Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 111 of 171
Found at i:35591538 original size:3 final size:3
Alignment explanation
Indices: 35591530--35591573 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
35591520 CTACTTCTTA
35591530 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
35591574 AACATTGCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:35592387 original size:20 final size:21
Alignment explanation
Indices: 35592346--35592389 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
35592336 TATGAAACGT
*
35592346 AACAAATAATTAACAAATAAA
1 AACAAATAATAAACAAATAAA
35592367 AACAAA-AATAAACATAA-AAA
1 AACAAATAATAAACA-AATAAA
35592387 AAC
1 AAC
35592390 TTCCTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (21 bp):
AACAAATAATAAACAAATAAA
Found at i:35592693 original size:21 final size:20
Alignment explanation
Indices: 35592659--35592709 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
35592649 TTTTAGAAAA
* *
35592659 TTTATATAAGTTTTATATATT
1 TTTATA-AAATTTTAAATATT
*
35592680 TCTTTTAAAATTTTAAATATT
1 T-TTATAAAATTTTAAATATT
35592701 TTTATAAAA
1 TTTATAAAA
35592710 AAAAGATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTATAAAATTTTAAATATT
Found at i:35592707 original size:40 final size:37
Alignment explanation
Indices: 35592619--35592707 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 37
35592609 TTAGGTACAT
*
35592619 ATATTTTTATAATTTATAATTTCTTTTATATTTTAGA
1 ATATTTTTATAATTTATAATTTCTTTTAAATTTTAGA
* *
35592656 AAATTTATATAAGTTTTATATATTTCTTTTAAAATTTTA-A
1 ATATTTTTATAA--TTTATA-ATTTCTTTT-AAATTTTAGA
35592696 ATATTTTTATAA
1 ATATTTTTATAA
35592708 AAAAAAGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
37 10 0.23
39 6 0.14
40 20 0.47
41 7 0.16
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (37 bp):
ATATTTTTATAATTTATAATTTCTTTTAAATTTTAGA
Found at i:35593705 original size:10 final size:10
Alignment explanation
Indices: 35593677--35593711 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
35593667 TCTTTAAAAT
*
35593677 AATTTTTTTA
1 AATTTTTTAA
*
35593687 ATTTTTTTAA
1 AATTTTTTAA
35593697 AATTTTTTAA
1 AATTTTTTAA
35593707 AATTT
1 AATTT
35593712 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:35594384 original size:11 final size:12
Alignment explanation
Indices: 35594358--35594401 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
35594348 GATTAAAAGT
35594358 TAAAAAATATATA
1 TAAAAAATATA-A
35594371 TAAAAAAT-TAA
1 TAAAAAATATAA
*
35594382 TAAAAAATAAAA
1 TAAAAAATATAA
35594394 TAAAAAAT
1 TAAAAAAT
35594402 TGTATAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 9 0.31
12 12 0.41
13 8 0.28
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
TAAAAAATATAA
Found at i:35594408 original size:24 final size:24
Alignment explanation
Indices: 35594358--35594402 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
35594348 GATTAAAAGT
*
35594358 TAAAAAATATATATAAAAAATTAA
1 TAAAAAATATAAATAAAAAATTAA
35594382 TAAAAAATA-AAATAAAAAATT
1 TAAAAAATATAAATAAAAAATT
35594403 GTATAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAAAAATATAAATAAAAAATTAA
Found at i:35599398 original size:14 final size:14
Alignment explanation
Indices: 35599375--35599406 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
35599365 GGTAATCCAA
*
35599375 TTCCAGTTATCAAG
1 TTCCAATTATCAAG
35599389 TTCCAATTATCAAG
1 TTCCAATTATCAAG
35599403 TTCC
1 TTCC
35599407 TGTTCAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (14 bp):
TTCCAATTATCAAG
Found at i:35601170 original size:22 final size:21
Alignment explanation
Indices: 35601132--35601178 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
35601122 TGGTTTTTAC
*
35601132 ATATTTTTATTCTTTAAATAAT
1 ATATTTTTATACTTTAAA-AAT
35601154 ATATTTTTATAAC-TTAAAAAT
1 ATATTTTTAT-ACTTTAAAAAT
35601175 ATAT
1 ATAT
35601179 ATACGTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 15 0.65
23 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTTTTATACTTTAAAAAT
Found at i:35607337 original size:29 final size:26
Alignment explanation
Indices: 35607295--35607352 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 26
35607285 TTCCAAGTTC
35607295 TAAACCTTAAACCCTAAAACCATAAATCA
1 TAAACCTTAAACCCT-AAA-CATAAA-CA
*
35607324 TAAATCTTAAACCCTAAACATAAACA
1 TAAACCTTAAACCCTAAACATAAACA
35607350 TAA
1 TAA
35607353 TTAATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 5 0.18
27 6 0.21
28 3 0.11
29 14 0.50
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.22
Consensus pattern (26 bp):
TAAACCTTAAACCCTAAACATAAACA
Found at i:35607361 original size:20 final size:22
Alignment explanation
Indices: 35607338--35607382 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
35607328 TCTTAAACCC
35607338 TAAACATAAACAT-AAT-TAAT
1 TAAACATAAACATAAATATAAT
*
35607358 TAAATATAAACATAAATATAAT
1 TAAACATAAACATAAATATAAT
35607380 TAA
1 TAA
35607383 TTAAATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 3 0.14
22 7 0.32
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAACATAAACATAAATATAAT
Found at i:35607367 original size:26 final size:26
Alignment explanation
Indices: 35607338--35607389 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
35607328 TCTTAAACCC
35607338 TAAACATAAACATAATTAATTAAATA
1 TAAACATAAACATAATTAATTAAATA
*
35607364 TAAACATAAATATAATTAATTAAATA
1 TAAACATAAACATAATTAATTAAATA
35607390 CAACAGCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAACATAAACATAATTAATTAAATA
Found at i:35608467 original size:17 final size:18
Alignment explanation
Indices: 35608445--35608478 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35608435 CATTTTAAAA
*
35608445 TATTTT-AATAAAATTAT
1 TATTTTCAAAAAAATTAT
35608462 TATTTTCAAAAAAATTA
1 TATTTTCAAAAAAATTA
35608479 AAAAATCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTTCAAAAAAATTAT
Found at i:35609167 original size:28 final size:28
Alignment explanation
Indices: 35609135--35609190 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
35609125 ACCACTAGAT
35609135 TATTTTAATGTT-GTTTATACCATACCCG
1 TATTTTAAT-TTGGTTTATACCATACCCG
35609163 TATTTTAATTTCGGGTTTATACCATACC
1 TATTTTAATTT--GGTTTATACCATACC
35609191 GGTAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 2 0.08
28 9 0.36
30 14 0.56
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.46
Consensus pattern (28 bp):
TATTTTAATTTGGTTTATACCATACCCG
Found at i:35615444 original size:17 final size:17
Alignment explanation
Indices: 35615377--35615444 Score: 50
Period size: 17 Copynumber: 3.8 Consensus size: 17
35615367 TTGTACAGTA
*
35615377 ATATCAAACAATTTCAC
1 ATATCAAACAATTTCGC
*
35615394 ATATCAATCAA-TTCAGAAC
1 ATATCAAACAATTTC-G--C
35615413 A-ATGACAAACAATTTCGC
1 ATAT--CAAACAATTTCGC
*
35615431 ATATCAATCAATTT
1 ATATCAAACAATTT
35615445 AACATGGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
16 3 0.08
17 19 0.47
18 4 0.10
19 4 0.10
20 7 0.17
21 3 0.08
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (17 bp):
ATATCAAACAATTTCGC
Found at i:35619349 original size:38 final size:38
Alignment explanation
Indices: 35619125--35619365 Score: 243
Period size: 38 Copynumber: 6.3 Consensus size: 38
35619115 CAAAAATCTT
* * * * * *
35619125 ATTCAGTATAATCAGTAGTTATCGCTCGTTTGAACAAAC
1 ATTCAGTATAATCAGTGGAT-TCTCTCGCTTGAGCAAGC
* * * ** * *
35619164 ATTGAGTAAAATCAGTGGATTCGCTCATTTGAACAATC
1 ATTCAGTATAATCAGTGGATTCTCTCGCTTGAGCAAGC
*
35619202 ATTCAGTATAATCAGTGGATT-TGCTCGCTTAAGCAAGC
1 ATTCAGTATAATCAGTGGATTCT-CTCGCTTGAGCAAGC
*
35619240 ATTCAGTATAATCAGTGGATTCACTCGCTTGAGCAAGC
1 ATTCAGTATAATCAGTGGATTCTCTCGCTTGAGCAAGC
* *
35619278 ATTCAGTATAATTAGTGGATTCTCTTGCTTGAGCAAGC
1 ATTCAGTATAATCAGTGGATTCTCTCGCTTGAGCAAGC
* * * *
35619316 ATTAAGTATAATCAGTGAATTCTCTCG-TCTGAGCCAGT
1 ATTCAGTATAATCAGTGGATTCTCTCGCT-TGAGCAAGC
*
35619354 ATTTAGTATAAT
1 ATTCAGTATAAT
35619366 TAGTATTCCA
Statistics
Matches: 173, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
37 1 0.01
38 156 0.90
39 16 0.09
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (38 bp):
ATTCAGTATAATCAGTGGATTCTCTCGCTTGAGCAAGC
Found at i:35624796 original size:20 final size:22
Alignment explanation
Indices: 35624759--35624800 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
35624749 AAGATTAGCA
35624759 ATATTAGATTTGATTATGTAAT
1 ATATTAGATTTGATTATGTAAT
35624781 ATATTAGA-TTGA-TATGTAAT
1 ATATTAGATTTGATTATGTAAT
35624801 CTTTAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (22 bp):
ATATTAGATTTGATTATGTAAT
Found at i:35627456 original size:20 final size:21
Alignment explanation
Indices: 35627417--35627456 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
35627407 AAGATCAAAC
*
35627417 AACACTGAGTTATAAAATGCA
1 AACACTAAGTTATAAAATGCA
*
35627438 AACACTAAG-TATGAAATGC
1 AACACTAAGTTATAAAATGC
35627457 TAAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (21 bp):
AACACTAAGTTATAAAATGCA
Found at i:35628077 original size:50 final size:51
Alignment explanation
Indices: 35628015--35628119 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 51
35628005 AATTGAACCC
* * * * *
35628015 TTTTTTTTTAAATTT-ATTATAAGGTTAAATTTA-TTTTAAATTTAGATTTA
1 TTTTGTTTTAAATTTAAAT-TAAGGTTAAATTTACTTTTAAAATTAAAATTA
*
35628065 TTTTGTTTTAAATTTAAATTAAGTTTAAATTTACTTTTAAAATTAAAATTA
1 TTTTGTTTTAAATTTAAATTAAGGTTAAATTTACTTTTAAAATTAAAATTA
35628116 TTTT
1 TTTT
35628120 AAATTTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 27 0.57
51 20 0.43
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (51 bp):
TTTTGTTTTAAATTTAAATTAAGGTTAAATTTACTTTTAAAATTAAAATTA
Found at i:35628096 original size:29 final size:29
Alignment explanation
Indices: 35628070--35628126 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
35628060 ATTTATTTTG
*
35628070 TTTT-AAATTTAAATTAAGTTTAAATTTAC
1 TTTTAAAATTAAAATT-AGTTTAAATTTAC
*
35628099 TTTTAAAATTAAAATTATTTTAAATTTA
1 TTTTAAAATTAAAATTAGTTTAAATTTA
35628127 AAAAGTCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
TTTTAAAATTAAAATTAGTTTAAATTTAC
Found at i:35628129 original size:17 final size:17
Alignment explanation
Indices: 35628021--35628128 Score: 101
Period size: 17 Copynumber: 6.4 Consensus size: 17
35628011 ACCCTTTTTT
* *
35628021 TTTAAATTTATTATAAG
1 TTTAAATTTATTTTAAA
*
35628038 GTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* **
35628055 TTTAGATTTATTTT-GT
1 TTTAAATTTATTTTAAA
** *
35628071 TTTAAATTTAAATTAAG
1 TTTAAATTTATTTTAAA
35628088 TTTAAATTTACTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
35628106 ATTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
35628123 TTTAAA
1 TTTAAA
35628129 AAGTCTCATT
Statistics
Matches: 71, Mismatches: 18, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
16 11 0.15
17 48 0.68
18 12 0.17
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:35628869 original size:33 final size:30
Alignment explanation
Indices: 35628831--35628896 Score: 96
Period size: 33 Copynumber: 2.1 Consensus size: 30
35628821 ATATATAGTA
*
35628831 AATGATTTTAATAACACTAATAATAATATTATT
1 AATGATATTAATAAC-CTAATAAT-AT-TTATT
35628864 AATGATATTAATAACCTAATAATATTTATT
1 AATGATATTAATAACCTAATAATATTTATT
35628894 AAT
1 AAT
35628897 AAAAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.25
31 2 0.06
32 8 0.25
33 14 0.44
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (30 bp):
AATGATATTAATAACCTAATAATATTTATT
Found at i:35630066 original size:30 final size:31
Alignment explanation
Indices: 35630030--35630106 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 31
35630020 CCCAGAAGGT
*
35630030 CCCTAAACTATCTAAAAATTACATTTTTG-C
1 CCCTAAACTTTCTAAAAATTACATTTTTGAC
* *
35630060 CCCTAAACTTTC-CAAAATTCCATTTTTGAC
1 CCCTAAACTTTCTAAAAATTACATTTTTGAC
*
35630090 CCCCAAA-TTTCTAAAAA
1 CCCTAAACTTTCTAAAAA
35630107 ATACCAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 18 0.45
30 22 0.55
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (31 bp):
CCCTAAACTTTCTAAAAATTACATTTTTGAC
Found at i:35630178 original size:59 final size:56
Alignment explanation
Indices: 35630073--35630254 Score: 141
Period size: 59 Copynumber: 3.1 Consensus size: 56
35630063 TAAACTTTCC
** * * * **
35630073 AAAATTCCATTTTTGACCCCCAAATTTCTAAAAAATACCAAATTACCCTCAAATATCCA
1 AAAATT-CATTTTTGACCATCAAATTTCCAAAAATTACTATTTTACCCT--AATATCCA
* * *
35630132 AAAATTCTATTTTTGACCATGAAATTTCCAAAAATTACTATTTTACCGTTATATGCTCA
1 AAAATTC-ATTTTTGACCATCAAATTTCCAAAAATTACTATTTTACCCTAATAT-C-CA
* * * * *
35630191 AAAATTGCATTTTTGACCTTTAACTTTCCAAAAATTA-TGTTTTTACCTTGAATATCCA
1 AAAATT-CATTTTTGACCATCAAATTTCCAAAAATTACT-ATTTTACCCT-AATATCCA
35630249 AAAATT
1 AAAATT
35630255 ATCGTTTTAC
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
57 4 0.04
58 11 0.11
59 81 0.80
60 5 0.05
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (56 bp):
AAAATTCATTTTTGACCATCAAATTTCCAAAAATTACTATTTTACCCTAATATCCA
Found at i:35630233 original size:29 final size:29
Alignment explanation
Indices: 35630201--35630281 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
35630191 AAAATTGCAT
* *
35630201 TTTTGACCTTTAACTTTCCAAAAATTAT-G
1 TTTTGACCTTGAA-TATCCAAAAATTATCG
*
35630230 TTTTTACCTTGAATATCCAAAAATTATCG
1 TTTTGACCTTGAATATCCAAAAATTATCG
*
35630259 TTTT-ACCCTCGAAATATCCAAAA
1 TTTTGA-CCTTG-AATATCCAAAA
35630282 TCACCGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 14 0.31
29 20 0.44
30 11 0.24
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.40
Consensus pattern (29 bp):
TTTTGACCTTGAATATCCAAAAATTATCG
Found at i:35630262 original size:28 final size:29
Alignment explanation
Indices: 35630217--35630294 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 29
35630207 CCTTTAACTT
*
35630217 TCCAAAAATTAT-GTTTTTACCTTG-AATA
1 TCCAAAAATTATCG-TTTTACCTCGAAATA
35630245 TCCAAAAATTATCGTTTTACCCTCGAAATA
1 TCCAAAAATTATCGTTTTA-CCTCGAAATA
* *
35630275 TCC-AAAATCACCGTTTTACC
1 TCCAAAAATTATCGTTTTACC
35630295 CTTGGGCATC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 19 0.43
29 18 0.41
30 7 0.16
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (29 bp):
TCCAAAAATTATCGTTTTACCTCGAAATA
Found at i:35630282 original size:29 final size:29
Alignment explanation
Indices: 35630217--35630296 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
35630207 CCTTTAACTT
*
35630217 TCCAAAAATTAT-GTTTTTA-CCTTGAATA
1 TCCAAAAATTATCG-TTTTACCCTCGAATA
35630245 TCCAAAAATTATCGTTTTACCCTCGAAATA
1 TCCAAAAATTATCGTTTTACCCTCG-AATA
* *
35630275 TCC-AAAATCACCGTTTTACCCT
1 TCCAAAAATTATCGTTTTACCCT
35630297 TGGGCATCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 17 0.37
29 22 0.48
30 7 0.15
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (29 bp):
TCCAAAAATTATCGTTTTACCCTCGAATA
Found at i:35631891 original size:17 final size:18
Alignment explanation
Indices: 35631871--35631912 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
35631861 ACTACAATGC
*
35631871 AAATGCTAGA-ACAATTA
1 AAATGCTAGAGACAATAA
35631888 AAATGC-AGAGACAATAA
1 AAATGCTAGAGACAATAA
*
35631905 AAAAGCTA
1 AAATGCTA
35631913 TGGCAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.81
18 1 0.05
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.17
Consensus pattern (18 bp):
AAATGCTAGAGACAATAA
Found at i:35632301 original size:3 final size:3
Alignment explanation
Indices: 35632293--35632335 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
35632283 TCGGGGCAAT
35632293 TTC TTC TTC TTC TTCC TTC -TC TTC TTC -TC TTGC TTC TTC TTC T
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TT-C TTC TTC TTC T
35632336 ACTACAATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 26 0.72
4 6 0.17
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:35632330 original size:15 final size:14
Alignment explanation
Indices: 35632294--35632335 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
35632284 CGGGGCAATT
35632294 TCTTCTTCTTCTTC
1 TCTTCTTCTTCTTC
35632308 -CTTC-TCTTCTTC
1 TCTTCTTCTTCTTC
35632320 TCTTGCTTCTTCTTC
1 TCTT-CTTCTTCTTC
35632335 T
1 T
35632336 ACTACAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.32
13 7 0.28
14 1 0.04
15 9 0.36
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (14 bp):
TCTTCTTCTTCTTC
Found at i:35633575 original size:28 final size:26
Alignment explanation
Indices: 35633529--35633625 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 26
35633519 GAAAAAAAAG
35633529 GGGTCAAAAATGAAGTTTTAGGGAATTTA
1 GGGTC-AAAATGAA-TTTT-GGGAATTTA
* * *
35633558 GAGTCAAAATGCAATTTTGGAAAAATTTT
1 GGGTCAAAATG-AATTTTGG--GAATTTA
*
35633587 GGGTCAAAATGTGATTTTGGGAAGTTTA
1 GGGTCAAAATG-AATTTTGGGAA-TTTA
35633615 GGGTCAAAATG
1 GGGTCAAAATG
35633626 TGGTTATGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 4 0.07
28 24 0.43
29 28 0.50
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (26 bp):
GGGTCAAAATGAATTTTGGGAATTTA
Found at i:35633584 original size:29 final size:29
Alignment explanation
Indices: 35633554--35633881 Score: 273
Period size: 30 Copynumber: 11.1 Consensus size: 29
35633544 TTTTAGGGAA
* * *
35633554 TTTAGAGTCAAAATGCAATTTTGGAAAAA
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* * *
35633583 TTTTGGGTCAAAATGTGATTTTGG-GAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
** *
35633611 TTTAGGGTCAAAATGTGGTTATGGAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* * * * *
35633640 TTTAAGGTTAAAATGTGACTTTGGGAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
35633669 TTTAGGGATTAAAATGTAATTTTGGAAAAT
1 TTTAGGG-TCAAAATGTAATTTTGGAAAAG
* * *
35633699 TTTAGGGTTAAAATGTAATTTTAGAGAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* ** * *
35633728 TTCATGGACCAAAATGTAATTTTAGAGAAG
1 TTTA-GGGTCAAAATGTAATTTTGGAAAAG
* *
35633758 TTTTAGGGTTAAAATGTAATTTTAGG-AATG
1 -TTTAGGGTCAAAATGTAATTTT-GGAAAAG
* *
35633788 TTTAGGGGTTAAAATGTAATTTTGGAAAGG
1 TTTA-GGGTCAAAATGTAATTTTGGAAAAG
* *
35633818 TTTAGGGGTCATAATGTAATTTTAGAAAAG
1 TTTA-GGGTCAAAATGTAATTTTGGAAAAG
* * * *
35633848 TTTGAGGGCCAAAATATGATTTTGGGAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
35633878 TTTA
1 TTTA
35633882 AGGATTGCCT
Statistics
Matches: 245, Mismatches: 46, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
28 23 0.09
29 81 0.33
30 136 0.56
31 5 0.02
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
TTTAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:35633708 original size:59 final size:59
Alignment explanation
Indices: 35633561--35633824 Score: 266
Period size: 59 Copynumber: 4.5 Consensus size: 59
35633551 GAATTTAGAG
* *
35633561 TCAAAATGCAATTTTGGAAAAATTTT-GGGTCAAAATGTGATTTTGGG-AAGTTTAGGG-
1 TCAAAATGTAATTTTGG-AAAATTTTAGGGTTAAAATGTGATTTTGGGAAAGTTTAGGGA
** * * * *
35633618 TCAAAATGTGGTTATGGAAAAGTTTAAGGTTAAAATGTGACTTTGGGAAAGTTTAGGGA
1 TCAAAATGTAATTTTGGAAAATTTTAGGGTTAAAATGTGATTTTGGGAAAGTTTAGGGA
* * * * *
35633677 TTAAAATGTAATTTTGGAAAATTTTAGGGTTAAAATGTAATTTT-AGAGAAGTTCATGGA
1 TCAAAATGTAATTTTGGAAAATTTTAGGGTTAAAATGTGATTTTGGGA-AAGTTTAGGGA
* * * * * * *
35633736 CCAAAATGTAATTTTAGAGAAGTTTTAGGGTTAAAATGTAATTTTAGGAATGTTTAGGGG
1 TCAAAATGTAATTTTGGA-AAATTTTAGGGTTAAAATGTGATTTTGGGAAAGTTTAGGGA
* **
35633796 TTAAAATGTAATTTTGGAAAGGTTTAGGG
1 TCAAAATGTAATTTTGGAAAATTTTAGGG
35633825 GTCATAATGT
Statistics
Matches: 169, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
56 7 0.04
57 31 0.18
58 12 0.07
59 70 0.41
60 47 0.28
61 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (59 bp):
TCAAAATGTAATTTTGGAAAATTTTAGGGTTAAAATGTGATTTTGGGAAAGTTTAGGGA
Found at i:35634644 original size:6 final size:6
Alignment explanation
Indices: 35634633--35634667 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
35634623 GTATATATGG
35634633 GTATAT GTATAT GTATAT GTATAT GTATAT GTATA
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATA
35634668 CCTTGATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
GTATAT
Found at i:35643716 original size:271 final size:271
Alignment explanation
Indices: 35643233--35643775 Score: 996
Period size: 271 Copynumber: 2.0 Consensus size: 271
35643223 ACTTCCATGG
35643233 CAGCTGACTCTTGAAATGAATGAGGGAAATTATAGATTTGAATTGTTCACTCCTTGATATCAATC
1 CAGCTGACTCTTGAAATGAATGAGGGAAATTATAGATTTGAATTGTTCACTCCTTGATATCAATC
35643298 TTCTCTTTCTTCCTTCTATTTATAATCACTAGTCATTCCAGATCTTCCTCTTTTTTCAGATCTAA
66 TTCTCTTTCTTCCTTCTATTTATAATCACTAGTCATTCCAGATCTTCCTCTTTTTTCAGATCTAA
** *
35643363 CTCCTTTTTGCGGTTGTAAAAGTTGTTATTGCCAGCTATGCACTCACGCAGATCTGGTTTGTCCA
131 CTCCTTTTTGCGACTGTAAAAGTTGTTATTGCCAGCTATGCACTCACGCAAATCTGGTTTGTCCA
*
35643428 TTGAGCAGTTACAGATTATCGCGACATTTCTAGACGCAAATTATGACTTTAATTTGCTGCAACAA
196 TTGAGCAGTTACAGATTATCGCGACATTTCTAGACGCAAATTATGACTTTAATTTGCTACAACAA
35643493 TTTGTCATTCT
261 TTTGTCATTCT
*
35643504 CAGCTGACTCTTGAAATGAATGAGGGAAATTATAGATTTGAATTGTTCACTCCTTGATTTCAATC
1 CAGCTGACTCTTGAAATGAATGAGGGAAATTATAGATTTGAATTGTTCACTCCTTGATATCAATC
*
35643569 TTCTCTTTCTTCCTTCTATTTATAATCACTGGTCATTCCAGATCTTCCTCTTTTTTCAGATCTAA
66 TTCTCTTTCTTCCTTCTATTTATAATCACTAGTCATTCCAGATCTTCCTCTTTTTTCAGATCTAA
**
35643634 CTCCTTTTTGCGACTGTAAAAGTTGTTATTTTCAGCTATGCACTCACGCAAATCTGGTTTGTCCA
131 CTCCTTTTTGCGACTGTAAAAGTTGTTATTGCCAGCTATGCACTCACGCAAATCTGGTTTGTCCA
* *
35643699 TTGAGCAGTTACAGATTATTGCGACATTTCTGGACGCAAATTATGACTTTAATTTGCTACAACAA
196 TTGAGCAGTTACAGATTATCGCGACATTTCTAGACGCAAATTATGACTTTAATTTGCTACAACAA
35643764 TTTGTCATTCT
261 TTTGTCATTCT
35643775 C
1 C
35643776 TTGTGCTGGT
Statistics
Matches: 262, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
271 262 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (271 bp):
CAGCTGACTCTTGAAATGAATGAGGGAAATTATAGATTTGAATTGTTCACTCCTTGATATCAATC
TTCTCTTTCTTCCTTCTATTTATAATCACTAGTCATTCCAGATCTTCCTCTTTTTTCAGATCTAA
CTCCTTTTTGCGACTGTAAAAGTTGTTATTGCCAGCTATGCACTCACGCAAATCTGGTTTGTCCA
TTGAGCAGTTACAGATTATCGCGACATTTCTAGACGCAAATTATGACTTTAATTTGCTACAACAA
TTTGTCATTCT
Found at i:35647029 original size:22 final size:21
Alignment explanation
Indices: 35647012--35647064 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
35647002 TGAAAATTAT
35647012 TAAAATTATTTTTAAAAAATA
1 TAAAATTATTTTTAAAAAATA
***
35647033 TAAAATTATTTTTTTGAAATAA
1 TAAAATTATTTTTAAAAAAT-A
35647055 TAAAATTATT
1 TAAAATTATT
35647065 AAATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAAATTATTTTTAAAAAATA
Found at i:35652581 original size:29 final size:29
Alignment explanation
Indices: 35652548--35652623 Score: 152
Period size: 29 Copynumber: 2.6 Consensus size: 29
35652538 TGGGGGTGTT
35652548 ATGTCTGCATCTGTAACTGTATCTGTATA
1 ATGTCTGCATCTGTAACTGTATCTGTATA
35652577 ATGTCTGCATCTGTAACTGTATCTGTATA
1 ATGTCTGCATCTGTAACTGTATCTGTATA
35652606 ATGTCTGCATCTGTAACT
1 ATGTCTGCATCTGTAACT
35652624 ATGTCTATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (29 bp):
ATGTCTGCATCTGTAACTGTATCTGTATA
Found at i:35652590 original size:17 final size:17
Alignment explanation
Indices: 35652568--35652620 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
35652558 CTGTAACTGT
35652568 ATCTGTATAATGTCTGC
1 ATCTGTATAATGTCTGC
*
35652585 ATCTG--TAA---CTGT
1 ATCTGTATAATGTCTGC
35652597 ATCTGTATAATGTCTGC
1 ATCTGTATAATGTCTGC
35652614 ATCTGTA
1 ATCTGTA
35652621 ACTATGTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 8 0.28
14 3 0.10
15 3 0.10
17 15 0.52
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (17 bp):
ATCTGTATAATGTCTGC
Found at i:35652656 original size:58 final size:56
Alignment explanation
Indices: 35652548--35652668 Score: 125
Period size: 58 Copynumber: 2.1 Consensus size: 56
35652538 TGGGGGTGTT
* * * * * *
35652548 ATGTCTGCATCTGTAACTGTATCTGTATAATGTCTGCATCTGTAACTGTATCTGTATA
1 ATGTCTGCATCTGTAACTATATCTATATAATATCTACATCTGGAACTGTAT-T-CATA
* * * * *
35652606 ATGTCTGCATCTGTAACTATGTCTATATTATATCTATATTTGGAATTGTATTCATA
1 ATGTCTGCATCTGTAACTATATCTATATAATATCTACATCTGGAACTGTATTCATA
35652662 ATGTCTG
1 ATGTCTG
35652669 ACCTTCTGCT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
56 10 0.19
57 1 0.02
58 41 0.79
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (56 bp):
ATGTCTGCATCTGTAACTATATCTATATAATATCTACATCTGGAACTGTATTCATA
Found at i:35653389 original size:18 final size:18
Alignment explanation
Indices: 35653366--35653400 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35653356 TTTATAATAC
*
35653366 TTTATATTATGTTATTTT
1 TTTATATTATGTAATTTT
35653384 TTTATATTATGTAATTT
1 TTTATATTATGTAATTT
35653401 AAAACACATT
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:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTATATTATGTAATTTT
Found at i:35663117 original size:118 final size:118
Alignment explanation
Indices: 35662885--35663105 Score: 334
Period size: 118 Copynumber: 1.9 Consensus size: 118
35662875 AAACAAAGGC
* * * *
35662885 AGCAACTAGTGTTTGAGAGCTATAAAAAAACTCCTAGACAAAATATCCCAAATTTCCTTTTTGTA
1 AGCAACTAGTGTATGAGAACTACAAAAAAACTCCTAGACAAAATATCCCAAATTTCCTTTGTGTA
* * *
35662950 TCAAATAACCATATGTAGGCTTGTAATTACAGCTTATTGTTGCTCTTCCAGGG
66 TCAAACAACCATATGTAGGCTTGCAATCACAGCTTATTGTTGCTCTTCCAGGG
** * *
35663003 AGCAACTAGTGTATGAGAACTACAAAAGGACTCCTAGGCAAAATGTCCCAAATTTCCTTTGTGTA
1 AGCAACTAGTGTATGAGAACTACAAAAAAACTCCTAGACAAAATATCCCAAATTTCCTTTGTGTA
*
35663068 TCAAACAACCATATGTAGGCTTGCCATCACAGCTTATT
66 TCAAACAACCATATGTAGGCTTGCAATCACAGCTTATT
35663106 TTGGTTCTTC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
118 91 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (118 bp):
AGCAACTAGTGTATGAGAACTACAAAAAAACTCCTAGACAAAATATCCCAAATTTCCTTTGTGTA
TCAAACAACCATATGTAGGCTTGCAATCACAGCTTATTGTTGCTCTTCCAGGG
Found at i:35668022 original size:34 final size:32
Alignment explanation
Indices: 35667976--35668052 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 32
35667966 CTAAGTTTTT
*
35667976 AATA-TTATTTTTAAAAAGCATTTTTAAAAAATAA
1 AATATTTA-TTTTAAAAAGAATTTTT-AAAAA-AA
* * *
35668010 AATATTTATTTTAAATATAATTTTTAAATAAA
1 AATATTTATTTTAAAAAGAATTTTTAAAAAAA
35668042 AATATTTATTT
1 AATATTTATTT
35668053 AAATAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 13 0.34
33 4 0.11
34 18 0.47
35 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (32 bp):
AATATTTATTTTAAAAAGAATTTTTAAAAAAA
Found at i:35668025 original size:18 final size:18
Alignment explanation
Indices: 35668004--35668058 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
35667994 CATTTTTAAA
35668004 AAATAAAATATTTATTTT
1 AAATAAAATATTTATTTT
*
35668022 AAAT---ATA-AT-TTTT
1 AAATAAAATATTTATTTT
35668035 AAATAAAAATATTTA-TTT
1 AAAT-AAAATATTTATTTT
35668053 AAATAA
1 AAATAA
35668059 TATTTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 13
0.66 0.05 0.30
Matches are distributed among these distances:
13 8 0.28
14 1 0.03
15 3 0.10
17 5 0.17
18 12 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAAAATATTTATTTT
Found at i:35668046 original size:19 final size:18
Alignment explanation
Indices: 35668004--35668058 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
35667994 CATTTTTAAA
35668004 AAAT-AAAATATTTATTT
1 AAATAAAAATATTTATTT
* *
35668021 ---TAAATATAATT-TTT
1 AAATAAAAATATTTATTT
35668035 AAATAAAAATATTTATTT
1 AAATAAAAATATTTATTT
35668053 AAATAA
1 AAATAA
35668059 TATTTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
14 4 0.14
15 7 0.24
17 9 0.31
18 9 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAAAAATATTTATTT
Found at i:35668784 original size:29 final size:29
Alignment explanation
Indices: 35668752--35668810 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
35668742 ATTGAAATTT
35668752 ATTTTAAATACATAATATTAT-ATATTTAA
1 ATTTTAAATA-ATAATATTATAATATTTAA
* * *
35668781 ATTTTTAATAATTATATTTTAATATTTAA
1 ATTTTAAATAATAATATTATAATATTTAA
35668810 A
1 A
35668811 ATATAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTTTAAATAATAATATTATAATATTTAA
Found at i:35668794 original size:23 final size:22
Alignment explanation
Indices: 35668764--35668807 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
35668754 TTTAAATACA
35668764 TAATATTATATATTTAA-ATTTT
1 TAATATTATAT-TTTAATATTTT
35668786 TAATAATTATATTTTAATATTT
1 TAAT-ATTATATTTTAATATTT
35668808 AAAATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATATTATATTTTAATATTTT
Found at i:35668813 original size:23 final size:23
Alignment explanation
Indices: 35668768--35668813 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35668758 AATACATAAT
**
35668768 ATTATATATTTAAATTTTTAATA
1 ATTATATATTTAAATTTAAAATA
35668791 ATTATAT-TTTAATATTTAAAATA
1 ATTATATATTTAA-ATTTAAAATA
35668814 TAATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATATATTTAAATTTAAAATA
Found at i:35672934 original size:13 final size:14
Alignment explanation
Indices: 35672905--35672963 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
35672895 ATATAAATTT
35672905 AATATTAATAATCA
1 AATATTAATAATCA
*
35672919 AATATT-ATATTC-
1 AATATTAATAATCA
35672931 AA-A-TAATAAT--
1 AATATTAATAATCA
*
35672941 AATAATAATAATCA
1 AATATTAATAATCA
35672955 AATATTAAT
1 AATATTAAT
35672964 GTATGATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
10 3 0.08
11 6 0.16
12 9 0.24
13 5 0.14
14 14 0.38
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATTAATAATCA
Found at i:35677418 original size:15 final size:17
Alignment explanation
Indices: 35677398--35677436 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
35677388 CTTTTCTCTA
35677398 AAAAATA-GTTTAT-TT
1 AAAAATATGTTTATATT
*
35677413 AAAAATATTTTTATATT
1 AAAAATATGTTTATATT
35677430 AAAAATA
1 AAAAATA
35677437 CTTCTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 5 0.24
17 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AAAAATATGTTTATATT
Found at i:35683347 original size:16 final size:16
Alignment explanation
Indices: 35683315--35683348 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35683305 TAAATTTAAG
35683315 TATATATTATGATTTT
1 TATATATTATGATTTT
*
35683331 TATATTTTACTGATTTT
1 TATATATTA-TGATTTT
35683348 T
1 T
35683349 TTTTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TATATATTATGATTTT
Found at i:35688655 original size:18 final size:19
Alignment explanation
Indices: 35688634--35688671 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
35688624 ATATTCCATT
*
35688634 AAATTTTTTTATTT-TTTA
1 AAATTCTTTTATTTATTTA
35688652 AAATTCTTTTATTTATTTA
1 AAATTCTTTTATTTATTTA
35688671 A
1 A
35688672 CTTTTGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
AAATTCTTTTATTTATTTA
Found at i:35689064 original size:24 final size:24
Alignment explanation
Indices: 35689036--35689094 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
35689026 TAGACTAATA
*
35689036 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* *
35689060 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
35689084 AGAGTTTAACT
1 AGAGTTTAACT
35689095 AAAAGATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:35689886 original size:19 final size:18
Alignment explanation
Indices: 35689859--35689927 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
35689849 TTATTAAAAA
*
35689859 AAATATTCCAATATAAAC
1 AAATGTTCCAATATAAAC
* * *
35689877 AAGATGTTCCATTGTCAAC
1 AA-ATGTTCCAATATAAAC
*
35689896 AAATGGTTCCCATATAAAC
1 AAAT-GTTCCAATATAAAC
*
35689915 AAAATGTACCAAT
1 -AAATGTTCCAAT
35689928 CTTGTCCCTC
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
18 4 0.11
19 30 0.79
20 4 0.11
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (18 bp):
AAATGTTCCAATATAAAC
Found at i:35691552 original size:21 final size:21
Alignment explanation
Indices: 35691511--35691552 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35691501 TTGTGTCAAA
*
35691511 CATTTTCAAATATGTTTAAAC
1 CATTTTCAAATATGTTAAAAC
35691532 CATTTTCAAACTA-GTTAAAAC
1 CATTTTCAAA-TATGTTAAAAC
35691553 TGCTCCAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (21 bp):
CATTTTCAAATATGTTAAAAC
Found at i:35694439 original size:33 final size:33
Alignment explanation
Indices: 35694384--35694450 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
35694374 AAATCTTTGT
* *
35694384 CTTAAATTGAAAATGATTTTTA-TATAGGGGGAG
1 CTTAAATTCAAAATGATATTTATTA-AGGGGGAG
35694417 CTTAAATTCAAAATG-TCATTTATTAAGGGGGAG
1 CTTAAATTCAAAATGAT-ATTTATTAAGGGGGAG
35694450 C
1 C
35694451 AAGTACTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 1 0.03
33 27 0.90
34 2 0.07
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.34
Consensus pattern (33 bp):
CTTAAATTCAAAATGATATTTATTAAGGGGGAG
Found at i:35694665 original size:21 final size:21
Alignment explanation
Indices: 35694624--35694665 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35694614 TTGAGTCAAA
*
35694624 CATTTTCAAATATGTTTAAAC
1 CATTTTCAAATATGTTAAAAC
35694645 CATTTTCAAACTA-GTTAAAAC
1 CATTTTCAAA-TATGTTAAAAC
35694666 TGCTCCAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (21 bp):
CATTTTCAAATATGTTAAAAC
Found at i:35698575 original size:43 final size:43
Alignment explanation
Indices: 35698514--35698625 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 43
35698504 GAGGAACATT
* **
35698514 GTTTCCTAATATTGAAAGTATGTGATCGATTGTGTGGAAAACC
1 GTTTCCTAATATTGAAAGTATGTGATCGAATGAATGGAAAACC
* * *
35698557 GTTTCTTAATATTGAAAGTATGTGATCGAATGAATGGAACACT
1 GTTTCCTAATATTGAAAGTATGTGATCGAATGAATGGAAAACC
35698600 GTTTCCTAATATTGATAA-TATGTGAT
1 GTTTCCTAATATTGA-AAGTATGTGAT
35698626 TGAGTGAGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 59 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (43 bp):
GTTTCCTAATATTGAAAGTATGTGATCGAATGAATGGAAAACC
Found at i:35698875 original size:28 final size:29
Alignment explanation
Indices: 35698825--35698880 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
35698815 AGGATTGGCA
* **
35698825 ATCTTTATCGCATTATTTGTTA-TCGACG
1 ATCTTTATCACATTATTCATTATTCGACG
35698853 ATCTTTATCACATTATTCATTATTCGAC
1 ATCTTTATCACATTATTCATTATTCGAC
35698881 AGATTTTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.46
Consensus pattern (29 bp):
ATCTTTATCACATTATTCATTATTCGACG
Found at i:35700087 original size:16 final size:14
Alignment explanation
Indices: 35700061--35700102 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
35700051 AAATAAAAAA
*
35700061 ACCCAAACCCAAATT
1 ACCCAAGCCCAAA-T
35700076 ACACCAAGCCCAAAT
1 AC-CCAAGCCCAAAT
35700091 ACCCAAGCCCAA
1 ACCCAAGCCCAA
35700103 CTAAAACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 10 0.40
15 5 0.20
16 10 0.40
ACGTcount: A:0.45, C:0.43, G:0.05, T:0.07
Consensus pattern (14 bp):
ACCCAAGCCCAAAT
Found at i:35701386 original size:4 final size:4
Alignment explanation
Indices: 35701375--35701518 Score: 50
Period size: 4 Copynumber: 36.0 Consensus size: 4
35701365 TTAATGTTTA
* * * * * *
35701375 ATTT -TTT ATTT ATTA ATTT TTTT ATTT ATTG AATT -TTT ATTG AATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * * * *
35701421 ATTT -GTT ATTC ATTT -TTT ATGCT ATTT ATATT TTTGT ATTT AGTTA
1 ATTT ATTT ATTT ATTT ATTT AT-TT ATTT AT-TT ATT-T ATTT A-TTT
* * *
35701467 ATTTT ATTT ATTC A-TT ATTT -TTA ATTT AATTTT ATTT ATTT -GTT ATTT
1 A-TTT ATTT ATTT ATTT ATTT ATTT ATTT -A-TTT ATTT ATTT ATTT ATTT
35701515 ATTT
1 ATTT
35701519 GTGTGTCATT
Statistics
Matches: 98, Mismatches: 29, Indels: 26
0.64 0.19 0.17
Matches are distributed among these distances:
3 16 0.16
4 62 0.63
5 17 0.17
6 3 0.03
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:35701396 original size:17 final size:17
Alignment explanation
Indices: 35701376--35701412 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
35701366 TAATGTTTAA
35701376 TTTTTTATTTATT-AAT
1 TTTTTTATTTATTGAAT
35701392 TTTTTTATTTATTGAAT
1 TTTTTTATTTATTGAAT
35701409 TTTT
1 TTTT
35701413 ATTGAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTATTTATTGAAT
Found at i:35701402 original size:28 final size:29
Alignment explanation
Indices: 35701371--35701518 Score: 81
Period size: 32 Copynumber: 4.9 Consensus size: 29
35701361 TTATTTAATG
35701371 TTTAATTTTTTATTTATTAATT-TTTTTA
1 TTTAATTTTTTATTTATTAATTATTTTTA
**
35701399 TTT-ATTGAATT-TTTATTGAATTATTTGTTA
1 TTTAATT-TTTTATTTATT-AATTATTT-TTA
* * *
35701429 -TTCATTTTTTATGCTATTTATATT-TTTGTA
1 TTTAATTTTTTAT-TTA-TTA-ATTATTTTTA
* *
35701459 TTTAGTTAATTTTATTTATTCATTATTTTTAA
1 TTTAATT--TTTTATTTATTAATTATTTTT-A
* *
35701491 TTTAATTTTATTTATTTGTTATTTATTT
1 TTTAA-TTT-TTTATTTATTAATTATTT
35701519 GTGTGTCATT
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
27 9 0.10
28 9 0.10
29 7 0.08
30 12 0.13
31 17 0.19
32 27 0.30
33 8 0.09
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (29 bp):
TTTAATTTTTTATTTATTAATTATTTTTA
Found at i:35705192 original size:20 final size:20
Alignment explanation
Indices: 35705169--35705208 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35705159 CAATTGGTAG
35705169 AACTCCACTTCTACCGATAC
1 AACTCCACTTCTACCGATAC
35705189 AACTCCACTTCTACCGATAC
1 AACTCCACTTCTACCGATAC
35705209 CTTGAAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.05, T:0.25
Consensus pattern (20 bp):
AACTCCACTTCTACCGATAC
Found at i:35705431 original size:20 final size:20
Alignment explanation
Indices: 35705415--35705472 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
35705405 TAGAACTCCT
35705415 CTTCTACTGATACAACTATA
1 CTTCTACTGATACAACTATA
* * *
35705435 GTTCTACTGATACAAGTATG
1 CTTCTACTGATACAACTATA
35705455 CTTCTACTGGA-ACAACTA
1 CTTCTACT-GATACAACTA
35705473 AGTTGCAGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
CTTCTACTGATACAACTATA
Found at i:35714566 original size:18 final size:18
Alignment explanation
Indices: 35714514--35714566 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 18
35714504 TAATATTATA
* *
35714514 ATAAAAATATTTTTAGGT
1 ATAAAAACATTATTAGGT
*
35714532 ATAAAAATTCTATTATTATGT
1 ATAAAAA--C-ATTATTAGGT
35714553 ATAAAAACATTATT
1 ATAAAAACATTATT
35714567 TTATATGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 13 0.45
19 1 0.03
21 15 0.52
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (18 bp):
ATAAAAACATTATTAGGT
Found at i:35714948 original size:19 final size:19
Alignment explanation
Indices: 35714898--35714954 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
35714888 ATTGATAGAA
*
35714898 TAAAATAATATTAAAAAAAT
1 TAAAATAATA-TAAAAATAT
*
35714918 GAATTAAT-ATATAAAAATAT
1 TAA--AATAATATAAAAATAT
35714938 TAAAATAATATAAAAAT
1 TAAAATAATATAAAAAT
35714955 TTGGAAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 12 0.39
21 3 0.10
22 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAAATAATATAAAAATAT
Found at i:35715664 original size:15 final size:16
Alignment explanation
Indices: 35715636--35715665 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35715626 AAAATTAGTA
35715636 AAATTTTGTTTAAGTC
1 AAATTTTGTTTAAGTC
35715652 AAATTTT-TTTAAGT
1 AAATTTTGTTTAAGT
35715666 AATAATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (16 bp):
AAATTTTGTTTAAGTC
Found at i:35715672 original size:16 final size:16
Alignment explanation
Indices: 35715632--35715672 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
35715622 TTTTAAAATT
35715632 AGTAAAATTTTGTTTA
1 AGTAAAATTTTGTTTA
*
35715648 AGTCAAATTTT-TTTA
1 AGTAAAATTTTGTTTA
35715663 AGTAATAATT
1 AGTAA-AATT
35715673 ATGATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (16 bp):
AGTAAAATTTTGTTTA
Found at i:35720019 original size:87 final size:86
Alignment explanation
Indices: 35719918--35720080 Score: 245
Period size: 87 Copynumber: 1.9 Consensus size: 86
35719908 AAATTTATGT
* * *
35719918 TCGGTGAATTCATCAAGTCCGTATCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAGA
1 TCGGTGAATTCATCAAGTCCGTATAAATAGGACCACCCAAAATCTGGGATATGAACTCATTAAGA
35719983 GTAATAAACTCAACCTCTCAAG
66 GTAA-AAACTCAACCTCTCAAG
* * * *
35720005 TCGGTGAATTCATCAAGTCTGTCTAAATAGGACCACCCAAAATCTGGGCTATGAATTCATTAAGA
1 TCGGTGAATTCATCAAGTCCGTATAAATAGGACCACCCAAAATCTGGGATATGAACTCATTAAGA
*
35720070 TTAAAAACTCA
66 GTAAAAACTCA
35720081 TTCTTATGCA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
86 7 0.10
87 61 0.90
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTCCGTATAAATAGGACCACCCAAAATCTGGGATATGAACTCATTAAGA
GTAAAAACTCAACCTCTCAAG
Found at i:35726757 original size:17 final size:17
Alignment explanation
Indices: 35726717--35726768 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
35726707 GCAATTAATG
*
35726717 AATTTTTAA-AATTTAA
1 AATTTTTAATATTTTAA
*
35726733 AATATTTTAATATTTTAT
1 AAT-TTTTAATATTTTAA
35726751 AATTTTTAAT-TTTTAA
1 AATTTTTAATATTTTAA
35726767 AA
1 AA
35726769 ATAATTGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 10 0.32
17 13 0.42
18 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTTAATATTTTAA
Found at i:35727170 original size:37 final size:38
Alignment explanation
Indices: 35727124--35727197 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
35727114 TTATTGTCAC
*
35727124 TATGTATTTTGAAATTAAAAA-TATATTAAAGGTAAAAA
1 TATGTATTTTGAAA-TAAAAATTATATTAAAGATAAAAA
**
35727162 TATG-ATTTTTTAATAAAAATTATATTAAAGATAAAA
1 TATGTATTTTGAAATAAAAATTATATTAAAGATAAAA
35727198 TGTGAAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.19
37 22 0.69
38 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (38 bp):
TATGTATTTTGAAATAAAAATTATATTAAAGATAAAAA
Found at i:35748979 original size:52 final size:49
Alignment explanation
Indices: 35748889--35748986 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 49
35748879 CAAAAAAAAG
35748889 TGAATGCAACAAAAAAAACAATGATCATAATTAAAAACACTACTTTATTTA
1 TGAATGCAACAAAAAAAACAATGATCATAATTAAAAACA--ACTTTATTTA
35748940 TGAATGCAACAAAAACAAACAATGAAGT-ATAATT-AAAACAACTTTAT
1 TGAATGCAACAAAAA-AAACAATG-A-TCATAATTAAAAACAACTTTAT
35748987 CAATTAACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
50 7 0.16
51 15 0.34
52 14 0.32
53 7 0.16
54 1 0.02
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (49 bp):
TGAATGCAACAAAAAAAACAATGATCATAATTAAAAACAACTTTATTTA
Found at i:35749212 original size:51 final size:49
Alignment explanation
Indices: 35749149--35749247 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 49
35749139 ATGATCAAAT
* * *
35749149 GAGTTACTTAATGCATGACTTAATTTA-TGATGCAAACGTTAACTAACATAA
1 GAGTTACATAATGCATAACTCAATTTAGTGATG--AAC-TTAACTAACATAA
*
35749200 GAGTTACATAATGCATAACTCAATTTAGTGATGAACTTAATTAACATA
1 GAGTTACATAATGCATAACTCAATTTAGTGATGAACTTAACTAACATA
35749248 TGAGATGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 11 0.26
50 3 0.07
51 24 0.56
52 5 0.12
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (49 bp):
GAGTTACATAATGCATAACTCAATTTAGTGATGAACTTAACTAACATAA
Found at i:35750769 original size:21 final size:21
Alignment explanation
Indices: 35750744--35750804 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
35750734 ACACACTCTC
* *
35750744 TTTTTATTTCCTTTTCTTTTT
1 TTTTTATTTCATTTTCTTTTA
* *
35750765 TTTTTCA-CTCAATTTCTTTTA
1 TTTTT-ATTTCATTTTCTTTTA
*
35750786 TTTTTCTTTCATTTTCTTT
1 TTTTTATTTCATTTTCTTT
35750805 CATCAATAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTATTTCATTTTCTTTTA
Found at i:35753075 original size:19 final size:19
Alignment explanation
Indices: 35753051--35753088 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35753041 AACATAAGAG
35753051 TTACATAATGCATAACTTA
1 TTACATAATGCATAACTTA
35753070 TTACATAATGCATAACTTA
1 TTACATAATGCATAACTTA
35753089 ATTTTGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
TTACATAATGCATAACTTA
Found at i:35753173 original size:31 final size:32
Alignment explanation
Indices: 35753131--35753190 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
35753121 TGATTTTATA
*
35753131 CATGACTTAATTAAA-A-GCAAAACACTTAATG
1 CATGACATAATTAAAGATGC-AAACACTTAATG
35753162 CATGACATAATTAAAGATGCAAACACTTA
1 CATGACATAATTAAAGATGCAAACACTTA
35753191 TTAAACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 10 0.38
33 2 0.08
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (32 bp):
CATGACATAATTAAAGATGCAAACACTTAATG
Found at i:35753222 original size:17 final size:17
Alignment explanation
Indices: 35753191--35753223 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35753181 CAAACACTTA
35753191 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
35753208 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
35753224 AGTCCTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:35756396 original size:36 final size:36
Alignment explanation
Indices: 35756353--35756425 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
35756343 TAACTTAAAA
35756353 GGCATGTCTCTTCATTTGT-CTTGGAGTAAATGAAAG
1 GGCATGTCTCTTCATTTGTCCTTGGA-TAAATGAAAG
* *
35756389 GGCATGTCTTTTCATTTGTCCTTGGATAAATTAAAG
1 GGCATGTCTCTTCATTTGTCCTTGGATAAATGAAAG
35756425 G
1 G
35756426 TCTCTATCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 28 0.82
37 6 0.18
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (36 bp):
GGCATGTCTCTTCATTTGTCCTTGGATAAATGAAAG
Found at i:35757218 original size:52 final size:52
Alignment explanation
Indices: 35757138--35757258 Score: 142
Period size: 52 Copynumber: 2.4 Consensus size: 52
35757128 AAACTTTAAC
*
35757138 GAGAGTTAC-ATAATGCATAACATAATTTATGACG-AAGTCTTAACTAA-CAT
1 GAGAGTTACAATAATGCATAACATAATTTATGACGCAA-ACTTAACTAATCAT
** * *
35757188 GAGAGTTACATATAATGCATGCCATTATTTATGATGCAAACTTAACTAATCAT
1 GAGAGTTACA-ATAATGCATAACATAATTTATGACGCAAACTTAACTAATCAT
*
35757241 GAGAGTTAC-ACAATGCAT
1 GAGAGTTACAATAATGCAT
35757259 GTTGTTATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
50 9 0.15
51 8 0.13
52 30 0.49
53 14 0.23
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (52 bp):
GAGAGTTACAATAATGCATAACATAATTTATGACGCAAACTTAACTAATCAT
Found at i:35757271 original size:51 final size:50
Alignment explanation
Indices: 35757138--35757309 Score: 175
Period size: 51 Copynumber: 3.4 Consensus size: 50
35757128 AAACTTTAAC
** * * *
35757138 GAGAGTTACATAATGCATAACATAATTTATGACG-AAGTCTTAACTAACAT
1 GAGAGTTACATAATGCATGCCATTATTTATGATGCAA-ACTTAACTAACAT
35757188 GAGAGTTACATATAATGCATGCCATTATTTATGATGCAAACTTAACTAATCAT
1 GAGAGTTAC--ATAATGCATGCCATTATTTATGATGCAAACTTAACTAA-CAT
* *** ** *
35757241 GAGAGTTACACAATGCATGTTGTTATTTATGATGCATGCTTAACTAACTT
1 GAGAGTTACATAATGCATGCCATTATTTATGATGCAAACTTAACTAACAT
* *
35757291 GAAACTTACATAATGCATG
1 GAGAGTTACATAATGCATG
35757310 ACTTTATTAA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
50 27 0.26
51 32 0.31
52 30 0.29
53 14 0.14
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (50 bp):
GAGAGTTACATAATGCATGCCATTATTTATGATGCAAACTTAACTAACAT
Found at i:35762344 original size:15 final size:14
Alignment explanation
Indices: 35762280--35762344 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
35762270 TGTTTCACAA
35762280 ATTGAAAAATTAAAT
1 ATTGAAAAA-TAAAT
35762295 ATT-AAAAATAAAGT
1 ATTGAAAAATAAA-T
* *
35762309 GTTAGAAAAATAAGT
1 ATT-GAAAAATAAAT
*
35762324 ACTGAAAAATTAAAT
1 ATTGAAAAA-TAAAT
*
35762339 GTTGAA
1 ATTGAA
35762345 TTTAAGTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
13 4 0.10
14 14 0.36
15 13 0.33
16 8 0.21
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (14 bp):
ATTGAAAAATAAAT
Found at i:35771239 original size:40 final size:40
Alignment explanation
Indices: 35771131--35771310 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
35771121 TACTGAATTG
* * ** *
35771131 GCAATGACACTATAAACATTGCAATATTATTATTGAACTA
1 GCAATGACACTATAAACACTACAATGCTATTATTGAACCA
* * * *
35771171 GTAGTGACACTAT-AACACTACAATGCTATTAGTGAACTA
1 GCAATGACACTATAAACACTACAATGCTATTATTGAACCA
* *
35771210 GCAATGACACTGTAAACACTACAATGCTATTACTGAACCA
1 GCAATGACACTATAAACACTACAATGCTATTATTGAACCA
* * * *
35771250 ACAGTGACACTATAAACACTGCAATGCTATTATTGAACCG
1 GCAATGACACTATAAACACTACAATGCTATTATTGAACCA
*
35771290 GCAATGACACTGTAAACACTA
1 GCAATGACACTATAAACACTA
35771311 TGATATTATG
Statistics
Matches: 117, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 31 0.26
40 86 0.74
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (40 bp):
GCAATGACACTATAAACACTACAATGCTATTATTGAACCA
Found at i:35771299 original size:80 final size:79
Alignment explanation
Indices: 35771130--35771310 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 79
35771120 TTACTGAATT
* * * * * * **
35771130 GGCAATGACACTATAAACATTGCAATATTATTATTGAACTAGTAGTGACACTATAACACTACAAT
1 GGCAATGACACTGTAAACACTACAATACTATTACTGAACCAACAGTGACACTATAACACTACAAT
*
35771195 GCTATTAGTGAACT
66 GCTATTAGTGAACC
* * *
35771209 AGCAATGACACTGTAAACACTACAATGCTATTACTGAACCAACAGTGACACTATAAACACTGCAA
1 GGCAATGACACTGTAAACACTACAATACTATTACTGAACCAACAGTGACACTAT-AACACTACAA
*
35771274 TGCTATTATTGAACC
65 TGCTATTAGTGAACC
35771289 GGCAATGACACTGTAAACACTA
1 GGCAATGACACTGTAAACACTA
35771311 TGATATTATG
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 44 0.51
80 43 0.49
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (79 bp):
GGCAATGACACTGTAAACACTACAATACTATTACTGAACCAACAGTGACACTATAACACTACAAT
GCTATTAGTGAACC
Found at i:35771334 original size:80 final size:79
Alignment explanation
Indices: 35771131--35771389 Score: 223
Period size: 80 Copynumber: 3.3 Consensus size: 79
35771121 TACTGAATTG
* * * * * * * **
35771131 GCAATGACACTATAAACATTGCAATATTATTATTGAACTAGTAGTGACACTATAACACTACAATG
1 GCAATGACACTGTAAACACTACAATACTATGACTGAACCAACAGTGACACTATAACACTACAATG
*
35771196 CTATTAGTGAACTA
66 CTATTAGTGAACCA
* * *
35771210 GCAATGACACTGTAAACACTACAATGCTATTACTGAACCAACAGTGACACTATAAACACTGCAAT
1 GCAATGACACTGTAAACACTACAATACTATGACTGAACCAACAGTGACACTAT-AACACTACAAT
* *
35771275 GCTATTATTGAACCG
65 GCTATTAGTGAACCA
** * * * * *
35771290 GCAATGACACTGTAAACACTATGATATTATGACTG-ACTCGACAGTGATATTGTAAACACTACAA
1 GCAATGACACTGTAAACACTACAATACTATGACTGAAC-CAACAGTGACACTAT-AACACTACAA
** ** *
35771354 CCCTACAACTGAACCA
64 TGCTATTAGTGAACCA
* *
35771370 ACAGTGACACTGTAAACACT
1 GCAATGACACTGTAAACACT
35771390 GCTAGGTTTC
Statistics
Matches: 147, Mismatches: 31, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
79 46 0.31
80 101 0.69
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (79 bp):
GCAATGACACTGTAAACACTACAATACTATGACTGAACCAACAGTGACACTATAACACTACAATG
CTATTAGTGAACCA
Found at i:35773137 original size:310 final size:310
Alignment explanation
Indices: 35772575--35773198 Score: 1126
Period size: 310 Copynumber: 2.0 Consensus size: 310
35772565 AATCTAGGCA
*
35772575 TAAAATTGTCTTAACGTGTGCATATTTGGAAAAGACTAACCCAAGCTCATTTTAAGCTCACCCAT
1 TAAAATTGTCTTAACGTGTGCATATTTGGAAAAGACTAACCCAAGCTCATTTTAAGCCCACCCAT
35772640 ATTATTTTTAAAAAATATTTATTTTATTTTATTTTAATATTTAAAAATTTTATACATTTTTTATT
66 ATTATTTTTAAAAAATATTTATTTTATTTTATTTTAATATTTAAAAATTTTATACATTTTTTATT
* *
35772705 TACTGAAATTTTTTATATAGTCATGTTAACATTATTTTAATGTTTATATTAGAGTAGTATTATAT
131 AACTGAAATTTTTTATATAGTCATGTTAACATTATTTTAATGTTTACATTAGAGTAGTATTATAT
* *
35772770 ATTTTAGTATATATTTTTTAAGTGTTTTAAATTAAATAATAGATAAAAATAACATAATATCAAAT
196 ATTTTAGTATATATTTTTTAAGTGTTTTAAATTAAATAATAGATAAAAATAACATAATATAAAAC
* *
35772835 ATTATAAACTTAAAACGGGTCGAATCGGACCGGGCTCGGGCCTTGAATGT
261 ATTATAAAATTAAAACGGGTCGAATCGGACCGGGCTCGGACCTTGAATGT
*
35772885 TAAAATTGTCTTAA-GATGTGCATATTTGGAAAAGACTAACCTAAG-TCCATTTTAAGCCCACCC
1 TAAAATTGTCTTAACG-TGTGCATATTTGGAAAAGACTAACCCAAGCT-CATTTTAAGCCCACCC
*
35772948 ATATTATTTTTAAAAAATATTTATTTTATTTTATTTTAATATTTAAAAATTTTATAGATTTTTTA
64 ATATTATTTTTAAAAAATATTTATTTTATTTTATTTTAATATTTAAAAATTTTATACATTTTTTA
35773013 TTAACTGAAATTTTTTATATAGTCATGTTAACATTATTTTAATGTTTACATTAGAGTAGTATTAT
129 TTAACTGAAATTTTTTATATAGTCATGTTAACATTATTTTAATGTTTACATTAGAGTAGTATTAT
35773078 ATATTTTAGTATATATTTTTTAAGTGTTTTAAATTAAATAATAGATAAAAATAACATAATATAAA
194 ATATTTTAGTATATATTTTTTAAGTGTTTTAAATTAAATAATAGATAAAAATAACATAATATAAA
*
35773143 ACATTATAAAATTAAAACGGGTCGAATCGGATCGGGCTCGGACCTTGAATGT
259 ACATTATAAAATTAAAACGGGTCGAATCGGACCGGGCTCGGACCTTGAATGT
35773195 TAAA
1 TAAA
35773199 CCCGAACTCA
Statistics
Matches: 302, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
309 2 0.01
310 300 0.99
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (310 bp):
TAAAATTGTCTTAACGTGTGCATATTTGGAAAAGACTAACCCAAGCTCATTTTAAGCCCACCCAT
ATTATTTTTAAAAAATATTTATTTTATTTTATTTTAATATTTAAAAATTTTATACATTTTTTATT
AACTGAAATTTTTTATATAGTCATGTTAACATTATTTTAATGTTTACATTAGAGTAGTATTATAT
ATTTTAGTATATATTTTTTAAGTGTTTTAAATTAAATAATAGATAAAAATAACATAATATAAAAC
ATTATAAAATTAAAACGGGTCGAATCGGACCGGGCTCGGACCTTGAATGT
Found at i:35774324 original size:31 final size:31
Alignment explanation
Indices: 35774286--35774348 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
35774276 GTCCAATCCA
35774286 ACTCGTACATCTAATTCTGTAGATTAATGTC
1 ACTCGTACATCTAATTCTGTAGATTAATGTC
*
35774317 ACTCGTACATCTAATTCTGTAGATTATTGTC
1 ACTCGTACATCTAATTCTGTAGATTAATGTC
35774348 A
1 A
35774349 TTTGAGTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (31 bp):
ACTCGTACATCTAATTCTGTAGATTAATGTC
Found at i:35778598 original size:45 final size:46
Alignment explanation
Indices: 35778527--35778631 Score: 176
Period size: 45 Copynumber: 2.3 Consensus size: 46
35778517 AATTTTGAAA
*
35778527 TCATCATCATCACCGTTTCTTCTTCTCTATTGTTTCTCTCCATCGT
1 TCATCATCATCACCGTTTCTTCTTCTCTATTATTTCTCTCCATCGT
* *
35778573 TCAT-ATCATCACCGTTTCTTTTTCTCTATTATTTTTCTCCATCGT
1 TCATCATCATCACCGTTTCTTCTTCTCTATTATTTCTCTCCATCGT
35778618 TCATCATCATCACC
1 TCATCATCATCACC
35778632 ATCTCCATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 42 0.76
46 13 0.24
ACGTcount: A:0.16, C:0.31, G:0.05, T:0.48
Consensus pattern (46 bp):
TCATCATCATCACCGTTTCTTCTTCTCTATTATTTCTCTCCATCGT
Found at i:35779790 original size:3 final size:3
Alignment explanation
Indices: 35779782--35779808 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
35779772 GGAGAACTAG
35779782 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
35779809 ACGATGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:35784968 original size:28 final size:27
Alignment explanation
Indices: 35784907--35785004 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 27
35784897 ATTCTAATAC
35784907 AGATAGCCAT-AGAGGCGTCC-TTA-ATA
1 AGATAGCCATGA-AGGCGTCCATTACA-A
35784933 AGATAGCCATGAAGGCGTCCATTCACAA
1 AGATAGCCATGAAGGCGTCCATT-ACAA
*
35784961 AGATAGCCA-GAAAGGTGTCCATTTACAA
1 AGATAGCCATG-AAGGCGTCCA-TTACAA
* *
35784989 AGATAGACATAAAGGC
1 AGATAGCCATGAAGGC
35785005 TTTCTCATCA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
26 18 0.30
27 4 0.07
28 36 0.59
29 3 0.05
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (27 bp):
AGATAGCCATGAAGGCGTCCATTACAA
Found at i:35785131 original size:29 final size:29
Alignment explanation
Indices: 35785089--35785223 Score: 143
Period size: 29 Copynumber: 4.7 Consensus size: 29
35785079 AGGTATCCTA
35785089 TAACAGAGTT-AGCCACAAAGGGCTCACAT
1 TAACAGA-TTCAGCCACAAAGGGCTCACAT
35785118 TAACAGATTCAGCCACAAA-GGCTCACAT
1 TAACAGATTCAGCCACAAAGGGCTCACAT
* * * *
35785146 TAACAAATTTAACAACAAA-GGCTTCAC-T
1 TAACAGATTCAGCCACAAAGGGC-TCACAT
** *
35785174 ATAACAGATTCAGCCACAAAGGTTTCACTT
1 -TAACAGATTCAGCCACAAAGGGCTCACAT
*
35785204 TAACAGATTCAACCACAAAG
1 TAACAGATTCAGCCACAAAG
35785224 ACTAGTGTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
28 30 0.33
29 58 0.64
30 2 0.02
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.21
Consensus pattern (29 bp):
TAACAGATTCAGCCACAAAGGGCTCACAT
Found at i:35785138 original size:57 final size:58
Alignment explanation
Indices: 35785072--35785223 Score: 163
Period size: 57 Copynumber: 2.6 Consensus size: 58
35785062 CTTTACTTCC
*
35785072 GCCACAAAGGTATC-CTATAACAGAGTTAGCCACAAAGGGC-TCAC-ATTAACAGATTCA
1 GCCACAAAGGTATCACTATAACAGA-TTAACCACAAAGGGCTTCACTA-TAACAGATTCA
* * *
35785129 GCCACAAAGG-CTCAC-ATTAACAAATTTAACAACAAA-GGCTTCACTATAACAGATTCA
1 GCCACAAAGGTATCACTA-TAACAGA-TTAACCACAAAGGGCTTCACTATAACAGATTCA
* *
35785186 GCCACAAAGGTTTCACTTTAACAGATTCAACCACAAAG
1 GCCACAAAGGTATCACTATAACAGATT-AACCACAAAG
35785224 ACTAGTGTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
56 6 0.08
57 53 0.68
58 19 0.24
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (58 bp):
GCCACAAAGGTATCACTATAACAGATTAACCACAAAGGGCTTCACTATAACAGATTCA
Found at i:35785424 original size:55 final size:55
Alignment explanation
Indices: 35785314--35785425 Score: 129
Period size: 55 Copynumber: 2.0 Consensus size: 55
35785304 GTCTTTTTCA
* * *
35785314 TCTTCTTCCATATGATGCCATAGCAACAATGACTAAGTCTTACATTATGTGGTCT
1 TCTTCTTCCATATGATGCCATAGCAACAATGACTAAGTCTTACACTATATAGTCT
* * * *
35785369 TCTT-TTCCTATATGATGCTATAGTC-ACCATGATTAGGTCTTACACTATATAGTCT
1 TCTTCTTCC-ATATGATGCCATAG-CAACAATGACTAAGTCTTACACTATATAGTCT
35785424 TC
1 TC
35785426 GATTGTCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
54 4 0.08
55 43 0.90
56 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (55 bp):
TCTTCTTCCATATGATGCCATAGCAACAATGACTAAGTCTTACACTATATAGTCT
Found at i:35787889 original size:17 final size:18
Alignment explanation
Indices: 35787857--35787894 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
35787847 TACAAAAAAG
* *
35787857 AAATTTAAAATAATTTTT
1 AAATTAAAAATAATTTAT
35787875 AAATTAAAAAT-ATTTAT
1 AAATTAAAAATAATTTAT
35787892 AAA
1 AAA
35787895 CATTTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTAAAAATAATTTAT
Found at i:35787968 original size:17 final size:17
Alignment explanation
Indices: 35787948--35787982 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
35787938 AAAGTTTAAA
35787948 TTTTAAAATAATAATTT
1 TTTTAAAATAATAATTT
35787965 TTTTAAAATAATAATTT
1 TTTTAAAATAATAATTT
35787982 T
1 T
35787983 GGAGCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAATAATAATTT
Found at i:35788628 original size:58 final size:57
Alignment explanation
Indices: 35788505--35788652 Score: 145
Period size: 59 Copynumber: 2.5 Consensus size: 57
35788495 CTGAACTTAA
* *** * *
35788505 CATTTTTTTTTAATTTGGTACCTAAATTTTTTTTGTCCAATTTAGTTTCAAACTTGT
1 CATTTTTTTTTAAGTTGGTACCTAAATTTTTGACGTCCAATTTAATTCCAAACTTGT
** * *
35788562 CACATTTTTTTAAGTTGGTACTTAAACTTTTTGACGTCCAATTTAATTCCTGAACTTGT
1 CATTTTTTTTTAAGTTGGTACCTAAA-TTTTTGACGTCCAATTTAATTCC-AAACTTGT
* *
35788621 C-TTTTTTTCCTAATTTGGTACCTAATATTTTT
1 CATTTTTTT-TTAAGTTGGTACCTAA-ATTTTT
35788653 TTTTAATATT
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
57 22 0.31
58 23 0.32
59 26 0.36
60 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.09, T:0.53
Consensus pattern (57 bp):
CATTTTTTTTTAAGTTGGTACCTAAATTTTTGACGTCCAATTTAATTCCAAACTTGT
Found at i:35788652 original size:59 final size:56
Alignment explanation
Indices: 35788508--35788652 Score: 148
Period size: 57 Copynumber: 2.5 Consensus size: 56
35788498 AACTTAACAT
*** * *
35788508 TTTTTTTTAATTTGGTACCTAAATTTTTTTTGTCCAATTTAGTTTCAAACTTGTCAC
1 TTTTTTTTAATTTGGTACCTAAATTTTTGACGTCCAATTTAATTCCAAACTTGT-AC
* * * *
35788565 ATTTTTTTAAGTTGGTACTTAAACTTTTTGACGTCCAATTTAATTCCTGAACTTGT-C
1 TTTTTTTTAATTTGGTACCTAAA-TTTTTGACGTCCAATTTAATTCC-AAACTTGTAC
35788622 TTTTTTTCCTAATTTGGTACCTAATATTTTT
1 TTTTTTT--TAATTTGGTACCTAA-ATTTTT
35788653 TTTTAATATT
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
57 27 0.38
58 18 0.25
59 25 0.35
60 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.53
Consensus pattern (56 bp):
TTTTTTTTAATTTGGTACCTAAATTTTTGACGTCCAATTTAATTCCAAACTTGTAC
Found at i:35790125 original size:21 final size:21
Alignment explanation
Indices: 35790095--35790135 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35790085 TTTATCCATG
* *
35790095 AAAAAGAAAAGGAAAAAAGAA
1 AAAAAAAAAAAGAAAAAAGAA
*
35790116 AAAAAAAAAAAGAAAGAAGA
1 AAAAAAAAAAAGAAAAAAGA
35790136 TTTTCAGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAGAAAAAAGAA
Found at i:35790349 original size:30 final size:30
Alignment explanation
Indices: 35790313--35790378 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
35790303 ATTAATAAAA
* * *
35790313 ATAAAATTTCACTTTAATTTTTTTAAAATT
1 ATAAAATTTCAATTTAATCTTTTAAAAATT
*
35790343 ATAAAATTTTAATTTAATCTTTTAAAAATT
1 ATAAAATTTCAATTTAATCTTTTAAAAATT
35790373 ATAAAA
1 ATAAAA
35790379 ATATAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (30 bp):
ATAAAATTTCAATTTAATCTTTTAAAAATT
Found at i:35790388 original size:15 final size:15
Alignment explanation
Indices: 35790368--35790400 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
35790358 AATCTTTTAA
35790368 AAATTA-TAAAAATAT
1 AAATTATTAAAAAT-T
35790383 AAATTATTAAAAATT
1 AAATTATTAAAAATT
35790398 AAA
1 AAA
35790401 ATTTAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATTAAAAATT
Found at i:35793966 original size:18 final size:18
Alignment explanation
Indices: 35793943--35793985 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
35793933 GAATAGGTTT
35793943 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
35793961 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
35793979 TTAATTA
1 TTAATTA
35793986 CACCTTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:35796254 original size:23 final size:23
Alignment explanation
Indices: 35796222--35796371 Score: 96
Period size: 23 Copynumber: 6.4 Consensus size: 23
35796212 ACGCTAGCGC
*
35796222 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACTGTTTCGCACCTTGTGT
*
35796245 GCTTATTGTTTCGCACCTTGTGT
1 GCTTACTGTTTCGCACCTTGTGT
* * *
35796268 GCCTACTGATTT-GC-GCTATGTGC
1 GCTTACTG-TTTCGCACCT-TGTGT
* *
35796291 GCCTACTGATT-GCA-CTGTGTGT
1 GCTTACTGTTTCGCACCT-TGTGT
* *
35796313 GCCTACTGGATT-GCA-CTATGTGT
1 GCTTACT-GTTTCGCACCT-TGTGT
*
35796336 GCTTACTGTTTCCCCAGCACTTGTGT
1 GCTTACTGTTT-CGCA-C-CTTGTGT
35796362 GCTTACTGTT
1 GCTTACTGTT
35796372 AAGTACTTCG
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
22 22 0.21
23 61 0.58
24 5 0.05
26 15 0.14
27 2 0.02
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTTACTGTTTCGCACCTTGTGT
Found at i:35796311 original size:22 final size:22
Alignment explanation
Indices: 35796263--35796343 Score: 108
Period size: 23 Copynumber: 3.6 Consensus size: 22
35796253 TTTCGCACCT
*
35796263 TGTGTGCCTACTGATTTGCGCTA
1 TGTGTGCCTACTGA-TTGCACTA
* *
35796286 TGTGCGCCTACTGATTGCACTG
1 TGTGTGCCTACTGATTGCACTA
35796308 TGTGTGCCTACTGGATTGCACTA
1 TGTGTGCCTACT-GATTGCACTA
*
35796331 TGTGTGCTTACTG
1 TGTGTGCCTACTG
35796344 TTTCCCCAGC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (22 bp):
TGTGTGCCTACTGATTGCACTA
Found at i:35797711 original size:21 final size:22
Alignment explanation
Indices: 35797678--35797732 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
35797668 CAAAACAGGG
* *
35797678 CACACGGTCGTGTGT-CTCAAA
1 CACACGCTCGTGTATCCTCAAA
* *
35797699 CACACGCTTGTGTATCCTCATA
1 CACACGCTCGTGTATCCTCAAA
*
35797721 CACACGCCCGTG
1 CACACGCTCGTG
35797733 CTCTTGGCCG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (22 bp):
CACACGCTCGTGTATCCTCAAA
Found at i:35800678 original size:23 final size:23
Alignment explanation
Indices: 35800649--35800711 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
35800639 GTTCAGCACA
35800649 CACTGTGTGTGCTTACT-ATTTTG
1 CACTGTGTGTGCTTACTGA-TTTG
* *
35800672 CATTGTGTGTGCCTACTGATTTG
1 CACTGTGTGTGCTTACTGATTTG
*
35800695 CACTATGTGTGCTTACT
1 CACTGTGTGTGCTTACT
35800712 TTTCCCCAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.44
Consensus pattern (23 bp):
CACTGTGTGTGCTTACTGATTTG
Found at i:35801914 original size:23 final size:23
Alignment explanation
Indices: 35801880--35801987 Score: 135
Period size: 23 Copynumber: 4.7 Consensus size: 23
35801870 TTACTGTTCA
* * * *
35801880 GCACTGTGTGTGCCTATTGATTC
1 GCACTATGTGTGCTTACTGATTT
*
35801903 GCACTATATGTGCTTACTGATTT
1 GCACTATGTGTGCTTACTGATTT
* *
35801926 GCACTGTGTGTGCTTACTGTTTT
1 GCACTATGTGTGCTTACTGATTT
* *
35801949 GCACTACGTGTGCCTACTGATTT
1 GCACTATGTGTGCTTACTGATTT
35801972 GCACTATGTGTGCTTA
1 GCACTATGTGTGCTTA
35801988 TTGTTTCCCA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (23 bp):
GCACTATGTGTGCTTACTGATTT
Found at i:35801993 original size:46 final size:46
Alignment explanation
Indices: 35801880--35801994 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 46
35801870 TTACTGTTCA
* * * *
35801880 GCACTGTGTGTGCCTATTGATTCGCACTATATGTGCTTACTGATTT
1 GCACTGTGTGTGCTTATTGTTTCGCACTACATGTGCCTACTGATTT
* * *
35801926 GCACTGTGTGTGCTTACTGTTTTGCACTACGTGTGCCTACTGATTT
1 GCACTGTGTGTGCTTATTGTTTCGCACTACATGTGCCTACTGATTT
*
35801972 GCACTATGTGTGCTTATTGTTTC
1 GCACTGTGTGTGCTTATTGTTTC
35801995 CCAAGCACTT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.43
Consensus pattern (46 bp):
GCACTGTGTGTGCTTATTGTTTCGCACTACATGTGCCTACTGATTT
Found at i:35809096 original size:22 final size:21
Alignment explanation
Indices: 35809071--35809192 Score: 57
Period size: 23 Copynumber: 5.4 Consensus size: 21
35809061 TTAGTGCGCT
*
35809071 TATTGTTTAGCACTGTCTGTGC
1 TATTGTTT-GCACTGTATGTGC
* *
35809093 TATTGATTCGCACTATATGTGC
1 TATTG-TTTGCACTGTATGTGC
* *
35809115 TTACTGATTTGCACTGTGTGTGC
1 -TATTG-TTTGCACTGTATGTGC
**
35809138 TTACTAT-TTTGCACTGCGTGTGCC
1 -TA-T-TGTTTGCACTGTATGTG-C
* * *
35809162 TACTGATTTGCACTATGTGTGC
1 TATTG-TTTGCACTGTATGTGC
35809184 TTATTGTTT
1 -TATTGTTT
35809193 CCCCAGCACT
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
21 1 0.01
22 20 0.25
23 56 0.71
24 1 0.01
25 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (21 bp):
TATTGTTTGCACTGTATGTGC
Found at i:35809128 original size:23 final size:23
Alignment explanation
Indices: 35809088--35809186 Score: 112
Period size: 23 Copynumber: 4.3 Consensus size: 23
35809078 TAGCACTGTC
* * *
35809088 TGTGC-TATTGATTCGCACTATA
1 TGTGCTTACTGATTTGCACTATG
*
35809110 TGTGCTTACTGATTTGCACTGTG
1 TGTGCTTACTGATTTGCACTATG
**
35809133 TGTGCTTACT-ATTTTGCACTGCG
1 TGTGCTTACTGA-TTTGCACTATG
*
35809156 TGTGCCTACTGATTTGCACTATG
1 TGTGCTTACTGATTTGCACTATG
35809179 TGTGCTTA
1 TGTGCTTA
35809187 TTGTTTCCCC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
22 6 0.09
23 58 0.89
24 1 0.02
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.42
Consensus pattern (23 bp):
TGTGCTTACTGATTTGCACTATG
Found at i:35809880 original size:82 final size:82
Alignment explanation
Indices: 35809771--35809952 Score: 258
Period size: 82 Copynumber: 2.2 Consensus size: 82
35809761 GGGTGTTACA
* * *
35809771 AAGTGAG-CCAACTCTAGTTGGATTAACCAACAATAATTCCGTCAATTCCTGGCACCCAGTGCCT
1 AAGTGAGCCCAGCTCTAGTTGAATTAACCAACAATAATTCCGTCAATTCCTGGCACCCAATGCCT
*
35809835 AAAGGATAAACTGCAAT
66 AAAGGATAAACCGCAAT
**
35809852 AAGTGAGCCCAGCTCTAGTTGAATTAACCAACAATAATTCCGTCAATTTTTGGCACCCAATGCCT
1 AAGTGAGCCCAGCTCTAGTTGAATTAACCAACAATAATTCCGTCAATTCCTGGCACCCAATGCCT
** *
35809917 AGCGGATAAACCGTAAT
66 AAAGGATAAACCGCAAT
* *
35809934 AAGTGAGCCTAGGTCTAGT
1 AAGTGAGCCCAGCTCTAGT
35809953 CAGTTAAACT
Statistics
Matches: 89, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 7 0.08
82 82 0.92
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (82 bp):
AAGTGAGCCCAGCTCTAGTTGAATTAACCAACAATAATTCCGTCAATTCCTGGCACCCAATGCCT
AAAGGATAAACCGCAAT
Found at i:35810449 original size:2 final size:2
Alignment explanation
Indices: 35810442--35810479 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
35810432 AACCATTTAA
35810442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35810480 CTACAATTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35818168 original size:23 final size:23
Alignment explanation
Indices: 35818138--35818181 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35818128 GCTAGCAATG
35818138 CTGTAGCATGAAATTTCTTTTGT
1 CTGTAGCATGAAATTTCTTTTGT
* *
35818161 CTGTAGCATGAAGTTTTTTTT
1 CTGTAGCATGAAATTTCTTTT
35818182 TTTAACTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.50
Consensus pattern (23 bp):
CTGTAGCATGAAATTTCTTTTGT
Found at i:35819174 original size:14 final size:14
Alignment explanation
Indices: 35819155--35819186 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
35819145 AATTAAGTCC
35819155 TTTTATTTTATTTA
1 TTTTATTTTATTTA
*
35819169 TTTTATTTTATTTG
1 TTTTATTTTATTTA
35819183 TTTT
1 TTTT
35819187 TGGTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:35819406 original size:23 final size:23
Alignment explanation
Indices: 35819372--35819430 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
35819362 AATCCTTTCC
35819372 TTATTTA-TTCA-TTTATTTTT-
1 TTATTTATTTCATTTTATTTTTA
35819392 TATATTTCATTTCATTTTATTTTTA
1 T-TATTT-ATTTCATTTTATTTTTA
35819417 TTATTTATTT-ATTT
1 TTATTTATTTCATTT
35819431 CTTGCACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.03
21 5 0.15
22 5 0.15
23 8 0.24
24 14 0.41
25 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (23 bp):
TTATTTATTTCATTTTATTTTTA
Found at i:35820718 original size:28 final size:28
Alignment explanation
Indices: 35820686--35820822 Score: 107
Period size: 28 Copynumber: 4.9 Consensus size: 28
35820676 AAAGCGATAT
* *
35820686 TCTGAATCTTGCTTGGGTAGAGCGTTAC
1 TCTGAATCTAGCTTGGGTAGAGCATTAC
* *
35820714 TCTGAATCTTGCTTGGGTAGAGCATTAT
1 TCTGAATCTAGCTTGGGTAGAGCATTAC
* * ** *
35820742 TCT-ACTTCTAGCTCT-GCTAGAGTGTTAT
1 TCTGA-ATCTAGCT-TGGGTAGAGCATTAC
* * *
35820770 TTTGATTCTAGCTCGGGTAGAGCATTAC
1 TCTGAATCTAGCTTGGGTAGAGCATTAC
* * *
35820798 TCTGAATCTGGCTCGAGTAGAGCAT
1 TCTGAATCTAGCTTGGGTAGAGCAT
35820823 CATTCCATTT
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
27 1 0.01
28 85 0.97
29 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (28 bp):
TCTGAATCTAGCTTGGGTAGAGCATTAC
Found at i:35820744 original size:56 final size:56
Alignment explanation
Indices: 35820683--35820820 Score: 127
Period size: 56 Copynumber: 2.5 Consensus size: 56
35820673 GATAAAGCGA
* * *
35820683 TATTCTGAATCTTGCTTGGGTAGAGCGTTACTCTGAATCTTGCTTGGGTAGAGCAT
1 TATTCTGAATCTAGCTTGGGTAGAGCGTTACTCTGAATCTAGCTCGGGTAGAGCAT
* * * * * *
35820739 TATTCT-ACTTCTAGCTCT-GCTAGAGTGTTATTTTGATTCTAGCTCGGGTAGAGCAT
1 TATTCTGA-ATCTAGCT-TGGGTAGAGCGTTACTCTGAATCTAGCTCGGGTAGAGCAT
* * * *
35820795 TACTCTGAATCTGGCTCGAGTAGAGC
1 TATTCTGAATCTAGCTTGGGTAGAGC
35820821 ATCATTCCAT
Statistics
Matches: 62, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
55 1 0.02
56 59 0.95
57 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (56 bp):
TATTCTGAATCTAGCTTGGGTAGAGCGTTACTCTGAATCTAGCTCGGGTAGAGCAT
Found at i:35823760 original size:15 final size:15
Alignment explanation
Indices: 35823740--35823792 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
35823730 ACGAGTAGTA
35823740 CGAACATGAATAATG
1 CGAACATGAATAATG
*
35823755 CGAACATGGAA-GATG
1 CGAACAT-GAATAATG
* *
35823770 CGAGCACGAATAATG
1 CGAACATGAATAATG
35823785 CGAACATG
1 CGAACATG
35823793 GAAGATGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 3 0.10
15 24 0.80
16 3 0.10
ACGTcount: A:0.42, C:0.17, G:0.26, T:0.15
Consensus pattern (15 bp):
CGAACATGAATAATG
Found at i:35823817 original size:30 final size:30
Alignment explanation
Indices: 35823747--35823806 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
35823737 GTACGAACAT
35823747 GAATAATGCGAACATGGAAGATGCGAGCAC
1 GAATAATGCGAACATGGAAGATGCGAGCAC
*
35823777 GAATAATGCGAACATGGAAGATGTGAGCAC
1 GAATAATGCGAACATGGAAGATGCGAGCAC
35823807 TGGTGTTGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.30, T:0.15
Consensus pattern (30 bp):
GAATAATGCGAACATGGAAGATGCGAGCAC
Found at i:35823844 original size:30 final size:30
Alignment explanation
Indices: 35823810--35823885 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
35823800 TGAGCACTGG
* **
35823810 TGTTGCGAGCACTCATGCTACGAACACTAA
1 TGTTGCGAACACTCACACTACGAACACTAA
* *
35823840 TGTTGCGAACACTCACATTACGAACACTGA
1 TGTTGCGAACACTCACACTACGAACACTAA
* *
35823870 TGTTGCAAATACTCAC
1 TGTTGCGAACACTCAC
35823886 GTTGTGAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (30 bp):
TGTTGCGAACACTCACACTACGAACACTAA
Found at i:35826775 original size:45 final size:48
Alignment explanation
Indices: 35826695--35826797 Score: 149
Period size: 46 Copynumber: 2.2 Consensus size: 48
35826685 CACGCTTTTT
*
35826695 CAAAAAAAAGTGTTAAGATGAAAACCCGCAAAAGGGCATCTTGAAA-C
1 CAAAAAAAAGTGTCAAGATGAAAACCCGCAAAAGGGCATCTTGAAATC
* *
35826742 CAAAAAAAAG-GTCGAGATGAAAACCCG-TAAAGGGCATCTTGAAATC
1 CAAAAAAAAGTGTCAAGATGAAAACCCGCAAAAGGGCATCTTGAAATC
*
35826788 TAAAAAAAAG
1 CAAAAAAAAG
35826798 AAGAAATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
45 16 0.31
46 25 0.49
47 10 0.20
ACGTcount: A:0.50, C:0.16, G:0.19, T:0.15
Consensus pattern (48 bp):
CAAAAAAAAGTGTCAAGATGAAAACCCGCAAAAGGGCATCTTGAAATC
Found at i:35827222 original size:21 final size:19
Alignment explanation
Indices: 35827198--35827259 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
35827188 GCCCACCTTG
35827198 TGTTTAGCATTTTTTTACCAA
1 TGTTTA-CA-TTTTTTACCAA
*
35827219 TGTTTTCCATTTTTTACCAA
1 TG-TTTACATTTTTTACCAA
*
35827239 TGTTTACAATTTTTGACCAA
1 TGTTTAC-ATTTTTTACCAA
35827259 T
1 T
35827260 ATTTTCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.11
20 25 0.69
21 4 0.11
22 3 0.08
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (19 bp):
TGTTTACATTTTTTACCAA
Done.