Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 33 of 311
Found at i:9400438 original size:15 final size:15
Alignment explanation
Indices: 9400415--9400449 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9400405 TGAGATGCTA
9400415 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
* *
9400430 AAAATAAAAGAAAGG
1 AAAAAAAAAGAAAAG
9400445 AAAAA
1 AAAAA
9400450 GAGTGTAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:9401175 original size:31 final size:31
Alignment explanation
Indices: 9401105--9401175 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
9401095 TCAGAACTAG
* * *
9401105 AATCAGAATCAGAATTAGGTGACAGAATCAG
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
* * *
9401136 GATTAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
9401167 AATCAGAAT
1 AATCAGAAT
9401176 GTGAATGCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:9401354 original size:27 final size:28
Alignment explanation
Indices: 9401312--9401413 Score: 113
Period size: 27 Copynumber: 3.8 Consensus size: 28
9401302 GCTCAGTTAT
* **
9401312 CAGATATTGTGACAGAGTAACCA-AATA
1 CAGATATTGTGGCAGAGCCACCAGAATA
9401339 CAGATATTGTGGCAGAGCCACCAGAAT-
1 CAGATATTGTGGCAGAGCCACCAGAATA
*
9401366 -AGATATTTGTGGCATAGCCACCAGAA-A
1 CAGATA-TTGTGGCAGAGCCACCAGAATA
* *
9401393 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
9401414 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.08
27 52 0.80
28 8 0.12
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (28 bp):
CAGATATTGTGGCAGAGCCACCAGAATA
Found at i:9401606 original size:22 final size:22
Alignment explanation
Indices: 9401572--9401636 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
9401562 GCAAATACGT
*
9401572 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
9401594 TTGGTACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
9401616 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
9401637 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:9402092 original size:26 final size:26
Alignment explanation
Indices: 9402063--9402151 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
9402053 GGGGCAAAAT
* *
9402063 GGTAATTTTACCCCACAAGGTATATC
1 GGTAATTTTACCCTACAAGGTATTTC
* *
9402089 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACA-AGGTATTTC
*
9402116 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAA-GGTATTTC
9402143 GGTAATTTT
1 GGTAATTTT
9402152 GTAAATCGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 18 0.35
27 29 0.57
28 4 0.08
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (26 bp):
GGTAATTTTACCCTACAAGGTATTTC
Found at i:9402163 original size:27 final size:27
Alignment explanation
Indices: 9402133--9402636 Score: 193
Period size: 27 Copynumber: 18.7 Consensus size: 27
9402123 CTACCCTACA
*
9402133 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
** * * * *
9402160 AGGGTAAAAT-GATAATTCTGTAAATCA
1 AGGGT-ATTTCGGTAATTTTATAAATCG
* * *
9402187 ATGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGGTAATTTTATAAATCG
** * **
9402214 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTATAAATCG
** *
9402241 AGGGTATTTCAATAATTTTCACAAATC-
1 AGGGTATTTCGGTAATTTT-ATAAATCG
* * *
9402268 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCGGTAATTTTATAAATCG
* * *
9402295 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTCGGTAATTTTATAAATCG
** * *
9402323 AGGGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTATAAATCG
* * * *
9402349 AGGAGTATTTTGGTAATTTTTTAAACCA
1 AGG-GTATTTCGGTAATTTTATAAATCG
*** * *
9402377 AGGGTAAAACGATAATTCTATAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
***
9402404 AGGGTAAAACGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
** * *
9402431 AGGGTAAAAT-GGTAATTCTATAAATTG
1 AGGGT-ATTTCGGTAATTTTATAAATCG
** **
9402458 AGGGTAAAAT-GGTAATTTTATAAATTA
1 AGGGT-ATTTCGGTAATTTTATAAATCG
**** *
9402485 AGGGTAAAAAGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
*** * *
9402512 AGGGTAAAACGGTAATTCTATAAATTG
1 AGGGTATTTCGGTAATTTTATAAATCG
** *
9402539 AGGGTAAAAT-GGTAATTCTATAAATCG
1 AGGGT-ATTTCGGTAATTTTATAAATCG
* ***
9402566 AGGATAAAACGGTAATTCTT-TAAATCG
1 AGGGTATTTCGGTAATT-TTATAAATCG
* * * *
9402593 GGGGTACTTT-GATAATTTTA-CAATTG
1 AGGGTA-TTTCGGTAATTTTATAAATCG
* *
9402619 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
9402637 GGTAAACTAA
Statistics
Matches: 389, Mismatches: 71, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 33 0.08
27 318 0.82
28 35 0.09
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTATAAATCG
Found at i:9402304 original size:82 final size:81
Alignment explanation
Indices: 9402189--9402368 Score: 200
Period size: 82 Copynumber: 2.2 Consensus size: 81
9402179 GTAAATCAAT
* * * *** *
9402189 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAAT
1 GGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCAAT
*
9402254 AATTTTCACAAATCAGG
66 AATTTT-ACAAACCAGG
*** * * *
9402271 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
1 GGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCAA
9402335 TAATTTTACAAACCAGG
65 TAATTTTACAAACCAGG
*
9402352 AGTATTTTGGTAATTTT
1 GGTATTTTGGTAATTTT
9402369 TTAAACCAAG
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 25 0.30
82 53 0.65
83 4 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCAAT
AATTTTACAAACCAGG
Found at i:9402609 original size:54 final size:54
Alignment explanation
Indices: 9402360--9402598 Score: 318
Period size: 54 Copynumber: 4.4 Consensus size: 54
9402350 GGAGTATTTT
* * * * *
9402360 GGTAATTTTTTAAACCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
* *
9402414 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
** * * *
9402468 GGTAATTTTATAAATTAAGGGTAAAAAGGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
* * *
9402522 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGATAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
*
9402576 GGTAATTCTT-TAAATCGGGGGTA
1 GGTAATT-TTATAAATCGAGGGTA
9402599 CTTTGATAAT
Statistics
Matches: 161, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 160 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (54 bp):
GGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
Found at i:9402609 original size:81 final size:81
Alignment explanation
Indices: 9402377--9402598 Score: 338
Period size: 81 Copynumber: 2.7 Consensus size: 81
9402367 TTTTAAACCA
* *
9402377 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
9402442 GTAATTCTATAAATTG
66 GTAATTCTATAAATTG
* ** * * *
9402458 AGGGTAAAATGGTAATTTTATAAATTAAGGGTAAAAAGGTAATTTTGTAAATCGAGGGTAAAACG
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
9402523 GTAATTCTATAAATTG
66 GTAATTCTATAAATTG
* *
9402539 AGGGTAAAATGGTAATTCTATAAATCGAGGATAAAACGGTAATTCTT-TAAATCGGGGGTA
1 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATT-TTATAAATCGAGGGTA
9402599 CTTTGATAAT
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 124 0.98
82 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (81 bp):
AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
GTAATTCTATAAATTG
Found at i:9402634 original size:26 final size:25
Alignment explanation
Indices: 9402584--9402636 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
9402574 ACGGTAATTC
*
9402584 TTTAAATCGGGGGTACTTTGATAAT
1 TTTAAATCGGGGGTACTTTCATAAT
*
9402609 TTTACAATTGGGGGTA-TTTCAGTAAT
1 TTTA-AATCGGGGGTACTTTCA-TAAT
9402635 TT
1 TT
9402637 GGTAAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (25 bp):
TTTAAATCGGGGGTACTTTCATAAT
Found at i:9403687 original size:18 final size:18
Alignment explanation
Indices: 9403664--9403698 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9403654 AAATGGAGAG
*
9403664 TTCTATTTGTTTCTAAAT
1 TTCTATTTGTCTCTAAAT
9403682 TTCTATTTGTCTCTAAA
1 TTCTATTTGTCTCTAAA
9403699 GTAGCCAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (18 bp):
TTCTATTTGTCTCTAAAT
Found at i:9406224 original size:27 final size:26
Alignment explanation
Indices: 9406194--9406328 Score: 94
Period size: 27 Copynumber: 5.1 Consensus size: 26
9406184 TTTCTAATGA
9406194 GACACTAAACACGAGATAGTCCACCAG
1 GACACTAAACACGAGATAGTCCA-CAG
* * * ** *
9406221 GACATTTAACA-TAGATAGTTGACGG
1 GACACTAAACACGAGATAGTCCACAG
* *
9406246 GACACTAAACACGAGATAGTCTGATAG
1 GACACTAAACACGAGATAGTC-CACAG
* * *
9406273 GACATTAAACACGAGATAATCTA-ATGG
1 GACACTAAACACGAGATAGTCCACA--G
* *
9406300 GACACTGAACACGAGATGGTCCACCAG
1 GACACTAAACACGAGATAGTCCA-CAG
9406327 GA
1 GA
9406329 TCGTAAACAA
Statistics
Matches: 82, Mismatches: 20, Indels: 12
0.72 0.18 0.11
Matches are distributed among these distances:
25 12 0.15
26 16 0.20
27 53 0.65
29 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (26 bp):
GACACTAAACACGAGATAGTCCACAG
Found at i:9406253 original size:52 final size:54
Alignment explanation
Indices: 9406170--9406328 Score: 171
Period size: 52 Copynumber: 3.0 Consensus size: 54
9406160 CTACCAAAAT
** * *
9406170 ATTAAACACGAGATTTTCTAATGAGACACTAAACACGAGATAGTCCACCAGGAC
1 ATTAAACACGAGATAATCTAACGGGACACTAAACACGAGATAGTCCACCAGGAC
* * * * * *
9406224 ATTTAACA-TAGATAGT-TGACGGGACACTAAACACGAGATAGTCTGA-TAGGAC
1 ATTAAACACGAGATAATCTAACGGGACACTAAACACGAGATAGTC-CACCAGGAC
* * *
9406276 ATTAAACACGAGATAATCTAATGGGACACTGAACACGAGATGGTCCACCAGGA
1 ATTAAACACGAGATAATCTAACGGGACACTAAACACGAGATAGTCCACCAGGA
9406329 TCGTAAACAA
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
52 36 0.43
53 13 0.16
54 34 0.41
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (54 bp):
ATTAAACACGAGATAATCTAACGGGACACTAAACACGAGATAGTCCACCAGGAC
Found at i:9410105 original size:42 final size:43
Alignment explanation
Indices: 9409997--9410111 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 43
9409987 TTTCGTTATG
* * *
9409997 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGAATTC
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATCGACATCGAATTC
* * *
9410040 TGTTTTACGTGTAAGACCATGTCTGGGACATCGACATCGTA-TC
1 TGATTT-CGTGTAAGACCCTGTCTGGGACATCGACATCGAATTC
9410083 TGATTTCGTGTAAGACCCTGTCTGGGACA
1 TGATTTCGTGTAAGACCCTGTCTGGGACA
9410112 GTGGCATCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 22 0.35
43 12 0.19
44 28 0.45
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATCGACATCGAATTC
Found at i:9410120 original size:42 final size:43
Alignment explanation
Indices: 9409997--9410121 Score: 150
Period size: 42 Copynumber: 2.9 Consensus size: 43
9409987 TTTCGTTATG
9409997 TGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAATTC
1 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAATTC
* * * *
9410040 TGTTTTACGTGTAAGACCATGTCTGGGACA-TCGACATCGTA-TC
1 TGATTT-CGTGTAAGACCCTGTCTGGGACAGT-GGCATCGAATTC
9410083 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGA
9410122 TGTTTGATTA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
42 28 0.41
43 14 0.20
44 27 0.39
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAATTC
Found at i:9410160 original size:43 final size:42
Alignment explanation
Indices: 9409997--9410160 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 42
9409987 TTTCGTTATG
*
9409997 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTC
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTC
* * * * *
9410040 TGTTTTACGTGTAAGACCATGTCTGGGACATCGACATCG-TATC
1 TG-ATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TC
* *
9410083 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATGTT
1 TGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TC
* *
9410126 TGATTACATGTAAGACCACGTCTTGGACGTTGGCA
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
9410161 GTGTATATGT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 30 0.31
43 36 0.37
44 31 0.32
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTC
Found at i:9414149 original size:14 final size:13
Alignment explanation
Indices: 9414121--9414160 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
9414111 CCGTGTGAGG
*
9414121 CACACGGCCTGTT
1 CACACGGCGTGTT
9414134 CACACGGACGTGTT
1 CACACGG-CGTGTT
9414148 CACACGGGCGTGT
1 CACAC-GGCGTGT
9414161 GACCTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 15 0.62
15 2 0.08
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.20
Consensus pattern (13 bp):
CACACGGCGTGTT
Found at i:9417693 original size:13 final size:13
Alignment explanation
Indices: 9417652--9417746 Score: 68
Period size: 13 Copynumber: 7.2 Consensus size: 13
9417642 ATAAACACTT
*
9417652 TATAATTATTTCTA
1 TATAATCATTTC-A
* *
9417666 TATAACCAATTCA
1 TATAATCATTTCA
*
9417679 TAAAATCATTTCA
1 TATAATCATTTCA
* *
9417692 TATATTCATTTTA
1 TATAATCATTTCA
* *
9417705 TATAACCATTTCG
1 TATAATCATTTCA
9417718 TATAA-C-TGTCTCA
1 TATAATCAT-T-TCA
*
9417731 TATAACCATTTCA
1 TATAATCATTTCA
9417744 TAT
1 TAT
9417747 TACACATTTA
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
11 1 0.02
12 2 0.03
13 48 0.76
14 11 0.17
15 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.44
Consensus pattern (13 bp):
TATAATCATTTCA
Found at i:9424516 original size:17 final size:18
Alignment explanation
Indices: 9424484--9424519 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
9424474 TTGGGCCGAA
9424484 ATGGACAGTGTAGGCCTC
1 ATGGACAGTGTAGGCCTC
*
9424502 ATGGAC-GTGTGGGCCTC
1 ATGGACAGTGTAGGCCTC
9424519 A
1 A
9424520 CACCGGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.19, C:0.22, G:0.36, T:0.22
Consensus pattern (18 bp):
ATGGACAGTGTAGGCCTC
Found at i:9433797 original size:29 final size:29
Alignment explanation
Indices: 9433742--9433798 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
9433732 TCAATTTGTT
* *
9433742 TTTCTTTTTATTTTATTTTTCTTTTTTCA
1 TTTCTTTTTATTTTATTTATCTATTTTCA
*
9433771 TTTCTTTTTGTATTTATTTATC-ATTTTC
1 TTTCTTTTTAT-TTTATTTATCTATTTTC
9433799 TTAAAAGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.12, C:0.11, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTCTTTTTATTTTATTTATCTATTTTCA
Found at i:9441354 original size:26 final size:25
Alignment explanation
Indices: 9441318--9441373 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
9441308 GTAAAAGTGC
*
9441318 TAAGGAAGAAGTCTATCCCACTGATT
1 TAAGGAAGAAGTCTATCCCACT-AGT
9441344 TAAGGAAGAAGTCTATCCCACTAGT
1 TAAGGAAGAAGTCTATCCCACTAGT
9441369 TAAGG
1 TAAGG
9441374 TACTTTGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (25 bp):
TAAGGAAGAAGTCTATCCCACTAGT
Found at i:9442940 original size:43 final size:43
Alignment explanation
Indices: 9442879--9442966 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
9442869 TTGAATCTAG
9442879 GTTTGGTGTTCGTAGAAATTTGCACTCTTTCGCAACAAGGTGT
1 GTTTGGTGTTCGTAGAAATTTGCACTCTTTCGCAACAAGGTGT
* * *
9442922 GTTTGGTGTTCGTGGAAATTTGCGCTCTTTTGCAACAAGGTGT
1 GTTTGGTGTTCGTAGAAATTTGCACTCTTTCGCAACAAGGTGT
9442965 GT
1 GT
9442967 AAACACTGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (43 bp):
GTTTGGTGTTCGTAGAAATTTGCACTCTTTCGCAACAAGGTGT
Found at i:9446762 original size:24 final size:24
Alignment explanation
Indices: 9446735--9446824 Score: 90
Period size: 26 Copynumber: 3.6 Consensus size: 24
9446725 GGATAACCAT
* *
9446735 ATATCAGGAAGTTCAAGCGAGCCA
1 ATATCAGGAAGCTCAAGAGAGCCA
* *
9446759 ATATCGGGAAGCTCTAGAGAGCCA
1 ATATCAGGAAGCTCAAGAGAGCCA
* * *
9446783 TTAATCAGGAAGCTCACAAAGAGCCT
1 AT-ATCAGGAAGCTCA-AGAGAGCCA
9446809 ATAATCAGGAAGCTCA
1 AT-ATCAGGAAGCTCA
9446825 TGAAGAGTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.39
25 11 0.20
26 22 0.41
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (24 bp):
ATATCAGGAAGCTCAAGAGAGCCA
Found at i:9446796 original size:74 final size:73
Alignment explanation
Indices: 9446658--9446824 Score: 165
Period size: 74 Copynumber: 2.2 Consensus size: 73
9446648 CTCATAAGAG
* * * * * *
9446658 CCATAATTAGGAAGCTCATGCGAGCCAATAACGAGTAGCTCCGAAGATCCATTAATCAATAAGCT
1 CCATAATCAGGAAGCTCAAGCGAGCCAATAACGAGAAGCTCAGAAGAGCCATTAATCAAGAAGCT
9446723 CCGGATAA
66 CCGGATAA
* * * *
9446731 CCATATATCAGGAAGTTCAAGCGAGCCAATATCGGGAAGCTCTAG-AGAGCCATTAATCAGGAAG
1 CCATA-ATCAGGAAGCTCAAGCGAGCCAATAACGAGAAGCTC-AGAAGAGCCATTAATCAAGAAG
** * *
9446795 CTCACAAAGAG
64 CTC-CGGATAA
9446806 CCTATAATCAGGAAGCTCA
1 CC-ATAATCAGGAAGCTCA
9446825 TGAAGAGTCA
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
73 5 0.07
74 49 0.65
75 18 0.24
76 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (73 bp):
CCATAATCAGGAAGCTCAAGCGAGCCAATAACGAGAAGCTCAGAAGAGCCATTAATCAAGAAGCT
CCGGATAA
Found at i:9448475 original size:42 final size:41
Alignment explanation
Indices: 9448398--9448489 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 41
9448388 AGGGTTGAAC
*
9448398 AAAAGCTCATAAGAGCTGAATGAAAACCTAGTAGGGCTAAACT
1 AAAA-CTCATAAGAGCTGAATGAAAACCCAGTAGGG-TAAACT
* * * *
9448441 AAAACTCGTAAGAGTTGAACT-AAAACCCATTAGGGTTAACT
1 AAAACTCATAAGAGCTGAA-TGAAAACCCAGTAGGGTAAACT
*
9448482 GAAACTCA
1 AAAACTCA
9448490 GATAAGTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 11 0.27
42 25 0.61
43 5 0.12
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.21
Consensus pattern (41 bp):
AAAACTCATAAGAGCTGAATGAAAACCCAGTAGGGTAAACT
Found at i:9452040 original size:21 final size:21
Alignment explanation
Indices: 9452014--9452056 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9452004 AATTTGAGAG
9452014 ATTGTTATTATGCCAAAAAAT
1 ATTGTTATTATGCCAAAAAAT
9452035 ATTGTTATTATGCCAAAAAAT
1 ATTGTTATTATGCCAAAAAAT
9452056 A
1 A
9452057 AAGAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (21 bp):
ATTGTTATTATGCCAAAAAAT
Found at i:9454792 original size:93 final size:92
Alignment explanation
Indices: 9454684--9454855 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 92
9454674 GCCCATAAGC
* *
9454684 GAACTCGGACTCAACTCAACGAGCTCAGGCA-TTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GG-AGTTCGCATCCATAAGTGAACTCAAACTCAACTCA
9454748 ACGAGTTCAGATGCCTAGTTACATTTCAT
64 ACGAGTTCAGATGCCTAGTTACATTTCAT
*
9454777 GAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGA-GTTCGCATCCATAAGTGAACTCAAACTCAACTCAA
*
9454842 CGAGTTCGGATGCC
65 CGAGTTCAGATGCC
9454856 CAAATATCCG
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
91 1 0.01
92 2 0.03
93 70 0.96
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (92 bp):
GAACTCAGACTCAACTCAACGAGCTCGGAGTTCGCATCCATAAGTGAACTCAAACTCAACTCAAC
GAGTTCAGATGCCTAGTTACATTTCAT
Found at i:9454849 original size:46 final size:46
Alignment explanation
Indices: 9454676--9454853 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
9454666 TGTAACTCGC
* * *
9454676 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCA--TTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC-GG-ATGTTCGCAT
* * * *
9454722 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* *
9454768 ACATTTCA-TGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
9454815 CCATAAGTGAACTCAAACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
9454854 CCCAAATATC
Statistics
Matches: 109, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 67 0.61
47 36 0.33
48 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:9457442 original size:17 final size:17
Alignment explanation
Indices: 9457420--9457454 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9457410 ATTTGTGTGA
*
9457420 TTAAATTGTTTCAGACC
1 TTAAATTGTTTCAAACC
9457437 TTAAATTGTTTCAAACC
1 TTAAATTGTTTCAAACC
9457454 T
1 T
9457455 AACACGTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (17 bp):
TTAAATTGTTTCAAACC
Found at i:9469467 original size:6 final size:6
Alignment explanation
Indices: 9469456--9469617 Score: 140
Period size: 6 Copynumber: 26.8 Consensus size: 6
9469446 AACCAAAATG
*
9469456 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
9469504 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
9469553 AGAATC AGAATC AGTAA-C AAAATC AGAATC AAAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC
*
9469601 AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAAT
9469618 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 13, Indels: 30
0.75 0.08 0.18
Matches are distributed among these distances:
5 11 0.09
6 106 0.83
7 8 0.06
8 3 0.02
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:9469471 original size:30 final size:29
Alignment explanation
Indices: 9469435--9469617 Score: 190
Period size: 30 Copynumber: 6.1 Consensus size: 29
9469425 AAGAAACATT
* * *
9469435 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
9469465 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
9469495 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*
9469525 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
* * *
9469556 ATCAGAATCAGTAACAAAATCAGAATCAAA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
9469586 ATCA-ATATTAGTAACAGAATCAAAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
9469616 AT
1 AT
9469618 GTGAATGCAA
Statistics
Matches: 130, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
29 2 0.02
30 97 0.75
31 31 0.24
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:9469770 original size:27 final size:25
Alignment explanation
Indices: 9469739--9469808 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 25
9469729 TGGCTGCCAT
*
9469739 AACAGATATCGTGGCAGAGTCACCAG
1 AACAGATAT-GTGGCAGAGCCACCAG
*
9469765 ATACAGATATTGTGGTAGAGCCACCAG
1 A-ACAGATA-TGTGGCAGAGCCACCAG
9469792 AATCAGATAATGTGGCA
1 AA-CAGAT-ATGTGGCA
9469809 AACCCACCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.05
27 33 0.89
28 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (25 bp):
AACAGATATGTGGCAGAGCCACCAG
Found at i:9469815 original size:27 final size:27
Alignment explanation
Indices: 9469759--9469816 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
9469749 GTGGCAGAGT
* * * *
9469759 CACCAGATACAGATATTGTGGTAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
9469786 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
9469813 CACC
1 CACC
9469817 TAATAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:9470198 original size:27 final size:26
Alignment explanation
Indices: 9470119--9470201 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
9470109 TCGATCGGTA
** * * *
9470119 AACAGATATTGTGATAGAGTCACCAA
1 AACAGATATTGTGGCACAGCCACCAG
*
9470145 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCACAGCCACCAG
9470172 AACAGATATTTGTGGCACAGCCACCAG
1 AACAGATA-TTGTGGCACAGCCACCAG
9470199 AAC
1 AAC
9470202 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCACAGCCACCAG
Found at i:9470450 original size:27 final size:27
Alignment explanation
Indices: 9470401--9470595 Score: 214
Period size: 27 Copynumber: 7.2 Consensus size: 27
9470391 GGGAAAAATG
* * ** *
9470401 GTAATTTTACCCCACAAAGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
9470428 GTAATTCTACCCTACAGGAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
9470455 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
9470481 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
9470509 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
9470536 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
9470562 GAAAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
9470590 GTAATT
1 GTAATT
9470596 TCACAATCAA
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.01
27 137 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:9470490 original size:54 final size:54
Alignment explanation
Indices: 9470400--9470595 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
9470390 GGGGAAAAAT
* * * * *
9470400 GGTAATTTTACCCCACAAAGGTATCTCAGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
9470454 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * *
9470508 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
** *
9470562 GAAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
9470596 TCACAATCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:9470594 original size:81 final size:81
Alignment explanation
Indices: 9470419--9470595 Score: 248
Period size: 81 Copynumber: 2.2 Consensus size: 81
9470409 ACCCCACAAA
* * * * *
9470419 GGTATCTCAGTAATTCTACCCTACAGGAGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTCAGTAATTCTACCCTAAAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAA
9470484 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
** * * *
9470500 GGTATTTTGGTAATTCTATCCTATAAGG-GTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA
1 GGTATTTCAGTAATTCTACCCTA-AAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA
9470564 AAATTCTACCCTACAGG
65 AAATTCTACCCTACAGG
9470581 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
9470596 TCACAATCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 80 0.96
82 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
GGTATTTCAGTAATTCTACCCTAAAGGAGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAA
AATTCTACCCTACAGG
Found at i:9470630 original size:27 final size:27
Alignment explanation
Indices: 9470600--9470903 Score: 355
Period size: 27 Copynumber: 11.3 Consensus size: 27
9470590 GTAATTTCAC
*
9470600 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
9470627 AATCGAGGGTAAAACGATAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
9470654 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
9470681 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
9470708 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** **
9470735 AATTAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
9470762 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
9470789 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
9470816 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
9470843 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
9470870 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
9470897 AATCGAG
1 AATCGAG
9470904 AGTATTTTGG
Statistics
Matches: 228, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.03
27 215 0.94
28 7 0.03
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:9470676 original size:54 final size:54
Alignment explanation
Indices: 9470605--9470903 Score: 399
Period size: 54 Copynumber: 5.5 Consensus size: 54
9470595 TTCACAATCA
* *
9470605 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-CGATAATTTTTTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTTTATAAACTG
* * ** *
9470659 AGGGT-AAACTAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAA-TCG
1 AGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATAAACT-G
** * *
9470713 AGGGTAAAACGGTAATTCTGTAAATTAAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATAAACTG
* *
9470767 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATAAACTG
* *
9470821 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATAAACT-G
9470875 AGGGTAAAACGGTAATTCTGTAAATCGAG
1 AGGGTAAAACGGTAATTCTGTAAATCGAG
9470904 AGTATTTTGG
Statistics
Matches: 220, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
53 6 0.03
54 208 0.95
55 6 0.03
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATAAACTG
Found at i:9470917 original size:54 final size:54
Alignment explanation
Indices: 9470589--9470932 Score: 389
Period size: 54 Copynumber: 6.4 Consensus size: 54
9470579 GGGGTATTTC
* *
9470589 AGTAATTTCAC-AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-
1 AGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
* ** * * *
9470641 CGATAATTTTTTAAA-CTGAGGGT-AAACTAGTAATTCTGTAAATCAAGGGTAAAAC
1 AG-TAATTTTACAAATC-GAGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAAT
* **
9470696 GGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATTAAGGGTAAAAT
1 AGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
*
9470750 AGTAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATT-T-TACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
* *
9470804 AGTAATTCTGTA-AACT-GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATT-T-TACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
* ***
9470858 AGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGAGTATTTT
1 AGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
* *
9470912 GGTAATTTTACAAGTCGAGGG
1 AGTAATTTTACAAATCGAGGG
9470933 CATTTCAGTA
Statistics
Matches: 255, Mismatches: 26, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
52 3 0.01
53 15 0.06
54 225 0.88
55 10 0.04
56 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (54 bp):
AGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
Found at i:9470918 original size:81 final size:81
Alignment explanation
Indices: 9470600--9470898 Score: 395
Period size: 81 Copynumber: 3.7 Consensus size: 81
9470590 GTAATTTCAC
* * ** * * *
9470600 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTTTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
9470665 AACTAGTAATTCTGTA
66 AAATAGTAATTCTGTA
* * *
9470681 AATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATTAAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
9470746 AAATAGTAATTCTGTA
66 AAATAGTAATTCTGTA
* ** **
9470762 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
*
9470826 AAAA-CGATAATTCTGTA
65 AAAATAG-TAATTCTGTA
**
9470843 AATCGAGGGTAAAATAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAA
1 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAA
9470899 TCGAGAGTAT
Statistics
Matches: 190, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.01
81 187 0.98
82 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAATAGTAATTCTGTA
Found at i:9482498 original size:19 final size:19
Alignment explanation
Indices: 9482463--9482500 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9482453 TTGCAACTTA
*
9482463 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
9482482 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
9482501 CTTGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:9499573 original size:14 final size:14
Alignment explanation
Indices: 9499554--9499580 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9499544 ATTATAATGT
9499554 ATTTTAATTTAATA
1 ATTTTAATTTAATA
9499568 ATTTTAATTTAAT
1 ATTTTAATTTAAT
9499581 TATTACATAG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTAATTTAATA
Found at i:9508998 original size:32 final size:32
Alignment explanation
Indices: 9508961--9509025 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9508951 AATGCTTACC
9508961 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
9508993 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
9509025 A
1 A
9509026 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:9515459 original size:24 final size:24
Alignment explanation
Indices: 9515414--9515460 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
9515404 TGTATTTAAT
* **
9515414 TTTGCATTTATATTTTTTAATTTG
1 TTTGCATTAATATTTTAAAATTTG
*
9515438 TTTGTATTAATATTTTAAAATTT
1 TTTGCATTAATATTTTAAAATTT
9515461 TGTCTTTGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (24 bp):
TTTGCATTAATATTTTAAAATTTG
Found at i:9516073 original size:186 final size:185
Alignment explanation
Indices: 9515741--9516107 Score: 664
Period size: 186 Copynumber: 2.0 Consensus size: 185
9515731 ATGATGATAA
* *
9515741 TAATAATATAACTAAATTACAACAATAAATATAGATAATATTTAATTTTTTTTACGAATCAATTA
1 TAATAATATAACTAAATAACAACAATAAATATAGATAATATTTAAATTTTTTTACGAATCAATTA
*
9515806 TTTACACTATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAATT
66 TTTACACAATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAATT
9515871 TTTTATTTTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCTAATT
131 TTTTATTTTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCTAATT
*
9515926 TAATAATAATAA-TAATATAACAACAATAATTATAGATAATATTTAAATTTTTTTACGAATCAAT
1 TAATAAT-ATAACTAA-ATAACAACAATAAATATAGATAATATTTAAATTTTTTTACGAATCAAT
*
9515990 TATTTACGCAATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAA
64 TATTTACACAATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAA
9516055 TTTTTTATTTTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCT
129 TTTTTTATTTTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCT
9516108 TGATAAAATA
Statistics
Matches: 175, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
185 10 0.06
186 165 0.94
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (185 bp):
TAATAATATAACTAAATAACAACAATAAATATAGATAATATTTAAATTTTTTTACGAATCAATTA
TTTACACAATTAAAATTAATACCATATTTAAATTGCATGGAATGCGTTATTCATTATATTAAATT
TTTTATTTTAATTTTTTGAGGATAAATTTTTTATTTTCTAAATCATTATCTAATT
Found at i:9522434 original size:93 final size:93
Alignment explanation
Indices: 9522287--9522458 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
9522277 GCTTCTTGTG
** * *
9522287 TGAATGTTGATGATGAGAAGACTCCTGTTGCATCTCCAACAGGTTCATCTGCTGAAAGGAAGTTA
1 TGAATGTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
*
9522352 ACTCCTATAGCTGGTGGTTCATCATGTA
66 AATCCTATAGCTGGTGGTTCATCATGTA
9522380 TGAATGTTGATGATG-GAATGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
1 TGAATGTTGATGATGAGAA-GAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTT
*
9522444 AAATCCTGTAGCTGG
65 AAATCCTATAGCTGG
9522459 GGAGGTTTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (93 bp):
TGAATGTTGATGATGAGAAGAAGCCAGTTGCATCTCCAACAGGTTCATCAGCTGAAAGGAAGTTA
AATCCTATAGCTGGTGGTTCATCATGTA
Found at i:9527152 original size:10 final size:10
Alignment explanation
Indices: 9527137--9527209 Score: 80
Period size: 10 Copynumber: 7.5 Consensus size: 10
9527127 ACCCCCCCTC
9527137 AAAAAAAAA-
1 AAAAAAAAAG
9527146 AAAAAAAAAG
1 AAAAAAAAAG
9527156 AAAAAAAAAG
1 AAAAAAAAAG
*
9527166 AGAAAAAAAG
1 AAAAAAAAAG
9527176 --AAAAAAAG
1 AAAAAAAAAG
* *
9527184 AAAAAGGAAAC
1 AAAAA-AAAAG
*
9527195 AACAAAAAAG
1 AAAAAAAAAG
9527205 AAAAA
1 AAAAA
9527210 CTCCTGAAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
8 8 0.15
9 9 0.17
10 29 0.55
11 7 0.13
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:9527201 original size:29 final size:28
Alignment explanation
Indices: 9527140--9527209 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
9527130 CCCCCTCAAA
* *
9527140 AAAAAAAAAAAAAAAGAAAAAAAAAGAG
1 AAAAAAAGAAAAAAAGAAAAAAAAACAG
*
9527168 AAAAAAAGAAAAAAAGAAAAAGGAAACA-
1 AAAAAAAGAAAAAAAGAAAAA-AAAACAG
9527196 ACAAAAAAGAAAAA
1 A-AAAAAAGAAAAA
9527210 CTCCTGAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.57
29 16 0.43
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAAAAAGAAAAAAAAACAG
Found at i:9527203 original size:1 final size:1
Alignment explanation
Indices: 9527137--9527188 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
9527127 ACCCCCCCTC
* * * * *
9527137 AAAAAAAAAAAAAAAAAAGAAAAAAAAAGAGAAAAAAAGAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9527189 GGAAACAACA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:9533765 original size:17 final size:17
Alignment explanation
Indices: 9533743--9533780 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9533733 ATAATTAAGT
9533743 AAATT-AATATAAAATAA
1 AAATTAAAT-TAAAATAA
*
9533760 AAATTAAATTAAATTAA
1 AAATTAAATTAAAATAA
9533777 AAAT
1 AAAT
9533781 ATTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTAAATTAAAATAA
Found at i:9539080 original size:56 final size:56
Alignment explanation
Indices: 9538999--9539104 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 56
9538989 TGGGTTAACT
* *
9538999 TTTTTTTTCAACATCGCATGCTTGTCCTGATAGTTGATATGAAAAGGAAATGTTAA
1 TTTTTTTTCAACATCGCATGCTTGTCCTGATAGTTGATACGAAAAAGAAATGTTAA
*
9539055 TTTTTTTTCCACATC-CAATGCTTGTCCTGATAGTTGATACGAAAAAGAAA
1 TTTTTTTTCAACATCGC-ATGCTTGTCCTGATAGTTGATACGAAAAAGAAA
9539105 ATGCTTGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
55 1 0.02
56 45 0.98
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (56 bp):
TTTTTTTTCAACATCGCATGCTTGTCCTGATAGTTGATACGAAAAAGAAATGTTAA
Found at i:9542719 original size:13 final size:13
Alignment explanation
Indices: 9542701--9542744 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
9542691 AAAGTAATCA
*
9542701 CACACGGGGGTGT
1 CACACGGGCGTGT
9542714 CACACGGGCGTGT
1 CACACGGGCGTGT
9542727 CACACGGGCGTGT
1 CACACGGGCGTGT
9542740 CACAC
1 CACAC
9542745 AAGCATGTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.18, C:0.32, G:0.36, T:0.14
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:9542753 original size:26 final size:26
Alignment explanation
Indices: 9542701--9542753 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9542691 AAAGTAATCA
* ** *
9542701 CACACGGGGGTGTCACACGGGCGTGT
1 CACACGGGCGTGTCACACAAGCATGT
9542727 CACACGGGCGTGTCACACAAGCATGT
1 CACACGGGCGTGTCACACAAGCATGT
9542753 C
1 C
9542754 CCTGCCGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.15
Consensus pattern (26 bp):
CACACGGGCGTGTCACACAAGCATGT
Found at i:9545736 original size:28 final size:28
Alignment explanation
Indices: 9545696--9545761 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
9545686 ATAGTAAGTC
*
9545696 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
9545724 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
9545752 CGCACACTTA
1 CGCACACTTA
9545762 ATGCCAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:9546409 original size:109 final size:107
Alignment explanation
Indices: 9546129--9546443 Score: 507
Period size: 101 Copynumber: 3.0 Consensus size: 107
9546119 GAAAGATGAA
* *
9546129 TACTTTCCTCTCTTCTTAAACATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATCT-TT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
* *
9546194 TATAATAAACAATTCAAGTCATTAATCCATGCATATTGGTCGGC
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
*
9546238 TACTTTCATC--TTT---TATAATATATTAACATATATT-AAGTATACCATAATGCCGTAAAACA
1 TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
9546297 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
66 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
9546339 TACTTTCATCTTTTATTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATC-TTT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
9546404 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGT
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGT
9546444 TGGCCGTTAA
Statistics
Matches: 192, Mismatches: 6, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
101 74 0.39
102 20 0.10
104 1 0.01
105 4 0.02
106 1 0.01
108 21 0.11
109 71 0.37
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (107 bp):
TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
Found at i:9550203 original size:28 final size:28
Alignment explanation
Indices: 9550163--9550232 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
9550153 ATAGTAAGTC
*
9550163 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
9550191 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
9550219 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9550233 CAATCTCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:9550793 original size:101 final size:105
Alignment explanation
Indices: 9550617--9550912 Score: 483
Period size: 101 Copynumber: 2.8 Consensus size: 105
9550607 CTTCTTAAAC
* *
9550617 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAATATAATAAACAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
9550682 TTAATCCATGCATATTGGTCGACTACTTTCATC-TT-TT-
66 TTAATCCATGCATATTGGTCGACTACTTTCATCTTTATTA
*
9550719 ATAATATATTAACATATATT-AAGTATACCATAATGCCGTAAAACATAATAAATAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
* *
9550783 TTAATCCATGCATATTGATCGGCTACTTTCATCTTTTATTAA
66 TTAATCCATGCATATTGGTCGACTACTTTCATC-TTTATT-A
9550825 ATATAGTATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGT
1 ATA-A-TATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGT
9550890 CATTAATCCATGCATATTGGTCG
64 CATTAATCCATGCATATTGGTCG
9550913 GCCGTTAATT
Statistics
Matches: 179, Mismatches: 7, Indels: 9
0.92 0.04 0.05
Matches are distributed among these distances:
101 72 0.40
102 20 0.11
103 2 0.01
104 2 0.01
106 3 0.02
107 1 0.01
108 16 0.09
109 63 0.35
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (105 bp):
ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
TTAATCCATGCATATTGGTCGACTACTTTCATCTTTATTA
Found at i:9550874 original size:109 final size:106
Alignment explanation
Indices: 9550596--9550914 Score: 486
Period size: 109 Copynumber: 3.0 Consensus size: 106
9550586 AAAAGATGAA
* *
9550596 TACTTTCCTCTCTTCTTAAACATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATCT-TT-TTAAATAT-ATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
* * *
9550661 TATAATAAACAATTCAAGTCATTAATCCATGCATATTGGTCGAC
63 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
*
9550705 TACTTTCATC-TTTT--ATA-ATATATTAACATATATT-AAGTATACCATAATGCCGTAAAACAT
1 TACTTTCATCTTTTTAAATATATATATTAACATATATTAAAGTATACCATAATGCCATAAAACAT
*
9550765 AATAAATAATTCAAGTCATTAATCCATGCATATTGATCGGC
66 AATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
9550806 TACTTTCATCTTTTATTAAATATAGTATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATC-TTT-TTAAATATA-TATATTAACATATATTAAAGTATACCATAATGCCATAAAA
9550871 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
63 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
9550915 CGTTAATTCC
Statistics
Matches: 193, Mismatches: 9, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
101 72 0.37
102 17 0.09
103 2 0.01
104 4 0.02
106 5 0.03
107 3 0.02
108 16 0.08
109 74 0.38
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (106 bp):
TACTTTCATCTTTTTAAATATATATATTAACATATATTAAAGTATACCATAATGCCATAAAACAT
AATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
Found at i:9557016 original size:26 final size:26
Alignment explanation
Indices: 9556987--9557093 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9556977 TGATACAAAT
9556987 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9557013 TGAT-ATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9557038 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9557064 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9557090 TGAT
1 TGAT
9557094 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.30
26 53 0.70
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9557042 original size:51 final size:52
Alignment explanation
Indices: 9556987--9557093 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
9556977 TGATACAAAT
*
9556987 TGATAATGGGTTAGGTAAATGTTCCATGAT-ATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGCTAGGTAAATGTTCCA
*
9557038 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGCTAGGTAAATGTTCCA
9557090 TGAT
1 TGAT
9557094 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 30 0.57
52 23 0.43
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGCTAGGTAAATGTTCCA
Found at i:9558579 original size:43 final size:43
Alignment explanation
Indices: 9558532--9558619 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
9558522 TGAAAAACCC
9558532 TAAAATAGATAAATTACTGAAATACCTTTAAAAGTGGAAAATT
1 TAAAATAGATAAATTACTGAAATACCTTTAAAAGTGGAAAATT
9558575 TAAAATAGATAAATTACTGAAATACCTTTAAAAGTGGAAAATT
1 TAAAATAGATAAATTACTGAAATACCTTTAAAAGTGGAAAATT
9558618 TA
1 TA
9558620 CAGTTTTACC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (43 bp):
TAAAATAGATAAATTACTGAAATACCTTTAAAAGTGGAAAATT
Found at i:9575070 original size:30 final size:30
Alignment explanation
Indices: 9575034--9575102 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
9575024 CACACGGGTA
9575034 GACACACGGGCATGTTTCTTGCCCTTGTGT
1 GACACACGGGCATGTTTCTTGCCCTTGTGT
9575064 GACACACGGGCATGTTTCTTGCCCTTGTGT
1 GACACACGGGCATGTTTCTTGCCCTTGTGT
9575094 GACACACGG
1 GACACACGG
9575103 CCTGGAACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.29
Consensus pattern (30 bp):
GACACACGGGCATGTTTCTTGCCCTTGTGT
Found at i:9579536 original size:16 final size:18
Alignment explanation
Indices: 9579517--9579550 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
9579507 CATACGAATT
9579517 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
9579533 CCAAAACGATAGATAGTA
1 CCAAAACGATAGATAGTA
9579551 TGACGAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:9580168 original size:42 final size:43
Alignment explanation
Indices: 9580116--9580206 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
9580106 CTGAACTCAT
* * *
9580116 TCACCGGCATTA-CGCCTGCTAGGCTCAAAGCCCGATATTAAC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGCCCGACATTAAC
*
9580158 TCACCAGCATTATAGCCTGCTAGGCTCGAAGCCCGACATTAAC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGCCCGACATTAAC
9580201 TCACCA
1 TCACCA
9580207 AGTTCCATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 11 0.25
43 33 0.75
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (43 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAAGCCCGACATTAAC
Found at i:9587229 original size:16 final size:18
Alignment explanation
Indices: 9587210--9587242 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
9587200 CATACGAATT
9587210 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
9587226 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
9587243 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:9587872 original size:43 final size:42
Alignment explanation
Indices: 9587809--9587898 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 42
9587799 CTGAACTCAT
9587809 TCACCGGCATTATGCCTGCTAGGCTCAAAGCCCAATATTAAC
1 TCACCGGCATTATGCCTGCTAGGCTCAAAGCCCAATATTAAC
* * *
9587851 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
1 TCACCGGCATTAT-GCCTGCTAGGCTCAAAGCCCAATATTAAC
9587894 TCACC
1 TCACC
9587899 AAGTTCCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 12 0.28
43 31 0.72
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (42 bp):
TCACCGGCATTATGCCTGCTAGGCTCAAAGCCCAATATTAAC
Found at i:9592656 original size:60 final size:59
Alignment explanation
Indices: 9592561--9592677 Score: 198
Period size: 60 Copynumber: 2.0 Consensus size: 59
9592551 ATATATTTAA
* * *
9592561 TAAACGAAACAATTGCAAAAACTATAATCATCTTATCTTGTTACTCGTATAATAAGAAG
1 TAAACAAAACAATTGAAAAAACTATAATCAGCTTATCTTGTTACTCGTATAATAAGAAG
9592620 TAAACAAAACAATTGTAAAAAACTATAATCAGCTTATCTTGTTACTCGTATAATAAGA
1 TAAACAAAACAATTG-AAAAAACTATAATCAGCTTATCTTGTTACTCGTATAATAAGA
9592678 TGTTTTACTG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
59 14 0.26
60 40 0.74
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (59 bp):
TAAACAAAACAATTGAAAAAACTATAATCAGCTTATCTTGTTACTCGTATAATAAGAAG
Found at i:9593835 original size:12 final size:12
Alignment explanation
Indices: 9593807--9593841 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9593797 ATGTGGTCGC
*
9593807 CCGTGTGGTAGG
1 CCGTGTGGCAGG
9593819 CCGTGTGGCAGG
1 CCGTGTGGCAGG
*
9593831 TCGTGTGGCAG
1 CCGTGTGGCAG
9593842 TACACGGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.20, G:0.49, T:0.23
Consensus pattern (12 bp):
CCGTGTGGCAGG
Found at i:9599031 original size:4 final size:4
Alignment explanation
Indices: 9599022--9599059 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
9599012 AACTTGAGCC
*
9599022 TTTA TTTA TTTA TTCA TTTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA T
9599060 GTACAAGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 28 0.90
5 3 0.10
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:9599044 original size:17 final size:17
Alignment explanation
Indices: 9599022--9599057 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9599012 AACTTGAGCC
9599022 TTTATTTATTTATTCAT
1 TTTATTTATTTATTCAT
*
9599039 TTTATTTATTTATTTAT
1 TTTATTTATTTATTCAT
9599056 TT
1 TT
9599058 ATGTACAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTATTTATTCAT
Found at i:9601952 original size:21 final size:22
Alignment explanation
Indices: 9601926--9601966 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9601916 CTAATTTAAC
*
9601926 ATAAAATTAAAT-AATAAATAA
1 ATAAAATAAAATAAATAAATAA
9601947 ATAAAATAAAATAAATAAAT
1 ATAAAATAAAATAAATAAAT
9601967 TTTTTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAAAATAAAATAAATAAATAA
Found at i:9603488 original size:16 final size:17
Alignment explanation
Indices: 9603467--9603500 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
9603457 TTCTAAATTT
9603467 ATAAAAATATA-TAAAA
1 ATAAAAATATATTAAAA
9603483 ATAAAAATATATTAAAA
1 ATAAAAATATATTAAAA
9603500 A
1 A
9603501 ACTATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATATATTAAAA
Found at i:9607169 original size:18 final size:19
Alignment explanation
Indices: 9607146--9607183 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9607136 GCCTTTATGG
*
9607146 TTGTTATAAATAA-AAAAA
1 TTGTTATAAAAAATAAAAA
9607164 TTGTTATAAAAAATAAAAA
1 TTGTTATAAAAAATAAAAA
9607183 T
1 T
9607184 AAAATGTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TTGTTATAAAAAATAAAAA
Found at i:9611613 original size:37 final size:37
Alignment explanation
Indices: 9611558--9611633 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
9611548 AAAAGTGGAA
9611558 GATGAAGAGGAATGAATTGAGGAGAAGCATAGTAGAG
1 GATGAAGAGGAATGAATTGAGGAGAAGCATAGTAGAG
9611595 GATGAAGAGGAA-GAAATTGAGGAGAAGCATAGTAGAG
1 GATGAAGAGGAATG-AATTGAGGAGAAGCATAGTAGAG
9611632 GA
1 GA
9611634 CTGGCTGTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.45, C:0.03, G:0.38, T:0.14
Consensus pattern (37 bp):
GATGAAGAGGAATGAATTGAGGAGAAGCATAGTAGAG
Found at i:9613639 original size:22 final size:22
Alignment explanation
Indices: 9613614--9613657 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9613604 ACGAAATTAG
9613614 AATTAGATTGAGAAGATTATTT
1 AATTAGATTGAGAAGATTATTT
* *
9613636 AATTGGGTTGAGAAGATTATTT
1 AATTAGATTGAGAAGATTATTT
9613658 TACGATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (22 bp):
AATTAGATTGAGAAGATTATTT
Found at i:9619982 original size:2 final size:2
Alignment explanation
Indices: 9619975--9620041 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
9619965 TTATTTAATT
9619975 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9620017 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
9620042 TTGTCTTTAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9622847 original size:40 final size:38
Alignment explanation
Indices: 9622785--9622872 Score: 124
Period size: 40 Copynumber: 2.3 Consensus size: 38
9622775 AAAAAAATAT
*
9622785 TTATATTAAAAAATACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAATACCATAAATATAATAAATACTTTA
9622823 TTATATTAAAAAA-ACACAAATAAATATAATAAATACTTTA
1 TTATATTAAAAAATAC-C--ATAAATATAATAAATACTTTA
*
9622863 TTTTATTAAA
1 TTATATTAAA
9622873 TTTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
37 2 0.04
38 14 0.31
40 29 0.64
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (38 bp):
TTATATTAAAAAATACCATAAATATAATAAATACTTTA
Found at i:9623350 original size:62 final size:63
Alignment explanation
Indices: 9623274--9623391 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 63
9623264 TTATAACTAT
*
9623274 ATATTAAATACTATTTAAACTGTTAATAATCAA-TTTTTTTAACTCACATATTTTTTTAAAAG
1 ATATTAAATACTATTTAAACTGTTAATAATCAACTTTTTATAACTCACATATTTTTTTAAAAG
* ** * * * *
9623336 ATATTAAATGCTATTTAATTTTTTTATAATCAACTTTTTATAGCTCGCATATTTTT
1 ATATTAAATACTATTTAAACTGTTAATAATCAACTTTTTATAACTCACATATTTTT
9623392 ATGAGGCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
62 28 0.60
63 19 0.40
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (63 bp):
ATATTAAATACTATTTAAACTGTTAATAATCAACTTTTTATAACTCACATATTTTTTTAAAAG
Found at i:9623766 original size:84 final size:83
Alignment explanation
Indices: 9623579--9623768 Score: 213
Period size: 84 Copynumber: 2.3 Consensus size: 83
9623569 AAATAATAAT
** * *
9623579 AGTAATTAAGTCCTTTTTTTTCACTCAATTAAATACTTAAACTTTCAAAATGTATTAAAAAGGCC
1 AGTAATTAAGTCCTTTTTTTTCACTCAATTAAATACTTAAACTAACAAAATGTATCAAAAAGACC
9623644 CTTAAATTTTTAAAAAAA
66 CTTAAATTTTTAAAAAAA
* * * * *
9623662 AGTAA-TAAGCCCCTATTTTTTTCACTCAATTTAGTACTTGAACTAACAAAATGTATCAAAAATA
1 AGTAATTAAG-TCCT-TTTTTTTCACTCAATTAAATACTTAAACTAACAAAATGTATCAAAAAGA
**
9623726 CCC-TAAATTGTTTTCAAAAA
64 CCCTTAAATT-TTTAAAAAAA
*
9623746 ATTAATTAAGTTCCTCTTTTTTT
1 AGTAATTAAG-TCCT-TTTTTTT
9623769 TCTTTTTTGC
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
82 4 0.05
83 14 0.16
84 56 0.64
85 14 0.16
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (83 bp):
AGTAATTAAGTCCTTTTTTTTCACTCAATTAAATACTTAAACTAACAAAATGTATCAAAAAGACC
CTTAAATTTTTAAAAAAA
Found at i:9624328 original size:19 final size:19
Alignment explanation
Indices: 9624306--9624384 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
9624296 TTTTATGCAC
*
9624306 TTTATAATTTTTTATGATT
1 TTTATAATTTTTTAAGATT
** *
9624325 TTTATAAAATTTTACAAATT
1 TTTATAATTTTTTA-AGATT
* *
9624345 TTTATATTTTTTTACGATT
1 TTTATAATTTTTTAAGATT
*
9624364 TTTAT-ATTTTTTGA-ATT
1 TTTATAATTTTTTAAGATT
9624381 TTTA
1 TTTA
9624385 GTAAAATTTA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
17 7 0.15
18 6 0.13
19 20 0.43
20 14 0.30
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTATAATTTTTTAAGATT
Found at i:9624338 original size:29 final size:28
Alignment explanation
Indices: 9624306--9624444 Score: 99
Period size: 29 Copynumber: 4.9 Consensus size: 28
9624296 TTTTATGCAC
9624306 TTTATAATTTTTTATGATTTTTATAAAAT
1 TTTATAATTTTTTAT-ATTTTTATAAAAT
* * * **
9624335 TTTACAAATTTTTATATTTTTTTACGAT
1 TTTATAATTTTTTATATTTTTATAAAAT
9624363 TTT-TATATTTTTTGA-ATTTTTAGTAAAA-
1 TTTATA-ATTTTTT-ATATTTTTA-TAAAAT
* *
9624391 TTTAAATATTTTTTATATTTTTTACTAAAGT
1 TTTATA-ATTTTTTATA-TTTTTA-TAAAAT
**
9624422 TCAATAA-TTTTTAT-TTTTTATAA
1 TTTATAATTTTTTATATTTTTATAA
9624445 TTTTTTTGTC
Statistics
Matches: 87, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
26 3 0.03
27 7 0.08
28 29 0.33
29 34 0.39
30 11 0.13
31 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTATAATTTTTTATATTTTTATAAAAT
Found at i:9624855 original size:2 final size:2
Alignment explanation
Indices: 9624838--9624887 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
9624828 TCTAAAAATC
*
9624838 AT AT AT A- AT CT A- AT AT AT -T 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 AT AT AT AT AT
9624877 AT AT AT AT AT A
1 AT AT AT AT AT A
9624888 ACTAGAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9626050 original size:28 final size:28
Alignment explanation
Indices: 9626010--9626067 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9626000 GTCTATTTAA
9626010 TTTCTTTGATAGTTGAATTATGATTAGT
1 TTTCTTTGATAGTTGAATTATGATTAGT
9626038 TTTCTTTGATAGTTGAATTATGATTAGT
1 TTTCTTTGATAGTTGAATTATGATTAGT
9626066 TT
1 TT
9626068 GGTATATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.55
Consensus pattern (28 bp):
TTTCTTTGATAGTTGAATTATGATTAGT
Found at i:9626061 original size:14 final size:15
Alignment explanation
Indices: 9626019--9626066 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
9626009 ATTTCTTTGA
9626019 TAGTTGAATTATGAT
1 TAGTTGAATTATGAT
***
9626034 TAGTTTTCTT-TGA-
1 TAGTTGAATTATGAT
9626047 TAGTTGAATTATGAT
1 TAGTTGAATTATGAT
9626062 TAGTT
1 TAGTT
9626067 TGGTATATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 12 0.48
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.52
Consensus pattern (15 bp):
TAGTTGAATTATGAT
Found at i:9631980 original size:35 final size:35
Alignment explanation
Indices: 9631941--9632009 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
9631931 TCTAGGATCG
*
9631941 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAA
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAA
* * *
9631976 CATATCTTTGAAGATTACTTTCCATATTTTCCAA
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAA
9632010 GCTTCGGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAA
Found at i:9637116 original size:35 final size:35
Alignment explanation
Indices: 9637057--9637128 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
9637047 GTCTAGGATC
*
9637057 GCATATCTTTGAAGATCCCCTTCCATATTTGCCAA
1 GCATATCTTTGAAGATCACCTTCCATATTTGCCAA
* ** *
9637092 GCATATCTTTGAAGATTATTTTCCATATTTTCCAA
1 GCATATCTTTGAAGATCACCTTCCATATTTGCCAA
9637127 GC
1 GC
9637129 TCCGGAGATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (35 bp):
GCATATCTTTGAAGATCACCTTCCATATTTGCCAA
Found at i:9640882 original size:21 final size:21
Alignment explanation
Indices: 9640839--9641055 Score: 147
Period size: 21 Copynumber: 10.4 Consensus size: 21
9640829 GTACATTGTT
* *
9640839 AACAGAAGCTCA-AA-AGCTG
1 AACAAAAGCTCATAAGAGCTA
*
9640858 AACAAAAGCTCATGAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
* * * * *
9640879 AACAAAAACCCATAAGTGTTG
1 AACAAAAGCTCATAAGAGCTA
* *
9640900 AACAGAATCTCATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
* *
9640921 AACGAAAA-CTCATATGAGTTA
1 AAC-AAAAGCTCATAAGAGCTA
* *
9640942 AACAAAAGCTCATAAGAGTTG
1 AACAAAAGCTCATAAGAGCTA
* *
9640963 AACAGAAA-CTCATAAGAGTTT
1 AACA-AAAGCTCATAAGAGCTA
* * * *
9640984 AATAGAAGCTCAAAAGAGCTG
1 AACAAAAGCTCATAAGAGCTA
* *
9641005 AACAGAAA-CTCATATGAGTTA
1 AACA-AAAGCTCATAAGAGCTA
* *
9641026 AACAGAAGCTTATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
9641047 AACAGAAAG
1 AACA-AAAG
9641056 TAAAACATAA
Statistics
Matches: 152, Mismatches: 37, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
19 11 0.07
20 9 0.06
21 121 0.80
22 11 0.07
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTA
Found at i:9640944 original size:63 final size:63
Alignment explanation
Indices: 9640835--9641055 Score: 191
Period size: 63 Copynumber: 3.5 Consensus size: 63
9640825 TTGAGTACAT
* *
9640835 TGTT-AACAGAAGCTCA-AA-AGCTGAACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAG
1 TGTTGAACAGAAACTCATAAGAGCTAAACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAG
* * * *
9640895 TGTTGAACAGAATCTCATAAGAGCTAAACGAAAA-CTCAT-ATGAGTTAAACAAAAGCTCATAAG
1 TGTTGAACAGAAACTCATAAGAGCTAAAC-AAAAGCTCATGA-GAGCTAAACAAAAACCCATAAG
* * * * * ** * * * *
9640958 AGTTGAACAGAAACTCATAAGAGTTTAATAGAAGCTCAAAAGAGCTGAACAGAAACTCATATG
1 TGTTGAACAGAAACTCATAAGAGCTAAACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAG
* * * *
9641021 AGTTAAACAGAAGCTTATAAGAGCTAAACAGAAAG
1 TGTTGAACAGAAACTCATAAGAGCTAAACA-AAAG
9641056 TAAAACATAA
Statistics
Matches: 129, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
60 4 0.03
61 11 0.09
62 6 0.05
63 100 0.78
64 8 0.06
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.19
Consensus pattern (63 bp):
TGTTGAACAGAAACTCATAAGAGCTAAACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAG
Found at i:9641014 original size:84 final size:84
Alignment explanation
Indices: 9640858--9641054 Score: 261
Period size: 84 Copynumber: 2.3 Consensus size: 84
9640848 TCAAAAGCTG
* * * * *
9640858 AACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAGTGTTGAACAGAATCTCATAAGAGCTAAA
1 AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCAAAAGAGCTAAA
9640923 CGAAAACTCATATGAGTTA
66 CGAAAACTCATATGAGTTA
* * * * * *
9640942 AACAAAAGCTCATAAGAGTTGAACAGAAACTCATAAGAGTTTAATAGAAGCTCAAAAGAGCTGAA
1 AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCAAAAGAGCTAAA
9641007 C-AGAAACTCATATGAGTTA
66 CGA-AAACTCATATGAGTTA
* *
9641026 AACAGAAGCTTATAAGAGCTAAACAGAAA
1 AACAAAAGCTCATAAGAGCTAAACAGAAA
9641055 GTAAAACATA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
83 1 0.01
84 96 0.99
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (84 bp):
AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAACAGAAGCTCAAAAGAGCTAAA
CGAAAACTCATATGAGTTA
Found at i:9641051 original size:42 final size:42
Alignment explanation
Indices: 9640858--9641054 Score: 225
Period size: 42 Copynumber: 4.7 Consensus size: 42
9640848 TCAAAAGCTG
* * * * * *
9640858 AACAAAAGCTCATGAGAGCTAAACAAAAACCCATAAGTGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
* *
9640900 AACAGAATCTCATAAGAGCTAAAC-GAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACAG-AAACTCATAAGAGTTA
* * * *
9640942 AACAAAAGCTCATAAGAGTTGAACAGAAACTCATAAGAGTTT
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
* * * *
9640984 AATAGAAGCTCAAAAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
*
9641026 AACAGAAGCTTATAAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
9641055 GTAAAACATA
Statistics
Matches: 129, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 128 0.99
43 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
Found at i:9643393 original size:27 final size:27
Alignment explanation
Indices: 9643327--9643414 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 27
9643317 CCCAAAATAA
* *
9643327 TAAAATGACCTTAATGCCTCTGTAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
* ** *
9643354 CAAAACAATCGTAATGCCCCTGTAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
* *
9643381 TAAAATGACCGTAATGCCCCTATATGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
9643408 TAAAATG
1 TAAAATG
9643415 GCGATTATGT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
TAAAATGACCGTAATGCCCCTGTAGGG
Found at i:9647473 original size:54 final size:53
Alignment explanation
Indices: 9647390--9647560 Score: 216
Period size: 54 Copynumber: 3.2 Consensus size: 53
9647380 ACCCTTAAAT
* * * *
9647390 AGGTAAAATAACCGTAATACCCCTATAGGGTAAATTGGCCGTAATGCCCCTGTA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGGTAAA-TGACCGTAATGCCCCTATA
* * * *
9647444 AGGTAAAATGATCGTAATGTCCCTGTAGGGTAAAATAACCGTAATGCCCCTATA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGGT-AAATGACCGTAATGCCCCTATA
*
9647498 AGGTAAAATAACCGTAATGCCCCTGTAGGGTAAGATGACCGTAATACCCCTATA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGGTAA-ATGACCGTAATGCCCCTATA
* *
9647552 TGTTAAAAT
1 AGGTAAAAT
9647561 GACGATATGC
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.02
54 95 0.95
55 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (53 bp):
AGGTAAAATAACCGTAATGCCCCTGTAGGGTAAATGACCGTAATGCCCCTATA
Found at i:9647530 original size:81 final size:81
Alignment explanation
Indices: 9647391--9647542 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 81
9647381 CCCTTAAATA
* * ** *
9647391 GGTAAAATAACCGTAATACCCCTATAGGGTAAATTGGCCGTAATGCCCCTGTAAGGTAAAATGAT
1 GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
9647456 CGTAATGTCCCTGTAG
66 CGTAATGTCCCTGTAG
* * *
9647472 GGTAAAATAACCGTAATGCCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAGGGTAAGATGAC
1 GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
9647537 CGTAAT
66 CGTAAT
9647543 ACCCCTATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (81 bp):
GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
CGTAATGTCCCTGTAG
Found at i:9647559 original size:81 final size:81
Alignment explanation
Indices: 9647391--9647560 Score: 223
Period size: 81 Copynumber: 2.1 Consensus size: 81
9647381 CCCTTAAATA
* * ** *
9647391 GGTAAAATAACCGTAATACCCCTATAGGGTAAATTGGCCGTAATGCCCCTGTAAGGTAAAATGAT
1 GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
** *
9647456 CGTAATGTCCCTGTAG
66 CGTAATACCCCTATAG
* * *
9647472 GGTAAAATAACCGTAATGCCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAGGGTAAGATGAC
1 GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
*
9647537 CGTAATACCCCTATAT
66 CGTAATACCCCTATAG
*
9647553 GTTAAAAT
1 GGTAAAAT
9647561 GACGATATGC
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (81 bp):
GGTAAAATAACCGTAATACCCCTATAAGGTAAAATAACCGTAATGCCCCTGTAAGGTAAAATGAC
CGTAATACCCCTATAG
Found at i:9647562 original size:27 final size:27
Alignment explanation
Indices: 9647391--9647563 Score: 193
Period size: 27 Copynumber: 6.4 Consensus size: 27
9647381 CCCTTAAATA
* *
9647391 GGTAAAATAACCGTAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * * *
9647418 GGTAAATTGGCCGTAATGCCCCTGTAA
1 GGTAAAATGACCGTAATGCCCCTATAG
* * *
9647445 GGTAAAATGATCGTAATGTCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
9647472 GGTAAAATAACCGTAATGCCCCTATAA
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
9647499 GGTAAAATAACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * *
9647526 GGTAAGATGACCGTAATACCCCTATAT
1 GGTAAAATGACCGTAATGCCCCTATAG
*
9647553 GTTAAAATGAC
1 GGTAAAATGAC
9647564 GATATGCCCT
Statistics
Matches: 121, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTATAG
Found at i:9647882 original size:59 final size:59
Alignment explanation
Indices: 9647779--9647907 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
9647769 GCTGCGATAT
* * *
9647779 TGGTGTGCTGGCTGGGTGGGTTGATTTATATCCCCACATGGTGTGTTGGTTAGTATGGG
1 TGGTGTGCTAGCTGGGTGGGTTGATTTATATCCCCACATAGTGTGTTGGTTAGTACGGG
* * * * *
9647838 TGGTGTGCTAGTTGGGTGGGTTGGTTTATATTCCTACATAGTGTGTTGGTTGGTACGGG
1 TGGTGTGCTAGCTGGGTGGGTTGATTTATATCCCCACATAGTGTGTTGGTTAGTACGGG
*
9647897 TGGTATGCTAG
1 TGGTGTGCTAG
9647908 ATGAATTTGG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.12, C:0.10, G:0.39, T:0.39
Consensus pattern (59 bp):
TGGTGTGCTAGCTGGGTGGGTTGATTTATATCCCCACATAGTGTGTTGGTTAGTACGGG
Found at i:9648023 original size:33 final size:32
Alignment explanation
Indices: 9647938--9648025 Score: 103
Period size: 28 Copynumber: 2.8 Consensus size: 32
9647928 TAATTGCATT
* *
9647938 ACACTGTAGTGATACTGTATTGGGCTTAGGCCC
1 ACACTGTA-TGATACTGTATAGGGCTAAGGCCC
9647971 ACACTGT-T-A-A-TGTATAGGGCTAAGGCCC
1 ACACTGTATGATACTGTATAGGGCTAAGGCCC
*
9647999 AGACTGTACTGATACTGTATAGGGCTA
1 ACACTGTA-TGATACTGTATAGGGCTA
9648026 TTTTTAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
28 22 0.47
29 1 0.02
30 2 0.04
31 2 0.04
32 1 0.02
33 19 0.40
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (32 bp):
ACACTGTATGATACTGTATAGGGCTAAGGCCC
Found at i:9651766 original size:16 final size:16
Alignment explanation
Indices: 9651745--9651776 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9651735 AACTGCAACT
9651745 CTAGTGGACAATACAA
1 CTAGTGGACAATACAA
9651761 CTAGTGGACAATACAA
1 CTAGTGGACAATACAA
9651777 TTATCTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
CTAGTGGACAATACAA
Found at i:9658684 original size:11 final size:10
Alignment explanation
Indices: 9658667--9658696 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
9658657 ACATAAATGA
9658667 ATTTTTTTTC
1 ATTTTTTTTC
9658677 ACTTTTTTTTC
1 A-TTTTTTTTC
9658688 ATTTTTTTT
1 ATTTTTTTT
9658697 AAAGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:9659671 original size:6 final size:6
Alignment explanation
Indices: 9659646--9659708 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
9659636 AACACAGTTC
* * * *
9659646 AAAATAT AAAGAT -AAAAT AAACAT AAGAAG AAAAAT AAAAAT AAAAAT
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
9659694 AACAAT AAACAT AAA
1 AAAAAT AAAAAT AAA
9659709 GACAAATGGA
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
5 4 0.09
6 37 0.84
7 3 0.07
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:9659682 original size:18 final size:18
Alignment explanation
Indices: 9659653--9659708 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
9659643 TTCAAAATAT
9659653 AAAGATAAAATAAACATAA
1 AAAGA-AAAATAAACATAA
* *
9659672 GAAGAAAAATAAAAATAA
1 AAAGAAAAATAAACATAA
* *
9659690 AAATAACAATAAACATAA
1 AAAGAAAAATAAACATAA
9659708 A
1 A
9659709 GACAAATGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
18 27 0.87
19 4 0.13
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAGAAAAATAAACATAA
Found at i:9661432 original size:16 final size:15
Alignment explanation
Indices: 9661413--9661460 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
9661403 AGATAAGAAT
9661413 AATAATAATAAATAAA
1 AATAA-AATAAATAAA
*
9661429 AATAAAAATAAAGAAA
1 AAT-AAAATAAATAAA
9661445 AAT-AAATAAATAAA
1 AATAAAATAAATAAA
9661459 AA
1 AA
9661461 GGGAAACTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 12 0.41
16 15 0.52
17 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (15 bp):
AATAAAATAAATAAA
Found at i:9662642 original size:64 final size:64
Alignment explanation
Indices: 9662541--9662665 Score: 207
Period size: 64 Copynumber: 2.0 Consensus size: 64
9662531 ATAAAAAATA
9662541 AGGAAATTAGCAATGTTAGTACTCGGGTTGCCTCCCGAAAAGCT-CTTATTTAGAGTCTAAGATG
1 AGGAAATTAGCAATGTTAGTACTCGGGTTGCCTCCCGAAAAG-TGCTTATTTAGAGTCTAAGATG
* * *
9662605 AGGAAATTAGCAGTGTTAGTACTCGGGTTGCCTCCCGAGAAGTGCTTATTTATAGTCTAAG
1 AGGAAATTAGCAATGTTAGTACTCGGGTTGCCTCCCGAAAAGTGCTTATTTAGAGTCTAAG
9662666 CTTGACTTAC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.02
64 56 0.98
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
AGGAAATTAGCAATGTTAGTACTCGGGTTGCCTCCCGAAAAGTGCTTATTTAGAGTCTAAGATG
Found at i:9663699 original size:262 final size:261
Alignment explanation
Indices: 9663235--9663759 Score: 969
Period size: 262 Copynumber: 2.0 Consensus size: 261
9663225 TCACCTACAC
* * *
9663235 GAAGTATCAACTCACCTATACCAAAATCTATAATGGTTCTAGCAGTCGCTAAAAAGGGTCGTCCT
1 GAAGTATCAACTCACCTATACCAAAATCTATAATGGTCCTAGCAGTCGCTAAAAAAGGTCATCCT
* *
9663300 AAAATTAAAGGAACGTCGCTATCTCATCCATGTCTAAAACAACAAAATCCACTGGGAATATAAAT
66 AAAATTAAAGGAACGCCACTATCTCATCCATGTCTAAAACAACAAAATCCACTGGGAATATAAAT
9663365 TTATCTATTTTCACAAGTACGTCTTCAACAATACCTCTAGGAAATCTAATTGTTCTATCTGCCAA
131 TTATCTATTTTCACAAGTACGTCTTCAACAATACCTCTAGGAAATCTAATTGTTCTATCTGCCAA
9663430 TTGAATGCTCATCCTAATATGTTTAGGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGCA
196 TTGAATGCTCATCCTAATATGTTTAGGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGCA
9663495 T
261 T
*
9663496 GAAGTATCAACTCACCTATACCAACATCTATAATGGTCCTAGCAGTCGCTAAAAAAGGTCATCCT
1 GAAGTATCAACTCACCTATACCAAAATCTATAATGGTCCTAGCAGTCGCTAAAAAAGGTCATCCT
*
9663561 AAAATTAAAGGAACGCCACTATCCTCATCCATGTCTAAAACAACAAAATCTACTGGGAATATAAA
66 AAAATTAAAGGAACGCCACTAT-CTCATCCATGTCTAAAACAACAAAATCCACTGGGAATATAAA
9663626 TTTATCTATTTTCACAAGTACGTCTTCAACAATACCTCTAGGAAATCTAATTGTTCTATCTGCCA
130 TTTATCTATTTTCACAAGTACGTCTTCAACAATACCTCTAGGAAATCTAATTGTTCTATCTGCCA
*
9663691 ATTGAATGCTCATCCTAATGTGTTTAGGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGC
195 ATTGAATGCTCATCCTAATATGTTTAGGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGC
9663756 AT
260 AT
9663758 GA
1 GA
9663760 CGTTAATACT
Statistics
Matches: 255, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
261 81 0.32
262 174 0.68
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (261 bp):
GAAGTATCAACTCACCTATACCAAAATCTATAATGGTCCTAGCAGTCGCTAAAAAAGGTCATCCT
AAAATTAAAGGAACGCCACTATCTCATCCATGTCTAAAACAACAAAATCCACTGGGAATATAAAT
TTATCTATTTTCACAAGTACGTCTTCAACAATACCTCTAGGAAATCTAATTGTTCTATCTGCCAA
TTGAATGCTCATCCTAATATGTTTAGGTTTCCCAAAACCTAGTTGCTTAAACATTTTATAGGGCA
T
Found at i:9665706 original size:44 final size:44
Alignment explanation
Indices: 9665658--9665747 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
9665648 TACCAGAAGC
9665658 AAATAAGAGAAAAGTTAGTAAATTAAAGTAAAAAACAAAAATAA
1 AAATAAGAGAAAAGTTAGTAAATTAAAGTAAAAAACAAAAATAA
9665702 AAATAAGAGAAAAGTTAGTAAATTAAAGTAAAAAACAAAAATAA
1 AAATAAGAGAAAAGTTAGTAAATTAAAGTAAAAAACAAAAATAA
9665746 AA
1 AA
9665748 TGTAATAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (44 bp):
AAATAAGAGAAAAGTTAGTAAATTAAAGTAAAAAACAAAAATAA
Found at i:9666491 original size:34 final size:34
Alignment explanation
Indices: 9666447--9666521 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
9666437 CATAATTGAG
9666447 ATCAAGAACAAATATTTATCATGTAATTCAGAAAA
1 ATCAA-AACAAATATTTATCATGTAATTCAGAAAA
9666482 ATCAAAACAAATATTTATCATGTAATTCAGAAAA
1 ATCAAAACAAATATTTATCATGTAATTCAGAAAA
9666516 ATCAAA
1 ATCAAA
9666522 TAATAAGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 35 0.88
35 5 0.12
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (34 bp):
ATCAAAACAAATATTTATCATGTAATTCAGAAAA
Found at i:9677244 original size:17 final size:18
Alignment explanation
Indices: 9677224--9677261 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
9677214 TTTCATTAAG
9677224 TTTTTAAGACTCATTT-T
1 TTTTTAAGACTCATTTGT
*
9677241 TTTTTAAGATTCATTTGT
1 TTTTTAAGACTCATTTGT
9677259 TTT
1 TTT
9677262 CCTTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTTTAAGACTCATTTGT
Found at i:9678700 original size:24 final size:26
Alignment explanation
Indices: 9678649--9678700 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
9678639 ATCGATAAGA
**
9678649 ATTATAAGTTGAGGATAATTTATTTTG
1 ATTATAAGTTGAGGAT-ATTTAGCTTG
9678676 ATTATAAGTTGAGGAT-TTT-GCTTG
1 ATTATAAGTTGAGGATATTTAGCTTG
9678700 A
1 A
9678701 GGACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 3 0.13
27 16 0.70
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (26 bp):
ATTATAAGTTGAGGATATTTAGCTTG
Found at i:9680890 original size:40 final size:40
Alignment explanation
Indices: 9680821--9680916 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
9680811 GATTATGTTC
* * *
9680821 GGCACTAAGTGTGAGATTTGAAATTGCTTCGGCTATAAAT-A
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTAT--ATGA
*
9680862 -GCACTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATATGA
9680901 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
9680917 TACCAAGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 46 0.94
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATATGA
Found at i:9682749 original size:59 final size:61
Alignment explanation
Indices: 9682683--9682799 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
9682673 ATCACTTTAA
* * *
9682683 TATTAAATTAATATAATATTTA-TA-AAGATAAATATTAGATTAAATTTCATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
9682742 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
9682800 TATAAGATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 21 0.41
61 2 0.04
62 28 0.55
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:9682818 original size:25 final size:26
Alignment explanation
Indices: 9682789--9682902 Score: 89
Period size: 25 Copynumber: 4.7 Consensus size: 26
9682779 TTAAATTTAA
9682789 TTTAATATTAATA-TAAGATAATCAT
1 TTTAATATTAATATTAAGATAATCAT
* * *
9682814 TTTAATATTAA-ATTAATAAAATAAT
1 TTTAATATTAATATTAAGATAATCAT
* * * * *
9682839 ATTAAGATAAATATTAA-AT--TTAA
1 TTTAATATTAATATTAAGATAATCAT
* *
9682862 TTTAATATTAAGA-TAAGATAATCAC
1 TTTAATATTAATATTAAGATAATCAT
9682887 TTTAATATTAA-ATTAA
1 TTTAATATTAATATTAA
9682903 TAAAATACTA
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
22 3 0.04
23 13 0.19
24 2 0.03
25 45 0.66
26 5 0.07
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.42
Consensus pattern (26 bp):
TTTAATATTAATATTAAGATAATCAT
Found at i:9682854 original size:73 final size:73
Alignment explanation
Indices: 9682742--9682945 Score: 318
Period size: 73 Copynumber: 2.7 Consensus size: 73
9682732 TATTAAATCT
* * *
9682742 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAATATAAGA
1 TATTAAATTAATAAAATA-ATAT-T--AAGATAAATATTAAATTTAATTTAATATTAAGATAAGA
*
9682807 TAATCATTTTAA
62 TAATCACTTTAA
9682819 TATTAAATTAATAAAATAATATTAAGATAAATATTAAATTTAATTTAATATTAAGATAAGATAAT
1 TATTAAATTAATAAAATAATATTAAGATAAATATTAAATTTAATTTAATATTAAGATAAGATAAT
9682884 CACTTTAA
66 CACTTTAA
* *
9682892 TATTAAATTAATAAAATACTACTAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAAAATAATATTAAGATAAATATTAAATTTAATTTAATATTAA
9682946 ATCTATTAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
73 100 0.83
75 1 0.01
76 3 0.02
77 17 0.14
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (73 bp):
TATTAAATTAATAAAATAATATTAAGATAAATATTAAATTTAATTTAATATTAAGATAAGATAAT
CACTTTAA
Found at i:9682874 original size:29 final size:30
Alignment explanation
Indices: 9682817--9682877 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
9682807 TAATCATTTT
9682817 AATATTAAATTAATAAAATAATATTAAGATA
1 AATATTAAATT-ATAAAATAATATTAAGATA
**
9682848 AATATTAAATT-TAATTTAATATTAAGATA
1 AATATTAAATTATAAAATAATATTAAGATA
9682877 A
1 A
9682878 GATAATCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.61
31 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
AATATTAAATTATAAAATAATATTAAGATA
Found at i:9687481 original size:93 final size:93
Alignment explanation
Indices: 9687374--9687544 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
9687364 GCCCCTAAGT
* *
9687374 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
9687439 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
9687467 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
9687532 CGAGTTCGGATGC
66 CGAGTTCGGATGC
9687545 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:9687541 original size:46 final size:46
Alignment explanation
Indices: 9687369--9687541 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
9687359 AACCCGCCCC
* * *
9687369 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
9687415 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
9687463 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
9687508 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
9687542 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:9687996 original size:30 final size:30
Alignment explanation
Indices: 9687962--9688021 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9687952 ATTTAATACG
9687962 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
9687992 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
9688022 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:9695006 original size:46 final size:45
Alignment explanation
Indices: 9694939--9695109 Score: 213
Period size: 46 Copynumber: 3.7 Consensus size: 45
9694929 AACCCGCCCC
*
9694939 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
*
9694985 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
9695033 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
9695077 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
9695110 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 9, Indels: 17
0.81 0.07 0.13
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 3 0.03
45 28 0.26
46 32 0.30
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:9695102 original size:92 final size:93
Alignment explanation
Indices: 9694944--9695113 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
9694934 GCCCCTAAGT
* *
9694944 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
9695009 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
9695037 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
9695101 CGAGTTCGGATGC
66 CGAGTTCGGATGC
9695114 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 44 0.59
93 30 0.41
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:9695564 original size:30 final size:30
Alignment explanation
Indices: 9695530--9695589 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9695520 ATTTAATACG
9695530 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
9695560 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
9695590 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Done.