Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 30 of 320
Found at i:8509664 original size:7 final size:7
Alignment explanation
Indices: 8509605--8509713 Score: 50
Period size: 7 Copynumber: 15.4 Consensus size: 7
8509595 AAGTTTTTAA
*
8509605 ATAATGT
1 ATAATAT
8509612 ATAATAT
1 ATAATAT
*
8509619 A-AATAA
1 ATAATAT
8509625 ATAAATAT
1 AT-AATAT
8509633 ATAAGATAT
1 AT-A-ATAT
8509642 ATAAGT-T
1 ATAA-TAT
8509649 A-AA-AT
1 ATAATAT
8509654 ATAATAT
1 ATAATAT
8509661 ATAATA-
1 ATAATAT
*
8509667 ATAATTT
1 ATAATAT
*
8509674 ACAAT-T
1 ATAATAT
* *
8509680 TTGAAAAT
1 AT-AATAT
8509688 ATAAATAAT
1 AT-AAT-AT
*
8509697 ATAATAA
1 ATAATAT
8509704 ATAATAT
1 ATAATAT
8509711 ATA
1 ATA
8509714 TAATAAATTA
Statistics
Matches: 78, Mismatches: 13, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
5 2 0.03
6 15 0.19
7 34 0.44
8 17 0.22
9 10 0.13
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:8509666 original size:12 final size:12
Alignment explanation
Indices: 8509530--8509713 Score: 51
Period size: 12 Copynumber: 14.8 Consensus size: 12
8509520 TTTAAAATAG
*
8509530 ATAATATATGAT
1 ATAATATATAAT
*
8509542 AGT-ATATAAAAT
1 A-TAATATATAAT
*
8509554 AATAATAAATGAA-
1 -ATAATATAT-AAT
*
8509567 ATAATTTATAATAT
1 ATAATATAT-A-AT
*
8509581 ATAATATAAAAT
1 ATAATATATAAT
* * *
8509593 GTAAGTTTTTAA-
1 ATAA-TATATAAT
*
8509605 ATAATGTATAAT
1 ATAATATATAAT
8509617 ATAA-ATA-AAT
1 ATAATATATAAT
*
8509627 A-AATATATAAG
1 ATAATATATAAT
*
8509638 ATATATAAGTTAAAAT
1 ATA-AT-A--TATAAT
8509654 ATAATATATAAT
1 ATAATATATAAT
* *
8509666 AATAATTTACAATT
1 -ATAATATATAA-T
* *
8509680 TTGAAAATATAA-
1 AT-AATATATAAT
8509692 ATAATATAATAA-
1 ATAATAT-ATAAT
8509704 ATAATATATA
1 ATAATATATA
8509714 TAATAAATTA
Statistics
Matches: 124, Mismatches: 29, Indels: 39
0.65 0.15 0.20
Matches are distributed among these distances:
9 2 0.02
10 7 0.06
11 17 0.14
12 47 0.38
13 24 0.19
14 18 0.15
15 2 0.02
16 7 0.06
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.38
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:8509714 original size:16 final size:15
Alignment explanation
Indices: 8509691--8509721 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8509681 TGAAAATATA
8509691 AATAATATAATAAAT
1 AATAATATAATAAAT
8509706 AATATATATAATAAAT
1 AATA-ATATAATAAAT
8509722 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:8510018 original size:22 final size:23
Alignment explanation
Indices: 8509991--8510033 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8509981 GGATATCTAC
8509991 AAATTAAATC-TCCAAGATTACA
1 AAATTAAATCTTCCAAGATTACA
* *
8510013 AAATTATATCTTCTAAGATTA
1 AAATTAAATCTTCCAAGATTA
8510034 TATATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (23 bp):
AAATTAAATCTTCCAAGATTACA
Found at i:8510077 original size:17 final size:17
Alignment explanation
Indices: 8510036--8510155 Score: 177
Period size: 17 Copynumber: 6.9 Consensus size: 17
8510026 TAAGATTATA
8510036 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
*
8510053 CAATCATATCTAAGATTG
1 -TATCATATCTAAGATTG
*
8510071 TATCATATCTAAGATTA
1 TATCATATCTAAGATTG
*
8510088 CATCATATCTAAGATTG
1 TATCATATCTAAGATTG
8510105 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
* *
8510122 CAATCATATTTAAGATTG
1 -TATCATATCTAAGATTG
8510140 TATCATATCTAAGATT
1 TATCATATCTAAGATT
8510156 ACATATCATT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
17 60 0.66
18 31 0.34
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (17 bp):
TATCATATCTAAGATTG
Found at i:8510079 original size:35 final size:35
Alignment explanation
Indices: 8510036--8510164 Score: 215
Period size: 35 Copynumber: 3.7 Consensus size: 35
8510026 TAAGATTATA
*
8510036 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCTAAGATTACAATCATATCTAAGATTG
8510071 TATCATATCTAAGATTAC-ATCATATCTAAGATTG
1 TATCATATCTAAGATTACAATCATATCTAAGATTG
* *
8510105 TATCATATCTAAGATTGCAATCATATTTAAGATTG
1 TATCATATCTAAGATTACAATCATATCTAAGATTG
8510140 TATCATATCTAAGATTACATATCAT
1 TATCATATCTAAGATTACA-ATCAT
8510165 TGAAGATTAT
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
34 33 0.38
35 50 0.57
36 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (35 bp):
TATCATATCTAAGATTACAATCATATCTAAGATTG
Found at i:8510171 original size:52 final size:50
Alignment explanation
Indices: 8510024--8510172 Score: 142
Period size: 52 Copynumber: 2.8 Consensus size: 50
8510014 AATTATATCT
* *
8510024 TCTAAGATTATATATCATATCTAAGATTGCA-ATCATATCTAAGATTGTATCATA
1 TCTAAGA-T-TATATCATATCTAAGATTACATATC--AT-TAAGATTGAATCATA
*
8510078 TCTAAGATTACATCATATCTAAGATTGTATCATATC--TAAGATTGCAATCATA
1 TCTAAGATTATATCATATCTAAGA-T-TA-CATATCATTAAGATTG-AATCATA
* *
8510130 TTTAAGATTGTATCATATCTAAGATTACATATCATTGAAGATT
1 TCTAAGATTATATCATATCTAAGATTACATATCATT-AAGATT
8510173 ATATTTCCAT
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
49 6 0.07
50 2 0.02
51 10 0.12
52 48 0.59
53 2 0.02
54 8 0.10
55 2 0.02
56 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (50 bp):
TCTAAGATTATATCATATCTAAGATTACATATCATTAAGATTGAATCATA
Found at i:8510766 original size:83 final size:83
Alignment explanation
Indices: 8510546--8510898 Score: 634
Period size: 83 Copynumber: 4.2 Consensus size: 83
8510536 TTCGATTTGT
* * *
8510546 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
8510611 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
8510629 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
8510694 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
*
8510713 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
8510778 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
8510796 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
8510861 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
8510879 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
8510899 GATCTGCTTC
Statistics
Matches: 262, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
83 183 0.70
84 79 0.30
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:8511238 original size:237 final size:238
Alignment explanation
Indices: 8510822--8511414 Score: 1044
Period size: 237 Copynumber: 2.5 Consensus size: 238
8510812 CTTGAGTCTG
* * * * * *
8510822 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
8510887 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATATTTGAGAACGT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
*
8510952 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTT
131 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
*
8511017 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
196 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
8511060 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTT-CTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8511124 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
*
8511189 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTT
131 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
*
8511254 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
196 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
8511297 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8511362 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
8511415 CTTCGATCTG
Statistics
Matches: 337, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
237 227 0.67
238 110 0.33
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (238 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:8511417 original size:119 final size:119
Alignment explanation
Indices: 8510822--8511414 Score: 1044
Period size: 119 Copynumber: 5.0 Consensus size: 119
8510812 CTTGAGTCTG
* * * * * *
8510822 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
8510887 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
8510941 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8511006 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
8511060 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTT-CTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8511124 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
8511178 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8511243 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
8511297 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
8511362 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
8511415 CTTCGATCTG
Statistics
Matches: 456, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
118 116 0.25
119 340 0.75
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:8511454 original size:44 final size:44
Alignment explanation
Indices: 8511406--8511585 Score: 179
Period size: 44 Copynumber: 4.1 Consensus size: 44
8511396 TGAAGGTTAG
8511406 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
8511450 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * ** * * *
8511492 ATGCTGAAATCTTCAATCTGCTTCGC-AGAGAGCGTAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATA-AACACAGGGATGCCAA
*
8511538 ATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
8511582 ATCT
1 ATCT
8511586 TGTTTCTTTG
Statistics
Matches: 105, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
42 2 0.02
43 15 0.14
44 71 0.68
45 15 0.14
46 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:8512480 original size:21 final size:20
Alignment explanation
Indices: 8512457--8512496 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8512447 CACCTTAGCC
*
8512457 TCTCCATTT-TTTTCTTTTT
1 TCTCTATTTCTTTTCTTTTT
*
8512476 TCTCTTTTTCTTTTCTTTTT
1 TCTCTATTTCTTTTCTTTTT
8512496 T
1 T
8512497 TTATCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TCTCTATTTCTTTTCTTTTT
Found at i:8512481 original size:9 final size:8
Alignment explanation
Indices: 8512463--8512508 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
8512453 AGCCTCTCCA
8512463 TTTTTTTC
1 TTTTTTTC
8512471 -TTTTTTC
1 TTTTTTTC
*
8512478 TCTTTTTC
1 TTTTTTTC
8512486 TTTTCTTT-
1 TTTT-TTTC
*
8512494 TTTTTATC
1 TTTTTTTC
8512502 TTTTTTT
1 TTTTTTT
8512509 TTGAAATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
7 9 0.29
8 19 0.61
9 3 0.10
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:8512494 original size:11 final size:10
Alignment explanation
Indices: 8512463--8512510 Score: 62
Period size: 11 Copynumber: 4.7 Consensus size: 10
8512453 AGCCTCTCCA
8512463 TTTTTTTC-T
1 TTTTTTTCTT
*
8512472 TTTTTCTCTT
1 TTTTTTTCTT
8512482 TTTCTTTTCTT
1 TTT-TTTTCTT
8512493 TTTTTTATCTT
1 TTTTTT-TCTT
8512504 TTTTTTT
1 TTTTTTT
8512511 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 7 0.21
10 8 0.24
11 19 0.56
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:8512509 original size:20 final size:19
Alignment explanation
Indices: 8512463--8512509 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
8512453 AGCCTCTCCA
*
8512463 TTTTTTTCTTTTTTCTCTT
1 TTTTTTTCTTTTTTCTATT
*
8512482 TTTCTTTTCTTTTTTTTATCT
1 TTT-TTTTCTTTTTTCTAT-T
8512503 TTTTTTT
1 TTTTTTT
8512510 TGAAATAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTCTTTTTTCTATT
Found at i:8518030 original size:12 final size:13
Alignment explanation
Indices: 8518013--8518045 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8518003 AAACAAATAC
8518013 AATAATATATAA-
1 AATAATATATAAT
8518025 AATAATA-ATAAT
1 AATAATATATAAT
8518037 AATAATATA
1 AATAATATA
8518046 GTAACATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 14 0.74
13 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAATATATAAT
Found at i:8518514 original size:12 final size:13
Alignment explanation
Indices: 8518497--8518525 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8518487 TTTTGAAAAT
8518497 ATAAATAATATA-
1 ATAAATAATATAC
8518509 ATAAATAATATAC
1 ATAAATAATATAC
8518522 ATAA
1 ATAA
8518526 TAAATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAATATAC
Found at i:8518534 original size:21 final size:20
Alignment explanation
Indices: 8518424--8518538 Score: 64
Period size: 21 Copynumber: 5.8 Consensus size: 20
8518414 AAAATAATGT
*
8518424 ATAATATAAATAAATATATAA
1 ATAATAT-AATAAAAATATAA
*
8518445 GAT-ATATAAGTTAAAATAT-A
1 -ATAATATAA-TAAAAATATAA
* * *
8518465 AT-ATATAATAATAATTTAC
1 ATAATATAATAAAAATATAA
* *
8518484 A-AAT-T-TTGAAAATATAA
1 ATAATATAATAAAAATATAA
*
8518501 ATAATATAATAAATAATATAC
1 ATAATATAATAAA-AATATAA
8518522 ATAATA-AATTAAAAATA
1 ATAATATAA-TAAAAATA
8518539 AGTTTAAAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
17 8 0.11
18 10 0.14
19 12 0.17
20 12 0.17
21 27 0.38
22 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAATATAATAAAAATATAA
Found at i:8518869 original size:18 final size:17
Alignment explanation
Indices: 8518833--8518965 Score: 176
Period size: 18 Copynumber: 7.5 Consensus size: 17
8518823 AATCATATCT
8518833 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
8518852 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
8518870 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
*
8518887 TCTAATATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
8518905 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
8518922 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
* *
8518940 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
8518957 TCTAAGATT
1 TCTAAGATT
8518966 ACATATCATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 45 0.44
18 46 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:8518891 original size:35 final size:35
Alignment explanation
Indices: 8518833--8518974 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
8518823 AATCATATCT
8518833 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
8518870 TCTAAGATTGTATCATATCTAATATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
8518905 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
8518940 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
8518975 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 85 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:8522989 original size:43 final size:43
Alignment explanation
Indices: 8522928--8523032 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
8522918 TTTAAATTTT
8522928 ATGACCTTTAGCGGCGTTTGAGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGAGGGAAAAGCGCCGCTAAAGGTC
* * * *
8522971 ATGACCTTTAACGACGTTTGTGGGAAAAGTGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGAGGGAAAAGCGCCGCTAAAGGTC
*
8523014 ATGCCCTTTAGCGGCGTTT
1 ATGACCTTTAGCGGCGTTT
8523033 TTTTAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.26
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGAGGGAAAAGCGCCGCTAAAGGTC
Found at i:8523136 original size:31 final size:34
Alignment explanation
Indices: 8523080--8523141 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
8523070 ATAGCGGCGT
*
8523080 TTTTTGCGGCGCTTGTAAAAACGTCG-TAAATAG
1 TTTTAGCGGCGCTTGTAAAAACGTCGCTAAATAG
*
8523113 TTTTAGCGGCGC-T-TAAAAGCGTCGCTAAA
1 TTTTAGCGGCGCTTGTAAAAACGTCGCTAAA
8523142 GACCTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 10 0.38
32 5 0.19
33 11 0.42
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (34 bp):
TTTTAGCGGCGCTTGTAAAAACGTCGCTAAATAG
Found at i:8532202 original size:13 final size:13
Alignment explanation
Indices: 8532184--8532208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8532174 CTTCAATTTC
8532184 AGTATTTTCCAAA
1 AGTATTTTCCAAA
8532197 AGTATTTTCCAA
1 AGTATTTTCCAA
8532209 CTCTTATCTG
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
AGTATTTTCCAAA
Found at i:8538535 original size:33 final size:32
Alignment explanation
Indices: 8538486--8538549 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
8538476 CTCGCTGCAA
* *
8538486 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
8538519 TCTGGTGGCCTAGCCACAATATTTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
8538550 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:8540742 original size:21 final size:21
Alignment explanation
Indices: 8540703--8540742 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8540693 CTGTGTTCAG
* *
8540703 AGGTTCGACAGTCTTGATGCA
1 AGGTTCGACAGTATCGATGCA
8540724 AGGTTCGACAGTATCGATG
1 AGGTTCGACAGTATCGATG
8540743 AAACTTTGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (21 bp):
AGGTTCGACAGTATCGATGCA
Found at i:8540846 original size:6 final size:6
Alignment explanation
Indices: 8540835--8540896 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
8540825 AGTCCACTTA
* *
8540835 TTTTAT TTTTAT TTTTAT TTTTAT CTTT-C TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
8540881 CTTT-C TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTA
8540897 AAAACTTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 11 0.24
6 35 0.76
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:8540854 original size:17 final size:17
Alignment explanation
Indices: 8540832--8540896 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
8540822 TTGAGTCCAC
8540832 TTATTTTATTTTTATTT
1 TTATTTTATTTTTATTT
* *
8540849 TTATTTTTATCTTT-CTT
1 TTA-TTTTATTTTTATTT
*
8540866 TTATTTTATTTTTATCT
1 TTATTTTATTTTTATTT
*
8540883 TTCTTTTATTTTTA
1 TTATTTTATTTTTA
8540897 AAAACTTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.22
17 22 0.55
18 9 0.22
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTTTATTTTTATTT
Found at i:8540875 original size:22 final size:22
Alignment explanation
Indices: 8540841--8540894 Score: 99
Period size: 22 Copynumber: 2.4 Consensus size: 22
8540831 CTTATTTTAT
8540841 TTTTATTTTTATTTTTATCTTTC
1 TTTTA-TTTTATTTTTATCTTTC
8540864 TTTTATTTTATTTTTATCTTTC
1 TTTTATTTTATTTTTATCTTTC
8540886 TTTTATTTT
1 TTTTATTTT
8540895 TAAAAACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTATTTTATTTTTATCTTTC
Found at i:8541873 original size:4 final size:4
Alignment explanation
Indices: 8541866--8541911 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
8541856 CTTAAAAAAA
* *
8541866 ATAC ATAC ATAT ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
8541912 TTTAGTGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:8541883 original size:12 final size:12
Alignment explanation
Indices: 8541866--8541911 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
8541856 CTTAAAAAAA
8541866 ATACATACATAT
1 ATACATACATAT
8541878 ATACATACATAT
1 ATACATACATAT
*
8541890 ATACATACATAC
1 ATACATACATAT
8541902 ATACATACAT
1 ATACATACAT
8541912 TTTAGTGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (12 bp):
ATACATACATAT
Found at i:8548126 original size:11 final size:11
Alignment explanation
Indices: 8548106--8548135 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8548096 TCCTCTGTTT
8548106 CTTCACCGTCC
1 CTTCACCGTCC
*
8548117 CTTCATCGTCC
1 CTTCACCGTCC
8548128 CTTCACCG
1 CTTCACCG
8548136 CCGTCTACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.10, C:0.50, G:0.10, T:0.30
Consensus pattern (11 bp):
CTTCACCGTCC
Found at i:8548219 original size:17 final size:17
Alignment explanation
Indices: 8548199--8548246 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
8548189 TTTTTTGTTG
8548199 TATTTTATTTTATTTAA
1 TATTTTATTTTATTTAA
* *
8548216 TATTATATTTGT-TTTAT
1 TATTTTATTT-TATTTAA
8548233 TATTTTATTTTATT
1 TATTTTATTTTATT
8548247 ATTATGATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TATTTTATTTTATTTAA
Found at i:8552196 original size:8 final size:8
Alignment explanation
Indices: 8552183--8552213 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
8552173 TTTATTTTAT
8552183 TTTATTTC
1 TTTATTTC
8552191 TTTATTTC
1 TTTATTTC
8552199 TTTATTTC
1 TTTATTTC
8552207 TTTATTT
1 TTTATTT
8552214 GTTTGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATTTC
Found at i:8552466 original size:9 final size:9
Alignment explanation
Indices: 8552424--8552466 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
8552414 ATTAATCTAT
*
8552424 TTTTTATTA
1 TTTTTATTG
8552433 TTTGTTCATTG
1 TTT-TT-ATTG
8552444 TTTTTATTG
1 TTTTTATTG
*
8552453 CTTTTATTG
1 TTTTTATTG
8552462 TTTTT
1 TTTTT
8552467 GTTCTTAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 19 0.66
10 4 0.14
11 6 0.21
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (9 bp):
TTTTTATTG
Found at i:8553600 original size:17 final size:17
Alignment explanation
Indices: 8553580--8553612 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8553570 CAACTCGCTC
8553580 GACACTTCAATCTTCTT
1 GACACTTCAATCTTCTT
*
8553597 GACACTTCGATCTTCT
1 GACACTTCAATCTTCT
8553613 CAACACACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.39
Consensus pattern (17 bp):
GACACTTCAATCTTCTT
Found at i:8558664 original size:22 final size:21
Alignment explanation
Indices: 8558639--8558682 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
8558629 TTCCAGTTCA
*
8558639 TTAATTATTAATTTTTATTTAT
1 TTAATTATTAATTATT-TTTAT
*
8558661 TTAATTTTTAATTATTTTTAT
1 TTAATTATTAATTATTTTTAT
8558682 T
1 T
8558683 ACTGATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTAATTATTAATTATTTTTAT
Found at i:8558666 original size:15 final size:15
Alignment explanation
Indices: 8558639--8558677 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
8558629 TTCCAGTTCA
8558639 TTAATTA-TTAATTT
1 TTAATTATTTAATTT
*
8558653 TTATTTATTTAATTT
1 TTAATTATTTAATTT
8558668 TTAATTATTT
1 TTAATTATTT
8558678 TTATTACTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATTATTTAATTT
Found at i:8558709 original size:15 final size:16
Alignment explanation
Indices: 8558671--8558709 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
8558661 TTAATTTTTA
8558671 ATTATTTTTATTACTG
1 ATTATTTTTATTACTG
8558687 ATTA-TTTTATTACT-
1 ATTATTTTTATTACTG
8558701 ATTATTTTT
1 ATTATTTTT
8558710 TTAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTATTTTTATTACTG
Found at i:8560343 original size:6 final size:6
Alignment explanation
Indices: 8560312--8560393 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
8560302 ATAAGGATCA
* * * *
8560312 TTTA-T TTTATT TATT-TT CTTTTTT TTTATT TTTA-T TTTATG TCTATG
1 TTTATT TTTATT T-TTATT -TTTATT TTTATT TTTATT TTTATT TTTATT
8560359 TTTATT TTTATT TTTAATTGT TTTATT TTTATT TT
1 TTTATT TTTATT TTT-A-T-T TTTATT TTTATT TT
8560394 CTTAGACTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
5 9 0.14
6 42 0.66
7 7 0.11
8 2 0.03
9 4 0.06
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:8560393 original size:5 final size:5
Alignment explanation
Indices: 8560312--8560372 Score: 52
Period size: 5 Copynumber: 11.6 Consensus size: 5
8560302 ATAAGGATCA
* * *
8560312 TTTAT TTTA- TTTAT TTTCT TTTTT TTTATT TTTAT TTTAT GTCTAT GTTTATT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT -TTTAT -TTTA-T
8560365 TTTAT TTT
1 TTTAT TTT
8560373 TAATTGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
4 4 0.09
5 25 0.53
6 17 0.36
7 1 0.02
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:8560431 original size:26 final size:25
Alignment explanation
Indices: 8560359--8560439 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
8560349 TATGTCTATG
*
8560359 TTTATTTTTA-TTT-TT-AA-TTGT
1 TTTATTTTTATTTTCTTAAACTTAT
*
8560380 TTTATTTTTATTTTCTTAGACTTAT
1 TTTATTTTTATTTTCTTAAACTTAT
*
8560405 TTTGTTTATTATTTT-TTAAACTATATT
1 TTTATTT-TTATTTTCTTAAACT-TA-T
8560432 TTTATTTT
1 TTTATTTT
8560440 GATGGTTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 10 0.21
22 3 0.06
23 2 0.04
24 1 0.02
25 15 0.31
26 10 0.21
27 7 0.15
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTATTTTTATTTTCTTAAACTTAT
Found at i:8562577 original size:102 final size:102
Alignment explanation
Indices: 8562397--8562600 Score: 365
Period size: 102 Copynumber: 2.0 Consensus size: 102
8562387 ACTAAACTGA
* *
8562397 TAACATTTGCAAACTTTGGGAAACTTGGAAAATTGTCAAACATTTAAGGGTCACATGCCCGTGTG
1 TAACATTTGCAAACTTTGGGAAACTTAGAAAATTATCAAACATTTAAGGGTCACATGCCCGTGTG
8562462 AACAAGCCGTGTGACCAGACACGCCCGTGTCACAGGC
66 AACAAGCCGTGTGACCAGACACGCCCGTGTCACAGGC
8562499 TAACATTTGCAAACTTTGGGAAACTTAGAAAATTATCAAACATTTAAGGGTCACATGCCCGTGTG
1 TAACATTTGCAAACTTTGGGAAACTTAGAAAATTATCAAACATTTAAGGGTCACATGCCCGTGTG
*
8562564 AACAAGATC-TGTGACCAGACACGCCCGTGTCACAGGC
66 AACAAG-CCGTGTGACCAGACACGCCCGTGTCACAGGC
8562601 CATGTGAAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 97 0.99
103 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (102 bp):
TAACATTTGCAAACTTTGGGAAACTTAGAAAATTATCAAACATTTAAGGGTCACATGCCCGTGTG
AACAAGCCGTGTGACCAGACACGCCCGTGTCACAGGC
Found at i:8563951 original size:43 final size:43
Alignment explanation
Indices: 8563851--8564005 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
8563841 CAATGCCATA
* ** * * *
8563851 TCCCAGATATGGTCTTACATGTTATC--ACATATCAATGCCACTA
1 TCCCAGACATGGTCTTACATGAAATCTGA-ATA-CAAGGCCAATG
* * *
8563894 TCCCAGACAGGGTCTTACATGAAATC-GATTAACGAGGCCAATG
1 TCCCAGACATGGTCTTACATGAAATCTGAAT-ACAAGGCCAATG
* * * * *
8563937 TCTCAGATATGGTCTTACACGTAATCTGAATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGAAATCTGAATACAAGGCCAATG
*
8563980 TCCCAGACATGGTCTTACATGCAATC
1 TCCCAGACATGGTCTTACATGAAATC
8564006 AAATCTTGTT
Statistics
Matches: 88, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
43 83 0.94
44 5 0.06
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCTGAATACAAGGCCAATG
Found at i:8566774 original size:12 final size:12
Alignment explanation
Indices: 8566757--8566786 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8566747 AAATAATTAA
8566757 TAAATTAGAAAT
1 TAAATTAGAAAT
*
8566769 TAAATTGGAAAT
1 TAAATTAGAAAT
8566781 TAAATT
1 TAAATT
8566787 TGGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:8568165 original size:4 final size:4
Alignment explanation
Indices: 8568156--8568188 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
8568146 AACTTAAGCC
8568156 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
8568189 GTACAAGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:8572090 original size:18 final size:18
Alignment explanation
Indices: 8572067--8572101 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8572057 AGCCTAGAAT
*
8572067 CTCACACGCCCGTGTGGA
1 CTCACACACCCGTGTGGA
*
8572085 CTCACACACTCGTGTGG
1 CTCACACACCCGTGTGG
8572102 CCCACACGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.37, G:0.26, T:0.20
Consensus pattern (18 bp):
CTCACACACCCGTGTGGA
Found at i:8572126 original size:24 final size:24
Alignment explanation
Indices: 8572099--8572153 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
8572089 CACACTCGTG
8572099 TGGCCCACACGGCCCAAATCAGTC
1 TGGCCCACACGGCCCAAATCAGTC
8572123 TGGCCCACACGGCCCAAATCAGTC
1 TGGCCCACACGGCCCAAATCAGTC
8572147 TGGCCCA
1 TGGCCCA
8572154 TGTGTCACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.24, C:0.42, G:0.22, T:0.13
Consensus pattern (24 bp):
TGGCCCACACGGCCCAAATCAGTC
Found at i:8573394 original size:16 final size:16
Alignment explanation
Indices: 8573373--8573406 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8573363 TTGAAACAAC
*
8573373 ATAAATAATTAATTAA
1 ATAAATAATAAATTAA
*
8573389 ATAAATTATAAATTAA
1 ATAAATAATAAATTAA
8573405 AT
1 AT
8573407 TGGAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAATAATAAATTAA
Found at i:8574179 original size:47 final size:48
Alignment explanation
Indices: 8574125--8574217 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
8574115 TACTGACACA
8574125 TCAAATTGGAAGG-AAAAAAGTAATTCTTATTTAATTCCAAATGAATT
1 TCAAATTGGAAGGAAAAAAAGTAATTCTTATTTAATTCCAAATGAATT
8574172 TCAAATTGGAAGGAAAAAAAGTAATTCTTATTTAATTCCAAATGAA
1 TCAAATTGGAAGGAAAAAAAGTAATTCTTATTTAATTCCAAATGAA
8574218 GTCCAATGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 13 0.29
48 32 0.71
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (48 bp):
TCAAATTGGAAGGAAAAAAAGTAATTCTTATTTAATTCCAAATGAATT
Found at i:8583003 original size:23 final size:23
Alignment explanation
Indices: 8582973--8583017 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8582963 TCTAAATTTG
*
8582973 ATAATTTAGTACAAAATTGTTTA
1 ATAATTTAGTACAAAAATGTTTA
* *
8582996 ATAATTTATTATAAAAATGTTT
1 ATAATTTAGTACAAAAATGTTT
8583018 TATTGATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (23 bp):
ATAATTTAGTACAAAAATGTTTA
Found at i:8583171 original size:20 final size:20
Alignment explanation
Indices: 8583110--8583172 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
8583100 AGAATTTTAT
* *
8583110 GTATTCCCTCATAATTTTTG
1 GTATTCTCTCATTATTTTTG
* * *
8583130 GCACTCTCTCATGT-TTATTG
1 GTATTCTCTCAT-TATTTTTG
8583150 GTATTCTCTCATTATTTTTG
1 GTATTCTCTCATTATTTTTG
8583170 GTA
1 GTA
8583173 CACACCTCAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.17, C:0.19, G:0.13, T:0.51
Consensus pattern (20 bp):
GTATTCTCTCATTATTTTTG
Found at i:8583677 original size:24 final size:20
Alignment explanation
Indices: 8583624--8583694 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
8583614 ACACTCATAC
8583624 TTTTTGGTACTTTCTTATAAT
1 TTTTTGGTA-TTTCTTATAAT
8583645 TTTTT-GTATTCTCTTATAATGT
1 TTTTTGGTATT-TCTTATAA--T
* *
8583667 ATTTTTGGTATTTCGTCATTAT
1 -TTTTTGGTATTTC-TTATAAT
8583689 TTTTTG
1 TTTTTG
8583695 TACTCTCGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
19 2 0.05
20 11 0.26
21 11 0.26
22 2 0.05
23 7 0.17
24 9 0.21
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.63
Consensus pattern (20 bp):
TTTTTGGTATTTCTTATAAT
Found at i:8589031 original size:17 final size:17
Alignment explanation
Indices: 8589009--8589042 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8588999 TTCTGCTTAC
8589009 AATTAAACCTAAACTAT
1 AATTAAACCTAAACTAT
8589026 AATTAAACCTAAACTAT
1 AATTAAACCTAAACTAT
8589043 GTCACTTAAA
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:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTAAACCTAAACTAT
Found at i:8599160 original size:10 final size:10
Alignment explanation
Indices: 8599145--8599177 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
8599135 AGAATTTTTT
8599145 TAAAAAATTG
1 TAAAAAATTG
8599155 TAAAAAATT-
1 TAAAAAATTG
8599164 T-AAAAATTG
1 TAAAAAATTG
8599173 TAAAA
1 TAAAA
8599178 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.33
9 2 0.10
10 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (10 bp):
TAAAAAATTG
Found at i:8599165 original size:19 final size:19
Alignment explanation
Indices: 8599143--8599200 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
8599133 TTAGAATTTT
8599143 TTTAAAAAATTGTAAAAAA
1 TTTAAAAAATTGTAAAAAA
*
8599162 TTT-AAAAATTGT-AAAAT
1 TTTAAAAAATTGTAAAAAA
**
8599179 TTTATAAAAATCATAAAAAA
1 TTTA-AAAAATTGTAAAAAA
8599199 TT
1 TT
8599201 AACGACCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 7 0.22
18 9 0.28
19 10 0.31
20 6 0.19
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (19 bp):
TTTAAAAAATTGTAAAAAA
Found at i:8599474 original size:25 final size:24
Alignment explanation
Indices: 8599445--8599500 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
8599435 CATAAAAAAA
8599445 CTAAAAACATT-AAAATAAATGTTTT
1 CTAAAAA-ATTGAAAATAAAT-TTTT
8599470 CTAAAAAATTGAAAATAAA-TTTT
1 CTAAAAAATTGAAAATAAATTTTT
8599493 -TAAAAAAT
1 CTAAAAAAT
8599501 ATGTATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.27
23 4 0.13
24 3 0.10
25 15 0.50
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (24 bp):
CTAAAAAATTGAAAATAAATTTTT
Found at i:8600035 original size:9 final size:8
Alignment explanation
Indices: 8600021--8600087 Score: 53
Period size: 9 Copynumber: 7.6 Consensus size: 8
8600011 CTTTATAAAA
8600021 TTTTATACT
1 TTTTATA-T
8600030 TTTTATAT
1 TTTTATAT
*
8600038 TTCTATAT
1 TTTTATAT
8600046 ATTTTATAATT
1 -TTTTAT-A-T
*
8600057 TTTTACAAT
1 TTTTA-TAT
8600066 TTTTATATT
1 TTTTATA-T
*
8600075 TTTTTTAT
1 TTTTATAT
8600083 TTTTA
1 TTTTA
8600088 ATAACTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
8 14 0.30
9 25 0.53
10 7 0.15
11 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTATAT
Found at i:8600162 original size:37 final size:37
Alignment explanation
Indices: 8600066--8600165 Score: 98
Period size: 37 Copynumber: 2.7 Consensus size: 37
8600056 TTTTTACAAT
*
8600066 TTTTATATTTTTTTT-ATTTTTAATAACTTTTTAATAA
1 TTTTAT-TTTTTTTTAATTTTTAATAACTATTTAATAA
* * ** *
8600103 TTTAATTTTTTATTAAAATTTAATAA-TATTT-ATAGC
1 TTTTATTTTTTTTTAATTTTTAATAACTATTTAATA-A
8600139 TTTTATTTTTTTTCTAATTTTTAATAA
1 TTTTATTTTTTTT-TAATTTTTAATAA
8600166 AAGCAGGGCT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
35 3 0.06
36 22 0.44
37 25 0.50
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (37 bp):
TTTTATTTTTTTTTAATTTTTAATAACTATTTAATAA
Found at i:8600288 original size:91 final size:91
Alignment explanation
Indices: 8600171--8600393 Score: 274
Period size: 91 Copynumber: 2.5 Consensus size: 91
8600161 AATAAAAGCA
* * *
8600171 GGGCTTAAATT-TTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTGAAAGATCAAGT-G
1 GGGCTTAATTTCTTTTTTTGAAAAGGTTTGAGAG-CTTTTTGACGCATTTTGAAAGATCAAGTAG
*
8600234 CCTAATTGAGTGCAAAAAAAAA-AG-GG
65 CC-AAATGAGTGCAAAAAAAAAGAGTGG
* * *
8600260 GAGGCTTAATTTCTTTTTTTTAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGTTCAAGTA
1 G-GGCTTAATTTCTTTTTTTGAAAAGGTTTGAGAG-CTTTTTGACGCATTTTGAAAGATCAAGTA
* *
8600325 TCCAAATGAGTGCAAAAAAAAAGAGTTG
64 GCCAAATGAGTGCAAAAAAAAAGAGTGG
* * *
8600353 GGGCTTAATTGCTTTTTTTGAAAATGTTTGAGTGCTTTTTG
1 GGGCTTAATTTCTTTTTTTGAAAAGGTTTGAGAGCTTTTTG
8600394 CACCCTTAAG
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
89 1 0.01
90 9 0.08
91 70 0.61
92 32 0.28
93 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (91 bp):
GGGCTTAATTTCTTTTTTTGAAAAGGTTTGAGAGCTTTTTGACGCATTTTGAAAGATCAAGTAGC
CAAATGAGTGCAAAAAAAAAGAGTGG
Found at i:8601339 original size:40 final size:40
Alignment explanation
Indices: 8601244--8601341 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 40
8601234 CTTTTCAGGT
* * * *
8601244 CAAATCCTATCCACCTTAAGTTACTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
* *
8601284 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
8601324 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
8601342 TATTCTCGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
Found at i:8602591 original size:22 final size:22
Alignment explanation
Indices: 8602565--8602611 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
8602555 ATTTTCTTTC
8602565 TCTACACTATTTCCCATTACAT
1 TCTACACTATTTCCCATTACAT
*
8602587 TCTACACTATTTCCCATTACTT
1 TCTACACTATTTCCCATTACAT
8602609 TCT
1 TCT
8602612 CTTATTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (22 bp):
TCTACACTATTTCCCATTACAT
Found at i:8615552 original size:30 final size:30
Alignment explanation
Indices: 8615496--8615552 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
8615486 ATCCCGAGCC
*
8615496 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATCCAAAAGTT
* * *
8615526 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAATGTAAATATCCAAAA
8615553 TTTGAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATCCAAAAGTT
Found at i:8616023 original size:46 final size:46
Alignment explanation
Indices: 8615973--8616148 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
8615963 TGGTTGAGCA
8615973 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
8616019 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
8616064 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
8616112 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8616149 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:8616129 original size:93 final size:93
Alignment explanation
Indices: 8615970--8616141 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
8615960 GGATGGTTGA
* * *
8615970 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
8616035 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
8616063 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
8616128 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
8616142 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:8619554 original size:79 final size:79
Alignment explanation
Indices: 8619421--8619641 Score: 318
Period size: 79 Copynumber: 2.8 Consensus size: 79
8619411 AAGTCACATC
** * * *
8619421 TCATGTAATAGTAGTAAATCAGGATTA-CCTTTTCAGGTCAAATCCTACCCACCTTAAGTTATCA
1 TCATGTAACCGTAGCAAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
8619485 TAAGGAATCATGTA
66 TAAGGAATCATATA
* * * *
8619499 TCGTGTAACCGTAGCGAATTAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCA
1 TCATGTAACCGTAGCAAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
8619564 TAATGAATCATATA
66 TAAGGAATCATATA
* *
8619578 TCATGTAACCGTAGCAAATCAAGATTACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACC
1 TCATGTAACCGTAGCAAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACC
8619642 GTAGTGAAAC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 21 0.17
79 104 0.83
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (79 bp):
TCATGTAACCGTAGCAAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
TAAGGAATCATATA
Found at i:8619800 original size:40 final size:40
Alignment explanation
Indices: 8619736--8619873 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 40
8619726 CTTTTCAGGT
* * * *
8619736 CAAATCCTATTCGCCTTAAGTTACCGTAGTGAATCAAGAA
1 CAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
*
8619776 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
1 CAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
* * ** ** **
8619816 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCGGGAA
1 CAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
* *
8619856 CGAATCCTATCCACTTTA
1 CAAATCCTATTCACTTTA
8619874 TATTCTCGAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (40 bp):
CAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
Found at i:8619811 original size:119 final size:119
Alignment explanation
Indices: 8619539--8619811 Score: 438
Period size: 119 Copynumber: 2.3 Consensus size: 119
8619529 TTTTCAGGTC
* * ** *
8619539 AAATCCTATCCACCTTAGGTTACCATAATGAATCATATATCATGTAACCGTAGCAAATCAAGATT
1 AAATCCTATTCACTTTAAATTACCATAATGAATCATATATCATGTAACCATAGCAAATCAAGATT
8619604 ACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCGTAGTGAAACAAGAAT
66 ACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCGTAGTGAAACAAGAAT
* * * *
8619658 AAATCCTATTCACTTTAAATTACCATAATAAATCATATATCATGTAACCATCGCGAATCAGGATT
1 AAATCCTATTCACTTTAAATTACCATAATGAATCATATATCATGTAACCATAGCAAATCAAGATT
* *
8619723 ACCCTTTTCAGGTCAAATCCTATTCGCCTTAAGTTACCGTAGTGAATCAAGAAT
66 ACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCGTAGTGAAACAAGAAT
*
8619777 AAATCCTATTCACTTTAAATTACCATAGTGAATCA
1 AAATCCTATTCACTTTAAATTACCATAATGAATCA
8619812 AGAACAAATC
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 141 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (119 bp):
AAATCCTATTCACTTTAAATTACCATAATGAATCATATATCATGTAACCATAGCAAATCAAGATT
ACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCGTAGTGAAACAAGAAT
Found at i:8621524 original size:11 final size:10
Alignment explanation
Indices: 8621508--8621541 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
8621498 TTATATATTA
8621508 AATAAATTAAT
1 AATAAA-TAAT
8621519 AATAAAATAAT
1 AAT-AAATAAT
8621530 AATAAATAAT
1 AATAAATAAT
8621540 AA
1 AA
8621542 AATATCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 10 0.45
12 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:8622368 original size:34 final size:34
Alignment explanation
Indices: 8622274--8622372 Score: 94
Period size: 34 Copynumber: 2.9 Consensus size: 34
8622264 AATATGACGC
* * * *
8622274 ATTGGCGTTGTGGCGAGATGTTGATTGAATGATGT
1 ATTGGTGTTGTGGCGAGATATTAATTGAA-GAAGT
** *
8622309 ATCAGTGTTGTGGTG-GA-ATGATAATTGAAGAAGT
1 ATTGGTGTTGTGGCGAGATAT--TAATTGAAGAAGT
8622343 ATTGGTGTTGTGGCGAGATATTAATTGAAG
1 ATTGGTGTTGTGGCGAGATATTAATTGAAG
8622373 GAGGACTAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
33 1 0.02
34 27 0.54
35 20 0.40
36 2 0.04
ACGTcount: A:0.26, C:0.04, G:0.34, T:0.35
Consensus pattern (34 bp):
ATTGGTGTTGTGGCGAGATATTAATTGAAGAAGT
Found at i:8625375 original size:50 final size:50
Alignment explanation
Indices: 8625321--8625422 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
8625311 CTGATCGATA
8625321 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCTATCTTCT
1 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCTATCTTCT
8625371 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCTATCTTCT
1 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCTATCTTCT
8625421 TG
1 TG
8625423 TTTTTGTATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.46
Consensus pattern (50 bp):
TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCTATCTTCT
Found at i:8627809 original size:12 final size:12
Alignment explanation
Indices: 8627792--8627822 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
8627782 TAAGGGAAGA
8627792 GAGCCCAAGCAT
1 GAGCCCAAGCAT
8627804 GAGCCCAAGCAT
1 GAGCCCAAGCAT
8627816 GAGCCCA
1 GAGCCCA
8627823 GGTATGTCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.35, G:0.26, T:0.06
Consensus pattern (12 bp):
GAGCCCAAGCAT
Found at i:8631941 original size:25 final size:24
Alignment explanation
Indices: 8631911--8631960 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
8631901 AAATAAAAAA
* *
8631911 ATTTTAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
8631937 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
8631961 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:8631972 original size:22 final size:21
Alignment explanation
Indices: 8631901--8631989 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
8631891 TTATTTCATT
* *
8631901 AAAT-AAAAAAATTTTAAAAT
1 AAATAAAAAAAATATTAAAAC
*
8631921 ATAATAAATCAAATATATTTAAAA-
1 A-AATAAA--AAAAATA-TTAAAAC
*
8631945 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
8631967 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
8631988 AA
1 AA
8631990 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 23 0.42
22 14 0.25
23 5 0.09
24 6 0.11
25 6 0.11
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:8632422 original size:3 final size:3
Alignment explanation
Indices: 8632414--8632455 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8632404 TTGTGTCTAG
8632414 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8632456 ACTTGGAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8639244 original size:3 final size:3
Alignment explanation
Indices: 8639236--8639267 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8639226 TAACCATAGC
8639236 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8639268 CAATTTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8643509 original size:6 final size:6
Alignment explanation
Indices: 8643498--8643525 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8643488 GCGGAAACGA
8643498 TGGCAG TGGCAG TGGCAG TGGCAG TGGC
1 TGGCAG TGGCAG TGGCAG TGGCAG TGGC
8643526 GTTTACCGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.50, T:0.18
Consensus pattern (6 bp):
TGGCAG
Found at i:8643859 original size:41 final size:40
Alignment explanation
Indices: 8643813--8643898 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
8643803 AAAAAATGGC
*
8643813 TTTTTGTGGTGTTCT-TAAAAAAAAAGCCACTACAGCTTAAT
1 TTTTTGTGGCGTT-TATAAAAAAAAAGCCACTACAGCTT-AT
** * *
8643854 TTTTTGTGGCGTTTATATTAAAAACGCCACTAGAGCTTAT
1 TTTTTGTGGCGTTTATAAAAAAAAAGCCACTACAGCTTAT
8643894 TTTTT
1 TTTTT
8643899 ATGCCATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 8 0.21
41 31 0.79
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (40 bp):
TTTTTGTGGCGTTTATAAAAAAAAAGCCACTACAGCTTAT
Found at i:8644108 original size:14 final size:15
Alignment explanation
Indices: 8644073--8644108 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
8644063 TAAGTTCCTT
*
8644073 ATTTTTTAATTTTTA
1 ATTTTTTAATTTTAA
8644088 ATTTTTT-ATTTTAA
1 ATTTTTTAATTTTAA
8644102 ATTTTTT
1 ATTTTTT
8644109 TGAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
ATTTTTTAATTTTAA
Found at i:8644283 original size:22 final size:22
Alignment explanation
Indices: 8644253--8644297 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8644243 ACATTAGTTG
* *
8644253 TTTAGATTTTTATATAGATGACA
1 TTTAGATTTTGATAGAGAT-ACA
8644276 TTTA-ATTTTGATAGAGATACA
1 TTTAGATTTTGATAGAGATACA
8644297 T
1 T
8644298 CTCAGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (22 bp):
TTTAGATTTTGATAGAGATACA
Found at i:8644575 original size:7 final size:7
Alignment explanation
Indices: 8644559--8644591 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
8644549 CAATTGCACA
*
8644559 CTAAATC
1 CTAAACC
8644566 CTAAACC
1 CTAAACC
8644573 CTAAACC
1 CTAAACC
8644580 CTAAACC
1 CTAAACC
8644587 CTAAA
1 CTAAA
8644592 TCATAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:8644598 original size:14 final size:14
Alignment explanation
Indices: 8644567--8644668 Score: 75
Period size: 14 Copynumber: 7.2 Consensus size: 14
8644557 CACTAAATCC
*
8644567 TAAACCCTAAACCC
1 TAAACCCTAAACCA
*
8644581 TAAACCCTAAATCA
1 TAAACCCTAAACCA
**
8644595 TAAACTTTAAA--A
1 TAAACCCTAAACCA
*
8644607 TAGTAACTCATAAA-CA
1 TA--AAC-CCTAAACCA
*
8644623 TTAAACCCTTAACCA
1 -TAAACCCTAAACCA
*
8644638 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
8644652 TAAACCCTAAACTA
1 TAAACCCTAAACCA
8644666 TAA
1 TAA
8644669 TGATAATTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
12 3 0.04
14 55 0.79
15 9 0.13
16 1 0.01
17 2 0.03
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:8644598 original size:21 final size:21
Alignment explanation
Indices: 8644559--8644663 Score: 61
Period size: 21 Copynumber: 5.0 Consensus size: 21
8644549 CAATTGCACA
* *
8644559 CTAAATCCTAAACCCTAAACC
1 CTAAACCCTAAACCATAAACC
* *
8644580 CTAAACCCTAAATCATAAACT
1 CTAAACCCTAAACCATAAACC
* * *
8644601 TTAAA--ATAGTAACTCATAAACA
1 CTAAACCCTA--AAC-CATAAACC
* * *
8644623 TTAAACCCTTAACCATATACC
1 CTAAACCCTAAACCATAAACC
* *
8644644 CTAAACCATAAACCCTAAAC
1 CTAAACCCTAAACCATAAAC
8644664 TATAATGATA
Statistics
Matches: 62, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.03
21 44 0.71
22 15 0.24
24 1 0.02
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.23
Consensus pattern (21 bp):
CTAAACCCTAAACCATAAACC
Found at i:8644889 original size:7 final size:7
Alignment explanation
Indices: 8644877--8644924 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
8644867 CCCCAACCCT
8644877 TAAACCA
1 TAAACCA
8644884 TAAACCA
1 TAAACCA
*
8644891 TAAATCA
1 TAAACCA
* *
8644898 TAATCCC
1 TAAACCA
8644905 TAAACCCA
1 TAAA-CCA
*
8644913 TAATCCA
1 TAAACCA
8644920 TAAAC
1 TAAAC
8644925 TTTAAAATAG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:8645445 original size:39 final size:39
Alignment explanation
Indices: 8645399--8645631 Score: 162
Period size: 39 Copynumber: 5.6 Consensus size: 39
8645389 TTTGCGACGT
8645399 TTTTTTAAAAAGCGCCGCTAAAGGTTACCTATAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAAAGGTTACCTATAGCGGCG
* * * * *
8645438 TTTTTTAAAAAGCGCCGCTAATGCTTATCTTTAGAGGCG
1 TTTTTTAAAAAGCGCCGCTAAAGGTTACCTATAGCGGCG
* * *
8645477 -TTTTTCAAAAGCGCCGCTAAAGCCGCGGTAGTTTAGCATAATTTTTTGCGGCG
1 TTTTTTAAAAAGCGCCGCTAAA------G--G-TTA-CCT-A----TAGCGGCG
*
8645530 TTTTTTTAAAAAGCGCCGCTAAAGGTGACCTATAGCGGCG
1 TTTT-TTAAAAAGCGCCGCTAAAGGTTACCTATAGCGGCG
* * * * * *
8645570 TTTTTTAAAAAGCGCCGTTAATGCTTAATCTTTAGCGGCA
1 TTTTTTAAAAAGCGCCGCTAAAGGTT-ACCTATAGCGGCG
*
8645610 TTTTTCAAAAAGCGCCGCTAAA
1 TTTTTTAAAAAGCGCCGCTAAA
8645632 AACCTATTTT
Statistics
Matches: 149, Mismatches: 27, Indels: 35
0.71 0.13 0.17
Matches are distributed among these distances:
38 19 0.13
39 52 0.35
40 40 0.27
44 2 0.01
45 2 0.01
46 2 0.01
47 4 0.03
48 1 0.01
49 1 0.01
53 6 0.04
54 3 0.02
55 17 0.11
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (39 bp):
TTTTTTAAAAAGCGCCGCTAAAGGTTACCTATAGCGGCG
Found at i:8645520 original size:132 final size:132
Alignment explanation
Indices: 8645342--8645631 Score: 458
Period size: 132 Copynumber: 2.2 Consensus size: 132
8645332 AACTTTTTGC
* * * *
8645342 GGCGTTTTCCAAAAAACGCCGCAAAAGCCGCGCAGTTGGCATAATTTTTTGCGACGTTTTTTTAA
1 GGCGTTTTTCAAAAAGCGCCGCTAAAGCCGCGCAGTTAGCATAATTTTTTGCGACGTTTTTTTAA
*
8645407 AAAGCGCCGCTAAAGGTTACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTT-ATCTTTA
66 AAAGCGCCGCTAAAGGTGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTTAATCTTTA
8645471 GA
131 GA
* *
8645473 GGCGTTTTTC-AAAAGCGCCGCTAAAGCCGCGGTAGTTTAGCATAATTTTTTGCGGCGTTTTTTT
1 GGCGTTTTTCAAAAAGCGCCGCTAAAGCCGC-GCAG-TTAGCATAATTTTTTGCGACGTTTTTTT
*
8645537 AAAAAGCGCCGCTAAAGGTGACCTATAGCGGCGTTTTTTAAAAAGCGCCGTTAATGCTTAATCTT
64 AAAAAGCGCCGCTAAAGGTGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTTAATCTT
*
8645602 TAGC
129 TAGA
*
8645606 GGCATTTTTCAAAAAGCGCCGCTAAA
1 GGCGTTTTTCAAAAAGCGCCGCTAAA
8645632 AACCTATTTT
Statistics
Matches: 145, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
130 18 0.12
131 12 0.08
132 83 0.57
133 17 0.12
134 15 0.10
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (132 bp):
GGCGTTTTTCAAAAAGCGCCGCTAAAGCCGCGCAGTTAGCATAATTTTTTGCGACGTTTTTTTAA
AAAGCGCCGCTAAAGGTGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTTAATCTTTA
GA
Found at i:8652505 original size:54 final size:54
Alignment explanation
Indices: 8652423--8652567 Score: 238
Period size: 54 Copynumber: 2.7 Consensus size: 54
8652413 ATGGAGGAAG
*
8652423 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCGCATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
*
8652477 TGTCCTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
* *
8652531 TGTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 TGTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
8652568 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
Found at i:8652578 original size:27 final size:27
Alignment explanation
Indices: 8652427--8652585 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
8652417 AGGAAGTGTC
*
8652427 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
8652454 CTGGTGGCTCTGCCGCATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
8652481 CTGGTGGTTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
8652508 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
8652535 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
8652562 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
8652586 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:8652579 original size:81 final size:80
Alignment explanation
Indices: 8652427--8652585 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 80
8652417 AGGAAGTGTC
* * *
8652427 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCGCATATATCTGTCCTGGTGGTTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGCTTAC
8652492 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
8652508 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTG-CT
*
8652571 T-CGTCACAATATCTG
63 TACGCCACAATATCTG
8652586 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 16 0.24
81 50 0.74
82 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGCTTAC
GCCACAATATCTGAT
Found at i:8655605 original size:46 final size:48
Alignment explanation
Indices: 8655501--8655821 Score: 220
Period size: 46 Copynumber: 6.8 Consensus size: 48
8655491 GTTATTTGTG
* * * *
8655501 AGCCAATGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGATG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* * *
8655548 GAGCTAGTGTAATA-CATGTCTGGGACAT-GCATCGGCCTCGAGTTGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* *
8655595 AGCCAGTGTAAGA-CATGTCTGGGACAT-GTATTGG-CTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTA
* *
8655640 -GTCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACG-GATGTGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGA--TGT-A
* * * * * **
8655688 GAGCTAGGGTAAGACCATGTTTGGGACATGGCGTCAGCCTCGATTTCG-A
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTA
* * * * *
8655737 TAGTCAGTGTAAGACCATGTCTGGGACATGACATC-GACT-TA-ATGGATG
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-G-TA
* * *
8655785 AGCTAGTGTAAGACCATGTTTGGGACATGACATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
8655822 ATTATACCCT
Statistics
Matches: 216, Mismatches: 41, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
44 13 0.06
45 18 0.08
46 61 0.28
47 47 0.22
48 14 0.06
49 29 0.13
50 30 0.14
51 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Found at i:8661273 original size:105 final size:105
Alignment explanation
Indices: 8661091--8661303 Score: 399
Period size: 105 Copynumber: 2.0 Consensus size: 105
8661081 AGAGAGAGAA
* *
8661091 GAAACTTTCATGGCTTAATTGGGTAAGTTTCCTTGTCCCGTTTTTAGTAATTTTGATATTTTTGA
1 GAAACTTTCATGGCTTAATTGGGTAAGTTTCCTCGTCCCATTTTTAGTAATTTTGATATTTTTGA
*
8661156 AACTGGGATAGCTTAATCTATCTATTTGAGGGATCAATTT
66 AACTGAGATAGCTTAATCTATCTATTTGAGGGATCAATTT
8661196 GAAACTTTCATGGCTTAATTGGGTAAGTTTCCTCGTCCCATTTTTAGTAATTTTGATATTTTTGA
1 GAAACTTTCATGGCTTAATTGGGTAAGTTTCCTCGTCCCATTTTTAGTAATTTTGATATTTTTGA
8661261 AACTGAGATAGCTTAATCTATCTATTTGAGGGATCAATTT
66 AACTGAGATAGCTTAATCTATCTATTTGAGGGATCAATTT
8661301 GAA
1 GAA
8661304 GAGTTAACAA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (105 bp):
GAAACTTTCATGGCTTAATTGGGTAAGTTTCCTCGTCCCATTTTTAGTAATTTTGATATTTTTGA
AACTGAGATAGCTTAATCTATCTATTTGAGGGATCAATTT
Found at i:8661790 original size:17 final size:17
Alignment explanation
Indices: 8661768--8661801 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8661758 GCAGTATGAT
*
8661768 TTATAATTATGTGAATG
1 TTATAAATATGTGAATG
*
8661785 TTATAAATGTGTGAATG
1 TTATAAATATGTGAATG
8661802 AATATATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TTATAAATATGTGAATG
Found at i:8665571 original size:13 final size:13
Alignment explanation
Indices: 8665553--8665587 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8665543 TTTAATTGGG
*
8665553 TAATTAATTTAGT
1 TAATTAATTTAAT
*
8665566 TAATTAAATTAAT
1 TAATTAATTTAAT
8665579 TAATTAATT
1 TAATTAATT
8665588 AATATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
TAATTAATTTAAT
Found at i:8670577 original size:33 final size:32
Alignment explanation
Indices: 8670540--8670746 Score: 195
Period size: 33 Copynumber: 6.4 Consensus size: 32
8670530 TCTTTCTGAG
* *
8670540 TGGTACATACAAAATATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCA-A
* ** *
8670573 TGGTATACACAAAGTATACCTAACCTTTCCAA
1 TGGTACACACAAAGTATACCTTTCCTTTTCAA
* * **
8670605 -GCGTACACACAAAGTGTACATAACCTTTTCAA
1 TG-GTACACACAAAGTATACCTTTCCTTTTCAA
* * *
8670637 -GTGTACACATATAGTGTACCTTTCCTTTTCAA
1 TG-GTACACACAAAGTATACCTTTCCTTTTCAA
*
8670669 GTGGTATACACAAAGTATACCTTTCCTTTTCATA
1 -TGGTACACACAAAGTATACCTTTCCTTTTCA-A
* *
8670703 TGGTATACACAAAGTATACCCTTCCTTTTCAA
1 TGGTACACACAAAGTATACCTTTCCTTTTCAA
8670735 -GTGTACACACAA
1 TG-GTACACACAA
8670747 GGTGTACATA
Statistics
Matches: 147, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
31 2 0.01
32 63 0.43
33 80 0.54
34 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (32 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCAA
Found at i:8670629 original size:32 final size:32
Alignment explanation
Indices: 8670542--8670766 Score: 177
Period size: 32 Copynumber: 6.9 Consensus size: 32
8670532 TTTCTGAGTG
* * **
8670542 GTACATACAAAATATACCTTTCCTTTTCATA-T
1 GTACACACAAAGTATACCTAACCTTTTCA-AGT
* * *
8670574 GGTATACACAAAGTATACCTAACCTTTCCAAGC
1 -GTACACACAAAGTATACCTAACCTTTTCAAGT
* *
8670607 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
* * * **
8670639 GTACACATATAGTGTACCTTTCCTTTTCAAGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
* **
8670671 GGTATACACAAAGTATACCTTTCCTTTTCATA-T
1 -GTACACACAAAGTATACCTAACCTTTTCA-AGT
* *
8670704 GGTATACACAAAGTATACCCT-TCCTTTTCAAGT
1 -GTACACACAAAGTATA-CCTAACCTTTTCAAGT
* * *
8670737 GTACACACAAGGTGTACATAACCTTTTCAA
1 GTACACACAAAGTATACCTAACCTTTTCAA
8670767 ATTGTACCGT
Statistics
Matches: 160, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
31 2 0.01
32 78 0.49
33 76 0.47
34 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (32 bp):
GTACACACAAAGTATACCTAACCTTTTCAAGT
Found at i:8671159 original size:27 final size:27
Alignment explanation
Indices: 8671129--8671182 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
8671119 TCATATAACC
* *
8671129 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
8671156 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
8671183 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:8677751 original size:95 final size:95
Alignment explanation
Indices: 8677583--8677773 Score: 355
Period size: 95 Copynumber: 2.0 Consensus size: 95
8677573 AGTTGGCTCA
*
8677583 ATTTTATCTTCCGATCTCAATTTTACCGACTTAGATGAATTAGTTCAGATTTCACCGATTAATCC
1 ATTTTATCTTCCGATCTCAATTTTACCGACTTAGACGAATTAGTTCAGATTTCACCGATTAATCC
8677648 GGGACTAATGGACAGGTGTACAACAAGATT
66 GGGACTAATGGACAGGTGTACAACAAGATT
*
8677678 ATTTTATCTTCCGATCTCAATTTTACCGACTTAGACGAATTAGTTCAGATTTCACCGATTAATCT
1 ATTTTATCTTCCGATCTCAATTTTACCGACTTAGACGAATTAGTTCAGATTTCACCGATTAATCC
*
8677743 GGGGCTAATGGACAGGTGTACAACAAGATT
66 GGGACTAATGGACAGGTGTACAACAAGATT
8677773 A
1 A
8677774 CCTTCCGGTC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (95 bp):
ATTTTATCTTCCGATCTCAATTTTACCGACTTAGACGAATTAGTTCAGATTTCACCGATTAATCC
GGGACTAATGGACAGGTGTACAACAAGATT
Found at i:8692758 original size:27 final size:27
Alignment explanation
Indices: 8692728--8692788 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
8692718 TCAGGAAATG
*
8692728 AAGCCTTTGTAGATAACTTTAAAAAGA
1 AAGCCTTTGTAGATAACTCTAAAAAGA
* * * *
8692755 AAGCCTTTGTGGCTAACTCTGAAAAGG
1 AAGCCTTTGTAGATAACTCTAAAAAGA
8692782 AAGCCTT
1 AAGCCTT
8692789 CATGTCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
AAGCCTTTGTAGATAACTCTAAAAAGA
Found at i:8701958 original size:40 final size:39
Alignment explanation
Indices: 8701898--8702039 Score: 196
Period size: 39 Copynumber: 3.6 Consensus size: 39
8701888 GAAAGATCTT
*
8701898 ATTCAGTATAATTAGTGGATAT-TGCTCATTTTGAGCAAAC
1 ATTCAGTATAATCAGTGGATATCT-CTCATTTT-AGCAAAC
* * *
8701938 ATTCTGTATAATCAGTGGATATCTCTCATTTCAGCAAAA
1 ATTCAGTATAATCAGTGGATATCTCTCATTTTAGCAAAC
* * *
8701977 ATTCAGTATGACCAGTGGATATCTCTCGTTTTAGCAAAC
1 ATTCAGTATAATCAGTGGATATCTCTCATTTTAGCAAAC
8702016 ATTCAGTATAATCAGTGGATATCT
1 ATTCAGTATAATCAGTGGATATCT
8702040 GTAACACCCC
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 61 0.69
40 27 0.30
41 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (39 bp):
ATTCAGTATAATCAGTGGATATCTCTCATTTTAGCAAAC
Found at i:8704054 original size:4 final size:4
Alignment explanation
Indices: 8704047--8704086 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
8704037 GTTTGTATGG
* *
8704047 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CATT CATT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
8704087 TAATACTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:8705680 original size:58 final size:57
Alignment explanation
Indices: 8705600--8705740 Score: 151
Period size: 57 Copynumber: 2.5 Consensus size: 57
8705590 ATTATAGAAA
* * * *
8705600 GGATTTAG-CTCGGACGGGTAATCCTGATATAATCTCTCTCGGGCATATGTTACA-ATT
1 GGATTTAGCCT-GGACTGGTAATCCTGAT-TAAGCTCTCTCGAGCATATGTTACATAAT
* * * * *
8705657 AGGGTTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTTTGAGCATATGTTACATAAT
1 -GGATTTAGCCTGGACTGGTAATCCTGATTAAGCTCTCTCGAGCATATGTTACATAAT
*
8705715 GGATTCAGCCTGGACTGGTAATCCTG
1 GGATTTAGCCTGGACTGGTAATCCTG
8705741 TAATACGATA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 43 0.62
58 24 0.35
59 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (57 bp):
GGATTTAGCCTGGACTGGTAATCCTGATTAAGCTCTCTCGAGCATATGTTACATAAT
Found at i:8706925 original size:21 final size:21
Alignment explanation
Indices: 8706901--8706971 Score: 142
Period size: 21 Copynumber: 3.4 Consensus size: 21
8706891 GGACCACATA
8706901 GGCGTGTCCCAAGGTCACACG
1 GGCGTGTCCCAAGGTCACACG
8706922 GGCGTGTCCCAAGGTCACACG
1 GGCGTGTCCCAAGGTCACACG
8706943 GGCGTGTCCCAAGGTCACACG
1 GGCGTGTCCCAAGGTCACACG
8706964 GGCGTGTC
1 GGCGTGTC
8706972 TCTTGGACCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.17, C:0.32, G:0.35, T:0.15
Consensus pattern (21 bp):
GGCGTGTCCCAAGGTCACACG
Found at i:8706986 original size:22 final size:21
Alignment explanation
Indices: 8706875--8707014 Score: 136
Period size: 21 Copynumber: 6.5 Consensus size: 21
8706865 CGGCCTGCAG
**
8706875 CACGGGCGTGTCCCTTGGACCA
1 CACGGGCGTGTCCCAAGG-CCA
** *
8706897 CATAGGCGTGTCCCAAGGTCA
1 CACGGGCGTGTCCCAAGGCCA
*
8706918 CACGGGCGTGTCCCAAGGTCA
1 CACGGGCGTGTCCCAAGGCCA
*
8706939 CACGGGCGTGTCCCAAGGTCA
1 CACGGGCGTGTCCCAAGGCCA
* **
8706960 CACGGGCGTGTCTCTTGGACCA
1 CACGGGCGTGTCCCAAGG-CCA
* * *
8706982 CACGGGCATGTCCCTTAGACCA
1 CACGGGCGTGTCCC-AAGGCCA
8707004 CACGGGCGTGT
1 CACGGGCGTGT
8707015 AACTTAGAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
21 57 0.57
22 41 0.41
23 2 0.02
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (21 bp):
CACGGGCGTGTCCCAAGGCCA
Found at i:8707808 original size:75 final size:75
Alignment explanation
Indices: 8707679--8708096 Score: 440
Period size: 75 Copynumber: 5.7 Consensus size: 75
8707669 TACAATATCT
* * * *
8707679 CTCGTTTGAGCAACTTTTAG--T-AT-A-TAGACATTGCTCTTTTGAGCATGTTTAGTATAATCA
1 CTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATCA
8707739 GTAGATATTG
66 GTAGATATTG
* * * *
8707749 CTTGTTTGAGCAACTTTCAATATAATCAGTAGACATTGCTTTTTTAAGCACGTTCAGTATAAACA
1 CTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATCA
*
8707814 GTAGATATTC
66 GTAGATATTG
* * *
8707824 CTCGTTTGAGCAACTTTCAGTACAATCAATAGACATTG-TTCTTTTGAGCACGTTCAATATAATC
1 CTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTT-TTTTGAGCACGTTCAGTATAATC
*
8707888 AGTAGATATTA
65 AGTAGATATTG
* * * * * * * * * *
8707899 CTCCTTTGAGC-GCATTGAATATAATCAGTAGATATTGCTTGTTTGAGCACATTTAGTATAACCA
1 CTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATCA
*
8707963 GTAGATATTT
66 GTAGATATTG
** * * * *
8707973 CTTATTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAACACATCCAGTATAATCA
1 CTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATCA
8708038 GTAGATATTG
66 GTAGATATTG
* * * **
8708048 CTCGTCTGAGC-A-TATTCAGTATAATAAGTAGATATTGCTCATTTGAGCA
1 CTCGTTTGAGCAACT-TTCAGTATAATCAGTAGACATTGCTTTTTTGAGCA
8708097 TATTCAATAT
Statistics
Matches: 287, Mismatches: 52, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
70 17 0.06
72 1 0.00
73 3 0.01
74 91 0.32
75 175 0.61
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (75 bp):
CTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTTTTTTGAGCACGTTCAGTATAATCA
GTAGATATTG
Found at i:8707922 original size:112 final size:112
Alignment explanation
Indices: 8707703--8708096 Score: 408
Period size: 112 Copynumber: 3.5 Consensus size: 112
8707693 TTTTAGTATA
* * * * *
8707703 TAGACATTGCTCTTTTGAGCA-TGTTTAGTATAATCAGTAGATATTGCTT-GTTTGAGCAACTTT
1 TAGATATTGCTCGTTTGAGCACT-TTCAGTATAATCAATAGATATTG-TTCTTTTGAGCAACTTT
* * * *
8707766 CAATATAATCAGTAGACATTGCTTTTTTAAGCACGTTCAGTATAAACAG
64 CAATATAATCAGTAGACATTGCTCTTTTGAGCACATTCAGTATAATCAG
* * * *
8707815 TAGATATTCCTCGTTTGAGCAACTTTCAGTACAATCAATAGACATTGTTCTTTTGAGC-ACGTTC
1 TAGATATTGCTCGTTTGAGC-ACTTTCAGTATAATCAATAGATATTGTTCTTTTGAGCAACTTTC
* * * * * *
8707879 AATATAATCAGTAGATATTACTCCTTTGAGCGCATTGAATATAATCAG
65 AATATAATCAGTAGACATTGCTCTTTTGAGCACATTCAGTATAATCAG
* * *
8707927 TAGATATTGCTTGTTTGAGCACATTT-AGTATAACCAGTAGATA-T-TTCTTATTTGAGCAACTT
1 TAGATATTGCTCGTTTGAGCAC-TTTCAGTATAATCAATAGATATTGTTC-T-TTTGAGCAACTT
* * *
8707989 TCAGTATAATCAGTAGACATTGCTCTTTTGAACACATCCAGTATAATCAG
63 TCAATATAATCAGTAGACATTGCTCTTTTGAGCACATTCAGTATAATCAG
* * *
8708039 TAGATATTGCTCGTCTGAGCA-TATTCAGTATAAT-AAGTAGATATTGCTCATTTGAGCA
1 TAGATATTGCTCGTTTGAGCACT-TTCAGTATAATCAA-TAGATATTGTTCTTTTGAGCA
8708097 TATTCAATAT
Statistics
Matches: 229, Mismatches: 41, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
109 3 0.01
110 3 0.01
111 25 0.11
112 167 0.73
113 28 0.12
114 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (112 bp):
TAGATATTGCTCGTTTGAGCACTTTCAGTATAATCAATAGATATTGTTCTTTTGAGCAACTTTCA
ATATAATCAGTAGACATTGCTCTTTTGAGCACATTCAGTATAATCAG
Found at i:8708097 original size:37 final size:37
Alignment explanation
Indices: 8707703--8708102 Score: 377
Period size: 37 Copynumber: 10.7 Consensus size: 37
8707693 TTTTAGTATA
* * ** *
8707703 TAGACATTGCTCTTTTGAGCATGTTTAGTATAATCAG
1 TAGATATTGCTCGTTTGAGCACATTCAGTATAATCAG
* * *
8707740 TAGATATTGCTTGTTTGAGCAACTTTCAATATAATCAG
1 TAGATATTGCTCGTTTGAGC-ACATTCAGTATAATCAG
* ** * * *
8707778 TAGACATTGCTTTTTTAAGCACGTTCAGTATAAACAG
1 TAGATATTGCTCGTTTGAGCACATTCAGTATAATCAG
* * * *
8707815 TAGATATTCCTCGTTTGAGCAACTTTCAGTACAATCAA
1 TAGATATTGCTCGTTTGAGC-ACATTCAGTATAATCAG
* * * * *
8707853 TAGACATTGTTCTTTTGAGCACGTTCAATATAATCAG
1 TAGATATTGCTCGTTTGAGCACATTCAGTATAATCAG
* * * * *
8707890 TAGATATTACTCCTTTGAGCGCATTGAATATAATCAG
1 TAGATATTGCTCGTTTGAGCACATTCAGTATAATCAG
* * *
8707927 TAGATATTGCTTGTTTGAGCACATTTAGTATAACCAG
1 TAGATATTGCTCGTTTGAGCACATTCAGTATAATCAG
* ** *
8707964 TAGATATTTCTTATTTGAGCAACTTTCAGTATAATCAG
1 TAGATATTGCTCGTTTGAGC-ACATTCAGTATAATCAG
* * * *
8708002 TAGACATTGCTCTTTTGAACACATCCAGTATAATCAG
1 TAGATATTGCTCGTTTGAGCACATTCAGTATAATCAG
* * *
8708039 TAGATATTGCTCGTCTGAGCATATTCAGTATAATAAG
1 TAGATATTGCTCGTTTGAGCACATTCAGTATAATCAG
* *
8708076 TAGATATTGCTCATTTGAGCATATTCA
1 TAGATATTGCTCGTTTGAGCACATTCA
8708103 ATATTTAACC
Statistics
Matches: 295, Mismatches: 65, Indels: 6
0.81 0.18 0.02
Matches are distributed among these distances:
37 207 0.70
38 88 0.30
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (37 bp):
TAGATATTGCTCGTTTGAGCACATTCAGTATAATCAG
Found at i:8711088 original size:30 final size:30
Alignment explanation
Indices: 8711039--8711112 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
8711029 CTGGCACATG
8711039 GCCGTGTG-CCAGCCTGTGTGGCTCACACA
1 GCCGTGTGTCCAGCCTGTGTGGCTCACACA
8711068 GCCGTGTGTCCAG-CTCGTGTGGCTCACACA
1 GCCGTGTGTCCAGCCT-GTGTGGCTCACACA
8711098 GCCGTGTGTCCAGCC
1 GCCGTGTGTCCAGCC
8711113 CATGTGAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
29 10 0.24
30 31 0.74
31 1 0.02
ACGTcount: A:0.12, C:0.35, G:0.31, T:0.22
Consensus pattern (30 bp):
GCCGTGTGTCCAGCCTGTGTGGCTCACACA
Found at i:8712013 original size:62 final size:59
Alignment explanation
Indices: 8711938--8712054 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
8711928 AGTGATTATC
* * * * *
8711938 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAACATTAAATTTAATCTAATATTTATC-T-TA-ATAAATATTATATTAATTTAATAAGAT
8712000 TTAACATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAACATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
8712055 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
60 2 0.04
61 1 0.02
62 26 0.52
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAACATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATAAGAT
Found at i:8715476 original size:22 final size:22
Alignment explanation
Indices: 8715451--8715494 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8715441 TAGTCATATA
8715451 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
8715473 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
8715495 TGTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:8715542 original size:16 final size:16
Alignment explanation
Indices: 8715521--8715554 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
8715511 TTTATTTTAG
8715521 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
8715537 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
8715553 TA
1 TA
8715555 TTATTCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:8715607 original size:15 final size:15
Alignment explanation
Indices: 8715587--8715643 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
8715577 ATTCAATATT
8715587 AATATTTTAATAATA
1 AATATTTTAATAATA
*
8715602 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
8715621 AATATATTAATAATA
1 AATATTTTAATAATA
*
8715636 AATGTTTT
1 AATATTTT
8715644 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:8717149 original size:19 final size:20
Alignment explanation
Indices: 8717121--8717168 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
8717111 TATAAAAATT
* *
8717121 AAAATTATAA-AATTTATCA
1 AAAATAATAACAATTTATAA
**
8717140 AAAATAATAACTGTTTATAA
1 AAAATAATAACAATTTATAA
8717160 AAAATAATA
1 AAAATAATA
8717169 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAATAATAACAATTTATAA
Found at i:8722125 original size:29 final size:30
Alignment explanation
Indices: 8722093--8722150 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
8722083 CTAGACCAAA
*
8722093 TTAATCCCTATACTATT-AAATGAATCAAT
1 TTAATCCCTATACTATTAAAAAGAATCAAT
* *
8722122 TTAATCCCTGTACTGTTAAAAAGAATCAA
1 TTAATCCCTATACTATTAAAAAGAATCAA
8722151 ATAAGGTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (30 bp):
TTAATCCCTATACTATTAAAAAGAATCAAT
Found at i:8742857 original size:21 final size:21
Alignment explanation
Indices: 8742811--8742883 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
8742801 GGCTTTGCCA
* *
8742811 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTTGTGTGTCG--T
8742834 ATCAGGCACCTTGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
*
8742855 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
*
8742876 TTCAGGCA
1 ATCAGGCA
8742884 TTTATTTGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 28 0.61
23 18 0.39
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (21 bp):
ATCAGGCACCTTGTGTGTCGT
Found at i:8754075 original size:16 final size:18
Alignment explanation
Indices: 8754044--8754076 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8754034 GGTTACTATT
8754044 TTTTAGCCGATTTGATGC
1 TTTTAGCCGATTTGATGC
8754062 TTTTA-CCG-TTTGATG
1 TTTTAGCCGATTTGATG
8754077 AGTTTGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.48
Consensus pattern (18 bp):
TTTTAGCCGATTTGATGC
Found at i:8756073 original size:18 final size:18
Alignment explanation
Indices: 8756025--8756122 Score: 83
Period size: 18 Copynumber: 5.5 Consensus size: 18
8756015 TAATATTTAT
* *
8756025 TAACAATCAGTCAATCAG
1 TAACAATCAGTTATTCAG
*
8756043 -AACAAT-TGTTTATTCAG
1 TAACAATCAG-TTATTCAG
** *
8756060 TAACAGCCAGTTATTCGG
1 TAACAATCAGTTATTCAG
* *
8756078 TAACAATCAATTATTCAA
1 TAACAATCAGTTATTCAG
*
8756096 TAATAATCAGTTATTCAG
1 TAACAATCAGTTATTCAG
*
8756114 TATCAATCA
1 TAACAATCA
8756123 ATTGATTGGT
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
16 1 0.02
17 12 0.20
18 46 0.77
19 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (18 bp):
TAACAATCAGTTATTCAG
Found at i:8756092 original size:36 final size:36
Alignment explanation
Indices: 8756052--8756125 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
8756042 GAACAATTGT
* * *
8756052 TTATTCAGTAACAGCCAGTTATTCGGTAACAATCAA
1 TTATTCAATAACAACCAGTTATTCAGTAACAATCAA
* * *
8756088 TTATTCAATAATAATCAGTTATTCAGTATCAATCAA
1 TTATTCAATAACAACCAGTTATTCAGTAACAATCAA
8756124 TT
1 TT
8756126 GATTGGTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (36 bp):
TTATTCAATAACAACCAGTTATTCAGTAACAATCAA
Found at i:8756158 original size:18 final size:18
Alignment explanation
Indices: 8756132--8756202 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
8756122 AATTGATTGG
*
8756132 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
8756150 TTATTCAGTAAAAATTAGA
1 TTATTCAGTAACAGTCA-A
* * *
8756169 -TATACAGTAACAATTAAA
1 TTATTCAGTAAC-AGTCAA
8756187 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
8756203 GATCTTTCTA
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
18 25 0.64
19 14 0.36
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:8756197 original size:19 final size:19
Alignment explanation
Indices: 8756148--8756199 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
8756138 AGTAACAGTC
*
8756148 AATTATTCAGTAAAAATTA
1 AATTATTCAGTAACAATTA
* *
8756167 GA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATTA
8756185 AATTATTCAGTAACA
1 AATTATTCAGTAACA
8756200 GTCGATCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (19 bp):
AATTATTCAGTAACAATTA
Found at i:8759738 original size:46 final size:46
Alignment explanation
Indices: 8759688--8759856 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
8759678 TGGTTGAGCA
*
8759688 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
8759734 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
8759779 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
8759827 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCA
8759857 ATTAGGGGCG
Statistics
Matches: 102, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.07
46 52 0.51
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:8759844 original size:93 final size:93
Alignment explanation
Indices: 8759685--8759855 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
8759675 GGATGGTTGA
* * *
8759685 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
8759750 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
8759778 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
8759842 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
8759856 AATTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Done.