Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 50 of 143
Found at i:15971868 original size:26 final size:26
Alignment explanation
Indices: 15971828--15971889 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
15971818 ATATTCACAC
* *
15971828 AGCGATAATTTTGAACAAGTTCTTGT
1 AGCGACAATTCTGAACAAGTTCTTGT
15971854 AGCGACAATTCTGAACAAGTTCTTGT
1 AGCGACAATTCTGAACAAGTTCTTGT
15971880 AGCGACAATT
1 AGCGACAATT
15971890 TTGGGCACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (26 bp):
AGCGACAATTCTGAACAAGTTCTTGT
Found at i:15973438 original size:12 final size:12
Alignment explanation
Indices: 15973421--15973460 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
15973411 CTTTTCAGCT
15973421 TCTTTTCCTTCC
1 TCTTTTCCTTCC
*
15973433 TCTTTTTCTTCC
1 TCTTTTCCTTCC
15973445 TCTTTTCCTTCC
1 TCTTTTCCTTCC
15973457 TCTT
1 TCTT
15973461 CTACCACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (12 bp):
TCTTTTCCTTCC
Found at i:15973439 original size:24 final size:24
Alignment explanation
Indices: 15973412--15973460 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
15973402 AACTGAATCC
*
15973412 TTTTCAGCTTCTTTTCCTTCCTCT
1 TTTTCAGCCTCTTTTCCTTCCTCT
**
15973436 TTTTCTTCCTCTTTTCCTTCCTCT
1 TTTTCAGCCTCTTTTCCTTCCTCT
15973460 T
1 T
15973461 CTACCACTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTCAGCCTCTTTTCCTTCCTCT
Found at i:15973472 original size:24 final size:24
Alignment explanation
Indices: 15973419--15973473 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
15973409 TCCTTTTCAG
* * **
15973419 CTTCTTTTCCTTCCTCTTTTTCTT
1 CTTCTTTTCCTTCCTCTTCTACCA
*
15973443 CCTCTTTTCCTTCCTCTTCTACCA
1 CTTCTTTTCCTTCCTCTTCTACCA
15973467 CTTCTTT
1 CTTCTTT
15973474 CACTTGTGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.04, C:0.38, G:0.00, T:0.58
Consensus pattern (24 bp):
CTTCTTTTCCTTCCTCTTCTACCA
Found at i:15983719 original size:26 final size:26
Alignment explanation
Indices: 15983683--15983742 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
15983673 ACGCAGTGAT
15983683 AATTTTGAACAAGTTCTTGCAACGAA-
1 AATTTTGAACAAGTTCTTGCAAC-AAC
*
15983709 AATTTTGAACAAGTTCTTGCAGCAAC
1 AATTTTGAACAAGTTCTTGCAACAAC
15983735 AATTTTGA
1 AATTTTGA
15983743 GCGCAATGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 2 0.06
26 30 0.94
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (26 bp):
AATTTTGAACAAGTTCTTGCAACAAC
Found at i:15984053 original size:113 final size:113
Alignment explanation
Indices: 15983855--15984083 Score: 458
Period size: 113 Copynumber: 2.0 Consensus size: 113
15983845 AAATTAAAAA
15983855 ATGCTAAAAATGTATACTAAAGATGACCAAATGGGAACAACCTAAACAATAAGTAGTGACAAATC
1 ATGCTAAAAATGTATACTAAAGATGACCAAATGGGAACAACCTAAACAATAAGTAGTGACAAATC
15983920 AATGGTTGTTTCTAGTACTATCAGTTACTCAACTTCCCCACAATCCAG
66 AATGGTTGTTTCTAGTACTATCAGTTACTCAACTTCCCCACAATCCAG
15983968 ATGCTAAAAATGTATACTAAAGATGACCAAATGGGAACAACCTAAACAATAAGTAGTGACAAATC
1 ATGCTAAAAATGTATACTAAAGATGACCAAATGGGAACAACCTAAACAATAAGTAGTGACAAATC
15984033 AATGGTTGTTTCTAGTACTATCAGTTACTCAACTTCCCCACAATCCAG
66 AATGGTTGTTTCTAGTACTATCAGTTACTCAACTTCCCCACAATCCAG
15984081 ATG
1 ATG
15984084 AGATCCCAAT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 116 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (113 bp):
ATGCTAAAAATGTATACTAAAGATGACCAAATGGGAACAACCTAAACAATAAGTAGTGACAAATC
AATGGTTGTTTCTAGTACTATCAGTTACTCAACTTCCCCACAATCCAG
Found at i:15994381 original size:19 final size:18
Alignment explanation
Indices: 15994349--15994419 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 18
15994339 TTAAAGATAT
15994349 ATATTTTGAAATTTTTATAA
1 ATATTTT-AAATTTTTA-AA
*
15994369 ATATTTTAAATTTTAAAA
1 ATATTTTAAATTTTTAAA
*
15994387 ATTATTTTGAATTTTTGAAA
1 A-TATTTTAAATTTTT-AAA
15994407 ATCATTTTAAATT
1 AT-ATTTTAAATT
15994420 ATTTTATACT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 3 0.07
19 21 0.48
20 20 0.45
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (18 bp):
ATATTTTAAATTTTTAAA
Found at i:15998608 original size:16 final size:16
Alignment explanation
Indices: 15998583--15998622 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15998573 ACATATATAT
15998583 TTTTTCTTCTTTTCCCC
1 TTTTT-TTCTTTTCCCC
* *
15998600 TTTTTTTCTTTTTCTC
1 TTTTTTTCTTTTCCCC
15998616 TTTTTTT
1 TTTTTTT
15998623 TATGTGACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTCTTTTCCCC
Found at i:15999307 original size:12 final size:13
Alignment explanation
Indices: 15999275--15999307 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15999265 GATATGCATG
15999275 AAAACTAAAACTA
1 AAAACTAAAACTA
*
15999288 AGAACTAAAA-TA
1 AAAACTAAAACTA
15999300 AAAACTAA
1 AAAACTAA
15999308 CTCAATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAACTAAAACTA
Found at i:16011552 original size:39 final size:38
Alignment explanation
Indices: 16011503--16011602 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 38
16011493 CGAATATAAT
* * *
16011503 AATTATAATTACCATAATTATAATTATGTTTGACTGAAA
1 AATTATAATTACAATAATTATAATAATATTTGACTG-AA
* * *
16011542 AATTACAATTACAATAATTATAATAATATTTGATTGTA
1 AATTATAATTACAATAATTATAATAATATTTGACTGAA
16011580 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
16011603 CAAGGATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 23 0.43
39 31 0.57
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTTGACTGAA
Found at i:16013405 original size:14 final size:14
Alignment explanation
Indices: 16013386--16013419 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
16013376 ATCTAGGCCT
16013386 TCCTTTTGCCTAAA
1 TCCTTTTGCCTAAA
16013400 TCCTTTTGCCTAAA
1 TCCTTTTGCCTAAA
16013414 TCCTTT
1 TCCTTT
16013420 AGCCACCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (14 bp):
TCCTTTTGCCTAAA
Found at i:16017166 original size:43 final size:43
Alignment explanation
Indices: 16017081--16017364 Score: 365
Period size: 43 Copynumber: 6.6 Consensus size: 43
16017071 ATGCTCTATC
* * * * *
16017081 CGAGACATAAGTCTTCC-TTTAAATATAATCTCATGCTCATCT
1 CGAGACATGAGTCTTCCATTTATACATAATCTCACGCTCATTT
* * *
16017123 CGAGACATGAGTCTTCCATTTATACATAATCTCATGCTAATCT
1 CGAGACATGAGTCTTCCATTTATACATAATCTCACGCTCATTT
* * *
16017166 CGAGTCACGAGTCTTCCATTTATACATAATCTCACACTCA-TT
1 CGAGACATGAGTCTTCCATTTATACATAATCTCACGCTCATTT
*
16017208 CTGAGACATGAGTATTCCATTTATACATAATCTCACGCTCATTT
1 C-GAGACATGAGTCTTCCATTTATACATAATCTCACGCTCATTT
* * * *
16017252 CGAGACATGGGTTTTTCATTTATACCTAATCTCACGCTCATTT
1 CGAGACATGAGTCTTCCATTTATACATAATCTCACGCTCATTT
** *
16017295 CGAGACGCGAGTCTTCCATTTATACATAATCTCATGCTCATTT
1 CGAGACATGAGTCTTCCATTTATACATAATCTCACGCTCATTT
*
16017338 TGAGACATGAGTCTTCCATTTATACAT
1 CGAGACATGAGTCTTCCATTTATACAT
16017365 CAATTGATTT
Statistics
Matches: 211, Mismatches: 28, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
42 18 0.09
43 190 0.90
44 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (43 bp):
CGAGACATGAGTCTTCCATTTATACATAATCTCACGCTCATTT
Found at i:16020851 original size:136 final size:136
Alignment explanation
Indices: 16020607--16020880 Score: 539
Period size: 136 Copynumber: 2.0 Consensus size: 136
16020597 TGTGCCGTTA
16020607 CACTCTATCAACAACTATATGCCTGGTAGCCTTTTTGACCCAATCACCTCATAGTAGGAGCCCTC
1 CACTCTATCAACAACTATATGCCTGGTAGCCTTTTTGACCCAATCACCTCATAGTAGGAGCCCTC
16020672 ACAACCTTACCACTTAACATATGAAGCAAAGTTGTTATTGGTTAGGACCCCCAGTCAACTCACCT
66 ACAACCTTACCACTTAACATATGAAGCAAAGTTGTTATTGGTTAGGACCCCCAGTCAACTCACCT
16020737 CCAAAC
131 CCAAAC
*
16020743 CACTCTATCACCAACTATATGCCTGGTAGCCTTTTTGACCCAATCACCTCATAGTAGGAGCCCTC
1 CACTCTATCAACAACTATATGCCTGGTAGCCTTTTTGACCCAATCACCTCATAGTAGGAGCCCTC
16020808 ACAACCTTACCACTTAACATATGAAGCAAAGTTGTTATTGGTTAGGACCCCCAGTCAACTCACCT
66 ACAACCTTACCACTTAACATATGAAGCAAAGTTGTTATTGGTTAGGACCCCCAGTCAACTCACCT
16020873 CCAAAC
131 CCAAAC
16020879 CA
1 CA
16020881 ACTATCTATA
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (136 bp):
CACTCTATCAACAACTATATGCCTGGTAGCCTTTTTGACCCAATCACCTCATAGTAGGAGCCCTC
ACAACCTTACCACTTAACATATGAAGCAAAGTTGTTATTGGTTAGGACCCCCAGTCAACTCACCT
CCAAAC
Found at i:16021432 original size:86 final size:86
Alignment explanation
Indices: 16021295--16021538 Score: 287
Period size: 86 Copynumber: 2.8 Consensus size: 86
16021285 TTTTCCCCAA
* * * * *
16021295 AAAAAAAGCAATTAAGCCCATT-TTTTTTGAACCCAATTAGGTACTTGAACTTTCAAAATGCATA
1 AAAAAAAGCAATTAAGCCC-TTGTTTTTTTAACTCAAATGGGTACTTGAACTTTCAAAATGCATC
16021359 AAAAAGGCCCTCAAAATTTTT-
65 AAAAAGGCCCTCAAAATTTTTC
* * * *
16021380 AAAAGAAGCAATTAAGCCCTTGGTTTTTTTAACTCAACTGGGTACTTGAACTTTTAAAATGTATC
1 AAAAAAAGCAATTAAGCCCTT-GTTTTTTTAACTCAAATGGGTACTTGAACTTTCAAAATGCATC
* *
16021445 AAAAAGGCCTTCAAATTTTTTC
65 AAAAAGGCCCTCAAAATTTTTC
* * * *
16021467 AAAAAAAGCAACTAAGCCCTTGAATTTTTTTACAGTCAAATGAGTACTTGAACTGTC-AAATGCA
1 AAAAAAAGCAATTAAGCCCTTG--TTTTTTTA-ACTCAAATGGGTACTTGAACTTTCAAAATGCA
16021531 TCAAAAAG
63 TCAAAAAG
16021539 CCACATTGAT
Statistics
Matches: 135, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
84 2 0.01
85 18 0.13
86 55 0.41
87 19 0.14
88 22 0.16
89 19 0.14
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (86 bp):
AAAAAAAGCAATTAAGCCCTTGTTTTTTTAACTCAAATGGGTACTTGAACTTTCAAAATGCATCA
AAAAGGCCCTCAAAATTTTTC
Found at i:16021677 original size:20 final size:21
Alignment explanation
Indices: 16021652--16021699 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16021642 AAAAATTATA
*
16021652 AAAAATTATT-AAATTTTAAT
1 AAAAATTATTAAAAATTTAAT
*
16021672 AAAAA-TATTAAAAATTTATT
1 AAAAATTATTAAAAATTTAAT
16021692 AAAAATTA
1 AAAAATTA
16021700 GAATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATTATTAAAAATTTAAT
Found at i:16037120 original size:17 final size:17
Alignment explanation
Indices: 16037069--16037131 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
16037059 CATTAAATTA
16037069 CAATGACAAATGGAAATG
1 CAATGAC-AATGGAAATG
* *
16037087 CAGTGACAATGCAAATG
1 CAATGACAATGGAAATG
*
16037104 CAATGACAATGGGAATG
1 CAATGACAATGGAAATG
**
16037121 TGATGACAATG
1 CAATGACAATG
16037132 CTTACTAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 32 0.84
18 6 0.16
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (17 bp):
CAATGACAATGGAAATG
Found at i:16039314 original size:22 final size:22
Alignment explanation
Indices: 16039260--16039314 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
16039250 GCAGATGAGG
16039260 TGCATCGACAAGGAGATCTGCA
1 TGCATCGACAAGGAGATCTGCA
* *
16039282 TGCGTCGACAAGGAGATTTGCA
1 TGCATCGACAAGGAGATCTGCA
*
16039304 TGCATCAACAA
1 TGCATCGACAA
16039315 AAAAGATGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TGCATCGACAAGGAGATCTGCA
Found at i:16051473 original size:52 final size:52
Alignment explanation
Indices: 16051374--16051662 Score: 304
Period size: 52 Copynumber: 5.6 Consensus size: 52
16051364 TAAATGAGAA
* *
16051374 AGGTCCGATGACCAT-GTGTCATCGT-AGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGA-CTTCGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
16051425 AGGTCTGATGACTTCGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTTCGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
16051477 AGGTCCGATGA-TAT-GTGTCATAGTGAGTACATGAATCCTTTACGGGTTATG
1 AGGTCCGATGACT-TCGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
** * * *
16051528 AGGTCTAATGACTACGTGTCATCGTGAGTATGA-AAATCCTTTACAGATTATG
1 AGGTCCGATGACTTCGTGTCATCGTGAGTAT-ATGAATCCTTTACGGATTATG
* * * * * ** *
16051580 AGGTCCGGTGACTAT-GTATCATCGTGAGTGTATGATTCCTTTACGTAACAAG
1 AGGTCCGATGACT-TCGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
16051632 AGGTCCGATGAC-TCTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTTC-GTGTCATCGTGAGTAT
16051663 TAACTGTAAT
Statistics
Matches: 195, Mismatches: 33, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
50 3 0.02
51 63 0.32
52 128 0.66
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (52 bp):
AGGTCCGATGACTTCGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:16051556 original size:103 final size:104
Alignment explanation
Indices: 16051374--16051624 Score: 346
Period size: 103 Copynumber: 2.4 Consensus size: 104
16051364 TAAATGAGAA
* * *
16051374 AGGTCCGATGACCATGTGTCATCGT-AGTATATGAATCCTTTATGGATTATGAGGTCTGATGACT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTAATGACT
* * *
16051438 TCGTGTCATCATGAGTAT-ATGAATCCTTTACGGATTATG
66 ACGTGTCATCATGAGTATGA-AAATCCTTTACAGATTATG
* * *
16051477 AGGTCCGATGA-TATGTGTCATAGTGAGTACATGAATCCTTTACGGGTTATGAGGTCTAATGACT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTAATGACT
*
16051541 ACGTGTCATCGTGAGTATGAAAATCCTTTACAGATTATG
66 ACGTGTCATCATGAGTATGAAAATCCTTTACAGATTATG
* * * *
16051580 AGGTCCGGTGACTATGTATCATCGTGAGTGTATGATTCCTTTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACG
16051625 TAACAAGAGG
Statistics
Matches: 129, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
102 11 0.09
103 89 0.69
104 29 0.22
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (104 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCTAATGACT
ACGTGTCATCATGAGTATGAAAATCCTTTACAGATTATG
Found at i:16057092 original size:17 final size:17
Alignment explanation
Indices: 16057059--16057092 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16057049 ATCTCAATTC
**
16057059 TTTTATTTTATTTTCTG
1 TTTTATTTTATGCTCTG
16057076 TTTTATTTTATGCTCTG
1 TTTTATTTTATGCTCTG
16057093 CAAAATCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTTATTTTATGCTCTG
Found at i:16094605 original size:24 final size:23
Alignment explanation
Indices: 16094578--16094631 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
16094568 CATTGCAAAT
16094578 TTTTCTGTTAATTT-TTGTCTTTTA
1 TTTTCTGTTAATTTGTT-TC-TTTA
16094602 TTTTACT-TTAATTTGTTTCTTTA
1 TTTT-CTGTTAATTTGTTTCTTTA
*
16094625 GTTTCTG
1 TTTTCTG
16094632 CAGGAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 2 0.08
23 7 0.27
24 13 0.50
25 4 0.15
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTTTCTGTTAATTTGTTTCTTTA
Found at i:16096874 original size:17 final size:17
Alignment explanation
Indices: 16096852--16096899 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
16096842 TTTTATCTAG
16096852 TTGTCATTACATTTTAA
1 TTGTCATTACATTTTAA
* * *
16096869 TTGTCACTGCATTTTAC
1 TTGTCATTACATTTTAA
* *
16096886 TTGTTATCACATTT
1 TTGTCATTACATTT
16096900 GCATTGTAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (17 bp):
TTGTCATTACATTTTAA
Found at i:16110231 original size:24 final size:24
Alignment explanation
Indices: 16110204--16110261 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
16110194 CTTTCATTTT
16110204 TTTTCCCGTTCCCTCTCTCTTTAC
1 TTTTCCCGTTCCCTCTCTCTTTAC
16110228 TTTTCCCGTTCCCTCTCTCTTTAC
1 TTTTCCCGTTCCCTCTCTCTTTAC
16110252 TTTTCCCGTT
1 TTTTCCCGTT
16110262 TTTCTCACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.03, C:0.40, G:0.05, T:0.52
Consensus pattern (24 bp):
TTTTCCCGTTCCCTCTCTCTTTAC
Found at i:16111318 original size:15 final size:15
Alignment explanation
Indices: 16111298--16111327 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16111288 GTGCATTGGG
16111298 ATGGGAAATATGATT
1 ATGGGAAATATGATT
16111313 ATGGGAAATATGATT
1 ATGGGAAATATGATT
16111328 TTCTGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (15 bp):
ATGGGAAATATGATT
Found at i:16117809 original size:16 final size:16
Alignment explanation
Indices: 16117778--16117808 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16117768 GTATGGAATG
16117778 TGAAAGCTTTTTAAAA
1 TGAAAGCTTTTTAAAA
16117794 TGAAAG-TTTTTAAAA
1 TGAAAGCTTTTTAAAA
16117809 AATAATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (16 bp):
TGAAAGCTTTTTAAAA
Found at i:16118521 original size:11 final size:11
Alignment explanation
Indices: 16118502--16118532 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
16118492 AGAATTCTAG
*
16118502 TTTTAAAAGAA
1 TTTTTAAAGAA
16118513 TTTTTAAAGAA
1 TTTTTAAAGAA
16118524 TTTTTAAAG
1 TTTTTAAAG
16118533 TTGCAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (11 bp):
TTTTTAAAGAA
Found at i:16128429 original size:3 final size:3
Alignment explanation
Indices: 16128406--16128460 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
16128396 GTATTGAGGC
*
16128406 AGA AGA AGG AGAA AGA A-A AGA AGA AGA AGA AGA AGA AG- AGA AGGA
1 AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA
*
16128451 AGA AAA AGA A
1 AGA AGA AGA A
16128461 AAATATGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 35 0.80
4 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16133592 original size:5 final size:5
Alignment explanation
Indices: 16133582--16133606 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16133572 ACAACATTTG
16133582 TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA
16133607 GATTAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:16137472 original size:12 final size:12
Alignment explanation
Indices: 16137455--16137479 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16137445 AAGCTCAACT
16137455 TCCATGATAGGA
1 TCCATGATAGGA
16137467 TCCATGATAGGA
1 TCCATGATAGGA
16137479 T
1 T
16137480 GTTGTAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TCCATGATAGGA
Found at i:16152634 original size:129 final size:129
Alignment explanation
Indices: 16152404--16152665 Score: 506
Period size: 129 Copynumber: 2.0 Consensus size: 129
16152394 CATCCGTGCC
16152404 TGATAGATCCATACTAAGACCACCGTCGCCTCCAGGTAAACTTCGAAGTGAGCTGTAAAAGATGA
1 TGATAGATCCATACTAAGACCACCGTCGCCTCCAGGTAAACTTCGAAGTGAGCTGTAAAAGATGA
16152469 TGGATTGCATGCAACACATGCAATGGCAGCAACAATCGTTTTGGAGATACACGAAGATACGAGA
66 TGGATTGCATGCAACACATGCAATGGCAGCAACAATCGTTTTGGAGATACACGAAGATACGAGA
*
16152533 TGATAGATCCATACTAAGACCACCGTCGCCTCCAGTTAAACTTCGAAGTGAGCTGTAAAAGATGA
1 TGATAGATCCATACTAAGACCACCGTCGCCTCCAGGTAAACTTCGAAGTGAGCTGTAAAAGATGA
*
16152598 TGGATTGCATGCAACACATGCAATGGCAGCAACAATCGTTTTGTAGATACACGAAGATACGAGA
66 TGGATTGCATGCAACACATGCAATGGCAGCAACAATCGTTTTGGAGATACACGAAGATACGAGA
16152662 TGAT
1 TGAT
16152666 GCATTTAAAA
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 131 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (129 bp):
TGATAGATCCATACTAAGACCACCGTCGCCTCCAGGTAAACTTCGAAGTGAGCTGTAAAAGATGA
TGGATTGCATGCAACACATGCAATGGCAGCAACAATCGTTTTGGAGATACACGAAGATACGAGA
Found at i:16153761 original size:16 final size:17
Alignment explanation
Indices: 16153739--16153780 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
16153729 AATGATGCTT
16153739 AGAAAAAAAAGA-AAAA
1 AGAAAAAAAAGAGAAAA
*
16153755 CGAAAAAAAAGAGAAAA
1 AGAAAAAAAAGAGAAAA
16153772 AGAAAAAAA
1 AGAAAAAAA
16153781 GAGCATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAGAGAAAA
Found at i:16153764 original size:18 final size:17
Alignment explanation
Indices: 16153741--16153780 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
16153731 TGATGCTTAG
16153741 AAAAAAAAGAAAAACGAA
1 AAAAAAAAGAAAAA-GAA
*
16153759 AAAAAAGAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
16153776 AAAAA
1 AAAAA
16153781 GAGCATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:16153781 original size:16 final size:16
Alignment explanation
Indices: 16153739--16153783 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
16153729 AATGATGCTT
16153739 AGAAAAAAA-AGAAAA
1 AGAAAAAAAGAGAAAA
16153754 ACGAAAAAAAAGAGAAAA
1 A-G-AAAAAAAGAGAAAA
16153772 AGAAAAAAAGAG
1 AGAAAAAAAGAG
16153784 CATATGTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.04
16 11 0.41
17 8 0.30
18 7 0.26
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAGAGAAAA
Found at i:16154132 original size:15 final size:15
Alignment explanation
Indices: 16154112--16154142 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16154102 GCATGACAAT
*
16154112 AATTAAAGATAATTG
1 AATTAAAAATAATTG
16154127 AATTAAAAATAATTG
1 AATTAAAAATAATTG
16154142 A
1 A
16154143 GCTACATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AATTAAAAATAATTG
Found at i:16154373 original size:16 final size:18
Alignment explanation
Indices: 16154352--16154388 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 18
16154342 TGTCAAAAAT
16154352 ATAATT-TATTTA-TAAA
1 ATAATTATATTTATTAAA
16154368 ATAATTAATATTTATTAAA
1 ATAATT-ATATTTATTAAA
16154387 AT
1 AT
16154389 GACTAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTATATTTATTAAA
Found at i:16156148 original size:26 final size:26
Alignment explanation
Indices: 16156087--16156151 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
16156077 AACGAGTTCC
* *
16156087 TGTAGTGATAATTCTGGGCATGCTCA
1 TGTAGTGACAATTCTGGACATGCTCA
* * *
16156113 TGCAGCGACATTTCTGGACAT-CGTCA
1 TGTAGTGACAATTCTGGACATGC-TCA
16156139 TGTAGTGACAATT
1 TGTAGTGACAATT
16156152 TTGGTTCCAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (26 bp):
TGTAGTGACAATTCTGGACATGCTCA
Found at i:16156201 original size:38 final size:38
Alignment explanation
Indices: 16156124--16156204 Score: 119
Period size: 38 Copynumber: 2.1 Consensus size: 38
16156114 GCAGCGACAT
* * *
16156124 TTCTGGACATCGTCATGTAGTGACAATTTTGGTTCCAA
1 TTCTGGACATCGTCATGCAGTGACAATTCTGGTGCCAA
16156162 TTCTGGACATCGTCATGCAGTGACAATTCTGG-GCGCAA
1 TTCTGGACATCGTCATGCAGTGACAATTCTGGTGC-CAA
16156200 TTCTG
1 TTCTG
16156205 AATAAACTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
37 1 0.03
38 38 0.97
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (38 bp):
TTCTGGACATCGTCATGCAGTGACAATTCTGGTGCCAA
Found at i:16157492 original size:22 final size:22
Alignment explanation
Indices: 16157461--16157502 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16157451 TGATACTCGA
16157461 CATTACTTGTCACTTTATTATT
1 CATTACTTGTCACTTTATTATT
*
16157483 CATTATTTGTCACTTTATTA
1 CATTACTTGTCACTTTATTA
16157503 CTTGAAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.55
Consensus pattern (22 bp):
CATTACTTGTCACTTTATTATT
Found at i:16167994 original size:40 final size:40
Alignment explanation
Indices: 16167936--16168042 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
16167926 GGAAAATACC
* * *
16167936 GCAAAAAGTAAATCAATAGCGGCGTTTTTCCATAAACACA
1 GCAAAAAGTAAAGCAATAGCGACGTTTTTACATAAACACA
* * * * *
16167976 GTAAAAGGTAAAGCAATAGCGATGTTTTTACATAAACGCT
1 GCAAAAAGTAAAGCAATAGCGACGTTTTTACATAAACACA
* *
16168016 GCAAAATGTGAAGCAATAGCGACGTTT
1 GCAAAAAGTAAAGCAATAGCGACGTTT
16168043 GTAGGAAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
GCAAAAAGTAAAGCAATAGCGACGTTTTTACATAAACACA
Found at i:16168110 original size:41 final size:42
Alignment explanation
Indices: 16168027--16168166 Score: 135
Period size: 41 Copynumber: 3.4 Consensus size: 42
16168017 CAAAATGTGA
* * * * * * *
16168027 AGCAATAGCGACGTTTGTAGGAAAAACACCGTTAAAGATCAG
1 AGCATTAGCGGCGTTTATAGGAAGAACTCCGCTAAAGGTCAG
16168069 AGCATTAGCGGCGTTTATTA-GAA-AACGT-CGCTAAAGGTCAG
1 AGCATTAGCGGCGTTTA-TAGGAAGAAC-TCCGCTAAAGGTCAG
* * *
16168110 AGAATTAGCGGCGTTCATAGGAAGAACTCCGCTAAAGGTTA-
1 AGCATTAGCGGCGTTTATAGGAAGAACTCCGCTAAAGGTCAG
*
16168151 AGCAATAGCGGCGTTT
1 AGCATTAGCGGCGTTT
16168167 TCCCATAAAC
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
40 2 0.02
41 46 0.57
42 31 0.38
43 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (42 bp):
AGCATTAGCGGCGTTTATAGGAAGAACTCCGCTAAAGGTCAG
Found at i:16168535 original size:29 final size:29
Alignment explanation
Indices: 16168454--16168538 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 29
16168444 GATTACATCA
*
16168454 AAATTAAAGTTTCATGTATA-CATGTGAACC
1 AAATTAAAG-TTCATGTATATAAT-TGAACC
* * * *
16168484 ACAATTAGAAATTCACGTGTATAATTGCACC
1 A-AATTA-AAGTTCATGTATATAATTGAACC
16168515 AAATTAAAGTTCATGTATATAATT
1 AAATTAAAGTTCATGTATATAATT
16168539 ACACATTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
29 15 0.34
30 6 0.14
31 19 0.43
32 4 0.09
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (29 bp):
AAATTAAAGTTCATGTATATAATTGAACC
Found at i:16169916 original size:41 final size:41
Alignment explanation
Indices: 16169852--16170004 Score: 132
Period size: 41 Copynumber: 3.8 Consensus size: 41
16169842 AAAAAATTAG
* *
16169852 AGGTCAAGCAATAGCAGCGTTTATAGGGAAAACAC-T-GCTAA
1 AGGTCAAGCAATAGCGGCATTTAT-GGGAAAA-ACGTCGCTAA
*
16169893 AGGTCAAGCAATAGCGGTATTTATGGGAAAAACGTCGCTAA
1 AGGTCAAGCAATAGCGGCATTTATGGGAAAAACGTCGCTAA
* * *** * * * *
16169934 AGGTAAAGCAATAGCGGCGTTT-TCCCATAAATGCCGCAAA
1 AGGTCAAGCAATAGCGGCATTTATGGGAAAAACGTCGCTAA
* * *
16169974 AGGTAAAGCAATAGTGGCATTTCTGGGAAAA
1 AGGTCAAGCAATAGCGGCATTTATGGGAAAA
16170005 CACTGCAAAA
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 39 0.43
41 49 0.54
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.21
Consensus pattern (41 bp):
AGGTCAAGCAATAGCGGCATTTATGGGAAAAACGTCGCTAA
Found at i:16170035 original size:80 final size:81
Alignment explanation
Indices: 16169891--16170050 Score: 191
Period size: 80 Copynumber: 2.0 Consensus size: 81
16169881 AAACACTGCT
* * *
16169891 AAAGGTCAAGCAATAGCGGTATTTATGGGAAAAACGTCGCTAAAGGTAAAGCAATAGCGGCGTTT
1 AAAGGTAAAGCAATAGCGGCATTTATGGGAAAAACGTCGCAAAAGGTAAAGCAATAGCGGCGTTT
* *
16169956 TCCCATAAATGCCGCA
66 TCACATAAACGCCGCA
* * * *
16169972 AAAGGTAAAGCAATAGTGGCATTTCTGGGAAAACAC-T-GCAAAAGG-AATTGTAATAGCGGCGT
1 AAAGGTAAAGCAATAGCGGCATTTATGGGAAAA-ACGTCGCAAAAGGTAA-AGCAATAGCGGCGT
*
16170034 TTTTACATAAACGCCGC
64 TTTCACATAAACGCCGC
16170051 TAAATCATTT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.03
80 33 0.49
81 30 0.45
82 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (81 bp):
AAAGGTAAAGCAATAGCGGCATTTATGGGAAAAACGTCGCAAAAGGTAAAGCAATAGCGGCGTTT
TCACATAAACGCCGCA
Found at i:16171039 original size:13 final size:13
Alignment explanation
Indices: 16171018--16171047 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16171008 TTTCTTTTTG
*
16171018 ACTGTTAATTTCT
1 ACTGCTAATTTCT
16171031 ACTGCTAATTTCT
1 ACTGCTAATTTCT
16171044 ACTG
1 ACTG
16171048 AGTAATCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (13 bp):
ACTGCTAATTTCT
Found at i:16173292 original size:26 final size:26
Alignment explanation
Indices: 16173263--16173327 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
16173253 TTATTTAATT
** *
16173263 ATATTTAATTATTAAAATGAACCCAA
1 ATATTTAATTATTAAAAACAACACAA
*
16173289 ATATTTAATTATTAAAAACAATACAA
1 ATATTTAATTATTAAAAACAACACAA
16173315 ATATTTAATTATT
1 ATATTTAATTATT
16173328 TAATTATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (26 bp):
ATATTTAATTATTAAAAACAACACAA
Found at i:16180898 original size:15 final size:15
Alignment explanation
Indices: 16180878--16180933 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 15
16180868 ATAGATACTT
16180878 ATATAAAGAATAAAA
1 ATATAAAGAATAAAA
*
16180893 ATATAATAAGTATTAGAAA
1 ATAT-A-AAG-AATA-AAA
16180912 TATATAAAGAATAAAA
1 -ATATAAAGAATAAAA
16180928 ATATAA
1 ATATAA
16180934 TAAGTAATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 10 0.29
16 4 0.12
17 6 0.18
18 6 0.18
19 4 0.12
20 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
ATATAAAGAATAAAA
Found at i:16180901 original size:18 final size:18
Alignment explanation
Indices: 16180886--16180974 Score: 83
Period size: 18 Copynumber: 4.9 Consensus size: 18
16180876 TTATATAAAG
16180886 AATAAAAATATAATAAGT
1 AATAAAAATATAATAAGT
* *
16180904 ATTAGAAATAT-ATAAAG-
1 AATAAAAATATAAT-AAGT
16180921 AATAAAAATATAATAAGT
1 AATAAAAATATAATAAGT
* **
16180939 AATAGAAATAATAATGCGT
1 AATAAAAAT-ATAATAAGT
*
16180958 ATTAAAAATATATATAA
1 AATAAAAATATA-ATAA
16180975 AGAATAAAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
17 14 0.25
18 25 0.45
19 16 0.29
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (18 bp):
AATAAAAATATAATAAGT
Found at i:16180922 original size:35 final size:35
Alignment explanation
Indices: 16180877--16180952 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
16180867 TATAGATACT
*
16180877 TATATAAAGAATAAAAATATAATAAGTATTAGAAA
1 TATATAAAGAATAAAAATATAATAAGTAATAGAAA
16180912 TATATAAAGAATAAAAATATAATAAGTAATAGAAA
1 TATATAAAGAATAAAAATATAATAAGTAATAGAAA
16180947 TA-ATAA
1 TATATAA
16180953 TGCGTATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 4 0.10
35 36 0.90
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (35 bp):
TATATAAAGAATAAAAATATAATAAGTAATAGAAA
Found at i:16180929 original size:17 final size:17
Alignment explanation
Indices: 16180877--16180932 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
16180867 TATAGATACT
16180877 TATATAAAGAATAAAAA
1 TATATAAAGAATAAAAA
* *
16180894 TATA-ATAAGTATTAGAAA
1 TATATA-AAG-AATAAAAA
16180912 TATATAAAGAATAAAAA
1 TATATAAAGAATAAAAA
16180929 TATA
1 TATA
16180933 ATAAGTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.03
17 17 0.53
18 13 0.41
19 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
TATATAAAGAATAAAAA
Found at i:16182874 original size:26 final size:26
Alignment explanation
Indices: 16182816--16182881 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
16182806 AAAGATACTT
*
16182816 AAAATTAAATGATAAACTAATCACGGG
1 AAAA-TAAATGGTAAACTAATCACGGG
** *
16182843 AAAATAAATGGTAAACTAATTGCTGG
1 AAAATAAATGGTAAACTAATCACGGG
*
16182869 AGAATAAATGGTA
1 AAAATAAATGGTA
16182882 TGTGATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (26 bp):
AAAATAAATGGTAAACTAATCACGGG
Found at i:16200473 original size:14 final size:13
Alignment explanation
Indices: 16200450--16200482 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16200440 TATAGCAATA
16200450 TTTTTCTCT-TTT
1 TTTTTCTCTCTTT
*
16200462 CTTTTCTCTCTTT
1 TTTTTCTCTCTTT
16200475 TTTTTCTC
1 TTTTTCTC
16200483 ATTCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTCTCTCTTT
Found at i:16201109 original size:19 final size:17
Alignment explanation
Indices: 16201077--16201111 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
16201067 AACTAAATTA
16201077 ACAAAAAGAATGCAATG
1 ACAAAAAGAATGCAATG
16201094 ACAAAATAGAAATGCAAT
1 ACAAAA-AG-AATGCAAT
16201112 TACAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.60, C:0.11, G:0.14, T:0.14
Consensus pattern (17 bp):
ACAAAAAGAATGCAATG
Found at i:16205492 original size:24 final size:25
Alignment explanation
Indices: 16205452--16205502 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
16205442 TGTTCCTAAG
*
16205452 CCCAAATCCTATTAAAACCAATTAA
1 CCCAAACCCTATTAAAACCAATTAA
*
16205477 CCCAAACCCT-TTAAAACCCATTAA
1 CCCAAACCCTATTAAAACCAATTAA
16205501 CC
1 CC
16205503 TTTTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (25 bp):
CCCAAACCCTATTAAAACCAATTAA
Found at i:16205527 original size:21 final size:22
Alignment explanation
Indices: 16205486--16205527 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
16205476 ACCCAAACCC
16205486 TTTAAAACCCATTAACCTTTTTT
1 TTTAAAACCCA-TAACCTTTTTT
*
16205509 TTTAAAACCCA-AGCCTTTT
1 TTTAAAACCCATAACCTTTT
16205528 AACCCTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (22 bp):
TTTAAAACCCATAACCTTTTTT
Found at i:16206666 original size:15 final size:16
Alignment explanation
Indices: 16206640--16206671 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
16206630 TATTTTAATT
16206640 TATTATTTATTATTAC
1 TATTATTTATTATTAC
16206656 TATTA-TTATTATTAC
1 TATTATTTATTATTAC
16206671 T
1 T
16206672 TCGAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTTATTATTAC
Found at i:16212585 original size:24 final size:26
Alignment explanation
Indices: 16212540--16212587 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
16212530 AAATTTGTTC
*
16212540 CTAAGCCCAAATCCTATTAAAACCAA
1 CTAAGCCCAAACCCTATTAAAACCAA
16212566 CTAA-CCCAAACCCT-TTAAAACC
1 CTAAGCCCAAACCCTATTAAAACC
16212588 CATTAACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (26 bp):
CTAAGCCCAAACCCTATTAAAACCAA
Found at i:16212620 original size:21 final size:22
Alignment explanation
Indices: 16212579--16212620 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
16212569 ACCCAAACCC
16212579 TTTAAAACCCATTAACCTTTTTT
1 TTTAAAACCCA-TAACCTTTTTT
*
16212602 TTTAAAACCCA-AGCCTTTT
1 TTTAAAACCCATAACCTTTT
16212621 AACCCTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (22 bp):
TTTAAAACCCATAACCTTTTTT
Found at i:16212717 original size:11 final size:11
Alignment explanation
Indices: 16212701--16212752 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
16212691 ACCAAGTCAA
*
16212701 ACCGTTGATCG
1 ACCGTTGACCG
*
16212712 ACCGTTAACCG
1 ACCGTTGACCG
16212723 ACCGTTGACCG
1 ACCGTTGACCG
*
16212734 ATCGTTGACCG
1 ACCGTTGACCG
*
16212745 ACCATTGA
1 ACCGTTGA
16212753 TCGTTGACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (11 bp):
ACCGTTGACCG
Found at i:16212777 original size:27 final size:28
Alignment explanation
Indices: 16212744--16212802 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
16212734 ATCGTTGACC
* *
16212744 GACCATTGATCGTTGACT-TTGATCTTT
1 GACCATTGATCGTTGACTGTTGACCGTT
16212771 GACCATTGATCGTTGACTGTTGACCGTT
1 GACCATTGATCGTTGACTGTTGACCGTT
16212799 GACC
1 GACC
16212803 GTTAACTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (28 bp):
GACCATTGATCGTTGACTGTTGACCGTT
Found at i:16212781 original size:14 final size:14
Alignment explanation
Indices: 16212744--16212802 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
16212734 ATCGTTGACC
16212744 GACCATTGATCGTT
1 GACCATTGATCGTT
* *
16212758 GA-CTTTGATCTTT
1 GACCATTGATCGTT
16212771 GACCATTGATCGTT
1 GACCATTGATCGTT
** *
16212785 GACTGTTGACCGTT
1 GACCATTGATCGTT
16212799 GACC
1 GACC
16212803 GTTAACTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
13 11 0.31
14 25 0.69
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (14 bp):
GACCATTGATCGTT
Found at i:16212793 original size:21 final size:20
Alignment explanation
Indices: 16212767--16212821 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
16212757 TGACTTTGAT
* * *
16212767 CTTTGACCATTGATCGTTGA
1 CTTTGACCGTTGACCGTTAA
16212787 CTGTTGACCGTTGACCGTTAA
1 CT-TTGACCGTTGACCGTTAA
16212808 CTTTGACCGTTGAC
1 CTTTGACCGTTGAC
16212822 TTTTTCGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (20 bp):
CTTTGACCGTTGACCGTTAA
Found at i:16212820 original size:7 final size:7
Alignment explanation
Indices: 16212769--16212821 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
16212759 ACTTTGATCT
*
16212769 TTGACCA
1 TTGACCG
*
16212776 TTGATCG
1 TTGACCG
*
16212783 TTGACTG
1 TTGACCG
16212790 TTGACCG
1 TTGACCG
16212797 TTGACCG
1 TTGACCG
* *
16212804 TT-AACT
1 TTGACCG
16212810 TTGACCG
1 TTGACCG
16212817 TTGAC
1 TTGAC
16212822 TTTTTCGAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
6 4 0.11
7 32 0.89
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (7 bp):
TTGACCG
Found at i:16213902 original size:15 final size:16
Alignment explanation
Indices: 16213876--16213907 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
16213866 TATTTTAATT
16213876 TATTATTTATTATTAC
1 TATTATTTATTATTAC
16213892 TATTA-TTATTATTAC
1 TATTATTTATTATTAC
16213907 T
1 T
16213908 TCGAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTTATTATTAC
Found at i:16214001 original size:23 final size:23
Alignment explanation
Indices: 16213959--16214014 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
16213949 ATTGTAAATA
*
16213959 TAATTTA-TTTTGGGACTTTTGA-
1 TAATTTATTTTTGGAACTTTT-AT
* *
16213981 TATTTTATTTTTGGAAGTTTTAT
1 TAATTTATTTTTGGAACTTTTAT
16214004 TAATTTATTTT
1 TAATTTATTTT
16214015 ACTATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.62
Consensus pattern (23 bp):
TAATTTATTTTTGGAACTTTTAT
Found at i:16220226 original size:15 final size:15
Alignment explanation
Indices: 16220208--16220239 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16220198 TAATGCTATC
16220208 AGTTGTTCTCAACAT
1 AGTTGTTCTCAACAT
*
16220223 AGTTGTTCTCAATAT
1 AGTTGTTCTCAACAT
16220238 AG
1 AG
16220240 AGGTTGTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (15 bp):
AGTTGTTCTCAACAT
Found at i:16225022 original size:65 final size:64
Alignment explanation
Indices: 16224907--16225031 Score: 155
Period size: 65 Copynumber: 1.9 Consensus size: 64
16224897 CACATGTGAG
*
16224907 GGTTCGCAAAAATAAGAGTACGCATATAATAAAGTTGACATACTAAGGGTACACTAGTAAATTT
1 GGTTCGCAAAAATAAGAGTACGCATATAATAAAGTTAACATACTAAGGGTACACTAGTAAATTT
* * * * *
16224971 GGTTCGCAAAAACTAATAGTTCGCATGTAATTAA-TATAACATTAC-AAGGGTACGCTAGTAA
1 GGTTCGCAAAAA-TAAGAGTACGCATATAATAAAGT-TAACA-TACTAAGGGTACACTAGTAA
16225032 TCAACAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
64 13 0.25
65 36 0.69
66 3 0.06
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (64 bp):
GGTTCGCAAAAATAAGAGTACGCATATAATAAAGTTAACATACTAAGGGTACACTAGTAAATTT
Found at i:16238942 original size:66 final size:66
Alignment explanation
Indices: 16238834--16238963 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
16238824 GATACACGGA
* * * * *
16238834 TCTCCAAATACACCAAATGACTCATAGAGTCAAACATATCCCATAAGTGAAGCATATAGCTAACA
1 TCTCCAAACACACCAAAAGACTCATAAAGTCAAACATATCCCAAAAGTGAAGCATAAAGCTAACA
16238899 C
66 C
* * *
16238900 TCTCCAAACACACCAAAAGACTCATAAAGTCTAACATGTCCCAAAAGTGAAGCGTAAAGCTAAC
1 TCTCCAAACACACCAAAAGACTCATAAAGTCAAACATATCCCAAAAGTGAAGCATAAAGCTAAC
16238964 TCTCCTTATT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.43, C:0.26, G:0.12, T:0.19
Consensus pattern (66 bp):
TCTCCAAACACACCAAAAGACTCATAAAGTCAAACATATCCCAAAAGTGAAGCATAAAGCTAACA
C
Found at i:16239368 original size:15 final size:15
Alignment explanation
Indices: 16239348--16239377 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16239338 CACATAATTG
16239348 TTCACAAATTCACAA
1 TTCACAAATTCACAA
*
16239363 TTCACAATTTCACAA
1 TTCACAAATTCACAA
16239378 GCAAACATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (15 bp):
TTCACAAATTCACAA
Found at i:16242181 original size:31 final size:30
Alignment explanation
Indices: 16242120--16242182 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
16242110 AGTGATACCT
16242120 TAAATATTTTAAAAAATTTAAAAATAATAA
1 TAAATATTTTAAAAAATTTAAAAATAATAA
* *
16242150 TAAATGATATTTAAATAATTT-AAGATAATAA
1 TAAAT-AT-TTTAAAAAATTTAAAAATAATAA
16242181 TA
1 TA
16242183 TTTAAATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 13 0.45
32 11 0.38
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
TAAATATTTTAAAAAATTTAAAAATAATAA
Found at i:16242203 original size:24 final size:25
Alignment explanation
Indices: 16242144--16242204 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
16242134 AATTTAAAAA
* *
16242144 TAATAATAAATGATATTTAAATAATT
1 TAAT-ATAAATAATATTTAAATAAGT
*
16242170 TAAGAT-AATAATATTTAAAT-AGT
1 TAATATAAATAATATTTAAATAAGT
16242193 TAATATAAATAA
1 TAATATAAATAA
16242205 CAATATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 7 0.23
24 18 0.60
25 2 0.07
26 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (25 bp):
TAATATAAATAATATTTAAATAAGT
Found at i:16242212 original size:27 final size:28
Alignment explanation
Indices: 16242165--16242217 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
16242155 GATATTTAAA
* *
16242165 TAATTTAAGATAATAATATTTAAATAGT
1 TAATATAAGATAACAATATTTAAATAGT
*
16242193 TAATATAA-ATAACAATATTTTAATA
1 TAATATAAGATAACAATATTTAAATA
16242218 ATTTTTACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (28 bp):
TAATATAAGATAACAATATTTAAATAGT
Found at i:16250474 original size:17 final size:18
Alignment explanation
Indices: 16250454--16250493 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
16250444 TAAGTTTTAA
16250454 TGCATTTT-TATTATCAC
1 TGCATTTTATATTATCAC
* *
16250471 TGCATTTTATTTTGTCAC
1 TGCATTTTATATTATCAC
16250489 TGCAT
1 TGCAT
16250494 CATTTTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (18 bp):
TGCATTTTATATTATCAC
Found at i:16257742 original size:16 final size:16
Alignment explanation
Indices: 16257721--16257753 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16257711 TTATTCTTTC
16257721 TGTTATAATTAGTTGT
1 TGTTATAATTAGTTGT
16257737 TGTTATAATTAGTTGT
1 TGTTATAATTAGTTGT
16257753 T
1 T
16257754 TCTGGATTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TGTTATAATTAGTTGT
Found at i:16285241 original size:163 final size:163
Alignment explanation
Indices: 16284965--16285279 Score: 567
Period size: 163 Copynumber: 1.9 Consensus size: 163
16284955 TCCTTTAGAT
*
16284965 TCTGAGTAAGCTAAAGCAAGGAGTCAGCCATGTTCCCTAAGAAAAACCACTTGTTCTTCATAAAA
1 TCTGAGTAAGCTAAAGCAAGGAGTCAGCCATGTTCCCCAAGAAAAACCACTTGTTCTTCATAAAA
*
16285030 TTATTGAAATCAGGATGCTCAATCCACCCTGCCAAGAAACGGAAAGGTCTTCCTCTAAGTATAAA
66 TTATTGAAATCAGGATGCTCAATCCACCCTGCCAAGAAACGAAAAGGTCTTCCTCTAAGTATAAA
16285095 AACTTAGAATTAGTTTGCAAAAAAAAAGGGCTA
131 AACTTAGAATTAGTTTGCAAAAAAAAAGGGCTA
16285128 TCTGAGTAAGCTAAAGCAAGGAGTCAGCCATGTTCCCCAAGAAAAACCACTTGTTCTTCATAAAA
1 TCTGAGTAAGCTAAAGCAAGGAGTCAGCCATGTTCCCCAAGAAAAACCACTTGTTCTTCATAAAA
* **
16285193 TTATTGAAATCAGGATGCTCAGTCCACCCTGTTAAGAAACGAAAAGGTCTTCCTCTAAGTATAAA
66 TTATTGAAATCAGGATGCTCAATCCACCCTGCCAAGAAACGAAAAGGTCTTCCTCTAAGTATAAA
* *
16285258 AACTTCGGATTAGTTTGCAAAA
131 AACTTAGAATTAGTTTGCAAAA
16285280 GAAGAGGGAT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
163 145 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (163 bp):
TCTGAGTAAGCTAAAGCAAGGAGTCAGCCATGTTCCCCAAGAAAAACCACTTGTTCTTCATAAAA
TTATTGAAATCAGGATGCTCAATCCACCCTGCCAAGAAACGAAAAGGTCTTCCTCTAAGTATAAA
AACTTAGAATTAGTTTGCAAAAAAAAAGGGCTA
Found at i:16288567 original size:30 final size:30
Alignment explanation
Indices: 16288531--16288623 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
16288521 TTAATTTTAG
*
16288531 TTTAAGGATTAAATTGGAATTTTAGTGAAA
1 TTTAAGGACTAAATTGGAATTTTAGTGAAA
* * * * * *
16288561 TTTAAGGGCTAAATTGTAAGTTTGGTGGAT
1 TTTAAGGACTAAATTGGAATTTTAGTGAAA
*
16288591 TTTAAGGACTAAATTAGAATTTTAGTGAAA
1 TTTAAGGACTAAATTGGAATTTTAGTGAAA
16288621 TTT
1 TTT
16288624 GGGGACCAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (30 bp):
TTTAAGGACTAAATTGGAATTTTAGTGAAA
Found at i:16290361 original size:43 final size:42
Alignment explanation
Indices: 16290294--16290472 Score: 182
Period size: 43 Copynumber: 4.2 Consensus size: 42
16290284 GAGTCATAAT
* *
16290294 TCTTCC-TTAAATCATATTCTCATTCTCATCTCGAGACATGAG
1 TCTTCCTTTAAA-CATATTCTCATGCTCATCTCAAGACATGAG
* * *
16290336 TCTTCCTTTAAACATAAATCTCATTCTCATTTCAAGACATGAG
1 TCTTCCTTTAAACAT-ATTCTCATGCTCATCTCAAGACATGAG
* * * *
16290379 TCTTCCTTTAATCATATTCTAATGCTCA-CTCTAAGTCACGAG
1 TCTTCCTTTAAACATATTCTCATGCTCATCTC-AAGACATGAG
* * * * *
16290421 TCTTTCATTTATACAAATTCTCATGCTCAACTCGAGACATGAG
1 TC-TTCCTTTAAACATATTCTCATGCTCATCTCAAGACATGAG
16290464 TCTTCCTTT
1 TCTTCCTTT
16290473 TTATACATCA
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.02
42 35 0.31
43 73 0.65
44 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (42 bp):
TCTTCCTTTAAACATATTCTCATGCTCATCTCAAGACATGAG
Found at i:16290443 original size:85 final size:85
Alignment explanation
Indices: 16290294--16290472 Score: 209
Period size: 85 Copynumber: 2.1 Consensus size: 85
16290284 GAGTCATAAT
* * * * * *
16290294 TCTTCCTTAAATCATATTCTCATTCTCATCTCGAGACATGAGTCTTCCTTTAAACATAAATCTCA
1 TCTTCCTTTAATCATATTCTAATGCTCATCTCAAGACACGAGTCTTCATTTAAACATAAATCTCA
* **
16290359 TTCTCATTTCAAGACATGAG
66 TGCTCAACTCAAGACATGAG
* * *
16290379 TCTTCCTTTAATCATATTCTAATGCTCA-CTCTAAGTCACGAGTCTTTCATTTATACA-AATTCT
1 TCTTCCTTTAATCATATTCTAATGCTCATCTC-AAGACACGAGTC-TTCATTTAAACATAAATCT
*
16290442 CATGCTCAACTCGAGACATGAG
64 CATGCTCAACTCAAGACATGAG
16290464 TCTTCCTTT
1 TCTTCCTTT
16290473 TTATACATCA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
84 3 0.04
85 66 0.84
86 10 0.13
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (85 bp):
TCTTCCTTTAATCATATTCTAATGCTCATCTCAAGACACGAGTCTTCATTTAAACATAAATCTCA
TGCTCAACTCAAGACATGAG
Found at i:16294889 original size:23 final size:23
Alignment explanation
Indices: 16294848--16294898 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
16294838 CATATTAAGG
* *
16294848 TGTTTAGGGATGAGATAAGACGT
1 TGTTTAGGGATGACATAAGACAT
* *
16294871 TGTTTAGGGATGACCTAAGGCAT
1 TGTTTAGGGATGACATAAGACAT
16294894 TGTTT
1 TGTTT
16294899 GGACTCACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.35
Consensus pattern (23 bp):
TGTTTAGGGATGACATAAGACAT
Found at i:16296540 original size:8 final size:8
Alignment explanation
Indices: 16296523--16296561 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
16296513 TAGTTTAGCC
16296523 AAAAAAAG
1 AAAAAAAG
*
16296531 AAAAATAG
1 AAAAAAAG
16296539 AAAAAAA-
1 AAAAAAAG
16296546 ATAAAAAAG
1 A-AAAAAAG
16296555 AAAAAAA
1 AAAAAAA
16296562 ATTGAGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 25 0.93
9 1 0.04
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (8 bp):
AAAAAAAG
Found at i:16296544 original size:16 final size:16
Alignment explanation
Indices: 16296523--16296563 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
16296513 TAGTTTAGCC
*
16296523 AAAAAAAGAAAAATAGA
1 AAAAAAATAAAAA-AGA
16296540 AAAAAAATAAAAAAGA
1 AAAAAAATAAAAAAGA
16296556 AAAAAAAT
1 AAAAAAAT
16296564 TGAGTAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAAATAAAAAAGA
Found at i:16306042 original size:18 final size:18
Alignment explanation
Indices: 16306019--16306067 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
16306009 CAGCCTGACT
16306019 AGATGCAATCACAGAACC
1 AGATGCAATCACAGAACC
* * *
16306037 AGATGCAATCATATAATC
1 AGATGCAATCACAGAACC
*
16306055 AGATGCAACCACA
1 AGATGCAATCACA
16306068 AGCTCGAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.16
Consensus pattern (18 bp):
AGATGCAATCACAGAACC
Found at i:16308956 original size:507 final size:508
Alignment explanation
Indices: 16307992--16309008 Score: 2000
Period size: 507 Copynumber: 2.0 Consensus size: 508
16307982 TTGGTAAGGC
16307992 CTATTACTTTTTTTTTGATGGATACTCTGGGTACAACCAGATTGCAATCGCGCTAGAGGATCAAG
1 CTATTACTTTTTTTTTGATGGATACTCTGGGTACAACCAGATTGCAATCGCGCTAGAGGATCAAG
* *
16308057 CAAAGATGACTTTTTCTTTCCCATTTGGAACCTTTTCTTTCCAACGAATGCCATTTGGTTTGTGT
66 CAAAGACGACTTTTTCTTTCCCATTTGAAACCTTTTCTTTCCAACGAATGCCATTTGGTTTGTGT
16308122 AATGCCCCAGCTACATTCCAGAGGTGTATGATGGCCATCTTCTCTAATATGATCGAGGATTCGTT
131 AATGCCCCAGCTACATTCCAGAGGTGTATGATGGCCATCTTCTCTAATATGATCGAGGATTCGTT
16308187 AGAGGTATTTATGGATGATTTCTCTGTCTATGGCCACAATTTTGATAAATACACTGACAATTTAG
196 AGAGGTATTTATGGATGATTTCTCTGTCTATGGCCACAATTTTGATAAATACACTGACAATTTAG
16308252 TAAAAGTGTTGAAACGATGCGAGGACACCAACCTGGTACTAAATTGGGAAAAATGTCATTTTATG
261 TAAAAGTGTTGAAACGATGCGAGGACACCAACCTGGTACTAAATTGGGAAAAATGTCATTTTATG
16308317 ACTATTGAAGGTATTGTTCTTGGCCATCGTATATCTTGTCCAGGCATTGAAGTGGATAAAGCAAA
326 ACTATTGAAGGTATTGTTCTTGGCCATCGTATATCTTGTCCAGGCATTGAAGTGGATAAAGCAAA
*
16308382 GGTAGAAATCATTGAAAAGCTACCTTCACCCAATAATGTGAAGGGAATAAGGAGTTTTCTCGGCC
391 GGTAGAAATCATTGAAAAGCTACCTTCACCCAATAATGTGAAGGGAATAAGGAGTTTTCTAGGCC
16308447 ATGCCGAATTTTATAGACGATTTATTCAAGACTTCTCCAAAATAGAAAAACCA
456 ATGCCGAATTTTATAGACGATTTATTCAAGACTTCTCCAAAATAGAAAAACCA
16308500 CTATTAC-TTTTTTTTGATGGATACTCTGGGTACAACCAGATTGCAATCGCGCTAGAGGATCAAG
1 CTATTACTTTTTTTTTGATGGATACTCTGGGTACAACCAGATTGCAATCGCGCTAGAGGATCAAG
16308564 CAAAGACGACTTTTTCTTTCCCATTTGAAACCTTTTCTTTCCAACGAATGCCATTTGGTTTGTGT
66 CAAAGACGACTTTTTCTTTCCCATTTGAAACCTTTTCTTTCCAACGAATGCCATTTGGTTTGTGT
16308629 AATGCCCCAGCTACATTCCAGAGGTGTATGATGGCCATCTTCTCTAATATGATCGAGGATTCGTT
131 AATGCCCCAGCTACATTCCAGAGGTGTATGATGGCCATCTTCTCTAATATGATCGAGGATTCGTT
16308694 AGAGGTATTTATGGATGATTTCTCTGTCTATGGCCACAATTTTGATAAATACACTGACAATTTAG
196 AGAGGTATTTATGGATGATTTCTCTGTCTATGGCCACAATTTTGATAAATACACTGACAATTTAG
16308759 TAAAAGTGTTGAAACGATGCGAGGACACCAACCTGGTACTAAATTGGGAAAAATGTCATTTTATG
261 TAAAAGTGTTGAAACGATGCGAGGACACCAACCTGGTACTAAATTGGGAAAAATGTCATTTTATG
16308824 ACTATTGAAGGTATTGTTCTTGGCCATCGTATATCTTGTCCAGGCATTGAAGTGGATAAAGCAAA
326 ACTATTGAAGGTATTGTTCTTGGCCATCGTATATCTTGTCCAGGCATTGAAGTGGATAAAGCAAA
16308889 GGTAGAAATCATTGAAAAGCTACCTTCACCCAATAATGTGAAGGGAATAAGGAGTTTTCTAGGCC
391 GGTAGAAATCATTGAAAAGCTACCTTCACCCAATAATGTGAAGGGAATAAGGAGTTTTCTAGGCC
16308954 ATGCCGAATTTTATAGACGATTTATTCAAGACTTCTCCAAAATAGAAAAACCA
456 ATGCCGAATTTTATAGACGATTTATTCAAGACTTCTCCAAAATAGAAAAACCA
16309007 CT
1 CT
16309009 CTGCTCTTTG
Statistics
Matches: 506, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
507 499 0.99
508 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (508 bp):
CTATTACTTTTTTTTTGATGGATACTCTGGGTACAACCAGATTGCAATCGCGCTAGAGGATCAAG
CAAAGACGACTTTTTCTTTCCCATTTGAAACCTTTTCTTTCCAACGAATGCCATTTGGTTTGTGT
AATGCCCCAGCTACATTCCAGAGGTGTATGATGGCCATCTTCTCTAATATGATCGAGGATTCGTT
AGAGGTATTTATGGATGATTTCTCTGTCTATGGCCACAATTTTGATAAATACACTGACAATTTAG
TAAAAGTGTTGAAACGATGCGAGGACACCAACCTGGTACTAAATTGGGAAAAATGTCATTTTATG
ACTATTGAAGGTATTGTTCTTGGCCATCGTATATCTTGTCCAGGCATTGAAGTGGATAAAGCAAA
GGTAGAAATCATTGAAAAGCTACCTTCACCCAATAATGTGAAGGGAATAAGGAGTTTTCTAGGCC
ATGCCGAATTTTATAGACGATTTATTCAAGACTTCTCCAAAATAGAAAAACCA
Found at i:16313105 original size:17 final size:17
Alignment explanation
Indices: 16313056--16313096 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
16313046 ATATTTTCTC
*
16313056 TAATTGTCATTACATTT
1 TAATTGTCACTACATTT
*
16313073 TAATTGTCACTGCATTT
1 TAATTGTCACTACATTT
16313090 TAATTGT
1 TAATTGT
16313097 TCTCACATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (17 bp):
TAATTGTCACTACATTT
Found at i:16315504 original size:30 final size:30
Alignment explanation
Indices: 16315468--16315572 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
16315458 CTAATTTTAG
*
16315468 TTTAAGGATTAAATTTGAATTTTAGTGAAA
1 TTTAAGGACTAAATTTGAATTTTAGTGAAA
* * * * *
16315498 TTTAAGGGCTAAATTAT-AA-GTTCGATGGAT
1 TTTAAGGACTAAATT-TGAATTTTAG-TGAAA
*
16315528 TTTAAGGACTAAATTAGAATTTTAGTGAAA
1 TTTAAGGACTAAATTTGAATTTTAGTGAAA
* *
16315558 TTTAGGGACCAAATT
1 TTTAAGGACTAAATT
16315573 GAAATCTGAT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
29 3 0.05
30 50 0.88
31 4 0.07
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (30 bp):
TTTAAGGACTAAATTTGAATTTTAGTGAAA
Found at i:16321928 original size:30 final size:30
Alignment explanation
Indices: 16321892--16321988 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
16321882 GTTTAAGGAT
*
16321892 TAAATTGGAATTTTTGTGAAATTTATGGGC
1 TAAATTGGAATTTTAGTGAAATTTATGGGC
* * * * * * *
16321922 TAAATTGTAA-GTTCGATGGATTTTAAGGAC
1 TAAATTGGAATTTTAG-TGAAATTTATGGGC
16321952 TAAATTGGAATTTTAGTGAAATTT-TGGGAC
1 TAAATTGGAATTTTAGTGAAATTTATGGG-C
*
16321982 CAAATTG
1 TAAATTG
16321989 AACTCTAATT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 5 0.10
30 41 0.84
31 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (30 bp):
TAAATTGGAATTTTAGTGAAATTTATGGGC
Found at i:16322005 original size:60 final size:60
Alignment explanation
Indices: 16321883--16322006 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 60
16321873 TTAATTTTAG
* * * * * **
16321883 TTTAAGGATTAAATTGGAATTTTTGTGAAATTTATGGGCTAAATTGTAAGTTCGATGGAT
1 TTTAAGGACTAAATTGGAATTTTAGTGAAATTTATGGGCCAAATTGTAACTTCAATAAAT
16321943 TTTAAGGACTAAATTGGAATTTTAGTGAAATTT-TGGGACCAAATTG-AAC-TCTAATTAAAT
1 TTTAAGGACTAAATTGGAATTTTAGTGAAATTTATGGG-CCAAATTGTAACTTC-AA-TAAAT
16322003 TTTA
1 TTTA
16322007 TGGTAAAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
58 2 0.04
59 7 0.13
60 45 0.83
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (60 bp):
TTTAAGGACTAAATTGGAATTTTAGTGAAATTTATGGGCCAAATTGTAACTTCAATAAAT
Found at i:16322689 original size:18 final size:18
Alignment explanation
Indices: 16322630--16322695 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
16322620 GACCCACTAT
* *
16322630 CCGACCCGTTGACCCGAC
1 CCGACCCATTGACTCGAC
* ** *
16322648 TCGACCTGTTGACTCTAC
1 CCGACCCATTGACTCGAC
**
16322666 TTGACCCATTGACTCGAC
1 CCGACCCATTGACTCGAC
16322684 CCGA-CCATTGAC
1 CCGACCCATTGAC
16322696 CGAACCGTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 8 0.21
18 30 0.79
ACGTcount: A:0.20, C:0.39, G:0.18, T:0.23
Consensus pattern (18 bp):
CCGACCCATTGACTCGAC
Found at i:16345489 original size:17 final size:17
Alignment explanation
Indices: 16345469--16345507 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16345459 ACTACAAGGC
*
16345469 AAATGCGTCGACAAATA
1 AAATGCATCGACAAATA
* *
16345486 AAATGCATGGACAATTA
1 AAATGCATCGACAAATA
16345503 AAATG
1 AAATG
16345508 TGATGACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (17 bp):
AAATGCATCGACAAATA
Found at i:16345995 original size:24 final size:23
Alignment explanation
Indices: 16345952--16345997 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
16345942 TCTCCTTCTT
*
16345952 TTCTTTCTTCCTTTTTTTCATCC
1 TTCTTTCTTCCTTTTCTTCATCC
16345975 TTCTCTTCTT-CTTTCTCTTCATC
1 TTCT-TTCTTCCTTT-TCTTCATC
16345998 AATACCCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (23 bp):
TTCTTTCTTCCTTTTCTTCATCC
Found at i:16349631 original size:19 final size:19
Alignment explanation
Indices: 16349607--16349653 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
16349597 TCAGAAAATA
16349607 AAAGAAAT-AGATCAAGTGT
1 AAAGAAATGA-ATCAAGTGT
16349626 AAAGAAATGAATCAAGTGT
1 AAAGAAATGAATCAAGTGT
16349645 AAAGAAATG
1 AAAGAAATG
16349654 GGGGAATCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.55, C:0.04, G:0.21, T:0.19
Consensus pattern (19 bp):
AAAGAAATGAATCAAGTGT
Found at i:16354133 original size:22 final size:19
Alignment explanation
Indices: 16354105--16354144 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
16354095 ATAATAACTA
16354105 ATATATAATTATATTTATTATG
1 ATATAT-ATTA-A-TTATTATG
16354127 ATATATATTAATTATTAT
1 ATATATATTAATTATTAT
16354145 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 4 0.22
22 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATATATATTAATTATTATG
Found at i:16354373 original size:18 final size:18
Alignment explanation
Indices: 16354350--16354386 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16354340 TTTGAATAAC
16354350 ACCTTC-CCATACACCTTT
1 ACCTTCACCAT-CACCTTT
16354368 ACCTTCACCATCACCTTT
1 ACCTTCACCATCACCTTT
16354386 A
1 A
16354387 AACACCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.32
Consensus pattern (18 bp):
ACCTTCACCATCACCTTT
Found at i:16354394 original size:16 final size:18
Alignment explanation
Indices: 16354373--16354407 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
16354363 CCTTTACCTT
16354373 CACCATC-ACCTT-TAAA
1 CACCATCTACCTTCTAAA
16354389 CACCATCTACCTTCTAAA
1 CACCATCTACCTTCTAAA
16354407 C
1 C
16354408 TACCTAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (18 bp):
CACCATCTACCTTCTAAA
Found at i:16371842 original size:37 final size:36
Alignment explanation
Indices: 16371773--16371847 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
16371763 AAAATATTCC
*
16371773 TGCGGCGACAGTTTTGGTGCAATCTGGAAGTGCTCA
1 TGCGGCGACAGTTTTGGTGCAATCTAGAAGTGCTCA
*
16371809 TGCGGCGACTGTTTT-GTGCTCAATCTAGAAGTGCTCA
1 TGCGGCGACAGTTTTGGTG--CAATCTAGAAGTGCTCA
16371846 TG
1 TG
16371848 TAGCACATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
35 3 0.09
36 14 0.40
37 18 0.51
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (36 bp):
TGCGGCGACAGTTTTGGTGCAATCTAGAAGTGCTCA
Found at i:16376489 original size:36 final size:38
Alignment explanation
Indices: 16376443--16376526 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 38
16376433 TATTCCTGCG
*
16376443 GCGACA-GTTTT-GGTGCAATCTGGAAGTGCTCATGCA
1 GCGACATGTTTTGGGTGCAATCTAGAAGTGCTCATGCA
*
16376479 GTGAC-TGTTTTGGGTGCAATCTAGAAGTGCTCATGCA
1 GCGACATGTTTTGGGTGCAATCTAGAAGTGCTCATGCA
16376516 GCGACATGTTT
1 GCGACATGTTT
16376527 GTGCGCAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 9 0.21
37 28 0.67
38 5 0.12
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (38 bp):
GCGACATGTTTTGGGTGCAATCTAGAAGTGCTCATGCA
Found at i:16381691 original size:24 final size:25
Alignment explanation
Indices: 16381628--16381700 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
16381618 ATGGGTCATC
* *
16381628 CAGAATTTAGCTCATACAAGCCCAAA
1 CAGAA-TTACCTCTTACAAGCCCAAA
16381654 CAGAATTACCTCTTACAAGCCCAAA
1 CAGAATTACCTCTTACAAGCCCAAA
* * *
16381679 TAG-GTTACGTCTTACAAGCCCA
1 CAGAATTACCTCTTACAAGCCCA
16381701 GAAAGAGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 17 0.40
25 20 0.48
26 5 0.12
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (25 bp):
CAGAATTACCTCTTACAAGCCCAAA
Found at i:16383994 original size:17 final size:17
Alignment explanation
Indices: 16383969--16384006 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
16383959 TCTAATGACA
*
16383969 AATGGAAATG-AAATGGC
1 AATGCAAATGCAAAT-GC
16383986 AATGCAAATGCAAATGC
1 AATGCAAATGCAAATGC
16384003 AATG
1 AATG
16384007 ACAATTGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (17 bp):
AATGCAAATGCAAATGC
Found at i:16397781 original size:19 final size:19
Alignment explanation
Indices: 16397757--16397793 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16397747 TAGAGGTTAG
16397757 TTAATTAGT-TTTAATTAAT
1 TTAATTA-TATTTAATTAAT
16397776 TTAATTATATTTAATTAA
1 TTAATTATATTTAATTAA
16397794 CAAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTAATTATATTTAATTAAT
Found at i:16397907 original size:24 final size:25
Alignment explanation
Indices: 16397858--16397907 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
16397848 TAATAGAAAA
*
16397858 TTGATTTAATTATCATTTTGAACCT
1 TTGATTTAATTATCATTTTAAACCT
*
16397883 TTGA-TTAATTA-GATTTTAAATCCT
1 TTGATTTAATTATCATTTTAAA-CCT
16397907 T
1 T
16397908 AAATCTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 11 0.50
25 4 0.18
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (25 bp):
TTGATTTAATTATCATTTTAAACCT
Found at i:16398561 original size:10 final size:10
Alignment explanation
Indices: 16398557--16398581 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16398547 AAGAAAAAAG
16398557 GAGAAGAAAT
1 GAGAAGAAAT
16398567 GAGAAGAAAT
1 GAGAAGAAAT
16398577 GAGAA
1 GAGAA
16398582 CCATCTGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (10 bp):
GAGAAGAAAT
Found at i:16399733 original size:55 final size:55
Alignment explanation
Indices: 16399669--16399776 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
16399659 AACTTATGAT
*
16399669 TAAATCAAAATTTTATTTTAATATAATTTTTACATTTTCATTGTATTATGCATGC
1 TAAATCAAAACTTTATTTTAATATAATTTTTACATTTTCATTGTATTATGCATGC
*
16399724 TAAATCAAAACTTTATTTTAGTATAATTTTTACATTTTCATTGTATTATGCAT
1 TAAATCAAAACTTTATTTTAATATAATTTTTACATTTTCATTGTATTATGCAT
16399777 ACTTTATTAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (55 bp):
TAAATCAAAACTTTATTTTAATATAATTTTTACATTTTCATTGTATTATGCATGC
Found at i:16403669 original size:18 final size:17
Alignment explanation
Indices: 16403646--16403709 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
16403636 AATTAGAATA
16403646 AAATATTTAAATTAATT
1 AAATATTTAAATTAATT
16403663 AATATATTATAAA-T-ATT
1 AA-ATATT-TAAATTAATT
*
16403680 AAA-ATATGAAATTATATT
1 AAATAT-TTAAATTA-ATT
16403698 AAATATTTAAAT
1 AAATATTTAAAT
16403710 ATAAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
15 5 0.13
16 3 0.08
17 7 0.18
18 17 0.45
19 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATATTTAAATTAATT
Found at i:16403709 original size:8 final size:8
Alignment explanation
Indices: 16403646--16403711 Score: 53
Period size: 8 Copynumber: 7.8 Consensus size: 8
16403636 AATTAGAATA
16403646 AAATATTT
1 AAATATTT
*
16403654 AAATTAATT
1 AAA-TATTT
16403663 AATATATTAT
1 AA-ATATT-T
*
16403673 AAATATTA
1 AAATATTT
*
16403681 AAATA-TG
1 AAATATTT
16403688 AAATTATATT
1 AAA-TAT-TT
16403698 AAATATTT
1 AAATATTT
16403706 AAATAT
1 AAATAT
16403712 AAAAATTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 4 0.09
8 18 0.38
9 17 0.36
10 8 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (8 bp):
AAATATTT
Found at i:16410172 original size:21 final size:22
Alignment explanation
Indices: 16410136--16410178 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
16410126 CAACAAATGA
*
16410136 TTTTAAAATTATTAAAATTATT
1 TTTTAAAAATATTAAAATTATT
16410158 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
16410179 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:16410234 original size:25 final size:25
Alignment explanation
Indices: 16410200--16410250 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
16410190 AATATTTTAA
*
16410200 TCATCATCATCTTGTTCTTCTGGGT
1 TCATCATCATCCTGTTCTTCTGGGT
*
16410225 TCATCATCATCCTGTTCTTTTGGGT
1 TCATCATCATCCTGTTCTTCTGGGT
16410250 T
1 T
16410251 TTTCTATCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.16, T:0.49
Consensus pattern (25 bp):
TCATCATCATCCTGTTCTTCTGGGT
Found at i:16410938 original size:52 final size:52
Alignment explanation
Indices: 16410881--16410992 Score: 172
Period size: 52 Copynumber: 2.2 Consensus size: 52
16410871 AAAGGAAGGG
* *
16410881 GAAGGGGAATAG-AAAAAAAACCCAGAAAAAAACTCATCGAAAGGAAAATAA
1 GAAGGGGAACAGAAAAAAAAACCCAGAAAAAAACCCATCGAAAGGAAAATAA
* * *
16410932 GAAAGGGAACAGAAAAAAAAATCCAGAAAAAAACCCATCGGAAGGAAAATAA
1 GAAGGGGAACAGAAAAAAAAACCCAGAAAAAAACCCATCGAAAGGAAAATAA
16410984 GAAGGGGAA
1 GAAGGGGAA
16410993 GGGGAAGGGG
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
51 10 0.19
52 44 0.81
ACGTcount: A:0.60, C:0.12, G:0.22, T:0.06
Consensus pattern (52 bp):
GAAGGGGAACAGAAAAAAAAACCCAGAAAAAAACCCATCGAAAGGAAAATAA
Found at i:16410995 original size:6 final size:6
Alignment explanation
Indices: 16410984--16411042 Score: 73
Period size: 6 Copynumber: 9.3 Consensus size: 6
16410974 AGGAAAATAA
* *
16410984 GAAGGG GAAGGG GAAGGG GAAGGA GAAGGG GAAGGAG AAAAGGG GAAGGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGG-G -GAAGGG GAA-GGG
16411035 GAAGGG GA
1 GAAGGG GA
16411043 TGATGATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 34 0.74
7 8 0.17
8 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:16411097 original size:11 final size:11
Alignment explanation
Indices: 16411073--16411145 Score: 53
Period size: 11 Copynumber: 6.9 Consensus size: 11
16411063 TATATTTTAA
*
16411073 AAAATAATTCT
1 AAAATAATTTT
*
16411084 AAATTAATTTT
1 AAAATAATTTT
*
16411095 AAAATGATTTT
1 AAAATAATTTT
16411106 --AATAATTTT
1 AAAATAATTTT
* * **
16411115 -ATATTATTAA
1 AAAATAATTTT
16411125 AAAATAATTTT
1 AAAATAATTTT
*
16411136 AAAATTATTT
1 AAAATAATTT
16411146 GCTTATGTGG
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
9 8 0.17
10 5 0.11
11 33 0.72
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:16422683 original size:21 final size:22
Alignment explanation
Indices: 16422635--16422683 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
16422625 GATTTATATT
*
16422635 GTTTATAAATAGGCTTAATAAA
1 GTTTAAAAATAGGCTTAATAAA
*
16422657 GGTTAAAAATA-G-TTAATTAAA
1 GTTTAAAAATAGGCTTAA-TAAA
16422678 GTTTAA
1 GTTTAA
16422684 TGGTGAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 10 0.43
22 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.37
Consensus pattern (22 bp):
GTTTAAAAATAGGCTTAATAAA
Found at i:16433993 original size:15 final size:16
Alignment explanation
Indices: 16433950--16434003 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
16433940 TCGACTTCTC
16433950 TATTTTCTATTTCTTT
1 TATTTTCTATTTCTTT
* *
16433966 CAATTTTGT-TTTCTTT
1 -TATTTTCTATTTCTTT
16433982 TATTTT-TATTTCTGTT
1 TATTTTCTATTTCT-TT
16433998 TATTTT
1 TATTTT
16434004 ATTTTTCCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 1 0.03
15 10 0.31
16 15 0.47
17 6 0.19
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (16 bp):
TATTTTCTATTTCTTT
Found at i:16434004 original size:15 final size:15
Alignment explanation
Indices: 16433950--16434007 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
16433940 TCGACTTCTC
16433950 TATTTTCTATTTCTTT
1 TATTTT-TATTTCTTT
*
16433966 CAATTTTGT-TTTCTTT
1 -TATTTT-TATTTCTTT
16433982 TATTTTTATTTCTGTT
1 TATTTTTATTTCT-TT
16433998 TA-TTTTATTT
1 TATTTTTATTT
16434008 TTCCTCAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.03
15 18 0.50
16 11 0.31
17 6 0.17
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (15 bp):
TATTTTTATTTCTTT
Found at i:16436782 original size:18 final size:19
Alignment explanation
Indices: 16436742--16436782 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
16436732 CATTTTTAAT
16436742 TTTTTATTTTTCTATCTTA
1 TTTTTATTTTTCTATCTTA
16436761 -TTTTATTTATT-TAT-TTA
1 TTTTTATTT-TTCTATCTTA
16436778 TTTTT
1 TTTTT
16436783 TCCAGGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.15
18 15 0.75
19 2 0.10
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTTCTATCTTA
Found at i:16438297 original size:18 final size:17
Alignment explanation
Indices: 16438266--16438299 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
16438256 AAAGACTTGG
16438266 TTTTATTTTATTTTATT
1 TTTTATTTTATTTTATT
16438283 TTTTATTTATATTTTAT
1 TTTTATTT-TATTTTAT
16438300 ATTAGGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTTTATT
Found at i:16444669 original size:13 final size:13
Alignment explanation
Indices: 16444637--16444675 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
16444627 ATTCTTTAAC
*
16444637 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
16444652 TTAGATTAATACT
1 TTAGATTAATACT
16444665 TTAGATTAATA
1 TTAGATTAATA
16444676 TCCTACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:16446412 original size:15 final size:15
Alignment explanation
Indices: 16446394--16446424 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16446384 TTAGTTTAGC
16446394 TTTAACTTAGATTAA
1 TTTAACTTAGATTAA
*
16446409 TTTAATTTAGATTAA
1 TTTAACTTAGATTAA
16446424 T
1 T
16446425 ACTTGAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTAACTTAGATTAA
Found at i:16449680 original size:24 final size:24
Alignment explanation
Indices: 16449641--16449805 Score: 116
Period size: 24 Copynumber: 6.7 Consensus size: 24
16449631 ATTTATTGCG
16449641 TTTACGCTCG-CTAGCTTGCACACA
1 TTTACGCTCGTC-AGCTTGCACACA
** ****
16449665 TTTACGCTCGTCAGCTTATTTATGTG
1 TTTACGCTCGTCAGC-T-TGCACACA
*
16449691 TTTACGCTCGCCAGCTTGCACACA
1 TTTACGCTCGTCAGCTTGCACACA
* ** * *
16449715 TTTACGCTGGTCAGCTTATTTATACG
1 TTTACGCTCGTCAGC-T-TGCACACA
* *
16449741 TTTACACTTGTCAGCTTGCACACA
1 TTTACGCTCGTCAGCTTGCACACA
* * *
16449765 TTTACGCTCGTCAGCTTCCGCACG
1 TTTACGCTCGTCAGCTTGCACACA
*
16449789 TTTACTCTCGTCAGCTT
1 TTTACGCTCGTCAGCTT
16449806 ATATATGTAT
Statistics
Matches: 105, Mismatches: 31, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
24 67 0.64
25 5 0.05
26 33 0.31
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTTGCACACA
Found at i:16449707 original size:50 final size:50
Alignment explanation
Indices: 16449630--16449781 Score: 232
Period size: 50 Copynumber: 3.0 Consensus size: 50
16449620 CATATCAAGA
*
16449630 TATTTATTGCGTTTACGCTCGCTAGCTTGCACACATTTACGCTCGTCAGCT
1 TATTTA-TGCGTTTACGCTCGCCAGCTTGCACACATTTACGCTCGTCAGCT
* *
16449681 TATTTATGTGTTTACGCTCGCCAGCTTGCACACATTTACGCTGGTCAGCT
1 TATTTATGCGTTTACGCTCGCCAGCTTGCACACATTTACGCTCGTCAGCT
* * * *
16449731 TATTTATACGTTTACACTTGTCAGCTTGCACACATTTACGCTCGTCAGCT
1 TATTTATGCGTTTACGCTCGCCAGCTTGCACACATTTACGCTCGTCAGCT
16449781 T
1 T
16449782 CCGCACGTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 86 0.93
51 6 0.07
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (50 bp):
TATTTATGCGTTTACGCTCGCCAGCTTGCACACATTTACGCTCGTCAGCT
Found at i:16457435 original size:112 final size:112
Alignment explanation
Indices: 16457291--16457500 Score: 361
Period size: 112 Copynumber: 1.9 Consensus size: 112
16457281 TTTGTCATTT
*
16457291 TTAATCTTTTCTGTCATACGAGCTTTGCCTCTAATAAAATTCAATTTTATCCACCTTAC-AACCT
1 TTAATCTTTTCTGTCATACGAGCTTTGCCTCTAATAAAACTCAATTTTATCCACCTTACAAACC-
16457355 TGTTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAAAGATTC
65 TGTTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAAAGATTC
*
16457403 TTAATCTTTTCAT-TCATACGAGCTTTGTCTCTAATAAAACTCAATTTTATCCACCTTACAAACC
1 TTAATCTTTTC-TGTCATACGAGCTTTGCCTCTAATAAAACTCAATTTTATCCACCTTACAAACC
*
16457467 TGTTCAAGCATTTTTGCATTGAAATAACGGTTAG
65 TGTTCAAGCATTTTTGCATCGAAATAACGGTTAG
16457501 AGGTCTAACG
Statistics
Matches: 93, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
112 88 0.95
113 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (112 bp):
TTAATCTTTTCTGTCATACGAGCTTTGCCTCTAATAAAACTCAATTTTATCCACCTTACAAACCT
GTTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAAAGATTC
Found at i:16458012 original size:50 final size:48
Alignment explanation
Indices: 16457949--16458362 Score: 192
Period size: 49 Copynumber: 8.4 Consensus size: 48
16457939 TATAAAGGGA
* *
16457949 AAGGTTGAGGCCGCAACAGTGAACCCGGTACCTTAGAAGATGTCATGGG
1 AAGGTTGAGGCCGCAAC-GTGAACCCAGTACCTTAGAAGATGTGATGGG
* * * * * *
16457998 AAGGATTGAAGCCGCAACGGTGAATCTAGTACCAT-GAAGATATGAAGGG
1 AAGG-TTGAGGCCGCAAC-GTGAACCCAGTACCTTAGAAGATGTGATGGG
* * * * *
16458047 AAAGGTGGAGGCCACAACGACGAACACAGTACCTTAGAAGATGTGATGAG
1 -AAGGTTGAGGCCGCAACG-TGAACCCAGTACCTTAGAAGATGTGATGGG
* * * * * * ** *
16458097 AAGGATTGATGCCGCAATGGAGAATCCGGTACCAT-GAAGAAATGAAGGG
1 AAGG-TTGAGGCCGCAA-CGTGAACCCAGTACCTTAGAAGATGTGATGGG
* * * * * * *
16458146 AAAGATTGAGGCTGCAACGACGAATCCAGTACCAT-GAAGATATGAAGGG
1 -AAGGTTGAGGCCGCAACG-TGAACCCAGTACCTTAGAAGATGTGATGGG
* ** * *
16458195 AAAGGTTGAGGTCGCAACG-GCAAATTCGGTACCTTAGAAGATGTGATAGG
1 -AAGGTTGAGGCCGCAACGTG--AACCCAGTACCTTAGAAGATGTGATGGG
* ** * * * * * * *
16458245 AAGGATTGAGGTCGCAAACACGAATCCAGTACCAT-GAAAATATAAAAGGA
1 AAGG-TTGAGGCCGC-AACGTGAACCCAGTACCTTAGAAGATGT-GATGGG
* *
16458295 AAGGTTGAGGCCGCAGCGGTGAACCC-GATACCTTAGAAGATGTGATGGA
1 AAGGTTGAGGCCGCAAC-GTGAACCCAG-TACCTTAGAAGATGTGATGGG
* *
16458344 AAGGATTGTGGCTGCAACG
1 AAGG-TTGAGGCCGCAACG
16458363 ACGAATTTGG
Statistics
Matches: 274, Mismatches: 72, Indels: 38
0.71 0.19 0.10
Matches are distributed among these distances:
47 1 0.00
48 5 0.02
49 149 0.54
50 114 0.42
51 4 0.01
52 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (48 bp):
AAGGTTGAGGCCGCAACGTGAACCCAGTACCTTAGAAGATGTGATGGG
Found at i:16458065 original size:49 final size:49
Alignment explanation
Indices: 16457931--16458309 Score: 293
Period size: 49 Copynumber: 7.7 Consensus size: 49
16457921 ATTGAGGGAA
* * * * *
16457931 CATGAAGATATAAAGGGAAAGGTTGAGGCCGCAACAGTGAACCCGGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGTAC
* * * * * * *
16457980 CTTAGAAGATGTCATGGG-AAGGATTGAAGCCGCAACGGTGAATCTAGTAC
1 CAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCCAGTAC
* * *
16458030 CATGAAGATATGAAGGGAAAGGTGGAGGCCACAACGACGAA-CACAGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATC-CAGTAC
* * * * * * * *
16458079 CTTAGAAGATGTGATGAG-AAGGATTGATGCCGCAATGGAGAATCCGGTAC
1 CAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCCAGTAC
* * * *
16458129 CATGAAGAAATGAAGGGAAAGATTGAGGCTGCAACGACGAATCCAGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGTAC
* * * *
16458178 CATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAATTCGGTAC
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGTAC
* * * *
16458227 CTTAGAAGATGTGATA-GG-AAGGATTGAGGTCGCAAAC-ACGAATCCAGTAC
1 CAT-GAAGATATGA-AGGGAAAGG-TTGAGGCCGC-AACGGCGAATCCAGTAC
* * *
16458277 CATGAAAATATAAAAGGAAAGGTTGAGGCCGCA
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCA
16458310 GCGGTGAACC
Statistics
Matches: 255, Mismatches: 61, Indels: 29
0.74 0.18 0.08
Matches are distributed among these distances:
48 3 0.01
49 138 0.54
50 109 0.43
51 5 0.02
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17
Consensus pattern (49 bp):
CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGTAC
Done.