Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
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: 7441454
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 92215 characters in sequence are not A, C, G, or T
File 17 of 18
Found at i:6812545 original size:3 final size:3
Alignment explanation
Indices: 6812537--6812575 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
6812527 AAAAAGGAGA
*
6812537 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AGT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6812576 GCAAGGAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6830624 original size:138 final size:137
Alignment explanation
Indices: 6830354--6830624 Score: 316
Period size: 137 Copynumber: 2.0 Consensus size: 137
6830344 GCTTCATTTC
* * ** * *
6830354 TATTAATCCAAGATCTACACTTGTTGCCTTAAGATTTTCCAATAATATTGACTCTTACCTAGATT
1 TATTAAACCAAGATCTACACCTACTGCCTTAAGATTTTCCAATAACATTGACTCTTACCTAGATC
* * *
6830419 TAGCAATTCGTTAGAGCACCATTGGATCAATTAAGAATTATTTCACGTGCAACTGACACCTTTTT
66 AAGAAATTCGTTAGAGCACCATTGGATCAATTAAGAATTATTTCACGTGCAACTGACACCTTATT
6830484 GCATTCT
131 GCATTCT
* * * *
6830491 TATTAAACCAAGATCTAGACCTACTGCCTTCAGATTTTTCAATAACATTGACTCTT-GCTCAGAT
1 TATTAAACCAAGATCTACACCTACTGCCTTAAGATTTTCCAATAACATTGACTCTTACCT-AGAT
* * * *
6830555 CAAGAAATAAT-GTTAGAGCATCACTT-GTTCAATTGAGAATTATTGT-ACTTGCAACTGACACC
65 CAAGAAAT--TCGTTAGAGCACCA-TTGGATCAATTAAGAATTATT-TCACGTGCAACTGACACC
6830617 TTATTGCA
126 TTATTGCA
6830625 CTAATCTCAA
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
136 2 0.02
137 57 0.51
138 49 0.44
139 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (137 bp):
TATTAAACCAAGATCTACACCTACTGCCTTAAGATTTTCCAATAACATTGACTCTTACCTAGATC
AAGAAATTCGTTAGAGCACCATTGGATCAATTAAGAATTATTTCACGTGCAACTGACACCTTATT
GCATTCT
Found at i:6831447 original size:2 final size:2
Alignment explanation
Indices: 6831440--6831471 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6831430 CTGTTTACTC
6831440 AT 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 AT
6831472 CATGTCAGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6834775 original size:28 final size:27
Alignment explanation
Indices: 6834729--6834784 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
6834719 TATTTATTGA
*
6834729 TTAATTTTCAACAGACACAACTCTTCTT
1 TTAATTTCCAACAGACACAA-TCTTCTT
*
6834757 TTAATTTCCAACA-ATCACAATTTTCTT
1 TTAATTTCCAACAGA-CACAATCTTCTT
6834784 T
1 T
6834785 CTATTTCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (27 bp):
TTAATTTCCAACAGACACAATCTTCTT
Found at i:6837700 original size:3 final size:3
Alignment explanation
Indices: 6837692--6837721 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6837682 AAGAGAGTTA
6837692 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6837722 CAAGAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6839651 original size:28 final size:29
Alignment explanation
Indices: 6839587--6839652 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
6839577 TTAAAACAGT
**
6839587 TAAATAAATTTTTAATTTTTAATTATATT
1 TAAATAAATTTTTAATTTTTAATTATAAA
* *
6839616 TAATTAAA-TTTTATATTTTT-ATTTTAAA
1 TAAATAAATTTTTA-ATTTTTAATTATAAA
6839644 TAAATAAAT
1 TAAATAAAT
6839653 AAATTAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TAAATAAATTTTTAATTTTTAATTATAAA
Found at i:6839681 original size:18 final size:18
Alignment explanation
Indices: 6839655--6839689 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6839645 AAATAAATAA
*
6839655 ATTAATAATTAACATATT
1 ATTAATAATTAAAATATT
*
6839673 ATTATTAATTAAAATAT
1 ATTAATAATTAAAATAT
6839690 CAGTTGTCAA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAATAATTAAAATATT
Found at i:6839935 original size:26 final size:27
Alignment explanation
Indices: 6839896--6839985 Score: 101
Period size: 29 Copynumber: 3.2 Consensus size: 27
6839886 AATTATTAGT
*
6839896 TATAAAAACTTATTTAATTTAATAAAA
1 TATAAAAATTTATTTAATTTAATAAAA
6839923 TA-AAAAATTTATTTAATTTAAAATAAAAA
1 TATAAAAATTTATTTAATTT--AAT-AAAA
* *
6839952 TATAAAAATTTAATTAAATATAATAAAAA
1 TATAAAAATTT-ATTTAATTTAAT-AAAA
6839981 TATAA
1 TATAA
6839986 TAACTATTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
26 16 0.29
27 2 0.04
28 3 0.05
29 19 0.35
30 8 0.15
31 7 0.13
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (27 bp):
TATAAAAATTTATTTAATTTAATAAAA
Found at i:6839961 original size:21 final size:21
Alignment explanation
Indices: 6839937--6839981 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6839927 AAATTTATTT
6839937 AATTTAAAATAAAAAT-ATAAA
1 AATTT-AAATAAAAATAATAAA
* *
6839958 AATTTAATTAAATATAATAAA
1 AATTTAAATAAAAATAATAAA
6839979 AAT
1 AAT
6839982 ATAATAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTTAAATAAAAATAATAAA
Found at i:6840186 original size:30 final size:30
Alignment explanation
Indices: 6840117--6840189 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
6840107 CAAAAAATTT
6840117 AAATAAATTTTTAT-TTTTTATTATGTTCA
1 AAATAAATTTTTATATTTTTATTATGTTCA
* *
6840146 ACA-AAGTTTTTATATTTTTATT-T-TTCA
1 AAATAAATTTTTATATTTTTATTATGTTCA
6840173 TCAAATAAATTTTTATA
1 --AAATAAATTTTTATA
6840190 ATTAATAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
27 4 0.11
28 10 0.28
29 12 0.33
30 10 0.28
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (30 bp):
AAATAAATTTTTATATTTTTATTATGTTCA
Found at i:6845922 original size:66 final size:66
Alignment explanation
Indices: 6845840--6845968 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
6845830 GACACACCTT
* *
6845840 AGTGACTGACCTCTTTCTCTTGTGTACGAAGAAAAGCTCTACAGTGAGTGCTAGGAAACTAATAG
1 AGTGACTGACCTCTTTCTCTTGTGTACGAAGAAAAGCTCTAAAGTGAGAGCTAGGAAACTAATAG
6845905 G
66 G
*
6845906 AGTGACTGACCTCTTTCTCTTGTGTACGAAGAAAAGCTCTAAAGTGAGAGTTAGGAAACTAAT
1 AGTGACTGACCTCTTTCTCTTGTGTACGAAGAAAAGCTCTAAAGTGAGAGCTAGGAAACTAAT
6845969 GCTTTTCAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (66 bp):
AGTGACTGACCTCTTTCTCTTGTGTACGAAGAAAAGCTCTAAAGTGAGAGCTAGGAAACTAATAG
G
Found at i:6858689 original size:20 final size:21
Alignment explanation
Indices: 6858647--6858689 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
6858637 TTTTTTTCAA
*
6858647 AAATATATATAATATTAATAT
1 AAATATATATAATATTAAAAT
6858668 AAATA-ATATAAT-TATAAAAT
1 AAATATATATAATAT-TAAAAT
6858688 AA
1 AA
6858690 TTTTAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 14 0.70
21 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATATATAATATTAAAAT
Found at i:6865651 original size:20 final size:20
Alignment explanation
Indices: 6865626--6865668 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
6865616 TGACTCGCAC
6865626 ACACTAAGTAATCAAGTATT
1 ACACTAAGTAATCAAGTATT
6865646 ACACTAAGTAATCAAGTATT
1 ACACTAAGTAATCAAGTATT
6865666 ACA
1 ACA
6865669 GATATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (20 bp):
ACACTAAGTAATCAAGTATT
Found at i:6875660 original size:54 final size:54
Alignment explanation
Indices: 6875596--6875701 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
6875586 TTCTTAAAAT
6875596 GGTAGGTGTGACATCTTCACCCATCTAATTTGACAATGCCCTCGTTGCCATCAC
1 GGTAGGTGTGACATCTTCACCCATCTAATTTGACAATGCCCTCGTTGCCATCAC
*
6875650 GGTAGGTGTGACATCTTCGCCCATCTAATTTGACAATGCCCTCGTTGCCATC
1 GGTAGGTGTGACATCTTCACCCATCTAATTTGACAATGCCCTCGTTGCCATC
6875702 GGCCACCTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (54 bp):
GGTAGGTGTGACATCTTCACCCATCTAATTTGACAATGCCCTCGTTGCCATCAC
Found at i:6879349 original size:44 final size:44
Alignment explanation
Indices: 6879231--6879349 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 44
6879221 ACTAGAGCCA
** *
6879231 ATCACAACACAATCAT-GGAAAATGGTGACC-TTCTCAATCCAC
1 ATCACAACACAATCATGGGAATGTGGAGACCTTTCTCAATCCAC
* ** * * * *
6879273 TTCACAATGCAGTCAAGAGAATGGGGAGACCTTTC-CAATCCAC
1 ATCACAACACAATCATGGGAATGTGGAGACCTTTCTCAATCCAC
6879316 ATCACAACAACAATCATGGGAATGTGGAGACCTT
1 ATCACAAC-ACAATCATGGGAATGTGGAGACCTT
6879350 CTGAATCTAT
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
42 11 0.19
43 23 0.40
44 23 0.40
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (44 bp):
ATCACAACACAATCATGGGAATGTGGAGACCTTTCTCAATCCAC
Found at i:6880531 original size:63 final size:64
Alignment explanation
Indices: 6880413--6880554 Score: 173
Period size: 63 Copynumber: 2.2 Consensus size: 64
6880403 TTACCCAGCT
* * *
6880413 TATTTACATTAAATA-CCATTTAAGTCAATGTCTTCATTTATACTTTTTTCCTTTTTCACTATC
1 TATTTACATAAAATATCCATTTAAGTCAATGTCCTCATTTATACTTTCTTCCTTTTTCACTATC
* * * *
6880476 TATTTACATAAAATATGCCATTTAAGT-AATGTCCTCATTTTTAC-TTCTTCTTTTTTTACTCTC
1 TATTTACATAAAATAT-CCATTTAAGTCAATGTCCTCATTTATACTTTCTTCCTTTTTCACTATC
* *
6880539 CATTTAAATAAAATAT
1 TATTTACATAAAATAT
6880555 TTAATGTCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 43 0.63
64 15 0.22
65 10 0.15
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.49
Consensus pattern (64 bp):
TATTTACATAAAATATCCATTTAAGTCAATGTCCTCATTTATACTTTCTTCCTTTTTCACTATC
Found at i:6887278 original size:44 final size:43
Alignment explanation
Indices: 6887166--6887282 Score: 143
Period size: 43 Copynumber: 2.7 Consensus size: 43
6887156 CTAGAGCCAA
* *
6887166 TCACAACACAATCA--CGAAAGTGGAGACCTTCTCAATGCACT
1 TCACAACACAATCATGGGAATGTGGAGACCTTCTCAATGCACT
*
6887207 TCACAACACAATCATGGGAATGTGGAGACTTTCTCAAT-C-CT
1 TCACAACACAATCATGGGAATGTGGAGACCTTCTCAATGCACT
*
6887248 AATCATAACACTAATCATGGGAATGTGGAGACCTT
1 --TCACAACAC-AATCATGGGAATGTGGAGACCTT
6887283 TTGAATCCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
41 16 0.24
42 1 0.02
43 27 0.41
44 22 0.33
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (43 bp):
TCACAACACAATCATGGGAATGTGGAGACCTTCTCAATGCACT
Found at i:6887454 original size:65 final size:64
Alignment explanation
Indices: 6887351--6887497 Score: 208
Period size: 65 Copynumber: 2.3 Consensus size: 64
6887341 TCTCAACTAA
* * * * *
6887351 TATCCATTTACATTA-A-ATACCATTTAAGTAAATTTCCTCATTTTTATTTTTTTCCTTTCTTAC
1 TATCCATTTACATAAGATATACCATTTAAGTAAATGTCCTCATTTTTACTTCTTTCCCTT-TTAC
6887414 TATCCATTTACATAAGATATACCATTTAAGTAAATGTCCTCATTTTTACTTCTTTCCCTTTTAC
1 TATCCATTTACATAAGATATACCATTTAAGTAAATGTCCTCATTTTTACTTCTTTCCCTTTTAC
* *
6887478 TCTCCATTTATATAAGATAT
1 TATCCATTTACATAAGATAT
6887498 TTAATGTAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
63 14 0.19
64 23 0.31
65 38 0.51
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.48
Consensus pattern (64 bp):
TATCCATTTACATAAGATATACCATTTAAGTAAATGTCCTCATTTTTACTTCTTTCCCTTTTAC
Found at i:6887566 original size:17 final size:17
Alignment explanation
Indices: 6887546--6887578 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6887536 ACAAAAATAT
6887546 AAAAAAAATCAAAATCC
1 AAAAAAAATCAAAATCC
6887563 AAAAAAAATCAAAATC
1 AAAAAAAATCAAAATC
6887579 TAGATTCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAAAATCAAAATCC
Found at i:6892369 original size:15 final size:15
Alignment explanation
Indices: 6892346--6892388 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
6892336 AATAATAAAA
6892346 TAACATAAAATAACT
1 TAACATAAAATAACT
*
6892361 TAA-ATTAAATGAACT
1 TAACATAAAAT-AACT
6892376 TAACATAAAATAA
1 TAACATAAAATAA
6892389 TAAATGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
15 12 0.50
16 6 0.25
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (15 bp):
TAACATAAAATAACT
Found at i:6893127 original size:137 final size:137
Alignment explanation
Indices: 6892870--6893146 Score: 410
Period size: 137 Copynumber: 2.0 Consensus size: 137
6892860 AAGACTACTT
* *
6892870 CTTTCTTTACCACAATAGAAGGATTGAGTTAAGGTAAGGTAAATATTAAAGCTAACCACCAAGGT
1 CTTTCTTTACCACAATAGAAGGATTGAGTTAAGGTAAGGTAAAAAATAAAGCTAACCACCAAGGT
* * * * * *
6892935 ACAAAATGTCACTAAGTCTTAGCCCATGAGGATACTCGCGCATAAGAGGGGAAAATCCACATTTT
66 ACAAAATGTCAATAAGTCTTAGCCCATGAGGATACTCACACATAAAAGAGAAAAATCCACATTTT
6893000 CTAAAGG
131 CTAAAGG
* *
6893007 CTTTCTTTACCATAATAGAAGGATTGAGTTAAGGTAAGGTAAAAAATAAAGCTAACCATCAAGGT
1 CTTTCTTTACCACAATAGAAGGATTGAGTTAAGGTAAGGTAAAAAATAAAGCTAACCACCAAGGT
* * * **
6893072 ACAAAATGTCAATGAGTCTTAGCCTATGTGGATACTCACATGTAAAAGAGAAAAATCCACATTTT
66 ACAAAATGTCAATAAGTCTTAGCCCATGAGGATACTCACACATAAAAGAGAAAAATCCACATTTT
*
6893137 CTCAAGG
131 CTAAAGG
6893144 CTT
1 CTT
6893147 GGCCCAATCT
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 124 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (137 bp):
CTTTCTTTACCACAATAGAAGGATTGAGTTAAGGTAAGGTAAAAAATAAAGCTAACCACCAAGGT
ACAAAATGTCAATAAGTCTTAGCCCATGAGGATACTCACACATAAAAGAGAAAAATCCACATTTT
CTAAAGG
Found at i:6895688 original size:21 final size:22
Alignment explanation
Indices: 6895653--6895696 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
6895643 CTCTTAAAGT
6895653 AATTTAAAATAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
*
6895675 AATTT-AAGTAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
6895696 A
1 A
6895697 TTAATCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (22 bp):
AATTTAAAATAAAATAACTTAA
Found at i:6898135 original size:16 final size:15
Alignment explanation
Indices: 6898114--6898151 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
6898104 CACTATACTC
6898114 TTTTTCTTCATCAAGG
1 TTTTTCTTCA-CAAGG
*
6898130 TTTTTC-TCACTAGG
1 TTTTTCTTCACAAGG
6898144 TTTTTCTT
1 TTTTTCTT
6898152 GATAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 10 0.50
15 4 0.20
16 6 0.30
ACGTcount: A:0.13, C:0.18, G:0.11, T:0.58
Consensus pattern (15 bp):
TTTTTCTTCACAAGG
Found at i:6902778 original size:26 final size:26
Alignment explanation
Indices: 6902740--6902790 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
6902730 CAACAGTATT
6902740 TTTTTTCAACATGGCATGTAACAACC
1 TTTTTTCAACATGGCATGTAACAACC
6902766 TTTTTT-AACCATGGCATGTAACAAC
1 TTTTTTCAA-CATGGCATGTAACAAC
6902791 AGTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (26 bp):
TTTTTTCAACATGGCATGTAACAACC
Found at i:6902879 original size:54 final size:54
Alignment explanation
Indices: 6902817--6902926 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
6902807 TGACAAGTAA
* * *
6902817 CAACCTAACCATAACGTATAACATGTTTGTGTACATGGCGTGTAACAACTTAAC
1 CAACCTAACCATAACGTATAACACGTTTGTGTACATGGCATGTAACAACCTAAC
** * * *
6902871 CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCATGTAACAACCTAAC
1 CAACCTAACCATAACGTATAACACGTTTGTGTACATGGCATGTAACAACCTAAC
6902925 CA
1 CA
6902927 TGGTGTCACA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (54 bp):
CAACCTAACCATAACGTATAACACGTTTGTGTACATGGCATGTAACAACCTAAC
Found at i:6903035 original size:88 final size:86
Alignment explanation
Indices: 6902871--6903060 Score: 308
Period size: 88 Copynumber: 2.2 Consensus size: 86
6902861 ACAACTTAAC
6902871 CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCATGTAACAACCTAACCATGGTGTCAC
1 CAACCTAACCAT-G-GTGTCACACGTTTTTGTACATGGCATGTAACAACCTAACCATGGTGTCAC
6902936 ACGTTTTTGTACATGGCGTGTAA
64 ACGTTTTTGTACATGGCGTGTAA
* *
6902959 CAACCTAACCATGGTGTCACACGTTTTTGTACATGGCGTGTAACAACTTAACCATGGCGTGTCAC
1 CAACCTAACCATGGTGTCACACGTTTTTGTACATGGCATGTAACAACCTAACCAT-G-GTGTCAC
*
6903024 ACGTTTTTGTACATGGTGTGTAA
64 ACGTTTTTGTACATGGCGTGTAA
*
6903047 CAACCTAAACATGG
1 CAACCTAACCATGG
6903061 CGTGTAACAT
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
86 40 0.42
87 2 0.02
88 54 0.56
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (86 bp):
CAACCTAACCATGGTGTCACACGTTTTTGTACATGGCATGTAACAACCTAACCATGGTGTCACAC
GTTTTTGTACATGGCGTGTAA
Found at i:6903036 original size:45 final size:45
Alignment explanation
Indices: 6902871--6903093 Score: 328
Period size: 43 Copynumber: 5.0 Consensus size: 45
6902861 ACAACTTAAC
*
6902871 CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCATGTAA
1 CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCGTGTAA
6902916 CAACCTAACCAT-G-GTGTCACACGTTTTTGTACATGGCGTGTAA
1 CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCGTGTAA
6902959 CAACCTAACCAT-G-GTGTCACACGTTTTTGTACATGGCGTGTAA
1 CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCGTGTAA
* *
6903002 CAACTTAACCATGGCGTGTCACACGTTTTTGTACATGGTGTGTAA
1 CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCGTGTAA
* * ** * * *
6903047 CAACCTAAACATGGCGTGTAACATATTTCTGTACATAGTGTGTAA
1 CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCGTGTAA
6903092 CA
1 CA
6903094 TCATAGTGTG
Statistics
Matches: 166, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
43 83 0.50
44 2 0.01
45 81 0.49
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
CAACCTAACCATGGCGTGTCACACGTTTTTGTACATGGCGTGTAA
Found at i:6906609 original size:30 final size:30
Alignment explanation
Indices: 6906573--6906647 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
6906563 TTCAACTTCT
*
6906573 TCTTCTTCATCTTTATCTCC-ATCCATGTCA
1 TCTTCTTCATCTTCATC-CCTATCCATGTCA
* *
6906603 TCTTCTTCATCTTCATCCCTTTGCATGTCA
1 TCTTCTTCATCTTCATCCCTATCCATGTCA
6906633 TCTTCTTCATCTTCA
1 TCTTCTTCATCTTCA
6906648 ATCAAGAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 2 0.05
30 39 0.95
ACGTcount: A:0.15, C:0.33, G:0.04, T:0.48
Consensus pattern (30 bp):
TCTTCTTCATCTTCATCCCTATCCATGTCA
Found at i:6915402 original size:120 final size:120
Alignment explanation
Indices: 6915189--6915425 Score: 429
Period size: 120 Copynumber: 2.0 Consensus size: 120
6915179 ACATTGCCAA
6915189 ATGTATCCATAAATTCTTGGTAGAATGAACTACATAAGGCATATAAGGGAAAATCTATTAATACA
1 ATGTATCCATAAATTCTTGGTAGAATGAACTACATAAGGCATATAAGGGAAAATCTATTAATACA
*
6915254 TTCCTCAATATATCAATACATTCATGGTAGGATGAACATTTATCGATACATTGGG
66 TTCCTCAATATATCAATACATTCATGGTAGGATGAACATCTATCGATACATTGGG
*
6915309 ATGTATCGATAAATTCTTGGTAGAATGAACTACATAAGGCATATAAGGGAAAATCTATTAATACA
1 ATGTATCCATAAATTCTTGGTAGAATGAACTACATAAGGCATATAAGGGAAAATCTATTAATACA
* * *
6915374 TTCCTCAATGTATCAATACATTTATGGTAGGATGAACATCTATTGATACATT
66 TTCCTCAATATATCAATACATTCATGGTAGGATGAACATCTATCGATACATT
6915426 ATCCCAATGT
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 112 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (120 bp):
ATGTATCCATAAATTCTTGGTAGAATGAACTACATAAGGCATATAAGGGAAAATCTATTAATACA
TTCCTCAATATATCAATACATTCATGGTAGGATGAACATCTATCGATACATTGGG
Found at i:6923505 original size:35 final size:35
Alignment explanation
Indices: 6923427--6923526 Score: 134
Period size: 34 Copynumber: 2.9 Consensus size: 35
6923417 AAGAAAACTT
* *
6923427 ATTGTTGAAGGTTGTGGCTGAGCTTTTG-AAAGCC
1 ATTGTTGAAGGTTGTGGCTGAGCCTTTGTAAAACC
* * *
6923461 ATTATTGAAGATTGTGGTTGAGCCTTTGTAAAACC
1 ATTGTTGAAGGTTGTGGCTGAGCCTTTGTAAAACC
6923496 ATTGTTGAAGGTTGTGGCTGAG-C-TTGTAAAA
1 ATTGTTGAAGGTTGTGGCTGAGCCTTTGTAAAA
6923527 AGTCATTGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
33 8 0.14
34 25 0.44
35 24 0.42
ACGTcount: A:0.25, C:0.10, G:0.29, T:0.36
Consensus pattern (35 bp):
ATTGTTGAAGGTTGTGGCTGAGCCTTTGTAAAACC
Found at i:6923534 original size:35 final size:34
Alignment explanation
Indices: 6923427--6923535 Score: 130
Period size: 35 Copynumber: 3.1 Consensus size: 34
6923417 AAGAAAACTT
* *
6923427 ATTGTTGAAGGTTGTGGCTGAGCTTTTGAAAGCC
1 ATTGTTGAAGGTTGTGGCTGAGCTTGTAAAAGCC
* * *
6923461 ATTATTGAAGATTGTGGTTGAGCCTTTGTAAAA-CC
1 ATTGTTGAAGGTTGTGGCTGAG-C-TTGTAAAAGCC
*
6923496 ATTGTTGAAGGTTGTGGCTGAGCTTGTAAAAAGTC
1 ATTGTTGAAGGTTGTGGCTGAGCTTGT-AAAAGCC
6923531 ATTGT
1 ATTGT
6923536 AAAAGCTTGG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
33 4 0.06
34 24 0.39
35 28 0.45
36 6 0.10
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.37
Consensus pattern (34 bp):
ATTGTTGAAGGTTGTGGCTGAGCTTGTAAAAGCC
Found at i:6924957 original size:32 final size:31
Alignment explanation
Indices: 6924895--6924969 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
6924885 ATAAATGTTC
*
6924895 TTATTTTTTAATTAATAAATTAATATAAAAA
1 TTATTTTTTATTTAATAAATTAATATAAAAA
* *
6924926 TATATTTTTTATTCTAATCAATTATTA-AAAAA
1 T-TATTTTTTATT-TAATAAATTAATATAAAAA
*
6924958 TTAGTTTTTATT
1 TTATTTTTTATT
6924970 ATTTTTTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 11 0.29
32 16 0.42
33 11 0.29
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (31 bp):
TTATTTTTTATTTAATAAATTAATATAAAAA
Found at i:6934882 original size:23 final size:23
Alignment explanation
Indices: 6934853--6934906 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
6934843 ATTTGAAGTT
* *
6934853 TGTGACACGCCATAGTGGGAATG
1 TGTGACACGACATAGTGAGAATG
*
6934876 TGTGACACGACATAGTTAGAATG
1 TGTGACACGACATAGTGAGAATG
6934899 TGTGACAC
1 TGTGACAC
6934907 CACTGTGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (23 bp):
TGTGACACGACATAGTGAGAATG
Found at i:6934913 original size:81 final size:81
Alignment explanation
Indices: 6934769--6934917 Score: 194
Period size: 81 Copynumber: 1.8 Consensus size: 81
6934759 AAGATTTAGC
* * * * * **
6934769 GTTTGTGATACGCCATGGTGGGAGTGTGTGACACGGCATGACGAGAATTTGTGACAAGGCTGTGA
1 GTTTGTGACACGCCATAGTGGGAATGTGTGACACGACATGACGAGAATGTGTGACAACACTGTGA
6934834 CATTGCAAGATTTGAA
66 CATTGCAAGATTTGAA
*
6934850 GTTTGTGACACGCCATAGTGGGAATGTGTGACACGACAT-A-GTTAGAATGTGTGACACCACTGT
1 GTTTGTGACACGCCATAGTGGGAATGTGTGACACGACATGACG--AGAATGTGTGACAACACTGT
6934913 GACAT
64 GACAT
6934918 GGTAGGGTTG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.02
80 1 0.02
81 56 0.97
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (81 bp):
GTTTGTGACACGCCATAGTGGGAATGTGTGACACGACATGACGAGAATGTGTGACAACACTGTGA
CATTGCAAGATTTGAA
Found at i:6934970 original size:23 final size:23
Alignment explanation
Indices: 6934926--6935001 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
6934916 ATGGTAGGGT
* * * *
6934926 TGTGATATGGCGTAGTGGGAATG
1 TGTGACATGGCATGGTGAGAATG
* *
6934949 TGTGACATGGCATGGTGTGAATA
1 TGTGACATGGCATGGTGAGAATG
6934972 TGT-A-ATGCAGCATGGTGAGAATG
1 TGTGACATG--GCATGGTGAGAATG
6934995 TGTGACA
1 TGTGACA
6935002 CAGATATGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.07
22 1 0.02
23 36 0.86
24 1 0.02
25 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.37, T:0.29
Consensus pattern (23 bp):
TGTGACATGGCATGGTGAGAATG
Found at i:6935061 original size:23 final size:23
Alignment explanation
Indices: 6935033--6935085 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
6935023 TGGAGTTTAC
* * **
6935033 GACACATCATGGTGGGAATGTGT
1 GACACAGCATGGTGAGAATAAGT
6935056 GACACAGCATGGTGAGAATAAGT
1 GACACAGCATGGTGAGAATAAGT
6935079 GACACAG
1 GACACAG
6935086 TTGTGACACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (23 bp):
GACACAGCATGGTGAGAATAAGT
Found at i:6935104 original size:81 final size:80
Alignment explanation
Indices: 6934979--6935156 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 80
6934969 ATATGTAATG
** * **
6934979 CAGCATGGTGAGAATGTGTGACACAGATATGACACAGTAGGGTTTGGAGTTTACGACACAT-CAT
1 CAGCATGGTGAGAATAAGTGACACAGATATGACACAGTAAGGTTTAAAGTTTACGA-A-ATGCAT
*
6935043 GGTGGGAATGTGTGACA
64 GGTGGAAATGTGTGACA
* * * *
6935060 CAGCATGGTGAGAATAAGTGACACAGTTGTGACAC-GATAAGGTTTAAAGTTTATGAAATGGCGT
1 CAGCATGGTGAGAATAAGTGACACAGATATGACACAG-TAAGGTTTAAAGTTTACGAAAT-GCAT
6935124 GGTGGAAATGTGTGACA
64 GGTGGAAATGTGTGACA
*
6935141 CAGTA-GAGTGAGAATA
1 CAGCATG-GTGAGAATA
6935157 TTTGACCCAT
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
79 2 0.02
80 3 0.04
81 77 0.94
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (80 bp):
CAGCATGGTGAGAATAAGTGACACAGATATGACACAGTAAGGTTTAAAGTTTACGAAATGCATGG
TGGAAATGTGTGACA
Found at i:6936259 original size:31 final size:31
Alignment explanation
Indices: 6936205--6936310 Score: 122
Period size: 31 Copynumber: 3.4 Consensus size: 31
6936195 CATGGGTTGG
* *
6936205 CGTGTTACCACATTTTACTTGGTCTGCATAA
1 CGTGTAACAACATTTTACTTGGTCTGCATAA
* * * * *
6936236 CGTATAACAATATTTTACATGGTCTACATAG
1 CGTGTAACAACATTTTACTTGGTCTGCATAA
* *
6936267 CGTGTAATAACATTTTACTTGGTATGCATAA
1 CGTGTAACAACATTTTACTTGGTCTGCATAA
*
6936298 TGTGTAACAACAT
1 CGTGTAACAACAT
6936311 ATACTTCTTT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (31 bp):
CGTGTAACAACATTTTACTTGGTCTGCATAA
Found at i:6941460 original size:28 final size:28
Alignment explanation
Indices: 6941418--6941489 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
6941408 ATTCTCAATG
*
6941418 AAAATTTCGTTGGAAATTCTTTTGAAAC
1 AAAATTCCGTTGGAAATTCTTTTGAAAC
**
6941446 GGAATTCCGTTGGAAATTCTTTTGAAAC
1 AAAATTCCGTTGGAAATTCTTTTGAAAC
*
6941474 AAAATTCCATTGGAAA
1 AAAATTCCGTTGGAAA
6941490 CACATTTCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (28 bp):
AAAATTCCGTTGGAAATTCTTTTGAAAC
Found at i:6973613 original size:8 final size:7
Alignment explanation
Indices: 6973599--6973640 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 7
6973589 TCTTTCCTCT
6973599 TTATGTA
1 TTATGTA
6973606 TGTATGTA
1 T-TATGTA
6973614 TGTATGTA
1 T-TATGTA
6973622 -TATGTA
1 TTATGTA
6973628 TTAT-TA
1 TTATGTA
6973634 TTATGTA
1 TTATGTA
6973641 GAAAAAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.38
7 6 0.19
8 14 0.44
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (7 bp):
TTATGTA
Found at i:6973617 original size:12 final size:11
Alignment explanation
Indices: 6973599--6973640 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 11
6973589 TCTTTCCTCT
6973599 TTATGTATGTA
1 TTATGTATGTA
6973610 TGTATGTATGTA
1 T-TATGTATGTA
6973622 -TATGTAT-TA
1 TTATGTATGTA
6973631 TTAT-TATGTA
1 TTATGTATGTA
6973641 GAAAAAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
9 5 0.18
10 12 0.43
11 1 0.04
12 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (11 bp):
TTATGTATGTA
Found at i:6982507 original size:17 final size:17
Alignment explanation
Indices: 6982469--6982510 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6982459 AAAAACTTAA
6982469 CCTTTTTATTTTAAATTT
1 CCTTTTT-TTTTAAATTT
* *
6982487 -CTTTTTTTTTCATTTT
1 CCTTTTTTTTTAAATTT
6982503 CCTTTTTT
1 CCTTTTTT
6982511 CTCCTTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (17 bp):
CCTTTTTTTTTAAATTT
Found at i:6986460 original size:22 final size:22
Alignment explanation
Indices: 6986432--6986478 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6986422 ACTTTCAAAA
6986432 TTTCATATGAAAAAATATAACT
1 TTTCATATGAAAAAATATAACT
* *
6986454 TTTCATATGAAGAGATATAACT
1 TTTCATATGAAAAAATATAACT
6986476 TTT
1 TTT
6986479 TATTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (22 bp):
TTTCATATGAAAAAATATAACT
Found at i:6990338 original size:76 final size:76
Alignment explanation
Indices: 6990251--6990956 Score: 585
Period size: 76 Copynumber: 9.3 Consensus size: 76
6990241 GTGTCATTGT
* * * * * ** * *
6990251 AAGATGCAAATGACCTCTAATAATTGGAGCGTGACATGTAACAATATAATATTTCAACGACATGA
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCCTATAATACTACAACGACATGA
*
6990316 TC-TGTCATCAC
66 -CATGTCACCAC
*
6990327 AAGATGTAAATGACATCTAACAATTTGAGCGT-G-AGTGCAACCCTATAATACTACAATC-ACAT
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCA-TGTAACCCTATAATACTACAA-CGACAT
*** *
6990389 GGTGTGTCACCAT
64 GACATGTCACCAC
* * * * * ** * *
6990402 AAGATATAAATGACATCTAACAATTCGAGTGTGGCATGTAACCTTATAATATTGTAACAACATGG
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCCTATAATACTACAACGACATGA
** *
6990467 TGTGTCATCAC
66 CATGTCACCAC
* * * * ** * *
6990478 AAGATGTAAACGACATCTAATAATTTGAGTGTGGCATGTAACCTTATAATACTGTAATGACATGG
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCCTATAATACTACAACGACATGA
*
6990543 CGTGTCACCAC
66 CATGTCACCAC
** * * * * * *
6990554 AAGATGTAAACAACATCTAACAATTAGAGCATGGCATGTAACTCTATAATATTGCAATGACATGA
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCCTATAATACTACAACGACATGA
* *
6990619 CATGTCAACAT
66 CATGTCACCAC
* * * ** * *
6990630 AAGATGTAAATGACATCTAACAATTTGAGTGTGGCGTATAACAATATAATACTACAATGACATGG
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCCTATAATACTACAACGACATGA
6990695 CATGTCACCAC
66 CATGTCACCAC
* * * * * * *
6990706 AAGATATAAATGACATTTAACAATTCGAGTGTGGCACGT-ACCCTTATAATACTACAATGACACG
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCC-TATAATACTACAACGACATG
*
6990770 ACGTGTCACCAC
65 ACATGTCACCAC
* * *** *
6990782 AAGATGTAAACGACATCTAATAATTTGAGCGTGGTGCGTAACTCTATAATACTACAACGACATGA
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCCTATAATACTACAACGACATGA
* *
6990847 CATGTCATCTC
66 CATGTCACCAC
* * * * * ** ** * *
6990858 AAGATGTAAACGACATTTAACAACTCGAGTGTGGTGTGTAACAATATAATACTACAACGATATGG
1 AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCCTATAATACTACAACGACATGA
* *
6990923 TATGTCACGAC
66 CATGTCACCAC
* *
6990934 ATGATGTCAATGACATCTAACAA
1 AAGATGTAAATGACATCTAACAA
6990957 GCAAAGCATG
Statistics
Matches: 519, Mismatches: 103, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
74 1 0.00
75 60 0.12
76 454 0.87
77 4 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (76 bp):
AAGATGTAAATGACATCTAACAATTTGAGCGTGGCATGTAACCCTATAATACTACAACGACATGA
CATGTCACCAC
Found at i:6990709 original size:228 final size:227
Alignment explanation
Indices: 6990251--6990953 Score: 777
Period size: 228 Copynumber: 3.1 Consensus size: 227
6990241 GTGTCATTGT
* * * * * ** * *
6990251 AAGATGCAAATGACCTCTAATAATTGGAGCGTGACATGTAACAATATAATA-TTTCAACGACATG
1 AAGATGTAAATGACATCTAATAATTCGAGTGTGGCATGTAACCTTATAATACTAT-AATGACATG
* * * *
6990315 ATC-TGTCATCACAAGATGTAAATGACATCTAACAATTTGAGCGT-GAGTGCAACCCTATAATAC
65 A-CGTGTCACCACAAGATGTAAACGACATCTAACAATTTGAGCGTGGA-TGTAACTCTATAATAC
* *** * * *
6990378 TACAATCACATGGTGTGTCACCATAAGATATAAATGACATCTAACAATTCGAGTGTGGCATGTAA
128 TACAATGACATGACATGTCAACATAAGATGTAAATGACATCTAACAATTCGAGTGTGGCGTGTAA
** * ** * * *
6990443 CCTTATAATATTGTAACAACATGGTGTGTCATCAC
193 CAATATAATACTACAACGACATGGTATGTCACCAC
* * * *
6990478 AAGATGTAAACGACATCTAATAATTTGAGTGTGGCATGTAACCTTATAATACTGTAATGACATGG
1 AAGATGTAAATGACATCTAATAATTCGAGTGTGGCATGTAACCTTATAATACTATAATGACATGA
* * * * *
6990543 CGTGTCACCACAAGATGTAAACAACATCTAACAATTAGAGCATGGCATGTAACTCTATAATATTG
66 CGTGTCACCACAAGATGTAAACGACATCTAACAATTTGAGCGTGG-ATGTAACTCTATAATACTA
* *
6990608 CAATGACATGACATGTCAACATAAGATGTAAATGACATCTAACAATTTGAGTGTGGCGTATAACA
130 CAATGACATGACATGTCAACATAAGATGTAAATGACATCTAACAATTCGAGTGTGGCGTGTAACA
* *
6990673 ATATAATACTACAATGACATGGCATGTCACCAC
195 ATATAATACTACAACGACATGGTATGTCACCAC
* * * * * * *
6990706 AAGATATAAATGACATTTAACAATTCGAGTGTGGCACGTACCCTTATAATACTACAATGACACGA
1 AAGATGTAAATGACATCTAATAATTCGAGTGTGGCATGTAACCTTATAATACTATAATGACATGA
*
6990771 CGTGTCACCACAAGATGTAAACGACATCTAATAATTTGAGCGTGG-TGCGTAACTCTATAATACT
66 CGTGTCACCACAAGATGTAAACGACATCTAACAATTTGAGCGTGGAT--GTAACTCTATAATACT
* * * * * *
6990835 ACAACGACATGACATGTCATC-TCAAGATGTAAACGACATTTAACAACTCGAGTGTGGTGTGTAA
129 ACAATGACATGACATGTCAACAT-AAGATGTAAATGACATCTAACAATTCGAGTGTGGCGTGTAA
* *
6990899 CAATATAATACTACAACGATATGGTATGTCACGAC
193 CAATATAATACTACAACGACATGGTATGTCACCAC
* *
6990934 ATGATGTCAATGACATCTAA
1 AAGATGTAAATGACATCTAA
6990954 CAAGCAAAGC
Statistics
Matches: 397, Mismatches: 72, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
226 2 0.01
227 88 0.22
228 306 0.77
229 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (227 bp):
AAGATGTAAATGACATCTAATAATTCGAGTGTGGCATGTAACCTTATAATACTATAATGACATGA
CGTGTCACCACAAGATGTAAACGACATCTAACAATTTGAGCGTGGATGTAACTCTATAATACTAC
AATGACATGACATGTCAACATAAGATGTAAATGACATCTAACAATTCGAGTGTGGCGTGTAACAA
TATAATACTACAACGACATGGTATGTCACCAC
Found at i:6994485 original size:26 final size:25
Alignment explanation
Indices: 6994446--6994511 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
6994436 TACATGACAT
* * *
6994446 GCCATGTTGAAAAAATTTTGTTACAC
1 GCCATGTTCAAAAAA-GTTATTACAC
* *
6994472 GCTATGTTCAAAAAAGTTATTACAT
1 GCCATGTTCAAAAAAGTTATTACAC
6994497 GCCATGTTCAAAAAA
1 GCCATGTTCAAAAAA
6994512 AAATGTTACA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 21 0.62
26 13 0.38
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (25 bp):
GCCATGTTCAAAAAAGTTATTACAC
Found at i:6994520 original size:26 final size:26
Alignment explanation
Indices: 6994446--6994527 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
6994436 TACATGACAT
* **
6994446 GCCATGTTGAAAAAATTTTGTTACAC
1 GCCATGTTCAAAAAAAATTGTTACAC
* * * *
6994472 GCTATGTTC-AAAAAAGTTATTACAT
1 GCCATGTTCAAAAAAAATTGTTACAC
*
6994497 GCCATGTTCAAAAAAAAATGTTACAC
1 GCCATGTTCAAAAAAAATTGTTACAC
6994523 GCCAT
1 GCCAT
6994528 ATACTAAAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 20 0.45
26 24 0.55
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (26 bp):
GCCATGTTCAAAAAAAATTGTTACAC
Found at i:7005278 original size:27 final size:27
Alignment explanation
Indices: 7005240--7005292 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
7005230 AATTAAAGTT
*
7005240 AATTATACATTAATAATATTTTAAAAA
1 AATTATAAATTAATAATATTTTAAAAA
*
7005267 AATTATAAATTATTAATATTTTAAAA
1 AATTATAAATTAATAATATTTTAAAA
7005293 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTATAAATTAATAATATTTTAAAAA
Found at i:7007619 original size:60 final size:60
Alignment explanation
Indices: 7007544--7007660 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 60
7007534 ACTCCACCAA
* **
7007544 CTCAAGAGATCAACATATCCTCTAATAAGATGAACATGCAACAAGA-AGATATTCCAACAT
1 CTCAAAAGATCAACATATCCTCTAATAAGATGAACACACAACAAGATA-ATATTCCAACAT
* * *
7007604 CTCAAAAGATCAACATATCTTTTAATAAGATGGACACACAACAAGATAATATTCCAA
1 CTCAAAAGATCAACATATCCTCTAATAAGATGAACACACAACAAGATAATATTCCAA
7007661 TCAAGTCACA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (60 bp):
CTCAAAAGATCAACATATCCTCTAATAAGATGAACACACAACAAGATAATATTCCAACAT
Found at i:7014899 original size:34 final size:34
Alignment explanation
Indices: 7014854--7014938 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
7014844 CGAAAACTCC
7014854 TACAATAGCTTTTTCACAAGA-CTAATCGAAACCCT
1 TACAAT-GCTTTTTCACAAGATC-AATCGAAACCCT
* *
7014889 TACAATGCTTTTTCATAGGATCAATCGAAACCCT
1 TACAATGCTTTTTCACAAGATCAATCGAAACCCT
*
7014923 AACAATGCTTTTTCAC
1 TACAATGCTTTTTCAC
7014939 GAGTTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
34 38 0.84
35 7 0.16
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (34 bp):
TACAATGCTTTTTCACAAGATCAATCGAAACCCT
Found at i:7015239 original size:20 final size:19
Alignment explanation
Indices: 7015214--7015251 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7015204 TTATTGTCTA
*
7015214 AGTGATCTTTGAATAGCTTG
1 AGTGATCCTTGAAT-GCTTG
7015234 AGTGATCCTTGAATGCTT
1 AGTGATCCTTGAATGCTT
7015252 TTAATATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (19 bp):
AGTGATCCTTGAATGCTTG
Found at i:7015806 original size:7 final size:7
Alignment explanation
Indices: 7015789--7015824 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
7015779 AATGAGAAGA
7015789 AGAAGAAG
1 AGAA-AAG
7015797 AGAAAAG
1 AGAAAAG
7015804 AGAAAAG
1 AGAAAAG
*
7015811 AAAAAAG
1 AGAAAAG
7015818 AGAAAAG
1 AGAAAAG
7015825 CCAAGCTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:7016095 original size:29 final size:29
Alignment explanation
Indices: 7016062--7016164 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
7016052 GTTACGCCTA
7016062 ATCCTTGAAAAGGCAAGAGGTTATGCTTG
1 ATCCTTGAAAAGGCAAGAGGTTATGCTTG
* * * **
7016091 ATCCTTGAAAAAGAAAAAGGTTACACTTG
1 ATCCTTGAAAAGGCAAGAGGTTATGCTTG
* * *
7016120 ATCCTTGAAAATGTAAGAGGCTATGCTTG
1 ATCCTTGAAAAGGCAAGAGGTTATGCTTG
* *
7016149 CTCTTATGAAAAGGCA
1 ATCCT-TGAAAAGGCA
7016165 TTGTATGGGT
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
29 50 0.86
30 8 0.14
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (29 bp):
ATCCTTGAAAAGGCAAGAGGTTATGCTTG
Found at i:7019872 original size:18 final size:18
Alignment explanation
Indices: 7019849--7019883 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7019839 ACTCCACCAA
* *
7019849 CTCAAGGGATTAACATAC
1 CTCAAGAGATCAACATAC
7019867 CTCAAGAGATCAACATA
1 CTCAAGAGATCAACATA
7019884 TCCTTTAATA
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:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (18 bp):
CTCAAGAGATCAACATAC
Found at i:7024663 original size:16 final size:16
Alignment explanation
Indices: 7024642--7024682 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
7024632 TTTCACACTC
*
7024642 TTTATTTCATTTTCCT
1 TTTATTTCATTCTCCT
*
7024658 TTTATTCCATTCTCCT
1 TTTATTTCATTCTCCT
7024674 TTTCATTTC
1 TTT-ATTTC
7024683 CCTTTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTATTTCATTCTCCT
Found at i:7024686 original size:28 final size:29
Alignment explanation
Indices: 7024644--7024707 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
7024634 TCACACTCTT
*
7024644 TATTTCATTTTCCTTTTATTCCATTCTCC
1 TATTTCATTTCCCTTTTATTCCATTCTCC
* *
7024673 T-TTTCATTTCCCTTTTATTCCTTTTTCC
1 TATTTCATTTCCCTTTTATTCCATTCTCC
7024701 TATTTCA
1 TATTTCA
7024708 CTTCGTGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (29 bp):
TATTTCATTTCCCTTTTATTCCATTCTCC
Found at i:7029619 original size:13 final size:13
Alignment explanation
Indices: 7029601--7029625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7029591 AATTGAGAGA
7029601 ACAACAAATAGAT
1 ACAACAAATAGAT
7029614 ACAACAAATAGA
1 ACAACAAATAGA
7029626 CCATTACAAA
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:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
ACAACAAATAGAT
Found at i:7040650 original size:18 final size:18
Alignment explanation
Indices: 7040607--7040653 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7040597 CTCCACTTCT
7040607 TCTTCTTCTTCTTCGTAA
1 TCTTCTTCTTCTTCGTAA
** **
7040625 TCCACTTCTTCTTCGTTC
1 TCTTCTTCTTCTTCGTAA
7040643 TCTTCTTCTTC
1 TCTTCTTCTTC
7040654 ATCGGAGATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.06, C:0.34, G:0.04, T:0.55
Consensus pattern (18 bp):
TCTTCTTCTTCTTCGTAA
Found at i:7040984 original size:2 final size:2
Alignment explanation
Indices: 7040977--7041002 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7040967 GCACGGCAGC
7040977 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
7041003 GACGTGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7060836 original size:96 final size:96
Alignment explanation
Indices: 7060672--7061048 Score: 343
Period size: 96 Copynumber: 3.9 Consensus size: 96
7060662 TATGAGTTTG
* * * * *
7060672 AAGTGTGAAATTGAAAAGTTGAAAGGATTATTGGAGTATGCTAAAAATAATCAAAAGCTAAAAGA
1 AAGTGTGAAATTGAAAAATTGAAAGAATTATTGAAGTATGATAAAAATAAACAAAAGCTAAAAGA
7060737 AAAAGAGAAACAACAGGAGTAT-AAGAGCTTC
66 AAAAGAGAAACAACAGGAGTATGAA-AGCTTC
* * * *
7060768 AAGTGTGAAATTGAAAAATT-AAAGAAATTATTGAATTATGATAGAAATAAACAAAGGCTGAAAG
1 AAGTGTGAAATTGAAAAATTGAAAG-AATTATTGAAGTATGATAAAAATAAACAAAAGCTAAAAG
* * *
7060832 AAAAAGAGAAACAATAGGAGTATGAAAGTTTG
65 AAAAAGAGAAACAACAGGAGTATGAAAGCTTC
* * * * * * * *
7060864 AAGTGTGAAATAGAAAAGTTGGAGAGAA-TATTGGAGTATGATAAAAATAATCCAAAGTTAAAGG
1 AAGTGTGAAATTGAAAAATT-GAAAGAATTATTGAAGTATGATAAAAATAAACAAAAGCTAAAAG
* * * * * * * *
7060928 AAAAATAGAAGCAAAAGAAATAT-ATGAGTTTG
65 AAAAAGAGAAACAACAGGAGTATGA-AAGCTTC
** * * **
7060960 AAGTGTGAAATTGAAAGGTTGAAAGGATTATT-ATAGTATGATAAAAATAATCAAAAATTAAAAG
1 AAGTGTGAAATTGAAAAATTGAAAGAATTATTGA-AGTATGATAAAAATAAACAAAAGCTAAAAG
*
7061024 AAATAGAGAAACAA-ATGGAGTATGA
65 AAAAAGAGAAACAACA-GGAGTATGA
7061049 GGTTATTGTT
Statistics
Matches: 229, Mismatches: 43, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
95 11 0.05
96 210 0.92
97 5 0.02
98 3 0.01
ACGTcount: A:0.52, C:0.04, G:0.21, T:0.23
Consensus pattern (96 bp):
AAGTGTGAAATTGAAAAATTGAAAGAATTATTGAAGTATGATAAAAATAAACAAAAGCTAAAAGA
AAAAGAGAAACAACAGGAGTATGAAAGCTTC
Found at i:7061002 original size:192 final size:192
Alignment explanation
Indices: 7060666--7061048 Score: 468
Period size: 192 Copynumber: 2.0 Consensus size: 192
7060656 TGAAATTATG
* * *
7060666 AGTTTGAAGTGTGAAATTGAAAAGTTGAAAGGATTATTGGAGTATGCTAAAAATAATCAAAAGCT
1 AGTTTGAAGTGTGAAATAGAAAAGTTGAAAGGAATATTGGAGTATGATAAAAATAATCAAAAGCT
* * *
7060731 AAAAGAAAAAGAGAAACAACAGGAGTATAAGAGCTTCAAGTGTGAAATTGAAAAATTAAAGAAAT
66 AAAAGAAAAAGAGAAACAAAAGAAATATAAGAGCTTCAAGTGTGAAATTGAAAAATTAAAGAAAT
* * ** *
7060796 TATTGAATTATGATAGAAATAAACAAAGGCTGAAAGAAAAAGAGAAAC-AATAGGAGTATGAA
131 TATTGAAGTATGATAAAAATAAACAAAAACTAAAAGAAAAAGAGAAACAAAT-GGAGTATGAA
* * *
7060858 AGTTTGAAGTGTGAAATAGAAAAGTTG-GAGAGAATATTGGAGTATGATAAAAATAATCCAAAGT
1 AGTTTGAAGTGTGAAATAGAAAAGTTGAAAG-GAATATTGGAGTATGATAAAAATAATCAAAAGC
* * * * * * ** *
7060922 TAAAGGAAAAATAGAAGCAAAAGAAATATATGAGTTTGAAGTGTGAAATTGAAAGGTTGAAAG-G
65 TAAAAGAAAAAGAGAAACAAAAGAAATATAAGAGCTTCAAGTGTGAAATTGAAAAATT-AAAGAA
* * *
7060986 ATTATT-ATAGTATGATAAAAATAATCAAAAATTAAAAGAAATAGAGAAACAAATGGAGTATGA
129 ATTATTGA-AGTATGATAAAAATAAACAAAAACTAAAAGAAAAAGAGAAACAAATGGAGTATGA
7061049 GGTTATTGTT
Statistics
Matches: 161, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
191 3 0.02
192 151 0.94
193 7 0.04
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.23
Consensus pattern (192 bp):
AGTTTGAAGTGTGAAATAGAAAAGTTGAAAGGAATATTGGAGTATGATAAAAATAATCAAAAGCT
AAAAGAAAAAGAGAAACAAAAGAAATATAAGAGCTTCAAGTGTGAAATTGAAAAATTAAAGAAAT
TATTGAAGTATGATAAAAATAAACAAAAACTAAAAGAAAAAGAGAAACAAATGGAGTATGAA
Found at i:7062932 original size:20 final size:20
Alignment explanation
Indices: 7062907--7062960 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
7062897 CCAAAGATAA
7062907 ATCTATCGATAGATCACATT
1 ATCTATCGATAGATCACATT
* * *
7062927 ATCTATCAATAGATTATATT
1 ATCTATCGATAGATCACATT
7062947 ATCTATCGATAGAT
1 ATCTATCGATAGAT
7062961 AAATAGCGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCTATCGATAGATCACATT
Found at i:7071600 original size:251 final size:252
Alignment explanation
Indices: 7070461--7073289 Score: 2237
Period size: 251 Copynumber: 11.2 Consensus size: 252
7070451 ATTTAATATC
* * * ** ** *
7070461 GTAAGAATTAAT-TTAAACGATTATAAAAGT-GAAAAAAAATTAACAAAATATTAACTTAAATGT
1 GTAAGAATTAATGTAAAAC-ATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGT
* * * * * *
7070524 GTCAGATTTAACGTAACAAGTTAATTATGTAAAATAAACATAACTTTT-AGGGAAATTAAACATT
65 GTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGA-AGAAATTAAACATT
* * * * * ** *
7070588 TAAATTTTTATTTTCAATTTTAAAGTGTTTTATGGCTTACAACTTTTAATCTATAAATGAATAAT
129 TAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATAAATAAT
* * * * ** * * *
7070653 TGTAAGGAT-AAAATAATTATAGT-ATTAA-TTAGTACTTGAAAAGTCTTCACG-TAAAATA
194 AGTAAGGATAAAAAGAATTATGGTGA--AATTTAGTAGTTGAAAAACCTT-AAGATAAAGTG
* * ** *
7070711 GTAAGAATTAATGTAAAACATTATAAAAGTGAAACAAAG-ATTAACAAAATATTAACATAAATGT
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAAC-AAGCATTGTCAAAATATTAACGTAAATGT
* * *
7070775 GTAAGATTTAACATAACAAGTCAATTATGTCAAATAAATATAATTTTTG-AGATAATTAAATATT
65 GTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGA-AATTAAACATT
* * ** *
7070839 TAAAATTTTA-TCTCTAGTTTAAAGTGTTTTACAACTTACAAA-TTTAATCTATGCGA-GAATAA
129 TAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGC-ATAAATAA
* * * * * * *
7070901 TAGTAAGGATACAAAGAATTAT-GTCAAAAATTAGTAATTGAAAAGTA-GTGACG-TAAAGCT-
193 TAGTAAGGATAAAAAGAATTATGGT-GAAATTTAGTAGTTGAAAA--ACCTTAAGATAAAG-TG
* * * * * ** *
7070961 ATAAGAATTAATGCAAAACATTATAAATGTGGAACAAGAATTTTCAAAATATTAATATAAAGGTG
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGTG
* * * * * *
7071026 CGACATTTAACGTAACAAGTCAACTATGTCAAATAAACATAATTTTTGAGGAAATTAAA-ACTTA
66 TGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGAAATTAAACA-TTT
* * * * * *
7071090 AAATTGTTATTCTCAAGTTTAAAATGTTTTA-TGATTGACAAATTTTAATCTATGCACAAATAAT
130 AAATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTT-ACAAATTTTAATCTATGCATAAATAAT
* * * * * ***
7071154 AGTAAAGG-TAAAAAGAATCATGGTGAAATTTAATAGTTGAAAAACTTTGACATAAAAAC
194 AGT-AAGGATAAAAAGAATTATGGTGAAATTTAGTAGTTGAAAAACCTTAAGATAAAGTG
* * * *
7071213 GTAAGAATTAATATAAAACATTATAAAGG-GGAA-ATAACTATTGACAAAATATTGACGTAAATG
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAACA-AGC-ATTGTCAAAATATTAACGTAAATG
* * ** * * *
7071276 TGTGAGGTTTCATGTAACAAATCAATTAGGTCAAATAAACATAATTTTTGAAAAAATTAAACATT
64 TGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGAAATTAAACATT
* ** * **
7071341 TAAATTTTTATTCTCAAGTTTAAAGTGTTTTACAACTTATAAATTTTAATCTATGTGTAAATAAT
129 TAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATAAATAAT
* * *
7071406 AGTAAAGATAACAAGAATTATGGTGAAATTTAGTAGTTG-AAAGCCTTAAGATAAAGTG
194 AGTAAGGATAAAAAGAATTATGGTGAAATTTAGTAGTTGAAAAACCTTAAGATAAAGTG
* * * *
7071464 GTAAGAATTAATGTAAAATATTATAAAGATGGAACTAGCATTGTCAAAATATTGACGTAAATGTG
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGTG
* * * * * * * * * *
7071529 TCAGTTTTAACGTAATAAGTCAATTACGTTAAATAAACATAATTTTTGAGGAAATTGAATATTTG
66 TGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGAAATTAAACATTTA
* * *
7071594 AATTTTTATTCTCGAGTTTAAAGAGTTTTACGGCTAACAAATTTTAATCTATGCATGAATAATAG
131 AATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATAAATAATAG
* * * ** * ** * * * *
7071659 CAAGGATATAAAGAAATATGGT-AAAAGTAGCAGTTGAAAAGTCGTGACATAAAACT-
196 TAAGGATAAAAAGAATTATGGTGAAATTTAGTAGTTGAAAAACCTTAAGAT-AAAGTG
* * * * ** *
7071715 GTAAGAATTAACGTAAAACATTATAAAGGTAGAATAAGCATAGTCAAAATATTAATATAAATATG
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGTG
* * * *
7071780 TAAGATTTAACATAAAAAGTCAATGATGTCAAATAAATATAATTTTTG-AGAAAATTAAACATTT
66 TGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAG-AAATTAAACATTT
* * * * * * * *
7071844 AACTTTTTATTCTTGAGTTT-AACTAGTTTTATGGCTGACAAATTTTAATTTATG-ACTGAATCA
130 AAATTTTTATTCTCGAGTTTAAAGT-GTTTTACGGCTTACAAATTTTAATCTATGCA-TAAATAA
* * * * *** * *
7071907 TAGTAAGGATAAAAAGAATTATGGTCAAATTTACTAATTAAAAAACCTTGTTATAAAATT
193 TAGTAAGGATAAAAAGAATTATGGTGAAATTTAGTAGTTGAAAAACCTTAAGATAAAGTG
* * * * * * * * ** *
7071967 GTAAGAATTAGTGTAAAACATTGTAAAGATAGAACAGGTACTGTCGAAGCATTAACGTAAATGTA
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGTG
* *** * * * *
7072032 TGGGATTTAGTTTAACAAGTCAGTTATGTTAAATAAATATAATTTTT-AAAAAATTTAAACATTT
66 TGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGAAA-TTAAACATTT
* * * * * * *
7072096 AAATTTTTGTTTTTGAGTTTAAAGTGTTTAACAGCTTACAAATTTTAATCTTTGCATTAATAATA
130 AAATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATAAATAATA
* * ** **
7072161 ATAAGGATAAAAATAAATTATGGTGAAATTTAGTAGTTGAAAAACCTGGATTTAAAGTG
195 GTAAGGATAAAAA-GAATTATGGTGAAATTTAGTAGTTGAAAAACCTTAAGATAAAGTG
* * * * * * *
7072220 GTAAGAATTAATATAAAACATTATAACGATGAAAGAAGCATTATTAAAATATTAACGTAAATGTG
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGTG
* * * * * * *
7072285 TGAGATTTAGCGTAACAAGTCAAGTATATCAAATAAACATAATTTTTTTAAAAAATTAAATATTT
66 TGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAA-TTTTTGAAGAAATTAAACATTT
* * *
7072350 AAATTTTTATTCGT-GAGTTTAAAGTGTTTTACTGCTAACAGATTTTAATCTATGCA-AGAATAA
130 AAATTTTTATTC-TCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATA-AATAA
* * * * *
7072413 TAGTAAGGACATAAAGAATTATGTTGAAATTTAGTAATTG-AAAACCTT-TGATGTAAAGTG
193 TAGTAAGGATAAAAAGAATTATGGTGAAATTTAGTAGTTGAAAAACCTTAAGA--TAAAGTG
* * * * * * * ** *
7072473 ATAAGAATTCACGTAAAACGTTATAAAGGTGGAACAAGTATTGTTAAAATATTGATATAAATGTA
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGTG
* * * *
7072538 TAAGATTTAACATAACAAGTCAATTA--T---ATCAA-ATAATTTTTGAAAAAATTAAACATTTG
66 TGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGAAATTAAACATTTA
* * *
7072597 AAGTTTTATTCTTGAGTTTAAAGTGTTTTACGG-TTGACAAATTTTAATCTATTCATGAATAATA
131 AATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTT-ACAAATTTTAATCTATGCAT--A-AATA
* * * * * * * * * **
7072661 ATAATATAAGGATAAAAAGAATTATGATGAAAATTATTGGTTGAAAAGTCATGACG-TAAAGCC
192 AT-A-GTAAGGATAAAAAGAATTATGGTGAAATTTAGTAGTTGAAAA-ACCTTAAGATAAAGTG
* ** ** * * * *
7072724 ATAAGAATTAAAATAAAATGTTATAAGGGTCGAACAAAG-ATTGTCAAAGTATTGACGTAAATGT
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAAC-AAGCATTGTCAAAATATTAACGTAAATGT
* ** *
7072788 ATGAGATTTAACATAGTAAGTCAATTATGTCAAATCAACATAATTTTTGAAGAAATTAAACATTT
65 GTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGAAATTAAACATTT
* * * **
7072853 AAATTGTTATTCTCAATTTTAAAGTGTTTTACAACTTACAAATTTTAATCTATGCATAAATAAT-
130 AAATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATAAATAATA
* * * * * *
7072917 GATAAGGATAAAAACAATTATAGTGAAAATTAATTA-TTGAAAAACCTTGACG-TAAAGCG
195 G-TAAGGATAAAAAGAATTATGGTG-AAATTTAGTAGTTGAAAAACCTT-AAGATAAAGTG
* * * * * ** * *
7072976 ATAGGAATTAGCT-TAAAACATTATAAAGGTGAAACAAGCATTTTCAAAACGTTGACATAAATGT
1 GTAAGAATTA-ATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGT
* * * * *
7073040 GTGAGATTTAATATAATGAA-TCAATGATGTCTAATAAACATAATTTTT-AGAGGAATTAAACAT
65 GTGAGATTTAACATAA-CAAGTCAATTATGTCAAATAAACATAATTTTTGA-AGAAATTAAACAT
* * * * * * **
7073103 TTGAATTGTTATTCTCGAGTTTAAGGTATTTTACGACTTACACATTTTAATCTATAAATAAATAA
128 TTAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATAAATAA
* * ** * * * * *
7073168 TAGTAAGAATACAAAGAATTACAGTGAAA-TTAGAAGTAGAAAAACCTTGACATAAAACT-
193 TAGTAAGGATAAAAAGAATTATGGTGAAATTTAGTAGTTGAAAAACCTTAAGAT-AAAGTG
* * * * * *
7073227 GTAAGAATTAATATAAAACATTATAAGGGTTGAACAAGCATTGTAAAAATATTGATGTAAATG
1 GTAAGAATTAATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATG
7073290 CATGAGACTT
Statistics
Matches: 2077, Mismatches: 422, Indels: 159
0.78 0.16 0.06
Matches are distributed among these distances:
245 2 0.00
246 66 0.03
247 4 0.00
248 4 0.00
249 40 0.02
250 215 0.10
251 691 0.33
252 640 0.31
253 245 0.12
254 85 0.04
255 8 0.00
256 5 0.00
257 70 0.03
258 2 0.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (252 bp):
GTAAGAATTAATGTAAAACATTATAAAGGTGGAACAAGCATTGTCAAAATATTAACGTAAATGTG
TGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGAAATTAAACATTTA
AATTTTTATTCTCGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGCATAAATAATAG
TAAGGATAAAAAGAATTATGGTGAAATTTAGTAGTTGAAAAACCTTAAGATAAAGTG
Found at i:7073253 original size:503 final size:499
Alignment explanation
Indices: 7070504--7073289 Score: 2348
Period size: 503 Copynumber: 5.5 Consensus size: 499
7070494 AAAAAATTAA
* * * * * * *
7070504 CAAAATATTAACTTAAATGTGTCAGATTTAACGTAACAAGTTAATTATGTAAAATAAACATAACT
1 CAAAATATTGACATAAATGTGTGAGATTTAACATAACAAGTCAA-TATGT-TAATAAACATAATT
* * * * * *
7070569 TTT-AGGGAAATTAAACATTTAAATTTTTATTTTCAATTTTAAAGTGTTTTATGGCTTACAACTT
64 TTTGA-GGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGACTTACAAATT
* * * * * *
7070633 TTAATCTATAAATGAATAATTGTAAGGAT-AAAATAATTATAGT-ATTAATTAGTACTTGAAAAG
128 TTAATCTATAAATAAATAATAGTAAGGATAAAAAGAATTATGGTGA--AATTAGTAGTTGAAAAA
* * * * ** **
7070696 TCTTCACGTAAAA-TAGTAAGAATTAATGTAAAACATTATAAAAGTGAAACAAAG-ATTAACAAA
191 CCTTGACATAAAACT-GTAAGAATTAATATAAAACATTATAAGGGTG-AA-AAAGCATTGTCAAA
* * *
7070759 ATATTAACATAAATGTGTAAGATTTAACATAACAAGTCAATTATGTCAAATAAATATAATTTTTG
253 ATATTAACGTAAATGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTG
* * *
7070824 -AGATAATTAAATATTTAAAATTTTA-TCTCTAGTTTAAAGTGTTTTACAACTTACAAA-TTTAA
318 AAGA-AATTAAACATTTAAATTTTTATTCTCAAGTTTAAAGTGTTTTACAACTTACAAATTTTAA
* * * * ****
7070886 TCTATGCGA-GAATAATAGTAAGGATACAAAGAATTATGTCAAAAATTAGTAATTGAAAAGTAGT
382 TCTATGC-ATAAATAATAGTAAGGATAAAAAGAATTATGT-GAAAATTAATAATTGAAAAACCTT
* *
7070950 GACGTAAAGCT-ATAAGAATTAATGC--AAAACATTATAAATGTGGAACAAGAATTTT
445 GACGTAAAG-TGATAAGAATT-A-GCTTAAAACATTATAAAGGTGGAACAAGCATTTT
* * * * * * *
7071005 CAAAATATTAATATAAAGGTGCGACATTTAACGTAACAAGTCAACTATGTCAAATAAACATAATT
1 CAAAATATTGACATAAATGTGTGAGATTTAACATAACAAGTCAA-TATGT-TAATAAACATAATT
* * * * *
7071070 TTTGAGGAAATTAAA-ACTTAAAATTGTTATTCTCAAGTTTAAAATGTTTTATGA-TTGACAAAT
64 TTTGAGGAAATTAAACA-TTTAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGACTT-ACAAAT
** * * *
7071133 TTTAATCTATGCACAAATAATAGTAAAGG-TAAAAAGAATCATGGTGAAATTTAATAGTTGAAAA
127 TTTAATCTATAAATAAATAATAGT-AAGGATAAAAAGAATTATGGTGAAA-TTAGTAGTTGAAAA
* *
7071197 ACTTTGACATAAAAAC-GTAAGAATTAATATAAAACATTATAAAGGG-GAAATAA-CTATTGACA
190 ACCTTGACAT-AAAACTGTAAGAATTAATATAAAACATTAT-AAGGGTGAAA-AAGC-ATTGTCA
* * * ** * *
7071259 AAATATTGACGTAAATGTGTGAGGTTTCATGTAACAAATCAATTAGGTCAAATAAACATAATTTT
251 AAATATTAACGTAAATGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTT
* *
7071324 TGAAAAAATTAAACATTTAAATTTTTATTCTCAAGTTTAAAGTGTTTTACAACTTATAAATTTTA
316 TGAAGAAATTAAACATTTAAATTTTTATTCTCAAGTTTAAAGTGTTTTACAACTTACAAATTTTA
** * * * * * *
7071389 ATCTATGTGTAAATAATAGTAAAGATAACAAGAATTATGGTGAAATTTAGTAGTTG-AAAGCCTT
381 ATCTATGCATAAATAATAGTAAGGATAAAAAGAATTAT-GTGAAAATTAATAATTGAAAAACCTT
* * * * * * *
7071453 -AAGATAAAGTGGTAAGAATTA-ATGTAAAATATTATAAAGATGGAACTAGCATTGT
445 GACG-TAAAGTGATAAGAATTAGCT-TAAAACATTATAAAGGTGGAACAAGCATTTT
* * * * * *
7071508 CAAAATATTGACGTAAATGTGTCAGTTTTAACGTAATAAGTCAATTACGTTAAATAAACATAATT
1 CAAAATATTGACATAAATGTGTGAGATTTAACATAACAAGTCAA-TATGTT-AATAAACATAATT
* * * * * *
7071573 TTTGAGGAAATTGAATATTTGAATTTTTATTCTCGAGTTTAAAGAGTTTTACGGCTAACAAATTT
64 TTTGAGGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGACTTACAAATTT
** * * * * * * * ** *
7071638 TAATCTATGCATGAATAATAGCAAGGATATAAAGAAATATGGTAAAAGTAGCAGTTGAAAAGTCG
129 TAATCTATAAATAAATAATAGTAAGGATAAAAAGAATTATGGTGAAATTAGTAGTTGAAAAACCT
** * * *
7071703 TGACATAAAACTGTAAGAATTAACGTAAAACATTATAAAGGTAGAATAAGCATAGTCAAAATATT
194 TGACATAAAACTGTAAGAATTAATATAAAACATTATAAGGGT-GAAAAAGCATTGTCAAAATATT
** * * * * *
7071768 AATATAAATATGTAAGATTTAACATAAAAAGTCAATGATGTCAAATAAATATAATTTTTG-AGAA
258 AACGTAAATGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAG-A
* ** * *** * *
7071832 AATTAAACATTTAACTTTTTATTCTTGAGTTT-AACTAGTTTTATGGCTGACAAATTTTAATTTA
322 AATTAAACATTTAAATTTTTATTCTCAAGTTTAAAGT-GTTTTACAACTTACAAATTTTAATCTA
* * * * * * ***
7071896 TG-ACTGAATCATAGTAAGGATAAAAAGAATTATGGTCAAATTTACTAATTAAAAAACCTTGTTA
386 TGCA-TAAATAATAGTAAGGATAAAAAGAATTAT-GTGAAAATTAATAATTGAAAAACCTTGACG
* * * * * * * *
7071960 TAAAATTG-TAAGAATTAG-TGTAAAACATTGTAAAGATAGAACAGGTACTGT
449 T-AAAGTGATAAGAATTAGCT-TAAAACATTATAAAGGTGGAACAAGCATTTT
* ** * * * * *** * *
7072011 CGAAGCATTAACGTAAATGTATGGGATTTAGTTTAACAAGTCAGTTATGTTAAATAAATATAATT
1 CAAAATATTGACATAAATGTGTGAGATTTAACATAACAAGTCA-ATATGTT-AATAAACATAATT
** * * * *
7072076 TTT-AAAAAATTTAAACATTTAAATTTTTGTTTTTGAGTTTAAAGTGTTTAAC-AGCTTACAAAT
64 TTTGAGGAAA-TTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGA-CTTACAAAT
* ** * * *
7072139 TTTAATCTTTGCATTAATAATAATAAGGATAAAAATAAATTATGGTGAAATTTAGTAGTTGAAAA
127 TTTAATCTATAAATAAATAATAGTAAGGATAAAAA-GAATTATGGTGAAA-TTAGTAGTTGAAAA
* * * * * * * *
7072204 ACCTGGA-TTTAAAGTGGTAAGAATTAATATAAAACATTATAACGATGAAAGAAGCATTATTAAA
190 ACCTTGACATAAAACT-GTAAGAATTAATATAAAACATTATAAGGGTGAAA-AAGCATTGTCAAA
* * * *
7072268 ATATTAACGTAAATGTGTGAGATTTAGCGTAACAAGTCAAGTATATCAAATAAACATAATTTTTT
253 ATATTAACGTAAATGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAA-TTTTT
* * * * ** * *
7072333 TAAAAAATTAAATATTTAAATTTTTATTCGT-GAGTTTAAAGTGTTTTACTGCTAACAGATTTTA
317 GAAGAAATTAAACATTTAAATTTTTATTC-TCAAGTTTAAAGTGTTTTACAACTTACAAATTTTA
* * * *
7072397 ATCTATGCA-AGAATAATAGTAAGGACATAAAGAATTATGTTGAAATTTAGTAATTG-AAAACCT
381 ATCTATGCATA-AATAATAGTAAGGATAAAAAGAATTATG-TGAAAATTAATAATTGAAAAACC-
* * * *
7072460 TTGATGTAAAGTGATAAGAATTCA-CGTAAAACGTTATAAAGGTGGAACAAGTATTGTT
443 TTGACGTAAAGTGATAAGAATT-AGCTTAAAACATTATAAAGGTGGAACAAGCATT-TT
* * * * *
7072518 -AAAATATTGATATAAATGTATAAGATTTAACATAACAAGTCAAT-T-AT-ATCAA-ATAATTTT
1 CAAAATATTGACATAAATGTGTGAGATTTAACATAACAAGTCAATATGTTAATAAACATAATTTT
** * * * *
7072578 TGAAAAAATTAAACATTTGAAGTTTTATTCTTGAGTTTAAAGTGTTTTACG-GTTGACAAATTTT
66 TGAGGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGACTT-ACAAATTTT
* * *
7072642 AATCTATTCATGAATAATAATAATA-TAAGGATAAAAAGAATTATGATGAAAATTATTGGTTGAA
130 AATCTA-T-A--AAT-A-AATAATAGTAAGGATAAAAAGAATTATGGTG-AAATTAGTAGTTGAA
** * * * ** * **
7072706 AAGTCATGACGTAAAGCCATAAGAATTAAAATAAAATGTTATAAGGGTCGAACAAAG-ATTGTCA
188 AAACCTTGACATAAAACTGTAAGAATTAATATAAAACATTATAAGGGT-GAA-AAAGCATTGTCA
* * * ** *
7072770 AAGTATTGACGTAAATGTATGAGATTTAACATAGTAAGTCAATTATGTCAAATCAACATAATTTT
251 AAATATTAACGTAAATGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTT
* *
7072835 TGAAGAAATTAAACATTTAAATTGTTATTCTCAATTTTAAAGTGTTTTACAACTTACAAATTTTA
316 TGAAGAAATTAAACATTTAAATTTTTATTCTCAAGTTTAAAGTGTTTTACAACTTACAAATTTTA
* *
7072900 ATCTATGCATAAATAAT-GATAAGGATAAAAACAATTATAGTGAAAATTAATTATTGAAAAACCT
381 ATCTATGCATAAATAATAG-TAAGGATAAAAAGAATTAT-GTGAAAATTAATAATTGAAAAACCT
* * *
7072964 TGACGTAAAGCGATAGGAATTAGCTTAAAACATTATAAAGGTGAAACAAGCATTTT
444 TGACGTAAAGTGATAAGAATTAGCTTAAAACATTATAAAGGTGGAACAAGCATTTT
** * *
7073020 CAAAACGTTGACATAAATGTGTGAGATTTAATATAATGAA-TCAATGATGTCTAATAAACATAAT
1 CAAAATATTGACATAAATGTGTGAGATTTAACATAA-CAAGTCAAT-ATGT-TAATAAACATAAT
* * * * *
7073084 TTTTAGAGG-AATTAAACATTTGAATTGTTATTCTCGAGTTTAAGGTATTTTACGACTTACACAT
63 TTTT-GAGGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGACTTACAAAT
* * ** * *
7073148 TTTAATCTATAAATAAATAATAGTAAGAATACAAAGAATTACAGTGAAATTAGAAGTAGAAAAAC
127 TTTAATCTATAAATAAATAATAGTAAGGATAAAAAGAATTATGGTGAAATTAGTAGTTGAAAAAC
* *
7073213 CTTGACATAAAACTGTAAGAATTAATATAAAACATTATAAGGGTTGAACAAGCATTGTAAAAATA
192 CTTGACATAAAACTGTAAGAATTAATATAAAACATTATAAGGG-TGAAAAAGCATTGTCAAAATA
* *
7073278 TTGATGTAAATG
256 TTAACGTAAATG
7073290 CATGAGACTT
Statistics
Matches: 1826, Mismatches: 370, Indels: 176
0.77 0.16 0.07
Matches are distributed among these distances:
499 2 0.00
500 64 0.04
501 154 0.08
502 350 0.19
503 652 0.36
504 210 0.12
505 142 0.08
506 170 0.09
507 10 0.01
508 5 0.00
509 63 0.03
510 4 0.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (499 bp):
CAAAATATTGACATAAATGTGTGAGATTTAACATAACAAGTCAATATGTTAATAAACATAATTTT
TGAGGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTGTTTTACGACTTACAAATTTTA
ATCTATAAATAAATAATAGTAAGGATAAAAAGAATTATGGTGAAATTAGTAGTTGAAAAACCTTG
ACATAAAACTGTAAGAATTAATATAAAACATTATAAGGGTGAAAAAGCATTGTCAAAATATTAAC
GTAAATGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTGAAGAAATT
AAACATTTAAATTTTTATTCTCAAGTTTAAAGTGTTTTACAACTTACAAATTTTAATCTATGCAT
AAATAATAGTAAGGATAAAAAGAATTATGTGAAAATTAATAATTGAAAAACCTTGACGTAAAGTG
ATAAGAATTAGCTTAAAACATTATAAAGGTGGAACAAGCATTTT
Found at i:7081559 original size:251 final size:251
Alignment explanation
Indices: 7080744--7081809 Score: 1200
Period size: 252 Copynumber: 4.2 Consensus size: 251
7080734 AACATGAAGC
* * * *
7080744 GATAAGAATTAACGTAAAACATTATAAAAGTGAAATAAGCATTTTCAAAATATTGACGTAAATAT
1 GATAAGAATTAACATAAAACATTATAAAGGTGGAATAAGAATTTTCAAAATATTGACGTAAATAT
* * * * *
7080809 GTTAGATTTAACGCAACAAGTGAATTATATCTAATAAATATAATTTTTGAAGAAATTAAATATTT
66 GTAAGATTTAATGTAACAAGTCAATTATATCTAATAAATATAATTTTTGAAGAAATTAAACATTT
* * * *
7080874 AAATTGTTATTTTTAAGCTCAAAGTGTTTTACGACTTATAAATTTTAATCTATACATGAATAATA
131 AAATTGTTATTCTTAAGTTTAAAGTGTTTTACGACTTACAAATTTTAATCTATACATGAATAATA
* * * * *
7080939 GTAAGGATAAAAAGAAGTACGGTGAAAATTAGTATTTAAAAATCCTTGACATAAAGT
196 GTAAGGATAAAAAGAATTACGGT-AAAATTAATATTTAAAAAGCCTTGACGTAAAAT
* * *
7080996 GATAAGAATTAACATAAAACA-T-TAAA-GTGGAATAAGTATTTTCAAAATATTGATGTAAATGT
1 GATAAGAATTAACATAAAACATTATAAAGGTGGAATAAGAATTTTCAAAATATTGACGTAAATAT
* * * *
7081058 GTTAA-ATTTAAGGTAACAAGTCAATTATGTCTAACAAATATAATTTTTGTAGAAATTAAACATT
66 G-TAAGATTTAATGTAACAAGTCAATTATATCTAATAAATATAATTTTTGAAGAAATTAAACATT
* * *
7081122 TAAATTGTTATTCTTAAGTTTAAAGTATTTTATGGCTTACAAATTTTAATCTA-ACTATGAATAA
130 TAAATTGTTATTCTTAAGTTTAAAGTGTTTTACGACTTACAAATTTTAATCTATAC-ATGAATAA
* *
7081186 TAGTAAGGATACAAAGATTTACGGTAACAATTAATATTTAAAAAGCCTTGACGTAAAAT
194 TAGTAAGGATAAAAAGAATTACGGTAA-AATTAATATTTAAAAAGCCTTGACGTAAAAT
* * * * * *
7081245 GATAACAATTAACAGAAAACATTATAAAGGTGGAACAAGCATTTGCAAAATATTAACGTAAATAT
1 GATAAGAATTAACATAAAACATTATAAAGGTGGAATAAGAATTTTCAAAATATTGACGTAAATAT
* * * * * * *
7081310 GTAAGATTTAATATAATAATTCAATTATATCTAATAAACATTATTTTTGGAGAAATTAAACATTG
66 GTAAGATTTAATGTAACAAGTCAATTATATCTAATAAATATAATTTTTGAAGAAATTAAACATTT
* * * * * * *
7081375 AAATTATTATTCTTGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATTTATGCGT-AATAGTA
131 AAATTGTTATTCTTAAGTTTAAAGTGTTTTACGACTTACAAATTTTAATCTATACATGAATAATA
** * *
7081439 GTAAGGATAAAAAGAATTATAGTGAAAATTAATATTTAAAAAGCCTTAACGTAAAGT
196 GTAAGGATAAAAAGAATTACGGT-AAAATTAATATTTAAAAAGCCTTGACGTAAAAT
* *
7081496 GATAAGAATTAACATAAAATC-TTATAAAGGTGGAGA-AAGAATTATCAAAATATTGATGTAAAT
1 GATAAGAATTAACATAAAA-CATTATAAAGGTGGA-ATAAGAATTTTCAAAATATTGACGTAAAT
* * * * * * * *
7081559 ATGTGAGATTTAATGTAATAAGTCAATTGTGTCAAATAAATATAATTTTTGAAAAAATTATACAA
64 ATGTAAGATTTAATGTAACAAGTCAATTATATCTAATAAATATAATTTTTGAAGAAATTAAACAT
* * * * * * * * *
7081624 TTAAATTTTTATTCTCAAATTTAGAGTGATTTAC-AATTCACAAATTTTAATTTATGCATAAATA
129 TTAAATTGTTATTCTTAAGTTTAAAGTGTTTTACGACTT-ACAAATTTTAATCTATACATGAATA
* * * ** *
7081688 ATAGTAAGGATAAAAAGAATTATGATAAAATTTAATCA-TTGAAATCCCTTGATGTAAAAT
193 ATAGTAAGGATAAAAAGAATTACGGTAAAA-TTAAT-ATTTAAAAAGCCTTGACGTAAAAT
* * * * *
7081748 GACAAGAATTAACGTAAAACATTATAAAGGTGGAGA-AAGAGTTTTCAAGATATTGACATAAA
1 GATAAGAATTAACATAAAACATTATAAAGGTGGA-ATAAGAATTTTCAAAATATTGACGTAAA
7081810 ATTGTGAGAT
Statistics
Matches: 694, Mismatches: 104, Indels: 32
0.84 0.13 0.04
Matches are distributed among these distances:
248 4 0.01
249 207 0.30
250 9 0.01
251 218 0.31
252 254 0.37
253 2 0.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (251 bp):
GATAAGAATTAACATAAAACATTATAAAGGTGGAATAAGAATTTTCAAAATATTGACGTAAATAT
GTAAGATTTAATGTAACAAGTCAATTATATCTAATAAATATAATTTTTGAAGAAATTAAACATTT
AAATTGTTATTCTTAAGTTTAAAGTGTTTTACGACTTACAAATTTTAATCTATACATGAATAATA
GTAAGGATAAAAAGAATTACGGTAAAATTAATATTTAAAAAGCCTTGACGTAAAAT
Found at i:7094183 original size:21 final size:20
Alignment explanation
Indices: 7094159--7094199 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
7094149 AATTAAATGG
7094159 TTTTAGTTTAATTTTACTTTA
1 TTTTAGTTTAA-TTTACTTTA
*
7094180 TTTTGGTTTAATTTACTTTA
1 TTTTAGTTTAATTTACTTTA
7094200 AAAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTAGTTTAATTTACTTTA
Found at i:7094584 original size:45 final size:45
Alignment explanation
Indices: 7094503--7094588 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
7094493 GCTAAAGGTT
** *
7094503 CGTGGCACCAGAGAATCATGGCCACAGTGCTGAAAGTGAGAATGC
1 CGTGGCACCAGAGAATCATGGCCACAGCACTAAAAGTGAGAATGC
**
7094548 CGTGGCACCAGAGAATCATGGCCATGGCACTAAAAGTGAGA
1 CGTGGCACCAGAGAATCATGGCCACAGCACTAAAAGTGAGA
7094589 CTACCACAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.30, T:0.15
Consensus pattern (45 bp):
CGTGGCACCAGAGAATCATGGCCACAGCACTAAAAGTGAGAATGC
Found at i:7096264 original size:114 final size:114
Alignment explanation
Indices: 7096064--7096290 Score: 418
Period size: 114 Copynumber: 2.0 Consensus size: 114
7096054 ACTTTATTAT
* *
7096064 TATCCACATTTCATATCTCTCCTTACAATGGTATTTGATCAATTATAAATTACGATTTATGTCAA
1 TATCCACATTTCATATCTCTCCTTACAATGGTATTTGATCAATTATAAATTACAAGTTATGTCAA
7096129 ATTAGTTTAATTAAAATAAAATTAATCAATTAAGATTAATCAACTAATC
66 ATTAGTTTAATTAAAATAAAATTAATCAATTAAGATTAATCAACTAATC
*
7096178 TATCCACATTTCATATTTCTCCTTACAATGGTATTTGATCAATTATAAATTACAAGTTATGTCAA
1 TATCCACATTTCATATCTCTCCTTACAATGGTATTTGATCAATTATAAATTACAAGTTATGTCAA
*
7096243 ATTAGTTTGATTAAAATAAAATTAATCAATTAAGATTAATCAACTAAT
66 ATTAGTTTAATTAAAATAAAATTAATCAATTAAGATTAATCAACTAAT
7096291 TGACCCTTCT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 109 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.40
Consensus pattern (114 bp):
TATCCACATTTCATATCTCTCCTTACAATGGTATTTGATCAATTATAAATTACAAGTTATGTCAA
ATTAGTTTAATTAAAATAAAATTAATCAATTAAGATTAATCAACTAATC
Found at i:7106297 original size:18 final size:18
Alignment explanation
Indices: 7106276--7106342 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
7106266 TTTTTCAAAT
7106276 AAAATATTTTTCATAAAA
1 AAAATATTTTTCATAAAA
* **
7106294 AAAACTTTTCTTTCAATAAGT
1 AAAA-TATT-TTTC-ATAAAA
7106315 AAAATATTTTTCATAGAAA
1 AAAATATTTTTCATA-AAA
7106334 AAAA-ATTTT
1 AAAATATTTT
7106343 CTTTTATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 12 0.31
19 12 0.31
20 7 0.18
21 8 0.21
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATATTTTTCATAAAA
Found at i:7109485 original size:17 final size:16
Alignment explanation
Indices: 7109455--7109498 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
7109445 AAATGTTATA
7109455 AATTAATA-TTTAATT
1 AATTAATATTTTAATT
7109470 AATTAATAATTTTAATT
1 AATTAAT-ATTTTAATT
*
7109487 AAATAATATTTT
1 AATTAATATTTT
7109499 TTATCAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.27
16 6 0.23
17 13 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATATTTTAATT
Found at i:7110587 original size:13 final size:13
Alignment explanation
Indices: 7110557--7110593 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7110547 GAAATTGTTA
*
7110557 CATAGAAATTTGTC
1 CATAGAAA-TTATC
7110571 CATAGAAATTATC
1 CATAGAAATTATC
7110584 CATAGAAATT
1 CATAGAAATT
7110594 GGTACAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (13 bp):
CATAGAAATTATC
Found at i:7115772 original size:21 final size:21
Alignment explanation
Indices: 7115746--7115786 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7115736 AACTTTATAT
7115746 ATTGTCTTAATTAAGACAAGA
1 ATTGTCTTAATTAAGACAAGA
*
7115767 ATTGTCTTAATTTAGACAAG
1 ATTGTCTTAATTAAGACAAG
7115787 GTACATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (21 bp):
ATTGTCTTAATTAAGACAAGA
Found at i:7115826 original size:49 final size:50
Alignment explanation
Indices: 7115742--7115873 Score: 148
Period size: 49 Copynumber: 2.7 Consensus size: 50
7115732 TGGTAACTTT
* *
7115742 ATATATTGTCTTAATTAAGACAAGAATTGTCTTAATTTAGACAAG-GTAC
1 ATATGTTGTATTAATTAAGACAAGAATTGTCTTAATTTAGACAAGAGTAC
* * * *
7115791 ATATGTTGTATTAATTAAGACAATAGTTGTGTTAATTTAGGCAAGAGTAC
1 ATATGTTGTATTAATTAAGACAAGAATTGTCTTAATTTAGACAAGAGTAC
* * *
7115841 ATGTGTTG--TT--TTGAGACAAGATTTGTCTTAATT
1 ATATGTTGTATTAATTAAGACAAGAATTGTCTTAATT
7115874 ACATTATTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
46 19 0.27
48 2 0.03
49 39 0.55
50 11 0.15
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (50 bp):
ATATGTTGTATTAATTAAGACAAGAATTGTCTTAATTTAGACAAGAGTAC
Found at i:7124023 original size:26 final size:26
Alignment explanation
Indices: 7123976--7124028 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
7123966 TCCATAGATG
*
7123976 GTTTATTTTCTAGAACTAGAACTCTT
1 GTTTATTTTCTAGAACTAGAACGCTT
* *
7124002 GTTTATTTTCTAGAATTGGAACGCTT
1 GTTTATTTTCTAGAACTAGAACGCTT
7124028 G
1 G
7124029 CTTGCTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (26 bp):
GTTTATTTTCTAGAACTAGAACGCTT
Found at i:7137789 original size:32 final size:34
Alignment explanation
Indices: 7137753--7137835 Score: 89
Period size: 36 Copynumber: 2.4 Consensus size: 34
7137743 TTAAAATTGC
* *
7137753 TTAATGAAGTTGTT-CCTAATTCATTAAA-TTAT
1 TTAATCAAGTTATTGCCTAATTCATTAAATTTAT
* * *
7137785 TTAATTAAGTTATTGAGCCTAATTGATTAAATTTGT
1 TTAATCAAGTTATT--GCCTAATTCATTAAATTTAT
7137821 TTAATCAAGTTATTG
1 TTAATCAAGTTATTG
7137836 GGNNNNNNNN
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
32 12 0.29
34 1 0.02
35 13 0.31
36 16 0.38
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (34 bp):
TTAATCAAGTTATTGCCTAATTCATTAAATTTAT
Found at i:7137814 original size:35 final size:36
Alignment explanation
Indices: 7137767--7137835 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
7137757 TGAAGTTGTT
*
7137767 CCTAATTCATTAAA-TTATTTAATTAAGTTATTGAG
1 CCTAATTCATTAAATTTATTTAATCAAGTTATTGAG
* *
7137802 CCTAATTGATTAAATTTGTTTAATCAAGTTATTG
1 CCTAATTCATTAAATTTATTTAATCAAGTTATTG
7137836 GGNNNNNNNN
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (36 bp):
CCTAATTCATTAAATTTATTTAATCAAGTTATTGAG
Found at i:7140030 original size:29 final size:28
Alignment explanation
Indices: 7139983--7140070 Score: 122
Period size: 29 Copynumber: 3.1 Consensus size: 28
7139973 TGGCATCTTT
*
7139983 AACATGTTTCTTTTAATTTAAACAAGAA
1 AACATGTTTGTTTTAATTTAAACAAGAA
*
7140011 AACATGTTTGGTTTTAATTTAGACAAGAA
1 AACATGTTT-GTTTTAATTTAAACAAGAA
* *
7140040 AATATGTTTGTCTTAATTTAAGACAAGAA
1 AACATGTTTGTTTTAATTTAA-ACAAGAA
7140069 AA
1 AA
7140071 ATATTTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 19 0.36
29 34 0.64
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (28 bp):
AACATGTTTGTTTTAATTTAAACAAGAA
Found at i:7140319 original size:17 final size:17
Alignment explanation
Indices: 7140297--7140329 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7140287 ATAATAATAA
7140297 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
7140314 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
7140330 TTATTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:7141718 original size:31 final size:32
Alignment explanation
Indices: 7141678--7141738 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
7141668 ATTAAAATAA
* *
7141678 AAAATATTAAGAA-AATATATAATATAAGAATC
1 AAAATATTAA-AATAAAATAAAATATAAGAATC
7141710 AAAA-ATTAAAATAAAATAAAATATAAGAA
1 AAAATATTAAAATAAAATAAAATATAAGAA
7141739 ATTGAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.08
31 20 0.77
32 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (32 bp):
AAAATATTAAAATAAAATAAAATATAAGAATC
Found at i:7141757 original size:55 final size:55
Alignment explanation
Indices: 7141693--7141796 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
7141683 ATTAAGAAAA
* *
7141693 TATATAATATAAGAATCAAAAATTAAAATAAAATA-A-AATATAAGAAATTGAAATT
1 TATATAATAT-AG-ATAAAAAATTAAAATAAAATATATAATATAAAAAATTGAAATT
*
7141748 TATATAATATAGGTAAAAAATTAAAATAAAATATATAATATAAAAAATT
1 TATATAATATAGATAAAAAATTAAAATAAAATATATAATATAAAAAATT
7141797 ATATTAAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
53 19 0.43
54 3 0.07
55 22 0.50
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (55 bp):
TATATAATATAGATAAAAAATTAAAATAAAATATATAATATAAAAAATTGAAATT
Found at i:7141799 original size:48 final size:49
Alignment explanation
Indices: 7141667--7141800 Score: 125
Period size: 53 Copynumber: 2.7 Consensus size: 49
7141657 ATAATGTTAT
*
7141667 AATTAAAATAAAA-AAT-AT-TAAGAAAA-TATATAATATAAGAATCAAA
1 AATTAAAATAAAATAATAATATAA-AAAATTATATAATATAAGAATAAAA
* * * *
7141713 AATTAAAATAAAATAA-AATATAAGAAATTGAAATTTATATAATATAGGTAAAA
1 AATTAAAATAAAATAATAATATAAAAAATT-ATA-TAATATAAGA-A--TAAAA
7141766 AATTAAAATAAAATATATAATATAAAAAATTATAT
1 AATTAAAATAAAATA-ATAATATAAAAAATTATAT
7141801 TAAAGAAATG
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
46 13 0.19
47 7 0.10
48 4 0.06
49 2 0.03
50 8 0.11
51 1 0.01
53 20 0.29
54 3 0.04
55 12 0.17
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (49 bp):
AATTAAAATAAAATAATAATATAAAAAATTATATAATATAAGAATAAAA
Found at i:7141832 original size:34 final size:33
Alignment explanation
Indices: 7141771--7141857 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
7141761 TAAAAAATTA
* *
7141771 AAAT-AAAATATATAATATAAAAAATTATATTAAAG
1 AAATGAAAATA-A-AATATATAAAATTATAAT-AAG
* *
7141806 AAATGAAAATAAAATATATAAGATTATAATAAT
1 AAATGAAAATAAAATATATAAAATTATAATAAG
7141839 AAATGAAAATAAAATATAT
1 AAATGAAAATAAAATATAT
7141858 GACATTAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
33 21 0.45
34 15 0.32
35 5 0.11
36 6 0.13
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (33 bp):
AAATGAAAATAAAATATATAAAATTATAATAAG
Found at i:7142108 original size:15 final size:15
Alignment explanation
Indices: 7142090--7142131 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
7142080 ATATTGCTTG
7142090 CAATCACATTACCTA
1 CAATCACATTACCTA
*
7142105 CAATCACATTACCTG
1 CAATCACATTACCTA
*
7142120 TAATCACATTAC
1 CAATCACATTAC
7142132 ATTGTGAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.31, G:0.02, T:0.29
Consensus pattern (15 bp):
CAATCACATTACCTA
Found at i:7145210 original size:21 final size:21
Alignment explanation
Indices: 7145181--7145225 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7145171 AACTCTTTCT
*
7145181 ATTATAATACTGGATTTTTA-A
1 ATTAAAATA-TGGATTTTTATA
*
7145202 ATTAAAATATTGATTTTTATA
1 ATTAAAATATGGATTTTTATA
7145223 ATT
1 ATT
7145226 TATAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTAAAATATGGATTTTTATA
Found at i:7149632 original size:56 final size:55
Alignment explanation
Indices: 7149558--7149767 Score: 183
Period size: 56 Copynumber: 3.8 Consensus size: 55
7149548 CATGAACAAG
* * *
7149558 AGGTACTTAGACCTTTACTCTAGTGGTATTTTTGTCCTTCCA-CG-ACTATGCTAATT
1 AGGTACTTCGACCCTTACTCTAGTGGTATTTCTG-CC--CCACCGAACTATGCTAATT
* * *
7149614 AGGTACTTCGACCCTTACT-TCAGTGATATTTCTACCCCACCGCATCTATGCTAATT
1 AGGTACTTCGACCCTTACTCT-AGTGGTATTTCTGCCCCACCG-AACTATGCTAATT
* * * * * * * *
7149670 GGGTACTCCAACCCTTACACTATTGTTGTTTCTGCCCCACCGTAACTATGTTAATT
1 AGGTACTTCGACCCTTACTCTAGTGGTATTTCTGCCCCACCG-AACTATGCTAATT
* * * *
7149726 AGTTGCTTCGACCCTTACTCAAGTGGTATTTCTACCCCACCG
1 AGGTACTTCGACCCTTACTCTAGTGGTATTTCTGCCCCACCG
7149768 CGGCCATGCT
Statistics
Matches: 121, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
53 3 0.02
54 2 0.02
55 3 0.02
56 112 0.93
57 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (55 bp):
AGGTACTTCGACCCTTACTCTAGTGGTATTTCTGCCCCACCGAACTATGCTAATT
Found at i:7162696 original size:30 final size:30
Alignment explanation
Indices: 7162650--7162803 Score: 121
Period size: 28 Copynumber: 5.3 Consensus size: 30
7162640 ACAACTTTTA
* *
7162650 TCTTTAATTAAGACAAAAATATTTTATTTTG
1 TCTTAAATTAAGACAAAAATATTTT-TCTTG
*
7162681 TC-TAAATTGAGAC--AAATATGTTTTCTTG
1 TCTTAAATTAAGACAAAAATAT-TTTTCTTG
* *
7162709 TCTTAAATTAAGACAAACATATTTTT-TTA
1 TCTTAAATTAAGACAAAAATATTTTTCTTG
* *
7162738 TC-TAAACTAAGACCAAACATGA--TTTCTTG
1 TCTTAAATTAAGA-CAAAAAT-ATTTTTCTTG
* *
7162767 TC-TAAATTAAGACAAACAT-GTTTTCTTG
1 TCTTAAATTAAGACAAAAATATTTTTCTTG
7162795 TC-TAAATTA
1 TCTTAAATTA
7162804 GGGCAAACAA
Statistics
Matches: 105, Mismatches: 9, Indels: 21
0.78 0.07 0.16
Matches are distributed among these distances:
28 47 0.45
29 37 0.35
30 14 0.13
31 7 0.07
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (30 bp):
TCTTAAATTAAGACAAAAATATTTTTCTTG
Found at i:7162724 original size:29 final size:28
Alignment explanation
Indices: 7162655--7162812 Score: 172
Period size: 29 Copynumber: 5.5 Consensus size: 28
7162645 TTTTATCTTT
* * *
7162655 AATTAAGACAAAAATATTTTATTTTGTCTA
1 AATTAAGACAAACAT-GTTT-TCTTGTCTA
* *
7162685 AATTGAGACAAATATGTTTTCTTGTCTTA
1 AATTAAGACAAACATGTTTTCTTGTC-TA
* * *
7162714 AATTAAGACAAACATATTTTTTTATCTA
1 AATTAAGACAAACATGTTTTCTTGTCTA
* *
7162742 AACTAAGACCAAACATGATTTCTTGTCTA
1 AATTAAGA-CAAACATGTTTTCTTGTCTA
7162771 AATTAAGACAAACATGTTTTCTTGTCTA
1 AATTAAGACAAACATGTTTTCTTGTCTA
* *
7162799 AATTAGGGCAAACA
1 AATTAAGACAAACA
7162813 AGTTAAAGCT
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
28 46 0.43
29 49 0.45
30 13 0.12
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (28 bp):
AATTAAGACAAACATGTTTTCTTGTCTA
Found at i:7162780 original size:57 final size:57
Alignment explanation
Indices: 7162650--7162800 Score: 187
Period size: 57 Copynumber: 2.6 Consensus size: 57
7162640 ACAACTTTTA
* * * * * *
7162650 TCTTTAATTAAGACAAAAATATTTTATTTTGTCTAAATTGAGACAAATATGTTTTCTTG
1 TCTTAAATTAAGACAAACATA-TTT-TTTTGTCTAAACTAAGACAAACATGATTTCTTG
*
7162709 TCTTAAATTAAGACAAACATATTTTTTTATCTAAACTAAGACCAAACATGATTTCTTG
1 TCTTAAATTAAGACAAACATATTTTTTTGTCTAAACTAAGA-CAAACATGATTTCTTG
* *
7162767 TC-TAAATTAAGACAAACATGTTTTCTTGTCTAAA
1 TCTTAAATTAAGACAAACATATTTTTTTGTCTAAA
7162801 TTAGGGCAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
57 43 0.53
58 19 0.23
59 19 0.23
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (57 bp):
TCTTAAATTAAGACAAACATATTTTTTTGTCTAAACTAAGACAAACATGATTTCTTG
Found at i:7169267 original size:17 final size:17
Alignment explanation
Indices: 7169245--7169282 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7169235 TCTCCCTTTT
7169245 TTTTAATCACAAAAAA-A
1 TTTTAAT-ACAAAAAATA
*
7169262 TTTTAATAGAAAAAATA
1 TTTTAATACAAAAAATA
7169279 TTTT
1 TTTT
7169283 TTTATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (17 bp):
TTTTAATACAAAAAATA
Found at i:7170706 original size:59 final size:58
Alignment explanation
Indices: 7170611--7170739 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 58
7170601 AACTCTTACC
*
7170611 TTTAT-TTAAGACAAAAATATTTTATCTTGTCCAAATTAAGACAAATATATATTCTTG
1 TTTATATTAAGACAAAAATATTTTATCTTGTCCAAATTAAGACAAACATATATTCTTG
* * * *
7170668 TTTATATTAAGACAAAAAATATTTT-TTTTTTCTTAAATTAAGACAAACATATTTTCTTG
1 TTTATATTAAGAC-AAAAATATTTTATCTTGTC-CAAATTAAGACAAACATATATTCTTG
* *
7170727 TCTAAATTAAGAC
1 TTTATATTAAGAC
7170740 CAAACATGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 5 0.08
58 12 0.19
59 45 0.73
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.43
Consensus pattern (58 bp):
TTTATATTAAGACAAAAATATTTTATCTTGTCCAAATTAAGACAAACATATATTCTTG
Found at i:7170744 original size:29 final size:28
Alignment explanation
Indices: 7170616--7170767 Score: 153
Period size: 29 Copynumber: 5.2 Consensus size: 28
7170606 TTACCTTTAT
*
7170616 TTAAGACAAAAATATTTTATCTTGTCCAAA
1 TTAAGACAAAAATA-TTT-TCTTGTCTAAA
* * * *
7170646 TTAAGACAAATATATATTCTTGTTTATA
1 TTAAGACAAAAATATTTTCTTGTCTAAA
* *
7170674 TTAAGACAAAAAATATTTTTTTTTTCTTAAA
1 TTAAGAC-AAAAATA-TTTTCTTGTC-TAAA
*
7170705 TTAAGACAAACATATTTTCTTGTCTAAA
1 TTAAGACAAAAATATTTTCTTGTCTAAA
*
7170733 TTAAGACCAAACATGA-TTTCTTGTCTAAA
1 TTAAGA-CAAAAAT-ATTTTCTTGTCTAAA
7170762 TTAAGA
1 TTAAGA
7170768 TGAATAAGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
28 25 0.24
29 42 0.41
30 26 0.25
31 10 0.10
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (28 bp):
TTAAGACAAAAATATTTTCTTGTCTAAA
Found at i:7193786 original size:21 final size:21
Alignment explanation
Indices: 7193742--7193798 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
7193732 ATTGCCCAAC
**
7193742 ATGTATCGATACATGAGGGGA
1 ATGTATCGATACATGAGGACA
**
7193763 ATGTATCGATACATTTGGACA
1 ATGTATCGATACATGAGGACA
*
7193784 ATGTATCAATACATG
1 ATGTATCGATACATG
7193799 TTCATTGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAGGACA
Found at i:7193910 original size:20 final size:20
Alignment explanation
Indices: 7193885--7193940 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
7193875 CTTACTAAGA
*
7193885 ATGTATCAATACATTTGGAG
1 ATGTATTAATACATTTGGAG
7193905 ATGTATTAATACATTTGGAG
1 ATGTATTAATACATTTGGAG
7193925 ATGTATTAATACATTT
1 ATGTATTAATACATTT
7193941 TCTCCTATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (20 bp):
ATGTATTAATACATTTGGAG
Found at i:7201416 original size:14 final size:14
Alignment explanation
Indices: 7201387--7201433 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
7201377 ATTTAGAATT
7201387 AAATAATATTTTATTA
1 AAATAATA--TTATTA
7201403 ACAA-AATATTATTA
1 A-AATAATATTATTA
7201417 AAATAATATT-TTA
1 AAATAATATTATTA
7201430 AAAT
1 AAAT
7201434 TTCTATCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.31
14 13 0.45
16 5 0.17
17 2 0.07
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATAATATTATTA
Found at i:7201702 original size:14 final size:14
Alignment explanation
Indices: 7201683--7201709 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7201673 ATGAATTTAC
7201683 TATTACATGCAAAT
1 TATTACATGCAAAT
7201697 TATTACATGCAAA
1 TATTACATGCAAA
7201710 AAATAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (14 bp):
TATTACATGCAAAT
Found at i:7203729 original size:25 final size:25
Alignment explanation
Indices: 7203694--7203753 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
7203684 GGTCTATGAT
* * *
7203694 ATATACATGGCAAGGCCACGGGTCG
1 ATATACGTGGCAAGGCCAAGAGTCG
* *
7203719 ATATACGTGGCTAGGCCAAGAGTTG
1 ATATACGTGGCAAGGCCAAGAGTCG
7203744 ATATACGTGG
1 ATATACGTGG
7203754 TTGCAACCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (25 bp):
ATATACGTGGCAAGGCCAAGAGTCG
Found at i:7209174 original size:35 final size:35
Alignment explanation
Indices: 7209065--7209227 Score: 181
Period size: 35 Copynumber: 4.7 Consensus size: 35
7209055 GCCCAACAAT
** * *
7209065 TTAATTAAACAATTTTAAACAATTAGGCCCTATGAC
1 TTAATTAAACAATTTTAATTAATTAGG-CCAATAAC
* * * *
7209101 GTAATTAAACAATTTTAATCAACTAGACCTAATAAC
1 TTAATTAAACAATTTTAATTAATTAGGCC-AATAAC
*
7209137 TTAATTAAACAA-TTTAATTAATTAGGCACAATGAC
1 TTAATTAAACAATTTTAATTAATTAGGC-CAATAAC
7209172 TTAATTAAACAA-TTTAATTAATTAGG-C-ATAAC
1 TTAATTAAACAATTTTAATTAATTAGGCCAATAAC
7209204 TTAATTAAACAATTTTAATCTAAT
1 TTAATTAAACAATTTTAAT-TAAT
7209228 GCTTGAGAAG
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
32 16 0.14
33 7 0.06
34 4 0.04
35 45 0.41
36 39 0.35
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (35 bp):
TTAATTAAACAATTTTAATTAATTAGGCCAATAAC
Found at i:7209182 original size:71 final size:68
Alignment explanation
Indices: 7209065--7209227 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 68
7209055 GCCCAACAAT
** * *
7209065 TTAATTAAACAATTTTAAACAATTAGGCCCTATGACGTAATTAAACAATTTTAATCAACTAGACC
1 TTAATTAAACAATTTTAATTAATTAGGCACAATGACGTAATTAAACAA-TTTAATCAACTAG-CC
7209130 TAATAAC
64 --ATAAC
* * * *
7209137 TTAATTAAACAA-TTTAATTAATTAGGCACAATGACTTAATTAAACAATTTAATTAATTAGGCAT
1 TTAATTAAACAATTTTAATTAATTAGGCACAATGACGTAATTAAACAATTTAATCAACTAGCCAT
7209201 AAC
66 AAC
7209204 TTAATTAAACAATTTTAATCTAAT
1 TTAATTAAACAATTTTAAT-TAAT
7209228 GCTTGAGAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
67 17 0.21
68 6 0.07
69 5 0.06
70 11 0.14
71 30 0.37
72 12 0.15
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (68 bp):
TTAATTAAACAATTTTAATTAATTAGGCACAATGACGTAATTAAACAATTTAATCAACTAGCCAT
AAC
Found at i:7210713 original size:155 final size:155
Alignment explanation
Indices: 7210431--7210741 Score: 541
Period size: 155 Copynumber: 2.0 Consensus size: 155
7210421 TAAAATCTTA
* *
7210431 TACTAATAATAGGCAAAAGCTTTTAAAGTTTGAAGTTGGCAACTATGTGTTTTTTAAAGTTTCGC
1 TACTAATAATAGGCAAAAGCTTTTAAAGTTTGAAGTTGGCAACTATGTGTTTTTGAAAGTTTCAC
* * *
7210496 TTATCAAAGGAGCAAGAAGATATGGGAAGAAATGAAAATTAAGTTTTAGGTACGTCAAACCCTTT
66 CTATCAAAGGAGCAAGAAGATATGGGAAGAAATGAAAATTAAGTTCTAGGTACATCAAACCCTTT
7210561 GAGGTATTAAGGCACATTGGCACAT
131 GAGGTATTAAGGCACATTGGCACAT
7210586 TACTAATAATAGGCAAAAGCTTTTAAAGTTTGAAGTTGGCAACTATGTGTTTTTGAAAGTTTCAC
1 TACTAATAATAGGCAAAAGCTTTTAAAGTTTGAAGTTGGCAACTATGTGTTTTTGAAAGTTTCAC
* * *
7210651 CTATCAAGGGAGCAAGAAGATATGGGAATAAATGAAAATTAAGTTCTAGGTACATCGAACCCTTT
66 CTATCAAAGGAGCAAGAAGATATGGGAAGAAATGAAAATTAAGTTCTAGGTACATCAAACCCTTT
*
7210716 GAGGTATTAAGGCGCATTGGCACAT
131 GAGGTATTAAGGCACATTGGCACAT
7210741 T
1 T
7210742 TGCGTGTCAT
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
155 147 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (155 bp):
TACTAATAATAGGCAAAAGCTTTTAAAGTTTGAAGTTGGCAACTATGTGTTTTTGAAAGTTTCAC
CTATCAAAGGAGCAAGAAGATATGGGAAGAAATGAAAATTAAGTTCTAGGTACATCAAACCCTTT
GAGGTATTAAGGCACATTGGCACAT
Found at i:7212155 original size:35 final size:35
Alignment explanation
Indices: 7212065--7212158 Score: 125
Period size: 36 Copynumber: 2.7 Consensus size: 35
7212055 CACTTGATTA
*
7212065 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATC
* * * *
7212100 AAATTTGTTTAATCACGTTATTGGGCTTAATTGGTC
1 AAA-TTGTTTAATTAAGTTATTGGGCCTAATTGATC
*
7212136 AAATTATTTAATTAAGTTATTGG
1 AAATTGTTTAATTAAGTTATTGG
7212159 ATCTCATTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
35 20 0.40
36 30 0.60
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTGATC
Found at i:7212175 original size:35 final size:34
Alignment explanation
Indices: 7212058--7212176 Score: 112
Period size: 36 Copynumber: 3.4 Consensus size: 34
7212048 TCTCAAGCAC
*
7212058 TTGATTAAAATTGTTTAATTAAGTTATTGGGCCTAA
1 TTGATT-AAATTATTTAATTAAGTTATT-GGCCTAA
* * * *
7212094 TTGATTAAATTTGTTTAATCACGTTATTGGGCTTAA
1 TTGATTAAA-TTATTTAATTAAGTTATT-GGCCTAA
* * * *
7212130 TTGGTCAAATTATTTAATTAAGTTATTGGATCTCA
1 TTGATTAAATTATTTAATTAAGTTATTGG-CCTAA
7212165 TTGATTAAATTA
1 TTGATTAAATTA
7212177 AACAATTANN
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
34 2 0.03
35 30 0.44
36 36 0.53
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (34 bp):
TTGATTAAATTATTTAATTAAGTTATTGGCCTAA
Found at i:7212256 original size:35 final size:35
Alignment explanation
Indices: 7212058--7212261 Score: 156
Period size: 35 Copynumber: 5.7 Consensus size: 35
7212048 TCTCAAGCAC
7212058 TTGATTAAAATTGTTTAATTAAGTTATTGGGCCTAA
1 TTGATT-AAATTGTTTAATTAAGTTATTGGGCCTAA
* * *
7212094 TTGATTAAATTTGTTTAATCACGTTATTGGGCTTAA
1 TTGATTAAA-TTGTTTAATTAAGTTATTGGGCCTAA
* * * ** *
7212130 TTGGTCAAATTATTTAATTAAGTTATTGGATCTCA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
**** **********
7212165 TTGATTAAATTAAACAATTANNNNNNNNNNCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
*
7212200 TTGATTAAATTTGTTTAATTAAGTTATTGGGTCTAA
1 TTGATTAAA-TTGTTTAATTAAGTTATTGGGCCTAA
*
7212236 TTAATTAAATTGTTTAATTAAGTTAT
1 TTGATTAAATTGTTTAATTAAGTTAT
7212262 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 45, Indels: 5
0.71 0.26 0.03
Matches are distributed among these distances:
35 66 0.55
36 55 0.45
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.44
Consensus pattern (35 bp):
TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
Found at i:7214575 original size:2 final size:2
Alignment explanation
Indices: 7214565--7214597 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7214555 ATTTTACATA
7214565 TG TG T- TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7214598 ATTTTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7215181 original size:23 final size:25
Alignment explanation
Indices: 7215131--7215181 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
7215121 CAAACTAAAT
7215131 AAATCTCCATATGAAGTCCAAAAAA
1 AAATCTCCATATGAAGTCCAAAAAA
* *
7215156 AAATCTCCATATGTA-TCTAAAAAA
1 AAATCTCCATATGAAGTCCAAAAAA
7215180 AA
1 AA
7215182 GAAACTAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (25 bp):
AAATCTCCATATGAAGTCCAAAAAA
Found at i:7215551 original size:22 final size:22
Alignment explanation
Indices: 7215508--7215553 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
7215498 TAAACTCCAA
* * *
7215508 CTTGAAAATGTTGAATTTAAAT
1 CTTGAAAATGTAGAAATAAAAT
*
7215530 CTTGAAATTGTAGAAATAAAAT
1 CTTGAAAATGTAGAAATAAAAT
7215552 CT
1 CT
7215554 CTAAAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (22 bp):
CTTGAAAATGTAGAAATAAAAT
Found at i:7216247 original size:2 final size:2
Alignment explanation
Indices: 7216240--7216282 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
7216230 ATCATGCCAA
*
7216240 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7216281 AT
1 AT
7216283 TTAAACTATC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7217589 original size:21 final size:21
Alignment explanation
Indices: 7217565--7217606 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7217555 AGAGATAGGG
7217565 TGAGTTTTAAGTATATAAACA
1 TGAGTTTTAAGTATATAAACA
*
7217586 TGAGTTTTTAGTATATAAACA
1 TGAGTTTTAAGTATATAAACA
7217607 CAAATTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (21 bp):
TGAGTTTTAAGTATATAAACA
Found at i:7217614 original size:21 final size:21
Alignment explanation
Indices: 7217569--7217614 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7217559 ATAGGGTGAG
** *
7217569 TTTTAAGTATATAAACATGAG
1 TTTTAAGTATATAAACACAAA
*
7217590 TTTTTAGTATATAAACACAAA
1 TTTTAAGTATATAAACACAAA
7217611 TTTT
1 TTTT
7217615 CCTCTAGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (21 bp):
TTTTAAGTATATAAACACAAA
Found at i:7231207 original size:29 final size:29
Alignment explanation
Indices: 7231174--7231239 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
7231164 TGTGAGTTTA
*
7231174 AATTAATTAGAAATACAATTTAATGAT-T
1 AATTAATTAGAAATACAATTCAATGATCT
* * *
7231202 CAATTAGTTATAAATACAATTCAGTGATCT
1 -AATTAATTAGAAATACAATTCAATGATCT
7231232 AATTAATT
1 AATTAATT
7231240 TGGAAATCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (29 bp):
AATTAATTAGAAATACAATTCAATGATCT
Found at i:7232498 original size:90 final size:90
Alignment explanation
Indices: 7232338--7232507 Score: 225
Period size: 90 Copynumber: 1.9 Consensus size: 90
7232328 CTATTAAGTT
* * ** *
7232338 TTGGTATTATTTTGTTTTCATTATCTTTAAGCTTCAAAAAGATTTCAATGATTGGGTTTTGATTT
1 TTGGTACTATTTTGTTTTCATCATCTCCAAGCTTCAAAAAGATTTAAATGATTGGGTTTTGATTT
*
7232403 CTGGTTTTAGCAAATTAGGTAAATG
66 CTGGTTATAGCAAATTAGGTAAATG
* * * *
7232428 TTGGTACTATTTTGTTTTCATCATCTCCAAGCTTTAAAAGGATTTAAATGGTT-GGTTTTTAGTT
1 TTGGTACTATTTTGTTTTCATCATCTCCAAGCTTCAAAAAGATTTAAATGATTGGGTTTTGA-TT
*
7232492 TTTGGTTATAGCAAAT
65 TCTGGTTATAGCAAAT
7232508 CAAATATGTC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 7 0.10
90 61 0.90
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.48
Consensus pattern (90 bp):
TTGGTACTATTTTGTTTTCATCATCTCCAAGCTTCAAAAAGATTTAAATGATTGGGTTTTGATTT
CTGGTTATAGCAAATTAGGTAAATG
Found at i:7240312 original size:2 final size:2
Alignment explanation
Indices: 7240305--7240339 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7240295 TCATTTTCTT
7240305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7240340 ACCATAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7241270 original size:40 final size:41
Alignment explanation
Indices: 7241216--7241379 Score: 161
Period size: 41 Copynumber: 4.0 Consensus size: 41
7241206 CAAAAATCTT
* *
7241216 AAACATAAAATTAAATAACTAAAAACAAATATTCATAC-AA
1 AAACATAAACTTAAATAACTAAAAACAAATATTCAAACAAA
** * * *
7241256 TGACATAAACTTAAATAACTATACATAAATATTCAAACAAA
1 AAACATAAACTTAAATAACTAAAAACAAATATTCAAACAAA
* * * * *
7241297 CAACATAAACTTAAATAACCAAACACATATATCCAAACAACA
1 AAACATAAACTTAAATAACTAAAAACAAATATTCAAACAA-A
* *
7241339 ACAGCATAAACTTAAATAACTAAAAATAAATA-TCTAAACAA
1 A-AACATAAACTTAAATAACTAAAAACAAATATTC-AAACAA
7241380 CTAGTGTATA
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
40 31 0.31
41 35 0.35
42 2 0.02
43 31 0.31
ACGTcount: A:0.60, C:0.17, G:0.01, T:0.22
Consensus pattern (41 bp):
AAACATAAACTTAAATAACTAAAAACAAATATTCAAACAAA
Found at i:7241380 original size:40 final size:40
Alignment explanation
Indices: 7241219--7241380 Score: 148
Period size: 40 Copynumber: 4.0 Consensus size: 40
7241209 AAATCTTAAA
* * *
7241219 CATAAAATTAAATAACTAAAAACAAATATTCATACAA-TG
1 CATAAACTTAAATAACTAAAAACAAATATTCAAACAACAG
* * * *
7241258 ACATAAACTTAAATAACTATACATAAATATTCAAACAAACAA
1 -CATAAACTTAAATAACTAAAAACAAATATTCAAAC-AACAG
* * * *
7241300 CATAAACTTAAATAACCAAACACATATATCCAAACAACAACAG
1 CATAAACTTAAATAACTAAAAACAAATATTC--A-AACAACAG
*
7241343 CATAAACTTAAATAACTAAAAATAAATA-TCTAAACAAC
1 CATAAACTTAAATAACTAAAAACAAATATTC-AAACAAC
7241381 TAGTGTATAT
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
40 36 0.37
41 29 0.30
42 1 0.01
43 29 0.30
44 3 0.03
ACGTcount: A:0.59, C:0.18, G:0.01, T:0.22
Consensus pattern (40 bp):
CATAAACTTAAATAACTAAAAACAAATATTCAAACAACAG
Found at i:7241689 original size:22 final size:24
Alignment explanation
Indices: 7241663--7241715 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
7241653 ACATTACAAT
7241663 TTAATTAATAATCATA-ATTT-T-A
1 TTAATTAATAAT-ATAGATTTGTCA
*
7241685 TTAATTAATTATATAGATTTGTCA
1 TTAATTAATAATATAGATTTGTCA
7241709 TTAATTA
1 TTAATTA
7241716 CATGAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 3 0.11
22 15 0.56
23 1 0.04
24 8 0.30
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
TTAATTAATAATATAGATTTGTCA
Found at i:7242307 original size:470 final size:469
Alignment explanation
Indices: 7241409--7242315 Score: 1080
Period size: 470 Copynumber: 1.9 Consensus size: 469
7241399 ATCCAAATAT
* *
7241409 ATAATATAATGTGTATGTATTAAAAGACATTACAAGTTATAAGCTATAAAGTGTGTGTGTGTGCA
1 ATAATATAAAGTATATGTATTAAAAGACATTACAAGTTATAAGCTATAAAGTGTGTGTGTGTG--
*
7241474 TATATATATTACAATTAATAATTTTATTAGTTATAAATTTTGTAATGTTAACACAAAATAAAAAA
64 -ATATATATTACAATTAATAATTTTATAAGTTATAAATTTTGTAATGTTAACACAAAATAAAAAA
* *
7241539 TAAATATATTTATATTTAAAGTATATATATTAAAAGTATTTTAGTGTATATATGTAATAGTAATT
128 TAAATATATTTATATTTAAAGTATATATATTAAAAGTATTTTAGTATATATATATAATAGTAATT
* *
7241604 ATATTCTTTATAACTGAACTCAATATATATGAAGTATAGATATTAAAAGACATTACAATTTAATT
193 ATATTCTTTATAAATGAACTCAATATATATGAAGTATAGATATTAAAAGACATTACAAGTTAATT
* *
7241669 AATAATCATAATTTTATTAATTAATTATATAGATTTGTCATTAATTACATGAAATTAAAAAAATA
258 AATAATCATAATTTTATTAATTAATTATAAAGATTTATCATTAATTACATGAAATTAAAAAAATA
* * * * *
7241734 GCTAAGTTTCAAAACTATTCTAATCTCACAACTTCTTTTTAAATAATTAAGTTTATTCCATTATA
323 GCTAAGTTCCAAAACTATTCTAATCTCAAAACTTCTCTTCAAATAATTAAG-TTATTCAATTATA
* * * ***
7241799 AGTTTATATAAATAAAGGTATATATATTATTTAGTAATTAATTTATACAGTAGTAATTATATTCT
387 AGTTTATAT-AATAAAGGTACATAAAATAAAAAGTAATTAATTTATACAGTAGTAATTATATTCT
7241864 TTATGAATGAACATAATTC
451 TTATGAATGAACATAATTC
*
7241883 ATAATATAAAGTATATGTGTTAAAAGACATTACAAGTTATATA-CTATAAAGTGTGTGTGTGTG-
1 ATAATATAAAGTATATGTATTAAAAGACATTACAAGTTATA-AGCTATAAAGTGTGTGTGTGTGA
* * * * * * *
7241946 TGTGTATTATAATTAATAATTTTATAAGTTATAATTTTTGTAATGTTAACATAAAATAGAAAGTA
65 TATATATTACAATTAATAATTTTATAAGTTATAAATTTTGTAATGTTAACACAAAATAAAAAATA
7242011 AATATATTTATATTTAAAGTATATATATACTAAAAGTA-TTT-GTATATATATA-ATATAGTAAT
130 AATATATTTATATTTAAAGTATATATAT--TAAAAGTATTTTAGTATATATATATA-ATAGTAAT
* * * **
7242073 TATATT-TGTTATAAATGAACTCAATATATCT-AATGTATATAT-TTAAAA-ATATTTGAAGTTA
192 TATATTCT-TTATAAATGAACTCAATATATATGAA-GTATAGATATTAAAAGACATTACAAGTTA
* *
7242134 ATTAATAATCATAGTTTAATGAATTAATTTAATTAACTAAATGAGTTTATCTTTAATTACATGAA
255 ATTAATAATCATAATTT--T--ATTAA-TTAATT-A-TAAA-GA-TTTATCATTAATTACATGAA
* *
7242199 ATTAAAAAAATAG-TTAGATTCCAAAACTATTCTAA-CTCAAAGAC-TCTCTTCAAGT-ATATAT
311 ATTAAAAAAATAGCTAAG-TTCCAAAACTATTCTAATCTCAAA-ACTTCTCTTCAAATAAT-TA-
* * *
7242260 A-TTA-T-AAGTTATAA-TTT-T-T-ATAATGTTAACATAAAATAAAAAGTAATTACTTTATA
372 AGTTATTCAA-TTATAAGTTTATATAATAAAGGT-ACATAAAATAAAAAGTAATTAATTTATA
7242316 ATATGATATG
Statistics
Matches: 372, Mismatches: 40, Indels: 46
0.81 0.09 0.10
Matches are distributed among these distances:
468 25 0.07
469 16 0.04
470 158 0.42
471 4 0.01
472 14 0.04
473 10 0.03
474 66 0.18
475 9 0.02
476 20 0.05
477 50 0.13
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (469 bp):
ATAATATAAAGTATATGTATTAAAAGACATTACAAGTTATAAGCTATAAAGTGTGTGTGTGTGAT
ATATATTACAATTAATAATTTTATAAGTTATAAATTTTGTAATGTTAACACAAAATAAAAAATAA
ATATATTTATATTTAAAGTATATATATTAAAAGTATTTTAGTATATATATATAATAGTAATTATA
TTCTTTATAAATGAACTCAATATATATGAAGTATAGATATTAAAAGACATTACAAGTTAATTAAT
AATCATAATTTTATTAATTAATTATAAAGATTTATCATTAATTACATGAAATTAAAAAAATAGCT
AAGTTCCAAAACTATTCTAATCTCAAAACTTCTCTTCAAATAATTAAGTTATTCAATTATAAGTT
TATATAATAAAGGTACATAAAATAAAAAGTAATTAATTTATACAGTAGTAATTATATTCTTTATG
AATGAACATAATTC
Found at i:7250121 original size:7 final size:7
Alignment explanation
Indices: 7250109--7250134 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7250099 ATATACTAAG
7250109 ATAAATA
1 ATAAATA
7250116 ATAAATA
1 ATAAATA
7250123 ATAAATA
1 ATAAATA
7250130 ATAAA
1 ATAAA
7250135 GCAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:7276817 original size:30 final size:28
Alignment explanation
Indices: 7276783--7276860 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 28
7276773 GTTAATTATT
*
7276783 AATTATAAAAATTTATTTAATTTAAAATAA
1 AATTATAAAAATTTATTTAATGT--AATAA
* *
7276813 AATTAAAAAAATTTAATTAAATGTAATAA
1 AATTATAAAAATTT-ATTTAATGTAATAA
*
7276842 AA-AATAAAAATTTATTTAA
1 AATTATAAAAATTTATTTAA
7276861 ATATTACGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
27 5 0.12
28 9 0.22
29 7 0.17
30 13 0.32
31 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
AATTATAAAAATTTATTTAATGTAATAA
Found at i:7285770 original size:21 final size:21
Alignment explanation
Indices: 7285746--7285786 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7285736 TCTGAAAATA
*
7285746 TAGTCATCTGTCGATAAATGG
1 TAGTCATCTATCGATAAATGG
* *
7285767 TAGTTATTTATCGATAAATG
1 TAGTCATCTATCGATAAATG
7285787 AGCTCTAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (21 bp):
TAGTCATCTATCGATAAATGG
Found at i:7286427 original size:83 final size:84
Alignment explanation
Indices: 7286271--7286440 Score: 270
Period size: 83 Copynumber: 2.0 Consensus size: 84
7286261 TGTCTTCAAA
* *
7286271 ATTCAAAGTGCCAACCTAAGAATCAAGTTCTCAAAAGAAATGACTTAATTCTTAAAAGAAAAGAA
1 ATTCAAAGTGCCAACCTAAGAATCAAGTTCTCAAAAAAAATGACTTAACTCTTAAAAGAAAAGAA
7286336 AACAAAATTTATCTCTTTG
66 AACAAAATTTATCTCTTTG
* * * *
7286355 ATTCAAAGTTCCAACCTAAGAATCAAGTTCT-AAAAAAAATGACTTGACTCTTAAATGAGAAGAA
1 ATTCAAAGTGCCAACCTAAGAATCAAGTTCTCAAAAAAAATGACTTAACTCTTAAAAGAAAAGAA
*
7286419 AACAAAATTTATTTCTTTG
66 AACAAAATTTATCTCTTTG
7286438 ATT
1 ATT
7286441 ATAAGAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 49 0.62
84 30 0.38
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (84 bp):
ATTCAAAGTGCCAACCTAAGAATCAAGTTCTCAAAAAAAATGACTTAACTCTTAAAAGAAAAGAA
AACAAAATTTATCTCTTTG
Found at i:7296581 original size:30 final size:30
Alignment explanation
Indices: 7296547--7296607 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
7296537 ATTATCACAG
*
7296547 TTGTAGTGGTTATATAAATTATTATTCTGA
1 TTGTAGTGGTTATACAAATTATTATTCTGA
7296577 TTGTAGTGGTTATACAAATTATTATTCTGA
1 TTGTAGTGGTTATACAAATTATTATTCTGA
7296607 T
1 T
7296608 AATAAGAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (30 bp):
TTGTAGTGGTTATACAAATTATTATTCTGA
Done.