Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 155 of 328
Found at i:45297651 original size:86 final size:85
Alignment explanation
Indices: 45297440--45297675 Score: 280
Period size: 86 Copynumber: 2.8 Consensus size: 85
45297430 TTTTTATGAT
* *
45297440 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
45297504 GAAAAATAAATTAAAACACG
66 AAAAAATAAATTAAAACACG
* * * * **
45297524 AAATTTGACAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAA-TTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
45297589 TAAAAAAACATAAATT-GAACA-G
65 T--AAAAA-ATAAATTAAAACACG
* * * * *
45297611 AAATCGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTAGATTTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
45297676 GATGATAAAT
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
84 3 0.02
85 48 0.38
86 57 0.45
87 4 0.03
88 8 0.06
89 7 0.06
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (85 bp):
AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
AAAAAATAAATTAAAACACG
Found at i:45297720 original size:157 final size:156
Alignment explanation
Indices: 45297533--45297919 Score: 449
Period size: 157 Copynumber: 2.5 Consensus size: 156
45297523 GAAATTTGAC
* * * *
45297533 AATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAAAC
1 AATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT---AAAAC
*
45297598 ATAAATTG-A-ACAGAAATCGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCCAT
63 ATAAATTGAAGACAGAAATCGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAAT
**
45297661 ATGAGTAGATTTTTTG-ATGATAAA-TAGAA
128 ATGAGTAGA-TTTTTGAAAAATAAATTA-AA
* * * * ****
45297690 AATACCTCAATGTGACTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTATTTTTA
1 AATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAACATA
** * * *
45297755 TTTTGAAAGACAGAAATTGAAAATACCTCACCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
66 AATTG-AAGACAGAAATCGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATAT
*
45297820 GAGTTGATTTTTGAAAAATAAATTAAA
130 GAGTAGATTTTTGAAAAATAAATTAAA
* * * * *
45297847 AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGACAAACAG
1 AATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTA-AAACAT
45297912 AAATTGAA
65 AAATTGAA
45297920 ACATCAAAAT
Statistics
Matches: 188, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
154 6 0.03
156 7 0.04
157 168 0.89
158 7 0.04
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (156 bp):
AATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAACATA
AATTGAAGACAGAAATCGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTAGATTTTTGAAAAATAAATTAAA
Found at i:45297734 original size:71 final size:71
Alignment explanation
Indices: 45297611--45297746 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 71
45297601 AATTGAACAG
* * *
45297611 AAATCGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTAGATTTTTT
1 AAATAGAAAATACCTCAACATGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTAGATTTTTT
45297676 GATGAT
66 GATGAT
** * *
45297682 AAATAGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTT
1 AAATAGAAAATACCTCAACATGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTAGATTTTTT
45297747 TATTTTTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (71 bp):
AAATAGAAAATACCTCAACATGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTAGATTTTTT
GATGAT
Found at i:45297873 original size:71 final size:71
Alignment explanation
Indices: 45297768--45297904 Score: 229
Period size: 71 Copynumber: 1.9 Consensus size: 71
45297758 TGAAAGACAG
* * * *
45297768 AAATTGAAAATACCTCACCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCACCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
45297833 AAAAAT
66 AAAAAT
*
45297839 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCACCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
45297904 A
66 A
45297905 CAAACAGAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (71 bp):
AAATTAAAAATACCTCACCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
AAAAAT
Found at i:45299517 original size:15 final size:16
Alignment explanation
Indices: 45299497--45299526 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45299487 GACCTCTCCA
45299497 TTTTTTTTT-CTTTTT
1 TTTTTTTTTGCTTTTT
45299512 TTTTTTTTTGCTTTT
1 TTTTTTTTTGCTTTT
45299527 GAATGAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTGCTTTTT
Found at i:45300126 original size:6 final size:6
Alignment explanation
Indices: 45300117--45300154 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
45300107 TCTTTTGTTT
*
45300117 TTTTTC TTTTTG TTTTT- TTTTT- TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
45300155 CATGACTGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (6 bp):
TTTTTC
Found at i:45300129 original size:15 final size:15
Alignment explanation
Indices: 45300109--45300154 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
45300099 GATCTCTCTC
45300109 TTTTGTTTTTTTTCT
1 TTTTGTTTTTTTTCT
45300124 TTTTGTTTTTTTT-T
1 TTTTGTTTTTTTTCT
*
45300138 TTTT-TTCTTTTTCT
1 TTTTGTTTTTTTTCT
45300152 TTT
1 TTT
45300155 CATGACTGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 7 0.24
14 9 0.31
15 13 0.45
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (15 bp):
TTTTGTTTTTTTTCT
Found at i:45300139 original size:22 final size:22
Alignment explanation
Indices: 45300110--45300154 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
45300100 ATCTCTCTCT
*
45300110 TTTGTTTTTTTTCTTTTTGTTT
1 TTTGTTTTTTTTCTTTTTCTTT
*
45300132 TTTTTTTTTTTTCTTTTTCTTT
1 TTTGTTTTTTTTCTTTTTCTTT
45300154 T
1 T
45300155 CATGACTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (22 bp):
TTTGTTTTTTTTCTTTTTCTTT
Found at i:45304008 original size:16 final size:15
Alignment explanation
Indices: 45303987--45304034 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
45303977 GATGTGAATA
45303987 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
45304003 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
45304018 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
45304034 A
1 A
45304035 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:45304010 original size:24 final size:24
Alignment explanation
Indices: 45303983--45304038 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
45303973 TAATGATGTG
*
45303983 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
45304007 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
45304031 AATAATAA
1 AATAATAA
45304039 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:45304017 original size:8 final size:8
Alignment explanation
Indices: 45303983--45304034 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
45303973 TAATGATGTG
*
45303983 AATAATAA
1 AATATTAA
45303991 AATATATAA
1 AATAT-TAA
45304000 AATA-TAA
1 AATATTAA
45304007 AATATTAA
1 AATATTAA
*
45304015 AATATCAA
1 AATATTAA
*
45304023 AATATTAG
1 AATATTAA
45304031 AATA
1 AATA
45304035 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:45304251 original size:22 final size:24
Alignment explanation
Indices: 45304188--45304252 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
45304178 AGTGATAATA
*
45304188 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
45304213 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
45304236 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
45304253 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:45304301 original size:25 final size:23
Alignment explanation
Indices: 45304272--45304400 Score: 88
Period size: 23 Copynumber: 5.6 Consensus size: 23
45304262 TAGAAAAAAA
*
45304272 AATATAAATAATATAATATTAAAG
1 AATATACATAATATAATATT-AAG
* * *
45304296 ATATATACATAAAATAGTA-TAAT
1 A-ATATACATAATATAATATTAAG
*
45304319 ATATATACGTAATATAGA-ATTTAA-
1 A-ATATACATAATATA-ATA-TTAAG
* * *
45304343 AATATACCTAATATATTA-AAAG
1 AATATACATAATATAATATTAAG
*
45304365 AATATATATAATATAATATTAAG
1 AATATACATAATATAATATTAAG
45304388 AAATATA-ATAATA
1 -AATATACATAATA
45304401 ACAAAAAAGG
Statistics
Matches: 83, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 40 0.48
24 9 0.11
25 17 0.20
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (23 bp):
AATATACATAATATAATATTAAG
Found at i:45304971 original size:30 final size:30
Alignment explanation
Indices: 45304893--45305027 Score: 148
Period size: 30 Copynumber: 4.5 Consensus size: 30
45304883 TAGGTACAAG
* *
45304893 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
45304923 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
45304953 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* * *
45304983 TGGTGGTGGAAAAAGAGTGGCTAATGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
45305013 TGGTGGTGGAAAAGG
1 TGGTGGTGGAAAAGG
45305028 CTAAGATTTA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 2 0.02
30 88 0.98
ACGTcount: A:0.24, C:0.04, G:0.47, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:45305003 original size:60 final size:60
Alignment explanation
Indices: 45304893--45305027 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 60
45304883 TAGGTACAAG
* * ** * * *
45304893 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGTAGGTAATGGAAAAAGAGTGGCTAATGGAGT
* **
45304953 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAATGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTAGGTAATGGAAAAAGAGTGGCTAATGGAGT
45305013 TGGTGGTGGAAAAGG
1 TGGTGGTGGAAAAGG
45305028 CTAAGATTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 2 0.03
60 62 0.97
ACGTcount: A:0.24, C:0.04, G:0.47, T:0.26
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTAGGTAATGGAAAAAGAGTGGCTAATGGAGT
Found at i:45308019 original size:10 final size:9
Alignment explanation
Indices: 45308000--45308024 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45307990 TTTGCTTTAC
45308000 AAAAAGAAA
1 AAAAAGAAA
45308009 AAAAAGAAA
1 AAAAAGAAA
45308018 AAAAAGA
1 AAAAAGA
45308025 GTGGGTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:45309409 original size:26 final size:26
Alignment explanation
Indices: 45309380--45309444 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
45309370 ATTTTCTTTT
45309380 AAAAATTAAAAA-TAAAAAATTATAAA
1 AAAAATTAAAAAGTAAAAAA-TATAAA
* * *
45309406 AAAAA-GAAAAAGTTATAAAATATAAG
1 AAAAATTAAAAAG-TAAAAAATATAAA
45309432 AAAAATTACAAAA
1 AAAAATTA-AAAA
45309445 ATATTAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 5 0.16
26 15 0.48
27 7 0.23
28 4 0.13
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (26 bp):
AAAAATTAAAAAGTAAAAAATATAAA
Found at i:45309415 original size:19 final size:19
Alignment explanation
Indices: 45309387--45309445 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
45309377 TTTAAAAATT
*
45309387 AAAAATAAAAAATTATAAA
1 AAAAAGAAAAAATTATAAA
*
45309406 AAAAAGAAAAAGTTATAAA
1 AAAAAGAAAAAATTATAAA
* *
45309425 ATATAAG-AAAAATTACAAA
1 A-AAAAGAAAAAATTATAAA
45309444 AA
1 AA
45309446 TATTAAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 1 0.03
19 29 0.85
20 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAAAGAAAAAATTATAAA
Found at i:45309445 original size:20 final size:19
Alignment explanation
Indices: 45309394--45309448 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
45309384 ATTAAAAATA
45309394 AAAAATTATAAAAA-A-AAG
1 AAAAATTA-AAAAATATAAG
*
45309412 AAAAAGTTATAAAATATAAG
1 AAAAA-TTAAAAAATATAAG
45309432 AAAAATTACAAAAATAT
1 AAAAATTA-AAAAATAT
45309449 TAAAACTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 9 0.29
19 7 0.23
20 15 0.48
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAAAATATAAG
Found at i:45309482 original size:9 final size:9
Alignment explanation
Indices: 45309386--45309578 Score: 92
Period size: 9 Copynumber: 20.7 Consensus size: 9
45309376 TTTTAAAAAT
45309386 TAAAAA-TA
1 TAAAAATTA
45309394 -AAAAATTA
1 TAAAAATTA
**
45309402 TAAAAAAAA
1 TAAAAATTA
*
45309411 GAAAAAGTTA
1 TAAAAA-TTA
*
45309421 TAAAATATAA
1 TAAAA-ATTA
*
45309431 GAAAAATTA
1 TAAAAATTA
*
45309440 CAAAAA-TA
1 TAAAAATTA
* *
45309448 TTAAAACTGA
1 -TAAAAATTA
*
45309458 TATAAACTTA
1 TA-AAAATTA
* *
45309468 TTAAAATCA
1 TAAAAATTA
45309477 TAAAAACTTA
1 TAAAAA-TTA
45309487 TAAAAATTA
1 TAAAAATTA
45309496 T-AAAATTAA
1 TAAAAATT-A
*
45309505 TAAAACTTAA
1 TAAAAATT-A
45309515 TAGAAAAAAATTA
1 T----AAAAATTA
*
45309528 -AAAAAAT-
1 TAAAAATTA
*
45309535 TAAAAATGA
1 TAAAAATTA
*
45309544 TATAAACTTA
1 TA-AAAATTA
45309554 TAAAAATTA
1 TAAAAATTA
45309563 TAAAAAATTA
1 T-AAAAATTA
45309573 TAAAAA
1 TAAAAA
45309579 CTTGAACTGA
Statistics
Matches: 140, Mismatches: 27, Indels: 35
0.69 0.13 0.17
Matches are distributed among these distances:
7 5 0.04
8 21 0.15
9 55 0.39
10 51 0.36
11 1 0.01
13 1 0.01
14 6 0.04
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (9 bp):
TAAAAATTA
Found at i:45309485 original size:19 final size:19
Alignment explanation
Indices: 45309446--45309500 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
45309436 ATTACAAAAA
* *
45309446 TATTAAAACTGATATAAACT
1 TATTAAAA-TCATAAAAACT
45309466 TATTAAAATCATAAAAACT
1 TATTAAAATCATAAAAACT
* *
45309485 TATAAAAATTATAAAA
1 TATTAAAATCATAAAA
45309501 TTAATAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 23 0.74
20 8 0.26
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (19 bp):
TATTAAAATCATAAAAACT
Found at i:45309557 original size:19 final size:19
Alignment explanation
Indices: 45309526--45309578 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
45309516 AGAAAAAAAT
*
45309526 TAAAAAAAT-TAAAAATGA
1 TAAAAAATTATAAAAATGA
* * *
45309544 TATAAACTTATAAAAATTA
1 TAAAAAATTATAAAAATGA
45309563 TAAAAAATTATAAAAA
1 TAAAAAATTATAAAAA
45309579 CTTGAACTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAAAATTATAAAAATGA
Found at i:45309997 original size:20 final size:19
Alignment explanation
Indices: 45309972--45310035 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
45309962 CAGTTCAAAT
45309972 TTTTATGATTTTTTTATAAA
1 TTTTAT-ATTTTTTTATAAA
** *
45309992 TTTTATAAGTTTATATAAA
1 TTTTATATTTTTTTATAAA
* *
45310011 TTTTA-ATTTTTTTATGAT
1 TTTTATATTTTTTTATAAA
45310029 TTTTATA
1 TTTTATA
45310036 GAATTTTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 13 0.37
19 16 0.46
20 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTATATTTTTTTATAAA
Found at i:45310023 original size:28 final size:28
Alignment explanation
Indices: 45309992--45310045 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
45309982 TTTTTATAAA
45309992 TTTTATAAGTTTATATA-AATTTTAATTT
1 TTTTATAA-TTTATATAGAATTTTAATTT
* *
45310020 TTTTATGATTTTTATAGAATTTTAAT
1 TTTTATAATTTATATAGAATTTTAAT
45310046 AAGCTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (28 bp):
TTTTATAATTTATATAGAATTTTAATTT
Found at i:45310140 original size:28 final size:26
Alignment explanation
Indices: 45310094--45310177 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
45310084 AATGATTTTT
45310094 TTTATAATTTATTAAAATTTATTATATT
1 TTTATAATTTATTAAAA-TT-TTATATT
* *
45310122 TTTATATTTTA-TATCAATTTTATATT
1 TTTATAATTTATTA-AAATTTTATATT
* * *
45310148 TTTTTAATAT-TTAATATTTTCATATT
1 TTTATAATTTATTAAAATTTT-ATATT
45310174 TTTA
1 TTTA
45310178 ATAAATTTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
25 5 0.11
26 24 0.53
27 4 0.09
28 12 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTATAATTTATTAAAATTTTATATT
Found at i:45316787 original size:34 final size:32
Alignment explanation
Indices: 45316743--45316852 Score: 84
Period size: 34 Copynumber: 3.4 Consensus size: 32
45316733 CTCCCTGAAT
* *
45316743 TTAATCTTTATACTTTTTATTTGTCATTTCTAAC
1 TTAATTTTTATAATTTTTA-TTGTCATTT-TAAC
* **
45316777 TTAATTTTTATAAATTTTA---AAATTTTAATC
1 TTAATTTTTATAATTTTTATTGTCATTTTAA-C
*
45316807 TTAA-TTTTATATTTTTTATATGTCATTTTTAAC
1 TTAATTTTTATAATTTTTAT-TGTCA-TTTTAAC
*
45316840 TTGATTTTTATAA
1 TTAATTTTTATAA
45316853 AAGTTTAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
29 15 0.26
30 9 0.16
33 5 0.09
34 29 0.50
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (32 bp):
TTAATTTTTATAATTTTTATTGTCATTTTAAC
Found at i:45316840 original size:63 final size:65
Alignment explanation
Indices: 45316743--45316867 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 65
45316733 CTCCCTGAAT
* *
45316743 TTAATCTTTATACTTTTTATTTGTCATTTCTAACTTAATTTTTAT-AAATTTTAAAATTTTAATC
1 TTAATCTTTATACTTTTTATATGTCATTTCTAACTTAATTTTTATAAAAGTTTAAAATTTTAATC
* * *
45316807 TTAAT-TTTATATTTTTTATATGTCATTTTTAACTTGATTTTTATAAAAGTTTAAAATTTTA
1 TTAATCTTTATACTTTTTATATGTCATTTCTAACTTAATTTTTATAAAAGTTTAAAATTTTA
45316868 GTCCAGATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 35 0.64
64 20 0.36
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (65 bp):
TTAATCTTTATACTTTTTATATGTCATTTCTAACTTAATTTTTATAAAAGTTTAAAATTTTAATC
Found at i:45323637 original size:46 final size:46
Alignment explanation
Indices: 45323570--45323658 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
45323560 AAAAGAAATT
45323570 CTTATTGGTAGATTCCAGCCTCCAATTGTCTCATTCCGCCTTGAAC
1 CTTATTGGTAGATTCCAGCCTCCAATTGTCTCATTCCGCCTTGAAC
*
45323616 CTTATTGGTAGATTCCAGCCTCCAGTTGTCTCATTCCGCCTTG
1 CTTATTGGTAGATTCCAGCCTCCAATTGTCTCATTCCGCCTTG
45323659 GGTTCAATCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (46 bp):
CTTATTGGTAGATTCCAGCCTCCAATTGTCTCATTCCGCCTTGAAC
Found at i:45324314 original size:20 final size:20
Alignment explanation
Indices: 45324276--45324323 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
45324266 TAAATTCTAA
* **
45324276 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
45324296 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
45324316 AAA-ATAAA
1 AAAGATAAA
45324324 ATCTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:45324348 original size:27 final size:26
Alignment explanation
Indices: 45324318--45324380 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
45324308 AGATAATTAA
45324318 AATAAAATCTTAA-ATTTGAATAATCCT
1 AATAAAATCTTAATA-TT-AATAATCCT
* *
45324345 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTTAATATTAATAATCCT
45324372 AATATAAAT
1 AATA-AAAT
45324381 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 19 0.63
28 10 0.33
29 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (26 bp):
AATAAAATCTTAATATTAATAATCCT
Found at i:45324367 original size:15 final size:15
Alignment explanation
Indices: 45324347--45324376 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45324337 ATAATCCTAA
*
45324347 TAATTATCTTAATAT
1 TAATTATCCTAATAT
45324362 TAATTATCCTAATAT
1 TAATTATCCTAATAT
45324377 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:45325941 original size:15 final size:16
Alignment explanation
Indices: 45325921--45325950 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45325911 TTAATATCTG
45325921 AAAATAATAA-ATAAT
1 AAAATAATAAGATAAT
45325936 AAAATAATAAGATAA
1 AAAATAATAAGATAA
45325951 AATAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATAATAAGATAAT
Found at i:45332922 original size:27 final size:28
Alignment explanation
Indices: 45332862--45332931 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
45332852 AAATTTGTAC
45332862 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
45332890 AACACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
45332917 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45332932 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:45335586 original size:20 final size:20
Alignment explanation
Indices: 45335548--45335595 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
45335538 TAAATTCTAA
* **
45335548 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
45335568 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
45335588 AAA-ATAAA
1 AAAGATAAA
45335596 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:45335639 original size:15 final size:15
Alignment explanation
Indices: 45335619--45335648 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45335609 ATAATCCTAA
*
45335619 TAATTATCTTAATAT
1 TAATTATCCTAATAT
45335634 TAATTATCCTAATAT
1 TAATTATCCTAATAT
45335649 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:45337538 original size:26 final size:26
Alignment explanation
Indices: 45337509--45337589 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
45337499 TTATTTTCGT
45337509 ATGTTTAGGTTTATATGCAATTTGGA
1 ATGTTTAGGTTTATATGCAATTTGGA
* ** * *
45337535 ATGTTTGAAG-TGGT-TG--TTTTGGT
1 ATGTTT-AGGTTTATATGCAATTTGGA
45337558 ATGTTTAGGTTTATATGCAATTTGGA
1 ATGTTTAGGTTTATATGCAATTTGGA
45337584 ATGTTT
1 ATGTTT
45337590 GAAGCTTGAT
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 2 0.05
23 13 0.32
24 2 0.05
25 2 0.05
26 19 0.47
27 2 0.05
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.49
Consensus pattern (26 bp):
ATGTTTAGGTTTATATGCAATTTGGA
Found at i:45337565 original size:49 final size:49
Alignment explanation
Indices: 45337493--45337593 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
45337483 AGATGCATAC
45337493 AAGTGGTTATTTTCGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
1 AAGTGGTTATTTTCGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
* *
45337542 AAGTGGTTGTTTTGGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
1 AAGTGGTTATTTTCGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
45337591 AAG
1 AAG
45337594 CTTGATGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.48
Consensus pattern (49 bp):
AAGTGGTTATTTTCGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
Found at i:45347073 original size:23 final size:23
Alignment explanation
Indices: 45347047--45347093 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
45347037 TATTAAGTTG
45347047 TATGTTAGTTTCAATTACTATGT
1 TATGTTAGTTTCAATTACTATGT
45347070 TATGTTAGTTTCAATTACTATGT
1 TATGTTAGTTTCAATTACTATGT
45347093 T
1 T
45347094 TTAAGTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.53
Consensus pattern (23 bp):
TATGTTAGTTTCAATTACTATGT
Found at i:45348386 original size:10 final size:10
Alignment explanation
Indices: 45348371--45348401 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
45348361 TAGTAAGCAA
45348371 CATTTTCTTT
1 CATTTTCTTT
45348381 CATTTTCTTT
1 CATTTTCTTT
45348391 CATTTTGCTTT
1 CATTTT-CTTT
45348402 GCATGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.68
Consensus pattern (10 bp):
CATTTTCTTT
Found at i:45351692 original size:19 final size:19
Alignment explanation
Indices: 45351670--45351706 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45351660 CATGGGCATG
*
45351670 TGGCTAGCCCGTGTGGAAA
1 TGGCCAGCCCGTGTGGAAA
*
45351689 TGGCCAGGCCGTGTGGAA
1 TGGCCAGCCCGTGTGGAA
45351707 CTTGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.41, T:0.19
Consensus pattern (19 bp):
TGGCCAGCCCGTGTGGAAA
Found at i:45356711 original size:43 final size:43
Alignment explanation
Indices: 45356653--45356756 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
45356643 GATTGCCAAG
* *
45356653 ATGTGATTACATGTAAGACCATGTATGGGACATTGGCATTG-T
1 ATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGTT
* *
45356695 ATTGTGAATACGTGTAAGACCATGTTTGGGACATTGGCATCGTT
1 A-TGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGTT
*
45356739 ATGTGATTTCGTGTAAGA
1 ATGTGATTACGTGTAAGA
45356757 TCATAGTTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
42 1 0.02
43 51 0.94
44 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTATGGGACATTGGCATCGTT
Found at i:45358213 original size:41 final size:41
Alignment explanation
Indices: 45358166--45358245 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
45358156 TAAAGTCTCG
45358166 TAGAGCCTTATAAGGGACAATATGATTATGTTTGATTAACA
1 TAGAGCCTTATAAGGGACAATATGATTATGTTTGATTAACA
*
45358207 TAGAGCCTTATAAGGGACAATTTGATTATGTTTGATTAA
1 TAGAGCCTTATAAGGGACAATATGATTATGTTTGATTAA
45358246 TATTTATGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (41 bp):
TAGAGCCTTATAAGGGACAATATGATTATGTTTGATTAACA
Found at i:45360434 original size:43 final size:43
Alignment explanation
Indices: 45360334--45360454 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
45360324 TTCAATATGT
* * * * * *
45360334 GATTACATGTAAGACCAAGTCTGGGACATTGACATTGTATTGA
1 GATTATATGTAAGACCATGTCTGGGACATTGGCATGGTAATCA
* *
45360377 GATTATGTGCAAGACCATGTCTGGGACATTGGCATCGGTAATCA
1 GATTATATGTAAGACCATGTCTGGGACATTGGCAT-GGTAATCA
* * * *
45360421 -ATTTTATGTAAGACCCTGTCTAGGACAGTGGCAT
1 GATTATATGTAAGACCATGTCTGGGACATTGGCAT
45360455 TGATATGTGA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
43 58 0.92
44 5 0.08
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTATATGTAAGACCATGTCTGGGACATTGGCATGGTAATCA
Found at i:45363005 original size:16 final size:16
Alignment explanation
Indices: 45362984--45363015 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45362974 ATGTACAAAA
45362984 ATATATCTGTGTTTAT
1 ATATATCTGTGTTTAT
*
45363000 ATATATGTGTGTTTAT
1 ATATATCTGTGTTTAT
45363016 TTGAAGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (16 bp):
ATATATCTGTGTTTAT
Found at i:45363469 original size:24 final size:24
Alignment explanation
Indices: 45363442--45363774 Score: 234
Period size: 24 Copynumber: 13.9 Consensus size: 24
45363432 GAAATGATTT
*
45363442 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
45363466 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
45363490 TGGCACTATGTGTGTGGATTTGGA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
45363514 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
45363539 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
45363562 TGGCACTATATCTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
45363586 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* ** * *
45363610 TGTCAAAATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* *
45363635 -GGCATTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
45363658 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
45363682 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
45363706 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
45363731 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
45363754 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
45363775 CCTTGCTTGA
Statistics
Matches: 239, Mismatches: 52, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 4 0.02
24 219 0.92
25 9 0.04
26 3 0.01
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:45363746 original size:48 final size:48
Alignment explanation
Indices: 45363443--45363746 Score: 299
Period size: 48 Copynumber: 6.3 Consensus size: 48
45363433 AAATGATTTT
** * * * ** *
45363443 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGCGAATTTGTAT
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
* * *
45363491 GGCACTATGTGTGTGGATTTGGATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
* * * * * * * *
45363539 GGCACTATGTGTGCGAATTTGTATGGCACTATATCTGCGGATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATG-TGAATTACTAA
* *
45363587 GGCACTATGTGTGCGGATTTGAATGTCAAAATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
* * * ** * *
45363635 GGCATTATGTGTGCGAATTTGTATGGCACTATATGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGGCA--ATATGTATGTGAATTACTAA
*
45363683 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
45363731 GGCACTATGTGTGCGG
1 GGCACTATGTGTGCGG
45363747 GTTAACATGG
Statistics
Matches: 202, Mismatches: 48, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
46 7 0.03
47 10 0.05
48 169 0.84
49 10 0.05
50 6 0.03
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (48 bp):
GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
Found at i:45363762 original size:96 final size:96
Alignment explanation
Indices: 45363443--45363745 Score: 516
Period size: 96 Copynumber: 3.2 Consensus size: 96
45363433 AAATGATTTT
* * * * * *
45363443 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGTGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
*
45363508 TTTGGATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
45363539 GGCACTATGTGTGCGAATTTGTATGGCACTATATCTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
*
45363604 TTTGAATGTCAAAATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
45363635 GGCATTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
45363700 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
45363731 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
45363746 GGTTAACATG
Statistics
Matches: 194, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 194 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:45364211 original size:26 final size:26
Alignment explanation
Indices: 45364172--45364331 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
45364162 TGGTACAAAT
45364172 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45364198 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45364224 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45364250 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45364276 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45364302 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45364328 TGAT
1 TGAT
45364332 GGGCATTTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45364253 original size:52 final size:52
Alignment explanation
Indices: 45364172--45364331 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
45364162 TGGTACAAAT
45364172 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
45364224 TGATAATGGGTTAGGTAAATGTTCTATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
45364276 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
45364328 TGAT
1 TGAT
45364332 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:45365836 original size:26 final size:26
Alignment explanation
Indices: 45365807--45365859 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
45365797 TTTACAGTTT
*
45365807 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
45365833 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
45365859 T
1 T
45365860 GAATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:45367937 original size:12 final size:12
Alignment explanation
Indices: 45367920--45367945 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45367910 AAAATAGGGC
45367920 TTTAGCGGCGTT
1 TTTAGCGGCGTT
45367932 TTTAGCGGCGTT
1 TTTAGCGGCGTT
45367944 TT
1 TT
45367946 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:45368044 original size:41 final size:39
Alignment explanation
Indices: 45367999--45368258 Score: 240
Period size: 41 Copynumber: 6.4 Consensus size: 39
45367989 GCGTTTTACC
* *
45367999 AAAAACGCCACTAAAAA-CAGAGCAATAGCGGCTTTTTAG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCTTTTT-G
* *
45368038 TAAAAAACGCCAC-AGAAAA--AGAGCATTAGTAGCGCTTTTTG
1 --AAAAACGCCGCTA-AAAACCAGAGCATTAG-CG-GCTTTTTG
* *
45368079 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGC-G-GCTTTTTG
*
45368120 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGC-G-GCTTTTTG
* * *
45368161 CAAAACGGCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGC-G-GCTTTTTG
* *
45368202 AAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGC-G-GCTTTTTG
* *
45368243 TAAAATGCCGCTAAAA
1 AAAAACGCCGCTAAAA
45368259 GTCATATAAC
Statistics
Matches: 197, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
39 13 0.07
40 11 0.06
41 166 0.84
42 7 0.04
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCTTTTTG
Found at i:45368158 original size:82 final size:82
Alignment explanation
Indices: 45368000--45368258 Score: 339
Period size: 82 Copynumber: 3.2 Consensus size: 82
45367990 CGTTTTACCA
* * * * *
45368000 AAAACGCCACTAAAAA-CAGAGCAATAGCGGC-TTTTTAGTAAAAAACGCCAC-AGAAAA--AGA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT--AAAACGCCGCTA-AAAACCAGA
**
45368060 GCATTAGTAGCGCTTTTTGC
63 GCATTAGCGGCGCTTTTTGC
45368080 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
45368145 TTAGCGGCGCTTTTTGC
66 TTAGCGGCGCTTTTTGC
* * *
45368162 AAAACGGCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAAAAATGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* *
45368227 TTAGCGGCGCTTTTGGT
66 TTAGCGGCGCTTTTTGC
*
45368244 AAAATGCCGCTAAAA
1 AAAACGCCGCTAAAA
45368259 GTCATATAAC
Statistics
Matches: 160, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
80 28 0.17
81 15 0.09
82 117 0.73
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTTTGC
Found at i:45368418 original size:7 final size:7
Alignment explanation
Indices: 45368403--45368456 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
45368393 TTAATTATCA
*
45368403 TTATAGT
1 TTATGGT
45368410 TTATGGT
1 TTATGGT
45368417 TTATGGT
1 TTATGGT
* *
45368424 TTAAGAT
1 TTATGGT
*
45368431 ATATGGT
1 TTATGGT
*
45368438 TTAGGGT
1 TTATGGT
*
45368445 TTAAGGT
1 TTATGGT
45368452 TTATG
1 TTATG
45368457 AGTTAACTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:45368435 original size:21 final size:21
Alignment explanation
Indices: 45368411--45368495 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
45368401 CATTATAGTT
*
45368411 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
45368432 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
**
45368453 TATGAGTTAACTATAGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
45368478 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
45368496 GTTTAGGAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 31 0.61
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:45368474 original size:46 final size:46
Alignment explanation
Indices: 45368422--45368511 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
45368412 ATGGTTTATG
*
45368422 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTATA
45368468 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
45368512 GTATTTGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (46 bp):
GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTATA
Found at i:45368567 original size:7 final size:7
Alignment explanation
Indices: 45368538--45368673 Score: 71
Period size: 7 Copynumber: 19.1 Consensus size: 7
45368528 GATGAATTAT
45368538 GGGTTTA
1 GGGTTTA
*
45368545 GGGATTA
1 GGGTTTA
* *
45368552 TGATTTA
1 GGGTTTA
45368559 GGGTTTA
1 GGGTTTA
*
45368566 GGGGTTA
1 GGGTTTA
45368573 GGG-TT-
1 GGGTTTA
45368578 GGAGTTTA
1 GG-GTTTA
* *
45368586 AGGTGTAA
1 GGGT-TTA
*
45368594 GGGTTTG
1 GGGTTTA
*
45368601 GGGTTAA
1 GGGTTTA
*
45368608 GGGTTAA
1 GGGTTTA
*
45368615 GGGTTAA
1 GGGTTTA
45368622 GGGTTTA
1 GGGTTTA
*
45368629 GAGTTTA
1 GGGTTTA
*
45368636 GTGTTTA
1 GGGTTTA
* *
45368643 TAGG-ATA
1 -GGGTTTA
*
45368650 GGGGTTAA
1 -GGGTTTA
45368658 GAGGTTTA
1 G-GGTTTA
45368666 GGGTTTA
1 GGGTTTA
45368673 G
1 G
45368674 ATTAATTAGT
Statistics
Matches: 97, Mismatches: 25, Indels: 14
0.71 0.18 0.10
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 78 0.80
8 14 0.14
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:45373295 original size:43 final size:43
Alignment explanation
Indices: 45373234--45373336 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
45373224 TTTAAAATTT
*
45373234 CATGACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
* *
45373277 CATGACCTTTAGCGGCGTTTGTGGTAAAAGCTCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
45373320 CATGACCTTTAGCGGCG
1 CATGACCTTTAGCGGCG
45373337 CCATCTATAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.24
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
Found at i:45376907 original size:26 final size:26
Alignment explanation
Indices: 45376868--45377027 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
45376858 TGGTACAAAT
45376868 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45376894 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45376920 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45376946 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45376972 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45376998 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45377024 TGAT
1 TGAT
45377028 GGGCATTTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45376949 original size:52 final size:52
Alignment explanation
Indices: 45376868--45377027 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
45376858 TGGTACAAAT
45376868 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
45376920 TGATAATGGGTTAGGTAAATGTTCTATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
45376972 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
45377024 TGAT
1 TGAT
45377028 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:45378533 original size:26 final size:26
Alignment explanation
Indices: 45378503--45378555 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
45378493 TTACAGTTTT
*
45378503 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
45378529 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
45378555 T
1 T
45378556 GCATGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:45380457 original size:2 final size:2
Alignment explanation
Indices: 45380450--45380479 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45380440 ATGTTTTCGA
45380450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45380480 GTTAGTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45383732 original size:27 final size:28
Alignment explanation
Indices: 45383702--45383771 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
45383692 ATAATAAGTC
*
45383702 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
45383729 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
45383757 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45383772 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45391658 original size:27 final size:28
Alignment explanation
Indices: 45391628--45391697 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
45391618 ATAATAAGTC
*
45391628 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
45391655 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
45391683 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45391698 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45398197 original size:43 final size:43
Alignment explanation
Indices: 45398150--45398253 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
45398140 GATTACATAT
* *
45398150 AAGACCATGTCTGGGACATTGGCAT-TTTATTGAGATTATGTGC
1 AAGACCATGTCTGGGACATTGGCATCATTAAT-AGATTATGTGC
* * * *
45398193 AAGACCATGTCTGGAACATTGGCATCATTAATCGATTTTGTGT
1 AAGACCATGTCTGGGACATTGGCATCATTAATAGATTATGTGC
*
45398236 AAGACCTTGTCTGGGACA
1 AAGACCATGTCTGGGACA
45398254 GTGGTATTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 48 0.92
44 4 0.08
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
AAGACCATGTCTGGGACATTGGCATCATTAATAGATTATGTGC
Found at i:45400710 original size:45 final size:45
Alignment explanation
Indices: 45400646--45400864 Score: 320
Period size: 45 Copynumber: 4.9 Consensus size: 45
45400636 TATTGTACGG
* *
45400646 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
45400691 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
45400736 TACTATTCGGGCCTTCGAGCTTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
45400781 TACTATTCGGGCCTTCGAGCCTAACAGGCTATAATACCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
45400826 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
45400865 GATGAATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
42 9 0.06
43 17 0.11
44 5 0.03
45 129 0.80
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:45400889 original size:41 final size:41
Alignment explanation
Indices: 45400843--45400946 Score: 181
Period size: 41 Copynumber: 2.5 Consensus size: 41
45400833 GGGCTTCGAG
45400843 CCTAGCAGGCGAAATGCCGGTGGATGAATTCAGGTTTAAAA
1 CCTAGCAGGCGAAATGCCGGTGGATGAATTCAGGTTTAAAA
*
45400884 CCTAGCAGGCGAAATGCGGGTGGATGAATTCAGGTTTAAAA
1 CCTAGCAGGCGAAATGCCGGTGGATGAATTCAGGTTTAAAA
* *
45400925 CCTAGCAGGCTAAATACCGGTG
1 CCTAGCAGGCGAAATGCCGGTG
45400947 ATTTGATAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCGAAATGCCGGTGGATGAATTCAGGTTTAAAA
Found at i:45402239 original size:34 final size:34
Alignment explanation
Indices: 45402196--45402271 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
45402186 GCCATGAGAT
45402196 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
1 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
*
45402230 TTGGCTTGTAAATGTTGGAATATGGCCATTTAAG
1 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
45402264 TTGGCTTG
1 TTGGCTTG
45402272 AATTATATGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.39
Consensus pattern (34 bp):
TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
Found at i:45402452 original size:23 final size:24
Alignment explanation
Indices: 45402407--45402452 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
45402397 TATATTTTGG
* *
45402407 TATGATTTGAGGAGGATGAATTGA
1 TATGATTTGAGAAGCATGAATTGA
*
45402431 TATG-TTTGAGAAGCATGTATTG
1 TATGATTTGAGAAGCATGAATTG
45402453 GTTGATAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.37
Consensus pattern (24 bp):
TATGATTTGAGAAGCATGAATTGA
Found at i:45416850 original size:2 final size:2
Alignment explanation
Indices: 45416843--45416878 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
45416833 AACCCAATAC
45416843 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
45416879 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:45420277 original size:2 final size:2
Alignment explanation
Indices: 45420270--45420306 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
45420260 CTGTTACACG
45420270 TA TA TA TA 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 TA T
45420307 GTGTGTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45427053 original size:47 final size:47
Alignment explanation
Indices: 45426958--45427087 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
45426948 GTGTGAATAA
* ** *
45426958 TACGTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
1 TACGTTGATTTGGCTACGGGCCATGATATAAGTACTCAGAGAGAAGT
* * *
45427005 TACGTTGATTTGGCTACAGGCCATGATATAAGTACTCAGGGATAAGT
1 TACGTTGATTTGGCTACGGGCCATGATATAAGTACTCAGAGAGAAGT
* * * *
45427052 TACCTTGATTTGGCTACGGGTCATGGTATAGGTACT
1 TACGTTGATTTGGCTACGGGCCATGATATAAGTACT
45427088 TATCGATTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (47 bp):
TACGTTGATTTGGCTACGGGCCATGATATAAGTACTCAGAGAGAAGT
Found at i:45429041 original size:16 final size:15
Alignment explanation
Indices: 45429015--45429044 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45429005 ACTAGATCGG
45429015 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
45429030 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
45429045 TTGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:45429555 original size:28 final size:26
Alignment explanation
Indices: 45429461--45429573 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
45429451 AGGAAGCGTC
* *
45429461 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
* *
45429489 CTAGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
45429516 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
45429544 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
45429570 CTGG
1 CTGG
45429574 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.49
28 30 0.41
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:45429561 original size:55 final size:54
Alignment explanation
Indices: 45429461--45429573 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
45429451 AGGAAGCGTC
* *
45429461 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGTT
* * * * *
45429516 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTAGTGACTCTGCCACATTATCTGTT
45429570 CTGG
1 CTGG
45429574 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 20 0.40
55 30 0.60
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACATTATCTGTT
Found at i:45431922 original size:21 final size:21
Alignment explanation
Indices: 45431898--45431939 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
45431888 CACATGTAAC
*
45431898 TCCTAAATGTTAGGTGAACAA
1 TCCTAAATATTAGGTGAACAA
*
45431919 TCCTAAATATTGGGTGAACAA
1 TCCTAAATATTAGGTGAACAA
45431940 CTCTTGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (21 bp):
TCCTAAATATTAGGTGAACAA
Found at i:45438954 original size:50 final size:50
Alignment explanation
Indices: 45438895--45439038 Score: 234
Period size: 50 Copynumber: 2.9 Consensus size: 50
45438885 AGTTTCGATA
* *
45438895 TGTGATCCCATGTAAGACCATGTCGGGGACATGGCATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
45438945 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
* * * *
45438995 TGTGAACCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
45439039 TCACTATGTG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (50 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
Found at i:45441937 original size:47 final size:46
Alignment explanation
Indices: 45441754--45441983 Score: 173
Period size: 48 Copynumber: 4.9 Consensus size: 46
45441744 AGTGAAAGCC
* * * * *
45441754 AGTGTAAGACATGTTTGGGACAT-GCATCAGCTTTGAGATGAAAGCT
1 AGTGTAAGACATGTCTAGGACATCGCATCGGCATTGAGATG-ATGCT
* * * *
45441800 AGTGTAAGACATGTCT-GAAACAT-GCATCGGCCTCGAGATATGCGTGCT
1 AGTGTAAGACATGTCTAG-GACATCGCATCGGCATTGAG--ATG-ATGCT
* *
45441848 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAATGCT
1 AGTGTAAGA-CATGTCTAGGACATCGCATCGGCATTGAGATG-ATGCT
* * * *
45441896 AGTGTAAGACGTGTCTAGGACA-CGTATCGGCCTTGATGATGATAGTT
1 AGTGTAAGACATGTCTAGGACATCGCATCGGCATTGA-GATGAT-GCT
* * *
45441943 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATG
1 AGTGTAAGA-CATGTCTAGGACATCGCATCGGCATTGAGATG
45441984 TAAAGTAGTG
Statistics
Matches: 150, Mismatches: 24, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 43 0.29
47 30 0.20
48 46 0.31
49 17 0.11
50 13 0.09
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATCGCATCGGCATTGAGATGATGCT
Found at i:45442026 original size:47 final size:47
Alignment explanation
Indices: 45441746--45442019 Score: 261
Period size: 47 Copynumber: 5.8 Consensus size: 47
45441736 GGCCACATAG
* * * *
45441746 TGAAAGCCAGTGTAAGACATGTTTGGGACAT-GCATCAGCTTTGAGA
1 TGAAAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTTGAGA
** *
45441792 TGAAAGCTAGTGTAAGACATGTCTGAAACAT-GCATCGGCCTCGAGATA
1 TGAAAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTTGAG--A
*** *
45441840 TGCGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGAAAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTTGAGA
* * * * *
45441888 TGAATGCTAGTGTAAGACGTGTCTAGGACA-CGTATCGGCCTTGATGA
1 TGAAAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTTGA-GA
* * *
45441935 TGATAGTTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGA
1 TGAAAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTTGAGA
* *
45441982 TGTAAAG-TAGTGTAAAACCATGTCTGGAACATGGCATC
1 TG-AAAGCTAGTGTAAGA-CATGTCTGGGACATGGCATC
45442020 AGCTTGACAT
Statistics
Matches: 188, Mismatches: 32, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
46 49 0.26
47 60 0.32
48 51 0.27
49 16 0.09
50 12 0.06
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (47 bp):
TGAAAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTTGAGA
Found at i:45442026 original size:95 final size:93
Alignment explanation
Indices: 45441754--45442067 Score: 315
Period size: 95 Copynumber: 3.4 Consensus size: 93
45441744 AGTGAAAGCC
* *
45441754 AGTGTAAGA-CATGTTTGGGACAT-GCATC-AGCTTTGAGATGAAAGCTAGTGTAAGACATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGAGATGAAAGCTAGTGTAAGACATGTCT
* *
45441816 GAAACATGCATCGGCCTCGAGAT-ATGCGTGCT
65 GGAACATGCATCGGCCTTGAGATGAT--GT--T
* * *
45441848 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAATGCTAGTGTAAGACGTGTCTA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAAAGCTAGTGTAAGACATGTCT-
* *
45441913 GG-ACACGTATCGGCCTTGATGATGATAGTT
65 GGAACATGCATCGGCCTTGA-GATGAT-GTT
*
45441943 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGTAAAG-TAGTGTAAAACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATG-AAAGCTAGTGTAAGA-CATGTC
* * *
45442006 TGGAACATGGCATCAG-CTTGACATG-TGTC
64 TGGAACAT-GCATCGGCCTTGAGATGATGTT
* * *
45442035 AGTGTAAGACC-TATCTGGGACACGGTATCGACA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACA
45442068 CAGATGGACG
Statistics
Matches: 187, Mismatches: 22, Indels: 24
0.80 0.09 0.10
Matches are distributed among these distances:
91 18 0.10
92 13 0.07
93 1 0.01
94 31 0.17
95 63 0.34
96 53 0.28
97 6 0.03
98 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAAAGCTAGTGTAAGACATGTCTG
GAACATGCATCGGCCTTGAGATGATGTT
Found at i:45445334 original size:50 final size:50
Alignment explanation
Indices: 45445272--45445418 Score: 222
Period size: 50 Copynumber: 2.9 Consensus size: 50
45445262 TAAAGTTTCG
*
45445272 ATATGTGATCCCATGTAAGACCATGTCGGGGACATGGCATTGGCATCGAT
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
*
45445322 ATGTGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
* * * * * *
45445372 ATATGTAAACCCATGTAAGACCATATCTGGGATAGGGCATTAGCATC
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
45445419 TCCCTATGTG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (50 bp):
ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
Found at i:45449602 original size:30 final size:30
Alignment explanation
Indices: 45449561--45449625 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
45449551 CATGAGCTGA
* * *
45449561 GACATGGCCGTGTGTCTCAGTCGTGTGGAG
1 GACACGGCCGTGTGTCTCAGCCGTATGGAG
45449591 GACACGGCCGTGTGTCTCAGCCGTATGGAG
1 GACACGGCCGTGTGTCTCAGCCGTATGGAG
45449621 GACAC
1 GACAC
45449626 AGCCTAGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.37, T:0.22
Consensus pattern (30 bp):
GACACGGCCGTGTGTCTCAGCCGTATGGAG
Found at i:45453009 original size:16 final size:16
Alignment explanation
Indices: 45452988--45453018 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45452978 AGACTATAAA
45452988 CCATTCCATTTACTTG
1 CCATTCCATTTACTTG
45453004 CCATTCCATTTACTT
1 CCATTCCATTTACTT
45453019 ACTTTCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.03, T:0.45
Consensus pattern (16 bp):
CCATTCCATTTACTTG
Found at i:45453022 original size:20 final size:20
Alignment explanation
Indices: 45452997--45453059 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
45452987 ACCATTCCAT
*
45452997 TTACTTGCCATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
*
45453017 TTACTTTCCATTTCATTTAC
1 TTACTTTCCATTCCATTTAC
*
45453037 TTATTTTCCATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
45453057 TTA
1 TTA
45453060 GCATAAGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.02, T:0.52
Consensus pattern (20 bp):
TTACTTTCCATTCCATTTAC
Found at i:45468864 original size:39 final size:39
Alignment explanation
Indices: 45468639--45468863 Score: 335
Period size: 39 Copynumber: 5.7 Consensus size: 39
45468629 ACAAAGCATG
* * * *
45468639 CGGGACTTTAAGCCCAGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
45468679 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
45468718 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
45468757 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
45468796 TGGGACTTAGGCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
45468835 CGGGACTTAGCCCGGATATAACACCAGCA
1 CGGGACTTAGCCCGGATATAACACCAGCA
45468864 TACTTTATTA
Statistics
Matches: 171, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 19 0.11
39 147 0.86
40 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:45473979 original size:38 final size:39
Alignment explanation
Indices: 45473896--45474109 Score: 335
Period size: 39 Copynumber: 5.5 Consensus size: 39
45473886 ACAAAGCATG
* * *
45473896 CGGGACTTTAAGCCC-GATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
45473935 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
45473974 C-GGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
45474012 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
45474051 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
45474090 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
45474110 TATCTCACAC
Statistics
Matches: 165, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
37 5 0.03
38 53 0.32
39 107 0.65
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:45483491 original size:26 final size:26
Alignment explanation
Indices: 45483455--45483509 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
45483445 AGGAATGAAG
45483455 TAAAATAAATGGAGTTGCATGTCAAA
1 TAAAATAAATGGAGTTGCATGTCAAA
45483481 TAAAATAAATGGAGTTGCATGTCAAA
1 TAAAATAAATGGAGTTGCATGTCAAA
45483507 TAA
1 TAA
45483510 CCCATTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.27
Consensus pattern (26 bp):
TAAAATAAATGGAGTTGCATGTCAAA
Found at i:45485002 original size:29 final size:29
Alignment explanation
Indices: 45484969--45485129 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
45484959 GTGACGAGAT
45484969 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
45484998 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
45485027 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
45485056 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
45485085 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
45485114 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
45485130 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:45487368 original size:38 final size:39
Alignment explanation
Indices: 45487286--45487467 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
45487276 AATGTTCGAG
45487286 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
45487325 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
45487363 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
45487402 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
45487442 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
45487468 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:45490264 original size:46 final size:47
Alignment explanation
Indices: 45490197--45490456 Score: 343
Period size: 46 Copynumber: 5.6 Consensus size: 47
45490187 AAGGCTGTCA
* * * * *
45490197 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
*
45490243 CATGTTGCCATGGTATATTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
45490289 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
* *** * *
45490335 TACACTGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCCCA--T
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-TCATGT
*
45490381 CATGTTGCCATGGTATCTTTCAACCATGGCCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
*
45490427 CACGTTGCCATGGTATCTTTCAACCATGGT
1 CATGTTGCCATGGTATCTTTCAACCATGGT
45490457 TTTCATATCA
Statistics
Matches: 186, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
44 2 0.01
45 8 0.04
46 172 0.92
47 2 0.01
48 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
Found at i:45490359 original size:92 final size:92
Alignment explanation
Indices: 45490197--45490544 Score: 417
Period size: 92 Copynumber: 3.9 Consensus size: 92
45490187 AAGGCTGTCA
* * * * * * *
45490197 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTTGCCATGGTATCT
** **
45490261 TTCAACCATGGTCTTATTCTTTTCATGT
65 TTCAACCATGGTCTTATTAATTTCACAT
* **
45490289 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTTACACTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
*
45490354 TCAACCATGGTCTTATTAATTTCCCAT
66 TCAACCATGGTCTTATTAATTTCACAT
* *
45490381 CATGTTGCCATGGTATCTTTCAACCATGGCCTTATTCTTTTCATGTCACGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
*
45490446 TCAACCATGG------T--TTTCATAT
66 TCAACCATGGTCTTATTAATTTCACAT
* ** * *
45490465 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
45490530 TCAACCATGGTCTTA
66 TCAACCATGGTCTTA
45490545 CATATTTTAT
Statistics
Matches: 221, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
84 74 0.33
86 1 0.00
91 4 0.02
92 142 0.64
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
TCAACCATGGTCTTATTAATTTCACAT
Found at i:45490450 original size:138 final size:129
Alignment explanation
Indices: 45490202--45490544 Score: 461
Period size: 138 Copynumber: 2.6 Consensus size: 129
45490192 TGTCACATGA
* * * * * * *
45490202 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATATTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TAATTTCCTATCATGTTGCCATGGTATCTTTCAAC
* *
45490267 CATGGTCTTATTCTTTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
65 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGG--TT-TTCATATCA
*
45490332 TGTT
127 CG-T
*
45490336 ACACTGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCCCATCATGTTGCCATGGTATCTTT
1 ----TGCCATGGTATCTTTCAACCATGGTCTTA-TAATTTCCTATCATGTTGCCATGGTATCTTT
*
45490401 CAACCATGGCCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTTTTCATATC
61 CAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTTTTCATATC
45490466 ACGT
126 ACGT
* *
45490470 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATA-ATTTCCTATCATGTTGCCATGGTATCTTTCAAC
45490535 CATGGTCTTA
65 CATGGTCTTA
45490545 CATATTTTAT
Statistics
Matches: 187, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
129 1 0.01
130 69 0.37
134 1 0.01
135 9 0.05
136 2 0.01
138 105 0.56
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (129 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATAATTTCCTATCATGTTGCCATGGTATCTTTCAACC
ATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTTTTCATATCACGT
Found at i:45490461 original size:38 final size:38
Alignment explanation
Indices: 45490418--45490549 Score: 156
Period size: 38 Copynumber: 3.2 Consensus size: 38
45490408 GGCCTTATTC
*
45490418 TTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGG
1 TTTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
45490456 TTTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
1 TTTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
*
45490494 TCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGG
1 ---T-----TTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
*
45490540 TCTTACATAT
1 T-TTTCATAT
45490550 TTTATTTCAG
Statistics
Matches: 82, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
38 37 0.45
39 7 0.09
41 1 0.01
43 1 0.01
46 36 0.44
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (38 bp):
TTTTCATATCACGTTGCCATGGTATCTTTCAACCATGG
Found at i:45490524 original size:46 final size:46
Alignment explanation
Indices: 45490457--45490551 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
45490447 CAACCATGGT
45490457 TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
45490503 TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACATA
1 TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
45490549 TTT
1 TTT
45490552 TATTTCAGAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:45490525 original size:84 final size:85
Alignment explanation
Indices: 45490379--45490549 Score: 263
Period size: 84 Copynumber: 2.0 Consensus size: 85
45490369 TTAATTTCCC
* ** * *
45490379 ATCATGTTGCCATGGTATCTTTCAACCATGGCCTTATTCTTTTCATGTCACGTTGCCATGGTATC
1 ATCACGTTGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCACGTTGCCATGGTATC
*
45490444 TTTCAACCATGGT-TTTCAT
66 TTTCAACCATGGTCTTACAT
* *
45490463 ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
1 ATCACGTTGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCACGTTGCCATGGTATC
45490528 TTTCAACCATGGTCTTACAT
66 TTTCAACCATGGTCTTACAT
45490548 AT
1 AT
45490550 TTTATTTCAG
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 71 0.91
85 7 0.09
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (85 bp):
ATCACGTTGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCACGTTGCCATGGTATC
TTTCAACCATGGTCTTACAT
Found at i:45492414 original size:11 final size:11
Alignment explanation
Indices: 45492398--45492455 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
45492388 CTTTATATAC
*
45492398 TAATAAAATGA
1 TAATAAAATAA
45492409 TAATAAAATAA
1 TAATAAAATAA
*
45492420 TAATAAAATATC
1 TAATAAAATA-A
* * *
45492432 TTATTAAATAT
1 TAATAAAATAA
45492443 TAATAAAATAA
1 TAATAAAATAA
45492454 TA
1 TA
45492456 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
11 30 0.79
12 8 0.21
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:45498039 original size:20 final size:20
Alignment explanation
Indices: 45498014--45498063 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
45498004 TCTTCATCGA
45498014 GTATCGATACTCGAAAAAAG
1 GTATCGATACTCGAAAAAAG
*
45498034 GTATCGATACTCGAAAAAAT
1 GTATCGATACTCGAAAAAAG
45498054 GTATCGATAC
1 GTATCGATAC
45498064 CAAATCTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (20 bp):
GTATCGATACTCGAAAAAAG
Found at i:45504781 original size:17 final size:17
Alignment explanation
Indices: 45504733--45504783 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
45504723 GTATATTTAA
45504733 ATTTAATTCAAATCA--
1 ATTTAATTCAAATCATT
* *
45504748 ATTTATAGTTTATATCATT
1 ATTTA-A-TTCAAATCATT
45504767 ATTTAATTCAAATCATT
1 ATTTAATTCAAATCATT
45504784 TAATATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 5 0.18
16 1 0.04
17 16 0.57
18 1 0.04
19 5 0.18
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTTAATTCAAATCATT
Found at i:45505392 original size:27 final size:29
Alignment explanation
Indices: 45505347--45505410 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
45505337 AAAAAAACTA
* *
45505347 ATTTTTTAATTTTTAAAATTT-T-TATAT
1 ATTTTTAAATTATTAAAATTTATTTATAT
* *
45505374 ATTTTTAAATTATTGAAATTTATTTTTAT
1 ATTTTTAAATTATTAAAATTTATTTATAT
45505403 ATTTTTAA
1 ATTTTTAA
45505411 TTTTAATGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 18 0.58
28 1 0.03
29 12 0.39
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
ATTTTTAAATTATTAAAATTTATTTATAT
Found at i:45507366 original size:23 final size:23
Alignment explanation
Indices: 45507340--45507403 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
45507330 GTAAATAAAA
* *
45507340 ATGGTGATTCGAATACAATTATC
1 ATGGTGATTCCAATACAATTAGC
*
45507363 ATGGTGATTCCAATATAA-TAGC
1 ATGGTGATTCCAATACAATTAGC
*
45507385 ATGATGATTCCAATACAAT
1 ATGGTGATTCCAATACAAT
45507404 GCAAACTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (23 bp):
ATGGTGATTCCAATACAATTAGC
Found at i:45511344 original size:40 final size:40
Alignment explanation
Indices: 45511119--45511316 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
45511109 TCGAATGATG
* * * *
45511119 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
45511159 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
45511199 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
45511239 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
45511279 TCCAGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
45511317 TAACCGGGCC
Statistics
Matches: 149, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 137 0.92
41 11 0.07
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45511351 original size:120 final size:120
Alignment explanation
Indices: 45511119--45511351 Score: 271
Period size: 120 Copynumber: 1.9 Consensus size: 120
45511109 TCGAATGATG
* *
45511119 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* * **
45511184 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGCTACTAAATCCGGACCAAGATCCGAAGGCATTTGAACGAGTTACTAAA
* *
45511239 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCAGGA-TAAG-TCCCGAAGGC
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GGACTAAGAT-CCGAAGGC
* * *
45511300 ATTTGTGCGAGCTACTATAA-CCGGGCCATG-TCCCGAAGGTATTTGAACGAGT
62 ATTTGTGCGAGCTACTA-AATCCGGACCAAGAT-CCGAAGGCATTTGAACGAGT
45511352 GGCTATATCT
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
119 2 0.02
120 81 0.84
121 13 0.14
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAATCCGGACCAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:45514817 original size:21 final size:21
Alignment explanation
Indices: 45514791--45514853 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
45514781 TGGTGAAAAT
*
45514791 TATTCTTGAGGACTCGAGACA
1 TATTCTTGAGGTCTCGAGACA
*
45514812 TATTCTTGAGGTCTCAAGACA
1 TATTCTTGAGGTCTCGAGACA
* *
45514833 TATTCTTAATGTCTCGAGACA
1 TATTCTTGAGGTCTCGAGACA
45514854 CTAACGAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
TATTCTTGAGGTCTCGAGACA
Found at i:45515897 original size:28 final size:29
Alignment explanation
Indices: 45515838--45515897 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
45515828 TTAGAGAACT
* * * *
45515838 ATCACAATTTAACATACATAAAGTGTTGG
1 ATCACAATATAACACACATAAAGCGTTAG
*
45515867 ATCA-AATATAACACACATTAAGCGTTAG
1 ATCACAATATAACACACATAAAGCGTTAG
45515895 ATC
1 ATC
45515898 TCCCACCTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (29 bp):
ATCACAATATAACACACATAAAGCGTTAG
Found at i:45518387 original size:25 final size:25
Alignment explanation
Indices: 45518351--45518468 Score: 91
Period size: 25 Copynumber: 4.7 Consensus size: 25
45518341 GACACACCAC
*
45518351 AGCTCTCTTGAGCTTCCCGATACTT
1 AGCTCTCATGAGCTTCCCGATACTT
* * *
45518376 GGCTCTCATGAGCTTTCCAATA-TT
1 AGCTCTCATGAGCTTCCCGATACTT
* * * *
45518400 TGACTCACAAGAGCTTCCCGATA-TAC
1 AG-CTCTCATGAGCTTCCCGATACT-T
*
45518426 AGCTCGT-ATGAGCTTCCCGTTACTT
1 AGCTC-TCATGAGCTTCCCGATACTT
45518451 AGCTCAT-ATGAGCTTCCC
1 AGCTC-TCATGAGCTTCCC
45518469 ATTATATGGC
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
24 3 0.04
25 68 0.93
26 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCCCGATACTT
Found at i:45521753 original size:28 final size:27
Alignment explanation
Indices: 45521695--45521750 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
45521685 TAGGAAAACT
*
45521695 AAGAATAGCTTTTGTGGAGAATTCTGA
1 AAGAATAGCCTTTGTGGAGAATTCTGA
45521722 AAGAATAGCCTTTGTGGCA-AATTCTGA
1 AAGAATAGCCTTTGTGG-AGAATTCTGA
45521749 AA
1 AA
45521751 AGATTGCCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGAGAATTCTGA
Found at i:45527530 original size:48 final size:44
Alignment explanation
Indices: 45527448--45527563 Score: 124
Period size: 48 Copynumber: 2.5 Consensus size: 44
45527438 CATTGATTGT
* * *
45527448 TTTATTATTAGATTCAAATTTTGACATATTTTTATCGTAACCAATTAA
1 TTTATTATTAGATTCAAAATTTGACAAATCTTTATC---A-CAATTAA
* *
45527496 TTTATTATTAGATTCAAAATTTGATAAATCTTTATCATAATTAA
1 TTTATTATTAGATTCAAAATTTGACAAATCTTTATCACAATTAA
* **
45527540 CTTATTGCTAGATTCAAAATTTGA
1 TTTATTATTAGATTCAAAATTTGA
45527564 AAGAATTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 27 0.45
45 1 0.02
48 32 0.53
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (44 bp):
TTTATTATTAGATTCAAAATTTGACAAATCTTTATCACAATTAA
Found at i:45528095 original size:13 final size:13
Alignment explanation
Indices: 45528077--45528101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45528067 ATTTATTTAT
45528077 AAAAAAATATGGC
1 AAAAAAATATGGC
45528090 AAAAAAATATGG
1 AAAAAAATATGG
45528102 ACATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAAATATGGC
Found at i:45541556 original size:17 final size:17
Alignment explanation
Indices: 45541534--45541570 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
45541524 TTCAAACACA
45541534 TCTCACCCCTTCTCATC
1 TCTCACCCCTTCTCATC
45541551 TCTCACCCCTTCTCATC
1 TCTCACCCCTTCTCATC
45541568 TCT
1 TCT
45541571 TCACTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.38
Consensus pattern (17 bp):
TCTCACCCCTTCTCATC
Found at i:45541886 original size:25 final size:25
Alignment explanation
Indices: 45541858--45541915 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
45541848 ATGTTGATAT
45541858 GTTTAATTTAATTAATATGGCTTAA
1 GTTTAATTTAATTAATATGGCTTAA
45541883 GTTTAATTTAATTAATATGGCTTAA
1 GTTTAATTTAATTAATATGGCTTAA
*
45541908 ATTTAATT
1 GTTTAATT
45541916 CGTGTTAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (25 bp):
GTTTAATTTAATTAATATGGCTTAA
Found at i:45550202 original size:40 final size:40
Alignment explanation
Indices: 45549945--45550195 Score: 421
Period size: 40 Copynumber: 6.3 Consensus size: 40
45549935 AATTCGCAGG
* * *
45549945 AATGCCTTCGGGACTTAGCCCGAACATAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
* *
45549985 AATGCCTTCGGGACTTAGCCCAGATATAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
*
45550025 AATGCCTTCAGGACTTAGCCCGGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
*
45550065 AATGCCTTCGGGACTTAGCCTGGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
* *
45550105 AATGCCTTCGGGACTTAGCCCGGACATAACCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
45550145 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
45550185 AATGCCTTCGG
1 AATGCCTTCGG
45550196 ATCTTAGTCC
Statistics
Matches: 198, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 198 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
Found at i:45552332 original size:28 final size:28
Alignment explanation
Indices: 45552292--45552345 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
45552282 GGTTACGGAG
*
45552292 CATTACCCTAAAATTATAACTTAAAAAA
1 CATTACCCTAAAATCATAACTTAAAAAA
*
45552320 CATTACCGTAAAATCATAACTTAAAA
1 CATTACCCTAAAATCATAACTTAAAA
45552346 TATTCATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.28
Consensus pattern (28 bp):
CATTACCCTAAAATCATAACTTAAAAAA
Found at i:45558695 original size:27 final size:27
Alignment explanation
Indices: 45558599--45558697 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
45558589 TGTCTTGATA
* *
45558599 GACTAACCCATTTTTACTGT-CCTAGTG
1 GACTAACCTATTTTTACTGTCCCGA-TG
* * *
45558626 GACTAACTTATTTTTACTGTCCGGACG
1 GACTAACCTATTTTTACTGTCCCGATG
45558653 GACTAA-CTAATTTTTACTGTCCCGATG
1 GACTAACCT-ATTTTTACTGTCCCGATG
* *
45558680 AACTAACCTATGTTTACT
1 GACTAACCTATTTTTACT
45558698 ATCCTAGCAG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.02
27 54 0.92
28 4 0.07
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (27 bp):
GACTAACCTATTTTTACTGTCCCGATG
Found at i:45565877 original size:54 final size:54
Alignment explanation
Indices: 45565818--45565923 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
45565808 TTATTAAAAC
*
45565818 TTATAATAATTATTAGAAATTAATTAAAAACCATAAAAATTTAG-AAAAAATAGT
1 TTATAAAAATTATTAGAAATTAATTAAAAACCAT-AAAATTTAGTAAAAAATAGT
* *
45565872 TTATAAAAATTGTTAGAAATTAATTAAAAACCATAAAATTTTGTAAAAAATA
1 TTATAAAAATTATTAGAAATTAATTAAAAACCATAAAATTTAGTAAAAAATA
45565924 ATTTTTTTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
53 8 0.17
54 40 0.83
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (54 bp):
TTATAAAAATTATTAGAAATTAATTAAAAACCATAAAATTTAGTAAAAAATAGT
Found at i:45566120 original size:33 final size:33
Alignment explanation
Indices: 45566031--45566123 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
45566021 ATTGTATGGG
* *
45566031 TTTTAATTAATTTCTAACAA-TTTTAATAAATTA
1 TTTTAATAAATTT-TAATAATTTTTAATAAATTA
** **
45566064 TTTTTCTAAATTTTAATGGTTTTTAATAAATTA
1 TTTTAATAAATTTTAATAATTTTTAATAAATTA
45566097 TTTTAAATAAATTTT-ATAATTTTTAAT
1 TTTT-AATAAATTTTAATAATTTTTAAT
45566124 TACTTTATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
32 3 0.06
33 37 0.77
34 8 0.17
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (33 bp):
TTTTAATAAATTTTAATAATTTTTAATAAATTA
Found at i:45587100 original size:73 final size:71
Alignment explanation
Indices: 45586986--45587300 Score: 305
Period size: 73 Copynumber: 4.4 Consensus size: 71
45586976 TAGTTAAGAC
* * * * *
45586986 CAACCTTTGAAAAAGGTTGTGATAAACCTGTCTAAGACAACCTTAAAAAGGTCGATATAGTTCTT
1 CAACCTTT-AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTCGAGATAG-ACTT
* *
45587051 GTTTAAGG
64 GTCTAAAG
* * * * *
45587059 CAACTTTTAAAAACGGTTGGGATAGAGCC-GTCTAATGCAACCTTAAAAAGGTTGGGATCGACAT
1 CAACCTTTAAAAA-GGTTGGGATAGA-CCTGTCTAAGGCAACCTTAAAAAGGTCGAGATAGAC-T
*
45587123 TGTCTAAAA
63 TGTCTAAAG
* * * *
45587132 CAACCTATAAAAAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAACAGGTC-AGGATAGACCA
1 CAACCT-TTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTCGA-GATAGA-CT
*
45587196 TGTCTAAGG
63 TGTCTAAAG
* * * *
45587205 CAACCTTTAAAAAAGGTCGGAATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACTT
1 CAACCTTT-AAAAAGGTTGGGATAGACCT-GTCTAAGGCAACCTTAAAAAGGTCGAGATAGACTT
*
45587269 GTTTAAAG
64 GTCTAAAG
45587277 CAACC-TTAAAAAGGTTGGGATAGA
1 CAACCTTTAAAAAGGTTGGGATAGA
45587301 TATTATTTAA
Statistics
Matches: 196, Mismatches: 36, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
70 15 0.08
71 2 0.01
72 24 0.12
73 146 0.74
74 9 0.05
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (71 bp):
CAACCTTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTCGAGATAGACTTGT
CTAAAG
Found at i:45587128 original size:36 final size:35
Alignment explanation
Indices: 45586954--45587300 Score: 293
Period size: 35 Copynumber: 9.5 Consensus size: 35
45586944 ATGCCGACCT
* *
45586954 TTAAAAAGGGTTGGGATAGACCTAGT-TAAGACCAACC
1 TTAAAAA-GGTTGGGATAGA-CTTGTCTAAG-GCAACC
* * * *
45586991 TTTGAAAAAGGTTGTGATAAACCTGTCTAAGACAACC
1 -TT-AAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
* ** * * *
45587028 TTAAAAAGGTCGATATAGTTCTTGTTTAAGGCAACTT
1 TTAAAAAGGTTGGGATAG-ACTTGTCTAAGGCAAC-C
* *
45587065 TTAAAAACGGTTGGGATAGAGC-CGTCTAATGCAACC
1 TTAAAAA-GGTTGGGATAGA-CTTGTCTAAGGCAACC
* **
45587101 TTAAAAAGGTTGGGATCGACATTGTCTAAAACAACC
1 TTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACC
* *
45587137 TATAAAAAAGGTTGGGATAGACCTATCTAAGGCAACC
1 T-T-AAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
* ** *
45587174 TTAAACAGGTCAGGATAGACCATGTCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACC
* * *
45587210 TTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACC
1 -TT-AAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
* *
45587247 TTAAAAAGGTTGGGATAGACTTGTTTAAAGCAACC
1 TTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
45587282 TTAAAAAGGTTGGGATAGA
1 TTAAAAAGGTTGGGATAGA
45587301 TATTATTTAA
Statistics
Matches: 250, Mismatches: 46, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
34 1 0.00
35 84 0.34
36 50 0.20
37 54 0.22
38 56 0.22
39 5 0.02
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
Found at i:45587230 original size:146 final size:142
Alignment explanation
Indices: 45586954--45587300 Score: 401
Period size: 146 Copynumber: 2.4 Consensus size: 142
45586944 ATGCCGACCT
* * * * *
45586954 TTAAAAAGGGTTGGGATAGACCTAGTTAAGACCAACCTTTGAAAAAGGTTGTGATAAACCTGTCT
1 TTAAAAA-GGTTGGGATAGA-CTTGTTAA-AACAACC-TT-AAAAAGGTTGGGATAGACCTATCT
* ** * * * * * *
45587019 AAGACAACCTTAAAAAGGTCGATATAGTTCTTGTTTAAGGCAACTTTTAAAAACGGTTGGGATAG
61 AAGACAACCTTAAAAAGGTCGAGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTCGGAATAG
*
45587084 AGC-CGTCTAATGCAACC
126 A-CTCGTCTAAGGCAACC
*
45587101 TTAAAAAGGTTGGGATCGACATTGTCTAAAACAACCTATAAAAAAGGTTGGGATAGACCTATCTA
1 TTAAAAAGGTTGGGATAGAC-TTGT-TAAAACAACCT-T-AAAAAGGTTGGGATAGACCTATCTA
* *
45587166 AGGCAACCTTAAACAGGTC-AGGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTCGGAATAG
62 AGACAACCTTAAAAAGGTCGA-GATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTCGGAATAG
45587230 ACTCGTCTAAGGCAACC
126 ACTCGTCTAAGGCAACC
*
45587247 TTAAAAAGGTTGGGATAGACTTGTTTAAAGCAACCTTAAAAAGGTTGGGATAGA
1 TTAAAAAGGTTGGGATAGACTTG-TTAAAACAACCTTAAAAAGGTTGGGATAGA
45587301 TATTATTTAA
Statistics
Matches: 173, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
143 17 0.10
144 1 0.01
145 17 0.10
146 128 0.74
147 10 0.06
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (142 bp):
TTAAAAAGGTTGGGATAGACTTGTTAAAACAACCTTAAAAAGGTTGGGATAGACCTATCTAAGAC
AACCTTAAAAAGGTCGAGATAGACCATGTCTAAGGCAACCTTTAAAAAAGGTCGGAATAGACTCG
TCTAAGGCAACC
Found at i:45587335 original size:39 final size:35
Alignment explanation
Indices: 45587096--45587339 Score: 139
Period size: 35 Copynumber: 6.7 Consensus size: 35
45587086 CCGTCTAATG
* * *
45587096 CAACCTTAAAAAGGTTGGGATCGACATTGTCTAAAA
1 CAACCTTAAAAAGGTTGGGATAGA-ATTATTTAAAA
** * **
45587132 CAACCTATAAAAAAGGTTGGGATAGACCTATCTAAGG
1 CAACCT-T-AAAAAGGTTGGGATAGAATTATTTAAAA
* ** * * **
45587169 CAACCTTAAACAGGTCAGGATAGACCA-TGTCTAAGG
1 CAACCTTAAAAAGGTTGGGATAGA--ATTATTTAAAA
* * * ** * **
45587205 CAACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAGG
1 CAACC-TT-AAAAAGGTTGGGATAGAATTATTTAAAA
* * *
45587242 CAACCTTAAAAAGGTTGGGATAGACTTGTTTAAAG
1 CAACCTTAAAAAGGTTGGGATAGAATTATTTAAAA
45587277 CAACCTTAAAAAGGTTGGGATAGATATTATTTAAAA
1 CAACCTTAAAAAGGTTGGGATAGA-ATTATTTAAAA
*
45587313 CAACCTATAAAAAAAGATTGGGATAGA
1 CAACCT-T--AAAAAGGTTGGGATAGA
45587340 CACATATAAT
Statistics
Matches: 172, Mismatches: 25, Indels: 19
0.80 0.12 0.09
Matches are distributed among these distances:
35 61 0.35
36 36 0.21
37 29 0.17
38 30 0.17
39 16 0.09
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (35 bp):
CAACCTTAAAAAGGTTGGGATAGAATTATTTAAAA
Found at i:45587460 original size:26 final size:25
Alignment explanation
Indices: 45587431--45587490 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
45587421 GGAATTGTGC
45587431 TTTAAATACAACTAA-AAAAATTAAAA
1 TTTAAATACAA--AATAAAAATTAAAA
*
45587457 TTTAAAATACAAAATTAAAATTAAAA
1 TTT-AAATACAAAATAAAAATTAAAA
*
45587483 TTAAAATA
1 TTTAAATA
45587491 AAGATTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.23
26 15 0.50
27 8 0.27
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (25 bp):
TTTAAATACAAAATAAAAATTAAAA
Done.