAAGTTTG
1 AGGGTTAAAATGTAATTTTAGAGAAGTTTG
*
44854564 AGGGTTAAAATGTGATTTTAGAGAAGTTTTG
1 AGGGTTAAAATGTAATTTTAGAGAAG-TTTG
44854595 -GGGTTAAAAT
1 AGGGTTAAAAT
44854605 AAAATTTCTA
Statistics
Matches: 309, Mismatches: 45, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
28 31 0.10
29 46 0.15
30 195 0.63
31 35 0.11
32 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTTAGAGAAGTTTG
Found at i:44863779 original size:15 final size:14
Alignment explanation
Indices: 44863750--44863784 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
44863740 GAGCATTAAG
44863750 GTAAAGCTGTTTAT
1 GTAAAGCTGTTTAT
*
44863764 GTAAATCTGCTTTAT
1 GTAAAGCTG-TTTAT
44863779 GTAAAG
1 GTAAAG
44863785 GAACTTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (14 bp):
GTAAAGCTGTTTAT
Found at i:44868213 original size:30 final size:30
Alignment explanation
Indices: 44868179--44868445 Score: 222
Period size: 30 Copynumber: 9.0 Consensus size: 30
44868169 TTTGACCTTA
* *
44868179 AAACTTTTCTAAAATCATATTTTAACCCCC
1 AAACTTTTCTAAAATCACATTTTAACCCCT
* * *
44868209 AAACTTCTCTAAAATTACATTTTAACCTCT
1 AAACTTTTCTAAAATCACATTTTAACCCCT
* *
44868239 AAA-TTTCTCTAAAATTACATTTTAACCCTT
1 AAACTTT-TCTAAAATCACATTTTAACCCCT
* * *
44868269 AAACTTCTCAAAAATTACA-TTTAA-CCCT
1 AAACTTTTCTAAAATCACATTTTAACCCCT
* * *
44868297 CGAA-TTTCTCTAAAATTACATTTTTA-CCCT
1 -AAACTTT-TCTAAAATCACATTTTAACCCCT
* * * * * *
44868327 CGAACTTCTCCAAAATCATATTTAAACCTCT
1 -AAACTTTTCTAAAATCACATTTTAACCCCT
* *
44868358 AAACTTTCCTAAAGTCACATTTTAA-CCCT
1 AAACTTTTCTAAAATCACATTTTAACCCCT
* * *
44868387 AAAATTATCTAAAATTACATTTTAACCCCT
1 AAACTTTTCTAAAATCACATTTTAACCCCT
* *
44868417 AAACTTTCCCAAAATCACATTTTAACCCC
1 AAACTTTTCTAAAATCACATTTTAACCCC
44868446 GAATTTCCCA
Statistics
Matches: 189, Mismatches: 40, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
28 5 0.03
29 43 0.23
30 134 0.71
31 7 0.04
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (30 bp):
AAACTTTTCTAAAATCACATTTTAACCCCT
Found at i:44868314 original size:89 final size:90
Alignment explanation
Indices: 44868179--44868444 Score: 276
Period size: 89 Copynumber: 3.0 Consensus size: 90
44868169 TTTGACCTTA
* * * * *
44868179 AAACTTTTCTAAAATCATATTTTAACCCCCAAACTTCTCTAAAATTACATTTTAACCTCTAAATT
1 AAACTTTCCAAAAATCACATTTTAACCCTCAAAATTCTCTAAAATTACATTTTAACC-CTAAATT
*
44868244 TCTCTAAAATTACATTTTAACCCT-T
65 TCTCCAAAATTACATTTTAACCCTCT
* * * * * *
44868269 AAAC-TTCTCAAAAATTACA-TTTAACCCTCGAATTTCTCTAAAATTACATTTTTACCCTCGAAC
1 AAACTTTC-CAAAAATCACATTTTAACCCTCAAAATTCTCTAAAATTACATTTTAACCCT-AAAT
*
44868332 TTCTCCAAAA-T-CATATTTAAACCTCT
64 TTCTCCAAAATTACAT-TTTAACCCTCT
* * *
44868358 AAACTTTCCTAAAGTCACATTTTAACCCT-AAAATTATCTAAAATTACATTTTAACCCCTAAACT
1 AAACTTTCCAAAAATCACATTTTAACCCTCAAAATTCTCTAAAATTACATTTTAA-CCCTAAA-T
*
44868422 TTC-CCAAAATCACATTTTAACCC
64 TTCTCCAAAATTACATTTTAACCC
44868445 CGAATTTCCC
Statistics
Matches: 143, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
87 3 0.02
88 11 0.08
89 88 0.62
90 38 0.27
91 3 0.02
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (90 bp):
AAACTTTCCAAAAATCACATTTTAACCCTCAAAATTCTCTAAAATTACATTTTAACCCTAAATTT
CTCCAAAATTACATTTTAACCCTCT
Found at i:44868326 original size:59 final size:61
Alignment explanation
Indices: 44868186--44868444 Score: 293
Period size: 59 Copynumber: 4.3 Consensus size: 61
44868176 TTAAAACTTT
* *
44868186 TCTAAAATCATATTTTAACCCCCAAACTTCTCTAAAATTACATTTTAA-CCTCTAAATTTC
1 TCTAAAATCACATTTTAACCCTCAAACTTCTCTAAAATTACATTTTAACCCTCTAAATTTC
* * * *
44868246 TCTAAAATTACATTTTAACCCTTAAACTTCTCAAAAATTACA-TTTAACCCTC-GAATTTC
1 TCTAAAATCACATTTTAACCCTCAAACTTCTCTAAAATTACATTTTAACCCTCTAAATTTC
* * * * *
44868305 TCTAAAATTACATTTTTACCCTCGAACTTCTCCAAAA-T-CATATTTAAACCTCTAAACTTTC
1 TCTAAAATCACATTTTAACCCTCAAACTTCTCTAAAATTACAT-TTTAACCCTCTAAA-TTTC
* * *
44868366 -CTAAAGTCACATTTTAACCCT-AAAATTATCTAAAATTACATTTTAACCC-CTAAACTTTC
1 TCTAAAATCACATTTTAACCCTCAAACTTCTCTAAAATTACATTTTAACCCTCTAAA-TTTC
*
44868425 -CCAAAATCACATTTTAACCC
1 TCTAAAATCACATTTTAACCC
44868445 CGAATTTCCC
Statistics
Matches: 170, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
57 2 0.01
58 1 0.01
59 91 0.54
60 69 0.41
61 7 0.04
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (61 bp):
TCTAAAATCACATTTTAACCCTCAAACTTCTCTAAAATTACATTTTAACCCTCTAAATTTC
Found at i:44868467 original size:28 final size:30
Alignment explanation
Indices: 44868150--44868458 Score: 176
Period size: 30 Copynumber: 10.4 Consensus size: 30
44868140 TAGGTCCTTG
* * * *
44868150 AACTTTCCAAAAATCATATTTTGA-CCTTAA
1 AACTTTCCCAAAATCACATTTTAACCCCT-A
* * * *
44868180 AACTTTTCTAAAATCATATTTTAACCCCCA
1 AACTTTCCCAAAATCACATTTTAACCCCTA
* * *
44868210 AAC-TTCTCTAAAATTACATTTTAACCTCTA
1 AACTTTC-CCAAAATCACATTTTAACCCCTA
* * *
44868240 AA-TTTCTCTAAAATTACATTTTAACCCTTA
1 AACTTTC-CCAAAATCACATTTTAACCCCTA
* * *
44868270 AAC-TTCTCAAAAATTACA-TTTAA-CCCTCG
1 AACTTTC-CCAAAATCACATTTTAACCCCT-A
* * * *
44868299 AA-TTTCTCTAAAATTACATTTTTA-CCCTCG
1 AACTTTC-CCAAAATCACATTTTAACCCCT-A
* * *
44868329 AAC-TTCTCCAAAATCATATTTAAACCTCTA
1 AACTTTC-CCAAAATCACATTTTAACCCCTA
* *
44868359 AACTTTCCTAAAGTCACATTTTAA-CCCTA
1 AACTTTCCCAAAATCACATTTTAACCCCTA
* * *
44868388 AAATTAT-CTAAAATTACATTTTAACCCCTA
1 AACTT-TCCCAAAATCACATTTTAACCCCTA
*
44868418 AACTTTCCCAAAATCACATTTTAACCCC-G
1 AACTTTCCCAAAATCACATTTTAACCCCTA
44868447 AA-TTTCCCAAAA
1 AACTTTCCCAAAA
44868459 CTTCATTTTC
Statistics
Matches: 230, Mismatches: 36, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.06
29 49 0.21
30 160 0.70
31 8 0.03
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
AACTTTCCCAAAATCACATTTTAACCCCTA
Found at i:44868474 original size:59 final size:58
Alignment explanation
Indices: 44868179--44868467 Score: 187
Period size: 59 Copynumber: 4.9 Consensus size: 58
44868169 TTTGACCTTA
* * * * * * * *
44868179 AAACTTTTCTAAAATCATATTTTAACCCCCAAACTTCTCTAAAATTACATTTTAACCTCT
1 AAACTTTCCCAAAATCACATTTTAACCCTCGAATTTC-CCAAAATT-CATTTTAACCCCT
* * ** * *
44868239 AAA-TTTCTCTAAAATTACATTTTAACCCTTAAACTTCTCAAAAATTACA-TTTAA-CCCT
1 AAACTTTC-CCAAAATCACATTTTAACCCTCGAATTTC-CCAAAATT-CATTTTAACCCCT
* * * * * *
44868297 CGAA-TTTCTCTAAAATTACATTTTTACCCTCGAACTTCTCCAAAA-TCATATTTAAACCTCT
1 -AAACTTTC-CCAAAATCACATTTTAACCCTCGAATTTC-CCAAAATTCAT-TTT-AACCCCT
* * ** *
44868358 AAACTTTCCTAAAGTCACATTTTAACCCTAAAATTAT-CTAAAATTACATTTTAACCCCT
1 AAACTTTCCCAAAATCACATTTTAACCCTCGAATT-TCCCAAAATT-CATTTTAACCCCT
44868417 AAACTTTCCCAAAATCACATTTTAACCC-CGAATTTCCCAAAACTTCATTTT
1 AAACTTTCCCAAAATCACATTTTAACCCTCGAATTTCCCAAAA-TTCATTTT
44868468 CGACCCCCTT
Statistics
Matches: 190, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
57 3 0.02
58 19 0.10
59 89 0.47
60 68 0.36
61 11 0.06
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.37
Consensus pattern (58 bp):
AAACTTTCCCAAAATCACATTTTAACCCTCGAATTTCCCAAAATTCATTTTAACCCCT
Found at i:44874300 original size:57 final size:58
Alignment explanation
Indices: 44874089--44874338 Score: 165
Period size: 58 Copynumber: 4.3 Consensus size: 58
44874079 TGGATACCCG
* * * * * **
44874089 AGGGAAAAATGGTAATTTTGGTCGAAAT--TGGGTCAAAAAT-AGGATTTTGGAAACTTCG
1 AGGGTAAAATGGTAATTTTGGT-AAAATCATGGGT-AAAAATGA-AATTTTAGAAAGTTTA
* * * **
44874147 AGGGTAAAAAGGTAATTTTTAGTAAAATCA-GGGTTAAAAATGGAGCTTT-GAAAAGTTTA
1 AGGGTAAAATGGTAA-TTTTGGTAAAATCATGGG-TAAAAATGAAATTTTAG-AAAGTTTA
* * *
44874206 GGGGTAAAATGGTAATTTTGGTAAAATTAT-GGTTAAAATGAAATTTTAGAAAGTTTA
1 AGGGTAAAATGGTAATTTTGGTAAAATCATGGGTAAAAATGAAATTTTAGAAAGTTTA
* ** * * ** *
44874263 AGGGTTAAATGGTAATTTTGGTGGAATCA-GGAGTAAAAATGGAATTTTGGAAAACTTG
1 AGGGTAAAATGGTAATTTTGGTAAAATCATGG-GTAAAAATGAAATTTTAGAAAGTTTA
*
44874321 AGGGTAAAA-AGTAATTTT
1 AGGGTAAAATGGTAATTTT
44874339 TAGAAAATTT
Statistics
Matches: 150, Mismatches: 32, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
57 52 0.35
58 61 0.41
59 36 0.24
60 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (58 bp):
AGGGTAAAATGGTAATTTTGGTAAAATCATGGGTAAAAATGAAATTTTAGAAAGTTTA
Found at i:44874327 original size:29 final size:28
Alignment explanation
Indices: 44874089--44874347 Score: 92
Period size: 29 Copynumber: 9.0 Consensus size: 28
44874079 TGGATACCCG
*
44874089 AGGG-AAAAATGGTAATTTTGGTCGAAATT-
1 AGGGTAAAAATGG-AATTTTGG--AAAATTC
*
44874118 -GGGTCAAAAATAGG-ATTTTGGAAACTTC
1 AGGGT-AAAAAT-GGAATTTTGGAAAATTC
*
44874146 GAGGGTAAAAA-GGTAATTTTTAGTAAAA-TC
1 -AGGGTAAAAATGG-AA-TTTT-GGAAAATTC
** *
44874176 AGGGTTAAAAATGGAGCTTT-GAAAAGTTT
1 AGGG-TAAAAATGGAATTTTGGAAAA-TTC
44874205 AGGGGT-AAAATGGTAATTTTGGTAAAATT-
1 A-GGGTAAAAATGG-AATTTTGG-AAAATTC
* * * * * *
44874234 ATGGTTAAAATGAAATTTTAGAAAGTTTA
1 AGGGTAAAAATGGAATTTTGGAAA-ATTC
* **
44874263 AGGGT-TAAATGGTAATTTTGGTGGAA-TC
1 AGGGTAAAAATGG-AATTTTGG-AAAATTC
*
44874291 AGGAGTAAAAATGGAATTTTGGAAAACTTG
1 AGG-GTAAAAATGGAATTTTGGAAAA-TTC
* *
44874321 AGGGTAAAAA-GTAATTTTTAGAAAATT
1 AGGGTAAAAATGGAA-TTTTGGAAAATT
44874348 TTGTGGTCAA
Statistics
Matches: 174, Mismatches: 28, Indels: 57
0.67 0.11 0.22
Matches are distributed among these distances:
27 13 0.07
28 38 0.22
29 71 0.41
30 40 0.23
31 12 0.07
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (28 bp):
AGGGTAAAAATGGAATTTTGGAAAATTC
Found at i:44874397 original size:29 final size:29
Alignment explanation
Indices: 44874336--44874428 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 29
44874326 AAAAAGTAAT
*
44874336 TTTTAGAAAATTTT-GTGGTCAAAATATAAA
1 TTTTAAAAAATTTTAG-GGTCAAAATAT-AA
*
44874366 TTTTAAAAAATTTTAGGGTTAAAATATAA
1 TTTTAAAAAATTTTAGGGTCAAAATATAA
*
44874395 TTTT-AAAGATGTTTAGGGGTCAAAATATAA
1 TTTTAAAAAAT-TTTA-GGGTCAAAATATAA
44874425 TTTT
1 TTTT
44874429 TGGATAGTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.09
29 10 0.18
30 40 0.71
31 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (29 bp):
TTTTAAAAAATTTTAGGGTCAAAATATAA
Found at i:44875145 original size:14 final size:15
Alignment explanation
Indices: 44875123--44875160 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
44875113 TTCATTCTCT
44875123 TTCCTTTTT-CTTTTG
1 TTCCTTTTTGC-TTTG
44875138 TT-CTTTTTGCTTTG
1 TTCCTTTTTGCTTTG
44875152 TTCCTTTTT
1 TTCCTTTTT
44875161 TACAAAGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (15 bp):
TTCCTTTTTGCTTTG
Found at i:44875494 original size:3 final size:3
Alignment explanation
Indices: 44875486--44875549 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
44875476 TGTTACCACT
* * * *
44875486 TTA TTA TTA ATA TTA TTA TTA CTAA TTA TTG TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
44875532 TTA TCA ATA CTTA TTA TT
1 TTA TTA TTA -TTA TTA TT
44875550 GTTGTTACCA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
3 43 0.91
4 4 0.09
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:44876185 original size:17 final size:17
Alignment explanation
Indices: 44876159--44876248 Score: 109
Period size: 17 Copynumber: 5.6 Consensus size: 17
44876149 GGACATTTAT
44876159 TAAA-TTAAATTTATAA
1 TAAATTTAAATTTATAA
* *
44876175 TAATTTTAAATTTATAT
1 TAAATTTAAATTTATAA
44876192 TAAATTTAAA-TT-TAA
1 TAAATTTAAATTTATAA
*
44876207 TAAATTTAAA--TCTAA
1 TAAATTTAAATTTATAA
*
44876222 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTATAA
44876239 TAAATTTAAA
1 TAAATTTAAA
44876249 ATGGTTTGGT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
14 1 0.02
15 25 0.39
16 5 0.08
17 33 0.52
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:44876200 original size:6 final size:6
Alignment explanation
Indices: 44876158--44876248 Score: 63
Period size: 6 Copynumber: 15.8 Consensus size: 6
44876148 TGGACATTTA
* *
44876158 TTAAA- TTAAAT TTATAA- -TAATT TTAAAT TTATA- TTAAAT TTAAAT
1 TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
44876203 TT-AA- -TAAAT TTAAAT CTAATAAAT TTAAAT TTAAA- ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT -T--TAAAT TTAAAT TTAAAT TTAAAT TTAAA
44876249 ATGGTTTGGT
Statistics
Matches: 68, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
3 1 0.01
4 3 0.04
5 17 0.25
6 38 0.56
7 3 0.04
8 1 0.01
9 5 0.07
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:44876678 original size:82 final size:83
Alignment explanation
Indices: 44876536--44876695 Score: 277
Period size: 82 Copynumber: 1.9 Consensus size: 83
44876526 TATGTCGTTC
* * *
44876536 ATAATTTTCGTCAATTCATGGCACCCGGTGTTTAGCGGATAAACCGCAATAAGTGAGCCCAGCTT
1 ATAATTTTCGTCAATTCATGGCACCCAGTGCTTAGCGGATAAACCGCAATAAGTGAGCCCAGCTC
44876601 TAGTTGGATTAACTAACG
66 TAGTTGGATTAACTAACG
*
44876619 ATAA-TTTCGTCAATTCCTGGCACCCAGTGCTTAGCGGATAAACCGCAATAAGTGAGCCCAGCTC
1 ATAATTTTCGTCAATTCATGGCACCCAGTGCTTAGCGGATAAACCGCAATAAGTGAGCCCAGCTC
44876683 TAGTTGGATTAAC
66 TAGTTGGATTAAC
44876696 CGACGGTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 69 0.95
83 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (83 bp):
ATAATTTTCGTCAATTCATGGCACCCAGTGCTTAGCGGATAAACCGCAATAAGTGAGCCCAGCTC
TAGTTGGATTAACTAACG
Found at i:44876886 original size:180 final size:183
Alignment explanation
Indices: 44876568--44876919 Score: 500
Period size: 180 Copynumber: 1.9 Consensus size: 183
44876558 ACCCGGTGTT
* * * * * *
44876568 TAGCGGATAAACCGCAATAAGTGAGCCCAGCTTTAGTTGGATTAACTAACGATAATTTCGTCAAT
1 TAGCAGATAAACCGCAATAAGTGAGCCCAACTCTAGTTGGATTAACCAAC-A-AATTCCATCAAT
* * * *
44876633 TCCTGGCACCCAGTGCTTAGCGGATAAACCGCAATAAGTGAGCCCAGCTCTAGTTGGATTAACCG
64 TCCTGGCACCCAGTGCCTAGCAGATAAACCACAATAAGTGAGCCCAGCTCTAGTTGGATTAACCA
* *
44876698 ACGGTTTTGCG-CTCAGCGCTAGTCGGATAAACCGACGATCCTGACACCTAATGCC
129 AAGGTTTTGCGCCT-AGCGCTAGTCGAATAAACCGACGATCCTGACACCTAATGCC
44876753 TAGCAGATAAACCGCAA-AAGTGAGCCCAACTCTAGTTGGATTAACCAAC-AATGTCCATCAAAT
1 TAGCAGATAAACCGCAATAAGTGAGCCCAACTCTAGTTGGATTAACCAACAAAT-TCCATC-AAT
*
44876816 T-TTGGCACCCAGTGCCTAGCAGATAAACCACAA-AAGTGAG-CCAGCTCTAGTTGGATTAACCA
64 TCCTGGCACCCAGTGCCTAGCAGATAAACCACAATAAGTGAGCCCAGCTCTAGTTGGATTAACCA
44876878 AAGGTTTTGCGCCTAGCGCTAGTCGAATAAACCGACGATCCT
129 AAGGTTTTGCGCCTAGCGCTAGTCGAATAAACCGACGATCCT
44876920 TTAATAATTC
Statistics
Matches: 151, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
180 58 0.38
181 12 0.08
182 32 0.21
183 4 0.03
184 29 0.19
185 16 0.11
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (183 bp):
TAGCAGATAAACCGCAATAAGTGAGCCCAACTCTAGTTGGATTAACCAACAAATTCCATCAATTC
CTGGCACCCAGTGCCTAGCAGATAAACCACAATAAGTGAGCCCAGCTCTAGTTGGATTAACCAAA
GGTTTTGCGCCTAGCGCTAGTCGAATAAACCGACGATCCTGACACCTAATGCC
Found at i:44885028 original size:54 final size:54
Alignment explanation
Indices: 44884968--44885136 Score: 207
Period size: 54 Copynumber: 3.1 Consensus size: 54
44884958 ATGTGACCAA
* * * * * *
44884968 CCGTGTGTTTGCCAGTGTAACTCTCTAACTTGGGCCACAGGCCCGTGTCTCAAC
1 CCGTGTGCTCGCCAGTGTAACTCACTGACTTGGGCCACACGCTCGTGTCTCAAC
* *
44885022 CTGTGTGCTCG-CACGTGTAACTCACTGACTTGGGCCACACGCTCGTGTCTCAGC
1 CCGTGTGCTCGCCA-GTGTAACTCACTGACTTGGGCCACACGCTCGTGTCTCAAC
* * *
44885076 CCGTGTGCTGGCACA-TGTAAATCACTGACTTGGGCCACATGCTCGTGTCTCAAC
1 CCGTGTGCTCGC-CAGTGTAACTCACTGACTTGGGCCACACGCTCGTGTCTCAAC
44885130 CCGTGTG
1 CCGTGTG
44885137 AACTTTGCAC
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.02
54 95 0.96
56 2 0.02
ACGTcount: A:0.17, C:0.31, G:0.25, T:0.27
Consensus pattern (54 bp):
CCGTGTGCTCGCCAGTGTAACTCACTGACTTGGGCCACACGCTCGTGTCTCAAC
Found at i:44886358 original size:40 final size:41
Alignment explanation
Indices: 44886295--44886461 Score: 160
Period size: 41 Copynumber: 4.1 Consensus size: 41
44886285 TATAATTTAT
* * * *
44886295 CTGATTCAATACACCGGCTCGAAG-CTGCTAGGCATAAAGC
1 CTGAATCAATACATCGGCACGAAGCCTGCTAGGCACAAAGC
*
44886335 CTGAATCAATACATCGGCACGAAGTCTGCTAGGCACAAAGC
1 CTGAATCAATACATCGGCACGAAGCCTGCTAGGCACAAAGC
* * * *
44886376 CTTAATCAATACATTGGCACAAAGCCTTCTAGGCACAAAGC
1 CTGAATCAATACATCGGCACGAAGCCTGCTAGGCACAAAGC
* * ** **
44886417 CT-AAT-AATGTACACCTGCATAAAGCCTGCTAGGTTCAAAGC
1 CTGAATCAA--TACATCGGCACGAAGCCTGCTAGGCACAAAGC
44886458 CTGA
1 CTGA
44886462 TACACTATCT
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 24 0.22
41 80 0.75
42 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (41 bp):
CTGAATCAATACATCGGCACGAAGCCTGCTAGGCACAAAGC
Found at i:44900097 original size:23 final size:20
Alignment explanation
Indices: 44900060--44900120 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 20
44900050 CTTTTAAAAA
*
44900060 TAAAATT-TTTATTTAATCCTT
1 TAAAATTATATATTTAAT-C-T
44900081 TAAAAATTATATATTTACTATCT
1 T-AAAATTATATATTTA--ATCT
44900104 TAAAATTATA-ATTTAAT
1 TAAAATTATATATTTAAT
44900121 TTTGATTCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
19 2 0.06
21 6 0.17
22 15 0.43
23 9 0.26
24 1 0.03
25 2 0.06
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAAATTATATATTTAATCT
Found at i:44900097 original size:27 final size:28
Alignment explanation
Indices: 44900043--44900097 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
44900033 AAAATTACAC
*
44900043 TTTAACCCTTTTAAAAATAAAATTTTTA
1 TTTAACCCTTTTAAAAATAAAATATTTA
* * *
44900071 TTTAATCC-TTTAAAAATTATATATTTA
1 TTTAACCCTTTTAAAAATAAAATATTTA
44900098 CTATCTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
TTTAACCCTTTTAAAAATAAAATATTTA
Found at i:44900469 original size:23 final size:22
Alignment explanation
Indices: 44900432--44900492 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
44900422 TTTTAAAAAA
* * *
44900432 TAAAATT-TTTATTTAATCTTT
1 TAAAATTATATATTTAATATCT
*
44900453 TAAAAATTATATATTTACTATCT
1 T-AAAATTATATATTTAATATCT
44900476 TAAAATTATA-ATTTAAT
1 TAAAATTATATATTTAAT
44900493 TTTGATTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 7 0.21
22 15 0.45
23 11 0.33
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAAATTATATATTTAATATCT
Found at i:44900585 original size:372 final size:373
Alignment explanation
Indices: 44899901--44901015 Score: 2049
Period size: 372 Copynumber: 3.0 Consensus size: 373
44899891 AGTTGTGCAT
*
44899901 ATTTTGTTTCTTTTATTTTAAAAAATAAATAAATTAATCTATAGGTAGGGGTGAATTCGAGGAGT
1 ATTTTGTTTCTTTTATTTTAAAAAATAAATAAATTAATCTATAGGTAGGGATGAATTCGAGGAGT
* *
44899966 TGACAAGAGTTTTAGCCTCCTAAACTTAAAAAAAATTAAACCTTTTAAAATTTTAAATTAAT-AA
66 TGACAAGAGTTTTAGCCCCCTAAAATTAAAAAAAATTAAACCTTTTAAAATTTTAAATTAATAAA
44900030 AATAAAATTACACTTTAACCCTTTT-AAAAATAAAATTTTTATTTAATCCTTTAAAAATTATATA
131 AATAAAATTACACTTTAACCCTTTTAAAAAATAAAATTTTTATTTAATCCTTTAAAAATTATATA
44900094 TTTACTATCTTAAAATTATAATTTAATTTTGATTCCTAACAAAAATTTTAACGTTTAGCTCCTAC
196 TTTACTATCTTAAAATTATAATTTAATTTTGATTCCTAACAAAAATTTTAACGTTTAGCTCCTAC
44900159 CATTATAAAACAATTTTTTTATTAAAAATTTTATTTATTTTTATTTTTAAAATTTAATAATTATG
261 CATTATAAAACAATTTTTTTATTAAAAATTTTATTTATTTTTATTTTTAAAATTTAATAATTATG
*
44900224 AAATAATTAATTTACTATTCAATTTATCGTATATAAAATAATTTTTTC
326 AAATAATTAATTTACTATTTAATTTATCGTATATAAAATAATTTTTTC
*
44900272 ATTTTGTTTCTTTTATTTTAAAAAATAAATAAATTAATCTATAGGTAGGGATGAATTCGTGGAGT
1 ATTTTGTTTCTTTTATTTTAAAAAATAAATAAATTAATCTATAGGTAGGGATGAATTCGAGGAGT
44900337 TGACAAGAGTTTTAGCCCCCTAAAATT-AAAAAAATTAAACCTTTTAAAATTTTAAATTAATAAA
66 TGACAAGAGTTTTAGCCCCCTAAAATTAAAAAAAATTAAACCTTTTAAAATTTTAAATTAATAAA
*
44900401 AATAAAATTACACTTTAACCCTTTTAAAAAATAAAATTTTTATTTAATCTTTTAAAAATTATATA
131 AATAAAATTACACTTTAACCCTTTTAAAAAATAAAATTTTTATTTAATCCTTTAAAAATTATATA
44900466 TTTACTATCTTAAAATTATAATTTAATTTTGATTCCTAACAAAAATTTTAACGTTTAGCTCCTAC
196 TTTACTATCTTAAAATTATAATTTAATTTTGATTCCTAACAAAAATTTTAACGTTTAGCTCCTAC
*
44900531 CATTATAAAACAATTTTTTTATTAAAATTTTTATTTATTTTTATTTTTAAAATTTAATAATTATG
261 CATTATAAAACAATTTTTTTATTAAAAATTTTATTTATTTTTATTTTTAAAATTTAATAATTATG
44900596 AAATAATTAATTTACTATTTAATTTATCGTATATAAAATAATTTTTTC
326 AAATAATTAATTTACTATTTAATTTATCGTATATAAAATAATTTTTTC
*
44900644 ATTTTGTTTCTTTTATTTTAAAAAATAAATAAATTAATCTATAGGTAGGGATGAGTTCGAGGAGT
1 ATTTTGTTTCTTTTATTTTAAAAAATAAATAAATTAATCTATAGGTAGGGATGAATTCGAGGAGT
* * * *
44900709 TGACAAGAATTTTAACCCCTTAAAATTAAAAAAAAATAAACCTTTTAAAATTTTAAATTAATAAA
66 TGACAAGAGTTTTAGCCCCCTAAAATTAAAAAAAATTAAACCTTTTAAAATTTTAAATTAATAAA
*
44900774 AATAAAATTATACTTTAACCCTTTTAAAAAATAAAATTTTTATTTAATCCTTTAAAAATTATATA
131 AATAAAATTACACTTTAACCCTTTTAAAAAATAAAATTTTTATTTAATCCTTTAAAAATTATATA
* *
44900839 TTTACTATCTTAAAATTATAATTTAATTTTAACTCCTAACAAAAATTTTAACGTTTAGCTCCTAC
196 TTTACTATCTTAAAATTATAATTTAATTTTGATTCCTAACAAAAATTTTAACGTTTAGCTCCTAC
44900904 CATTATAAAACAATTTTTTTATTAAAAATTTTATTTATTTTTATTTTTAAAATTTAATAATTAAT
261 CATTATAAAACAATTTTTTTATTAAAAATTTTATTTATTTTTATTTTTAAAATTTAATAATT-AT
*
44900969 -AAATAATTAATTTACTATTTAATTTATCGTATATAAAATATTTTTTT
325 GAAATAATTAATTTACTATTTAATTTATCGTATATAAAATAATTTTTT
44901016 AATAAATAAA
Statistics
Matches: 721, Mismatches: 19, Indels: 6
0.97 0.03 0.01
Matches are distributed among these distances:
370 34 0.05
371 115 0.16
372 301 0.42
373 269 0.37
374 2 0.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (373 bp):
ATTTTGTTTCTTTTATTTTAAAAAATAAATAAATTAATCTATAGGTAGGGATGAATTCGAGGAGT
TGACAAGAGTTTTAGCCCCCTAAAATTAAAAAAAATTAAACCTTTTAAAATTTTAAATTAATAAA
AATAAAATTACACTTTAACCCTTTTAAAAAATAAAATTTTTATTTAATCCTTTAAAAATTATATA
TTTACTATCTTAAAATTATAATTTAATTTTGATTCCTAACAAAAATTTTAACGTTTAGCTCCTAC
CATTATAAAACAATTTTTTTATTAAAAATTTTATTTATTTTTATTTTTAAAATTTAATAATTATG
AAATAATTAATTTACTATTTAATTTATCGTATATAAAATAATTTTTTC
Found at i:44900819 original size:29 final size:28
Alignment explanation
Indices: 44900771--44900831 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
44900761 TTAAATTAAT
44900771 AAAAATAAAATTATACTTTAACCCTTTTA
1 AAAAATAAAATTATACTTTAACCC-TTTA
* *
44900800 AAAAATAAAATTTTTA-TTTAATCCTTTA
1 AAAAATAAAA-TTATACTTTAACCCTTTA
44900828 AAAA
1 AAAA
44900832 TTATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 17 0.59
30 4 0.14
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAAATAAAATTATACTTTAACCCTTTA
Found at i:44900842 original size:23 final size:20
Alignment explanation
Indices: 44900805--44900870 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 20
44900795 TTTTAAAAAA
*
44900805 TAAAATT-TTTATTTAATCCTT
1 TAAAATTATATATTTAAT-C-T
44900826 TAAAAATTATATATTTACTATCT
1 T-AAAATTATATATTTA--ATCT
*
44900849 TAAAATTATA-ATTTAATTT
1 TAAAATTATATATTTAATCT
44900868 TAA
1 TAA
44900871 CTCCTAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 6 0.15
21 6 0.15
22 15 0.38
23 9 0.23
24 1 0.03
25 2 0.05
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAAATTATATATTTAATCT
Found at i:44906122 original size:16 final size:15
Alignment explanation
Indices: 44906078--44906127 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
44906068 AGAATGCGTA
*
44906078 ATTAATTTAAAATTT
1 ATTAATTAAAAATTT
44906093 -TTAATTAATTAAATTT
1 ATTAATTAA--AAATTT
44906109 ATATAATTAAAAATTT
1 AT-TAATTAAAAATTT
44906125 ATT
1 ATT
44906128 CTCGTCCCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 14 0.47
17 1 0.03
18 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTAATTAAAAATTT
Found at i:44908145 original size:59 final size:58
Alignment explanation
Indices: 44908053--44908172 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 58
44908043 TCGCCTAACA
* * * *
44908053 ATTAGTAAATTTTTTTTTGGTCACCCAATTATGAAAAGTTACAAAATGGTTA-TCCAACT
1 ATTAGTAAATTTATTTTTGGTCACCCAACTATG-AAAGTTAAAAAAT-GTCACTCCAACT
* *
44908112 ATTAGTAAATTTATTTTTGGTCATCCAACTATGAAATTTAAAAAATGTCACTCCAACT
1 ATTAGTAAATTTATTTTTGGTCACCCAACTATGAAAGTTAAAAAATGTCACTCCAACT
44908170 ATT
1 ATT
44908173 CAATTTTGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
57 3 0.06
58 21 0.39
59 30 0.56
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (58 bp):
ATTAGTAAATTTATTTTTGGTCACCCAACTATGAAAGTTAAAAAATGTCACTCCAACT
Found at i:44908752 original size:60 final size:58
Alignment explanation
Indices: 44908682--44908793 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 58
44908672 GTTGGTGAAA
* *
44908682 ATTTTGTAACTTTTCATAATTTGA-TGACGAAAAAAGAAATTTAATAATAATTAAATAACC
1 ATTTTATAACTTTTCAT-AGTTGAGTGAC-AAAAAA-AAATTTAATAATAATTAAATAACC
* *
44908742 ATTTTATAACTTTTCATAGTTGAGTGACTAAAAAAAATTTATTAATAATTAA
1 ATTTTATAACTTTTCATAGTTGAGTGACAAAAAAAAATTTAATAATAATTAA
44908794 GCTACTACTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
58 17 0.36
59 10 0.21
60 20 0.43
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (58 bp):
ATTTTATAACTTTTCATAGTTGAGTGACAAAAAAAAATTTAATAATAATTAAATAACC
Found at i:44912014 original size:18 final size:18
Alignment explanation
Indices: 44911991--44912025 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44911981 GTATCATAAT
*
44911991 TTAATATTTAATAAAAAA
1 TTAATATCTAATAAAAAA
44912009 TTAATATCTAATAAAAA
1 TTAATATCTAATAAAAA
44912026 TTATATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAATATCTAATAAAAAA
Found at i:44913493 original size:26 final size:27
Alignment explanation
Indices: 44913464--44913522 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
44913454 TTATCACCCT
*
44913464 AATTTTGAATTGAGTCAAGTGAAATG-
1 AATTTTGAATTGAGTCAAATGAAATGA
* *
44913490 AATTTTGAGTTGAGTCAAATGGAATGA
1 AATTTTGAATTGAGTCAAATGAAATGA
44913517 AATTTT
1 AATTTT
44913523 TCAAGTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.37
Consensus pattern (27 bp):
AATTTTGAATTGAGTCAAATGAAATGA
Found at i:44921647 original size:105 final size:105
Alignment explanation
Indices: 44921488--44921708 Score: 237
Period size: 105 Copynumber: 2.1 Consensus size: 105
44921478 ATTATAGGTA
* * *
44921488 ACAACATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCTTAGCTTCAGAGACCAT
1 ACAACATTAGGCTCAATGCCTCGCTTTATCATTACGTCAACAATATCCTCAGCTTCAGAAACCAT
* *
44921553 CCCTTCCTTGCAATGTGCATCAACCAATGTACTATACGTG
66 CCCTTCCTTGCAAAGTGCATCAACCAATATACTATACGTG
** * * * * * * * *
44921593 ACAACATTAGGCTCAATGCCTTTCTTTCTCATTATGTCAACAGTCT-CTACAGCTTTATAAATCG
1 ACAACATTAGGCTCAATGCCTCGCTTTATCATTACGTCAACAATATCCT-CAGCTTCAGAAACCA
* * * * *
44921657 TTCCTTCCTTGCAAAGTGCATCGATCAATATAGTATATGTG
65 TCCCTTCCTTGCAAAGTGCATCAACCAATATACTATACGTG
*
44921698 ACAATATTAGG
1 ACAACATTAGG
44921709 TGAAATATTG
Statistics
Matches: 94, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
104 2 0.02
105 92 0.98
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (105 bp):
ACAACATTAGGCTCAATGCCTCGCTTTATCATTACGTCAACAATATCCTCAGCTTCAGAAACCAT
CCCTTCCTTGCAAAGTGCATCAACCAATATACTATACGTG
Found at i:44928203 original size:82 final size:82
Alignment explanation
Indices: 44928093--44928369 Score: 356
Period size: 82 Copynumber: 3.4 Consensus size: 82
44928083 TCGTGATTAT
* * * ** * **
44928093 TGAGCCCCGATCTAGTTGGATTAACCAACGAAAAATCAAAAATTCCTAACACCCAGTGCCTAGTG
1 TGAGCCCAGCTCTAGTTGGATTAACCAACGAAAAACCATCAATTCATAACACCCAGTGCCTAGCA
*
44928158 GATAAACTGTAATAAAA
66 GATAAACTGCAATAAAA
* * **
44928175 TGAGCCCAGCTCTAGTTGGATTAACCAACGGAAAACCGTCAATTCATGGCACCCAGTGCCTAGCA
1 TGAGCCCAGCTCTAGTTGGATTAACCAACGAAAAACCATCAATTCATAACACCCAGTGCCTAGCA
44928240 GATAAACTGCAATAAAA
66 GATAAACTGCAATAAAA
** * * *
44928257 TGAGCTTAGCTCTAGTTGGATTAACCAACGGAAAACCATCAATTCATTACACCCAGTACCTAGCA
1 TGAGCCCAGCTCTAGTTGGATTAACCAACGAAAAACCATCAATTCATAACACCCAGTGCCTAGCA
*
44928322 GATAAACCGCAATAAAA
66 GATAAACTGCAATAAAA
* * *
44928339 TGAACCCAACTCTAGTTGGATTAATCAACGA
1 TGAGCCCAGCTCTAGTTGGATTAACCAACGA
44928370 TTTTGCATCC
Statistics
Matches: 169, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (82 bp):
TGAGCCCAGCTCTAGTTGGATTAACCAACGAAAAACCATCAATTCATAACACCCAGTGCCTAGCA
GATAAACTGCAATAAAA
Found at i:44929474 original size:28 final size:28
Alignment explanation
Indices: 44929441--44929687 Score: 167
Period size: 28 Copynumber: 8.6 Consensus size: 28
44929431 TACCCATGAA
*
44929441 CTCTTTTTAATGATATTCTTACGAATAT
1 CTCTTTTCAATGATATTCTTACGAATAT
* *
44929469 CTCTTTTC-ATTAGTATTCTTACAAATAT
1 CTCTTTTCAATGA-TATTCTTACGAATAT
* * * * *
44929497 CCCTTTTCATATAATATCCTTATGGATAT
1 CTCTTTTCA-ATGATATTCTTACGAATAT
* ** *
44929526 ATCATTTTCGTTGATATTATTACGAATAT
1 CTC-TTTTCAATGATATTCTTACGAATAT
* * * * * *
44929555 CCCTTCTCATATAATATCCTTATGGATAAAT
1 CTCTTTTCA-ATGATATTCTTA-CGA-ATAT
* *
44929586 C-CTTTTCATTGACATTCTTACGAATAT
1 CTCTTTTCAATGATATTCTTACGAATAT
* *
44929613 CTCTTTTCATTGGTATTCTTACGAATAT
1 CTCTTTTCAATGATATTCTTACGAATAT
* * *
44929641 CCCTTTTCATTAATATTCTTACGAATAT
1 CTCTTTTCAATGATATTCTTACGAATAT
*
44929669 C-CTTTCTCATATAATATTC
1 CTCTTT-TCA-ATGATATTC
44929688 CATTGGATAA
Statistics
Matches: 168, Mismatches: 41, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
27 11 0.07
28 87 0.52
29 50 0.30
30 16 0.10
31 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (28 bp):
CTCTTTTCAATGATATTCTTACGAATAT
Done.