Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 80 of 206
Found at i:22841314 original size:30 final size:29
Alignment explanation
Indices: 22841280--22841337 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
22841270 TTGAATTTTG
* *
22841280 AAATATCAAGAGTAGAGGAACTAAATTCTT
1 AAATAT-AAAAGTACAGGAACTAAATTCTT
**
22841310 AAATATAAAAGTACATTAACTAAATTCT
1 AAATATAAAAGTACAGGAACTAAATTCT
22841338 AAAGACTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (29 bp):
AAATATAAAAGTACAGGAACTAAATTCTT
Found at i:22848452 original size:10 final size:10
Alignment explanation
Indices: 22848421--22848474 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
22848411 AGCTAATAAC
22848421 GAGCTC-AAT
1 GAGCTCGAAT
*
22848430 GAG-TTGAATT
1 GAGCTCGAA-T
22848440 GAGCTCGAAT
1 GAGCTCGAAT
*
22848450 GAGCT-GACTT
1 GAGCTCGA-AT
22848460 GAGCTCGAAT
1 GAGCTCGAAT
22848470 GAGCT
1 GAGCT
22848475 GAACCACATG
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
8 1 0.03
9 7 0.19
10 22 0.61
11 6 0.17
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (10 bp):
GAGCTCGAAT
Found at i:22848452 original size:20 final size:20
Alignment explanation
Indices: 22848421--22848477 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
22848411 AGCTAATAAC
*
22848421 GAGCTC-AATGAGTTGAATT
1 GAGCTCGAATGAGCTGAATT
*
22848440 GAGCTCGAATGAGCTGACTT
1 GAGCTCGAATGAGCTGAATT
22848460 GAGCTCGAATGAGCTGAA
1 GAGCTCGAATGAGCTGAA
22848478 CCACATGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 6 0.18
20 28 0.82
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (20 bp):
GAGCTCGAATGAGCTGAATT
Found at i:22852492 original size:68 final size:70
Alignment explanation
Indices: 22852355--22852506 Score: 200
Period size: 68 Copynumber: 2.2 Consensus size: 70
22852345 CAAGACTTAA
* * * * *
22852355 AACCGAATGCATATACTCTATAAACATGAATCGCCGAATGCATATATACATATATGCATGACAAA
1 AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCATATATACA-ATATGCATAACAAA
22852420 TATTAG
65 TATTAG
* * *
22852426 AACCAAATGTATATACACTTTAAACAT-ATTAGCCGAATGCATATATAC-ATATGCTTAACAAAT
1 AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCATATATACAATATGCATAACAAAT
*
22852489 ATTAT
66 ATTAG
22852494 AACCAAATGTATA
1 AACCAAATGTATA
22852507 CATGTATTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
68 30 0.42
70 19 0.26
71 23 0.32
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (70 bp):
AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCATATATACAATATGCATAACAAAT
ATTAG
Found at i:22852783 original size:2 final size:2
Alignment explanation
Indices: 22852771--22852806 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
22852761 CAAATGCACC
22852771 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22852807 CTTTTCAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22853008 original size:41 final size:41
Alignment explanation
Indices: 22852974--22853079 Score: 194
Period size: 41 Copynumber: 2.6 Consensus size: 41
22852964 ACCGGCAATT
22852974 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
22853015 AGCCTGCTAGATGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
22853056 AGCCTGCTAAACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
22853080 TTATCTCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:22858190 original size:84 final size:84
Alignment explanation
Indices: 22858008--22858490 Score: 370
Period size: 84 Copynumber: 5.7 Consensus size: 84
22857998 TTATATCATT
* * * * * * *
22858008 AAATCAAAATAAAATTTTGTTAAACGACGAGAATAAATCCCGAAATAGA-ATTATTTGA-TTACG
1 AAATC-AAATAAAATCTTATTAAACGACGGGAATAAATCCCGAAACAGATTTTATTTAATTTA-A
* * *
22858071 TCTTTG-TTAGGAAACAAAACA
64 T-TCTGATTTGGAAACAAAATA
* * * * *
22858092 ATATCGAATAAAATCTTATTAAACGGCGGGAATAAATCCCAAAATAGATTTTATTTAATTTAATT
1 AAATCAAATAAAATCTTATTAAACGACGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATT
22858157 C-GAATTTGGAAACAAAATA
66 CTG-ATTTGGAAACAAAATA
* * * *
22858176 AAATAAAATAAAATCTTGTTAAATGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTAATT
1 AAATCAAATAAAATCTTATTAAACGACGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATT
22858241 CTGATTTGGAAACAAAATA
66 CTGATTTGGAAACAAAATA
* * * *
22858260 AAATCAAAGAAAATCTTATTAAACGACGAGAAAAAATCCTGAAACAGATTTTATTTAATTTTAAT
1 AAATCAAATAAAATCTTATTAAACGACGGGAATAAATCCCGAAACAGATTTTATTTAA-TTTAA-
* *
22858325 TTTTCGTTTTTGGAAACAAAATCA
64 TTCT-G-ATTTGGAAACAAAAT-A
* ** ** * * * *
22858349 AAGTGTAAT-AAATC-CGTTGAACAACGGGAATAAATCCCGAAACATATTTTAATTTAGCTTTAA
1 AAATCAAATAAAATCTTATTAAACGACGGGAATAAATCCCGAAACAGATTTT-ATTTA-ATTTAA
* * *
22858412 TACTCAGCTTTGGAAATAAAATCGA
64 T--TCTGATTTGGAAACAAAAT--A
* ** * * * * *
22858437 AATTGGAATAAAATC--GTTGAACGACGGGTATCAATCCCGAAACGGATTTTATTT
1 AAATCAAATAAAATCTTATTAAACGACGGGAATAAATCCCGAAACAGATTTTATTT
22858491 TACTCGTTTT
Statistics
Matches: 326, Mismatches: 57, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
82 1 0.00
83 38 0.12
84 148 0.45
85 9 0.03
86 3 0.01
87 47 0.14
88 68 0.21
89 12 0.04
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (84 bp):
AAATCAAATAAAATCTTATTAAACGACGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATT
CTGATTTGGAAACAAAATA
Found at i:22858311 original size:168 final size:171
Alignment explanation
Indices: 22858008--22858404 Score: 425
Period size: 168 Copynumber: 2.3 Consensus size: 171
22857998 TTATATCATT
* * * * *
22858008 AAATCAAAATAAAATTTTGTTAAACGACGAGAATAAATCCCGAAATAGAA--TTATTTGATTACG
1 AAAT-AAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACA-AATTTTATTTAATTACA
* * * * * * *
22858071 TCTTTGTTAGGAAACAAAACAATATCGAATAAAATCTTATTAAACGGCGGGAATAAATCCCAAAA
64 TCTCTGTTAGGAAACAAAACAAAATCAAAGAAAATCTTATTAAACGACGAGAAAAAATCCCAAAA
*
22858136 TAGATTTTATTTAA-TTTAA-TTCGAATTTGGAAACAAAAT-A
129 CAGATTTTATTTAATTTTAATTTCGAATTTGGAAACAAAATCA
*
22858176 AAATAAAATAAAATCTTGTTAAATGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTA-AT
1 AAATAAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAAATTTTATTTAA-TTACAT
* * **
22858240 -TCTGATTTGGAAACAAAATAAAATCAAAGAAAATCTTATTAAACGACGAGAAAAAATCCTGAAA
65 CTCTG-TTAGGAAACAAAACAAAATCAAAGAAAATCTTATTAAACGACGAGAAAAAATCCCAAAA
**
22858304 CAGATTTTATTTAATTTTAATTTTTCGTTTTTGGAAACAAAATCA
129 CAGATTTTATTTAATTTTAA--TTTCGAATTTGGAAACAAAATCA
* ** * * * *
22858349 AAGTGTAAT-AAATC-CGTTGAACAACGGGAATAAATCCCGAAACATATTTTAATTTA
1 AAATAAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAAATTTT-ATTTA
22858405 GCTTTAATAC
Statistics
Matches: 191, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
166 2 0.01
167 41 0.21
168 74 0.39
169 8 0.04
171 31 0.16
172 28 0.15
173 7 0.04
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (171 bp):
AAATAAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTACATC
TCTGTTAGGAAACAAAACAAAATCAAAGAAAATCTTATTAAACGACGAGAAAAAATCCCAAAACA
GATTTTATTTAATTTTAATTTCGAATTTGGAAACAAAATCA
Found at i:22858648 original size:79 final size:78
Alignment explanation
Indices: 22858420--22858636 Score: 326
Period size: 79 Copynumber: 2.7 Consensus size: 78
22858410 AATACTCAGC
* * * *
22858420 TTTGGAAATAAAATCGAAATTGGAATAAAATCGTTGAACGACGGGTATCAATCCCGAAACGGATT
1 TTTGGAAATAAAA-CAAAATTTGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGGATT
22858485 TTATTTTACTCGTT
65 TTATTTTACTCGTT
* *
22858499 TTTGGAAATAAAATAAAATTTGAAATAAAATCGTTGAACAGCGGGAATCAATCCCGAAACGGATT
1 TTTGGAAATAAAACAAAATTTG-AATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGGATT
22858564 TTATTTTACTCGTT
65 TTATTTTACTCGTT
* * *
22858578 TTTGGAAATAAAACAAAATTTAGAATAAAATCATTGAATGGCGGGAATCAATCTCGAAA
1 TTTGGAAATAAAACAAAATTT-GAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAA
22858637 TGAATCTTAT
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 6 0.05
79 118 0.94
80 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (78 bp):
TTTGGAAATAAAACAAAATTTGAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGGATTT
TATTTTACTCGTT
Found at i:22858733 original size:89 final size:88
Alignment explanation
Indices: 22858578--22858785 Score: 262
Period size: 89 Copynumber: 2.4 Consensus size: 88
22858568 TTTACTCGTT
* ** * *
22858578 TTTGGAAATAAAA-CAAAAT-TTAGAATAAAATCATTGAATGGCGGGAATCAATCTCGAAATGAA
1 TTTGGAAATAAAATCAAAATAATAGAATAAAATCATTGAACAGCGGGAATAAATCTCGAAAAGAA
22858641 TCTTATTTACCTTTAATTTCTCA
66 TCTTATTTACCTTTAATTTCTCA
*
22858664 TTTGGAAATAAAATCAAAATAATAGAATAAAATCTATT-ATACAGTGGGAATAAATCTCGAAAAG
1 TTTGGAAATAAAATCAAAATAATAGAATAAAATC-ATTGA-ACAGCGGGAATAAATCTCGAAAAG
* * *
22858728 GATCTTATTTACTTTTAATTTCTCG
64 AATCTTATTTACCTTTAATTTCTCA
* * *
22858753 TTTGAAAAT-AAATAAAAATAATGGAATAAAATC
1 TTTGGAAATAAAATCAAAATAATAGAATAAAATC
22858786 CGTTGAACGG
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
86 13 0.12
87 6 0.06
88 35 0.33
89 52 0.49
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (88 bp):
TTTGGAAATAAAATCAAAATAATAGAATAAAATCATTGAACAGCGGGAATAAATCTCGAAAAGAA
TCTTATTTACCTTTAATTTCTCA
Found at i:22858896 original size:40 final size:40
Alignment explanation
Indices: 22858852--22858966 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
22858842 GTTTGGATAA
* * *
22858852 AAAACGCCGCTAAAAATCAAGCATTACCGGGGCTTTTAAG
1 AAAACGCCACTAAAAATCGAGCATTACCGGCGCTTTTAAG
* * * *
22858892 AAAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTTAGG
1 AAAACGCCACTAAAAATCGAGCATTACCGGCGCTTTTAAG
*
22858932 AAAACGCCACTAAAAAT-GAGCATTAGCGGCG-TTTT
1 AAAACGCCACTAAAAATCGAGCATTACCGGCGCTTTT
22858967 CCAAAAACCG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 4 0.06
39 13 0.20
40 49 0.74
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (40 bp):
AAAACGCCACTAAAAATCGAGCATTACCGGCGCTTTTAAG
Found at i:22859081 original size:41 final size:41
Alignment explanation
Indices: 22859019--22859245 Score: 328
Period size: 41 Copynumber: 5.5 Consensus size: 41
22859009 TTTTGAGTTT
* *
22859019 TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * *
22859060 TCGGGTCTTTAGCGGCTTTTTTTAAGAAGCGCTGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
22859101 TCGGGTCTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
** * * *
22859142 TCTAGTCTTTAGTGGCGATTCTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
22859183 TCGGGTCTTTAGCAGCGTTTTTGAAGAAGCGCCACTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
22859224 TCGGGTCTTTAGCGGCGTTTTT
1 TCGGGTCTTTAGCGGCGTTTTT
22859246 AAAAAGGCGC
Statistics
Matches: 166, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 166 1.00
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.33
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
Found at i:22859595 original size:9 final size:9
Alignment explanation
Indices: 22859584--22859659 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
22859574 TTTGGTTAAA
*
22859584 AATTAACCA
1 AATTAACCG
22859593 AATTAACCG
1 AATTAACCG
*
22859602 AATTACCCG
1 AATTAACCG
* *
22859611 AATTACCCA
1 AATTAACCG
22859620 AATTAACCG
1 AATTAACCG
*
22859629 AATTACCCG
1 AATTAACCG
22859638 AATTAACCG
1 AATTAACCG
*
22859647 AATTAACCA
1 AATTAACCG
22859656 AATT
1 AATT
22859660 GAATCACTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:22859622 original size:27 final size:27
Alignment explanation
Indices: 22859584--22859659 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
22859574 TTTGGTTAAA
22859584 AATTAACCAAATTAACCGAATTACCCG
1 AATTAACCAAATTAACCGAATTACCCG
*
22859611 AATTACCCAAATTAACCGAATTACCCG
1 AATTAACCAAATTAACCGAATTACCCG
* *
22859638 AATTAACCGAATTAACCAAATT
1 AATTAACCAAATTAACCGAATT
22859660 GAATCACTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.24
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTACCCG
Found at i:22859806 original size:18 final size:18
Alignment explanation
Indices: 22859766--22859809 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22859756 TAATTTTATG
**
22859766 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
22859784 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
22859802 CTTGGGTT
1 ATTGGGTT
22859810 TAGATTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:22863007 original size:47 final size:47
Alignment explanation
Indices: 22862938--22863037 Score: 200
Period size: 47 Copynumber: 2.1 Consensus size: 47
22862928 GATGATTCTC
22862938 TTTATTATTTAAAAAGAAAACATACTCTGATCTGGTAGGCTAATAAG
1 TTTATTATTTAAAAAGAAAACATACTCTGATCTGGTAGGCTAATAAG
22862985 TTTATTATTTAAAAAGAAAACATACTCTGATCTGGTAGGCTAATAAG
1 TTTATTATTTAAAAAGAAAACATACTCTGATCTGGTAGGCTAATAAG
22863032 TTTATT
1 TTTATT
22863038 CCTCCATAGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (47 bp):
TTTATTATTTAAAAAGAAAACATACTCTGATCTGGTAGGCTAATAAG
Found at i:22863687 original size:178 final size:178
Alignment explanation
Indices: 22863388--22863720 Score: 639
Period size: 178 Copynumber: 1.9 Consensus size: 178
22863378 ATTCATGAAA
* *
22863388 TTATCATTTTGGAAAAATGGAAGAATGGGCATGGTGAAGTGTGTTTCATTATTGCTTTTAGGAAG
1 TTATCATATTGGAAAAATGGAAGAATGGGCATAGTGAAGTGTGTTTCATTATTGCTTTTAGGAAG
22863453 ACATCTAAATTCTATCTTCTTTCTTGTCATTCAATAGTATTCATAATGCTCATCCGAATTGAATG
66 ACATCTAAATTCTATCTTCTTTCTTGTCATTCAATAGTATTCATAATGCTCATCCGAATTGAATG
22863518 CAGCAGATACAACAGTTTCTCAAAGTATGTGGAGTTAGGGGCTTTTTT
131 CAGCAGATACAACAGTTTCTCAAAGTATGTGGAGTTAGGGGCTTTTTT
22863566 TTATCATATTGGAAAAATGGAAGAATGGGCATAGTGAAGTGTGTTTCATTATTGCTTTTAGGAAG
1 TTATCATATTGGAAAAATGGAAGAATGGGCATAGTGAAGTGTGTTTCATTATTGCTTTTAGGAAG
22863631 ACATCTAAATTCTATCTTCTTTCTTGTCATTCAATAGTATTCATAATGCTCATCCGAATTGAATG
66 ACATCTAAATTCTATCTTCTTTCTTGTCATTCAATAGTATTCATAATGCTCATCCGAATTGAATG
*
22863696 CAGCAGATACAACTGTTTCTCAAAG
131 CAGCAGATACAACAGTTTCTCAAAG
22863721 GTTTTCCTCA
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 152 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (178 bp):
TTATCATATTGGAAAAATGGAAGAATGGGCATAGTGAAGTGTGTTTCATTATTGCTTTTAGGAAG
ACATCTAAATTCTATCTTCTTTCTTGTCATTCAATAGTATTCATAATGCTCATCCGAATTGAATG
CAGCAGATACAACAGTTTCTCAAAGTATGTGGAGTTAGGGGCTTTTTT
Found at i:22865881 original size:25 final size:27
Alignment explanation
Indices: 22865847--22865907 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
22865837 AGCCCGGCCC
* * *
22865847 ATTTTTAAAAT-AAACATTAAAAAA-T
1 ATTTTAAAAATAAAAAATAAAAAAATT
22865872 ATTTTAAAAATAAAAAATAAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
22865899 ATTTTAAAA
1 ATTTTAAAA
22865908 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 10 0.32
26 11 0.35
27 10 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAAATT
Found at i:22867719 original size:58 final size:60
Alignment explanation
Indices: 22867586--22867750 Score: 144
Period size: 61 Copynumber: 2.8 Consensus size: 60
22867576 TTATAATATT
* *** * *
22867586 ATATATTATGATTTT-TT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAATT
1 ATATATT-TAATTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATACGATGAAATC
* *
22867647 ATATA-TT-ATTTTATTAAATTGTATTTAATAATAATTATGTTAA-AATACGATGAAATC
1 ATATATTTAATTTTATTAAATTATATTTAATAATAATTATATTAAGAATACGATGAAATC
* *
22867704 ATTTATTTTTATTATTATTAAATTATATTTAATAATAA-TATTATTAA
1 ATATA-TTTAATT-TTATTAAATTATATTTAATAATAATTA-TATTAA
22867751 AATTTAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
57 13 0.15
58 24 0.28
59 7 0.08
60 10 0.11
61 33 0.38
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (60 bp):
ATATATTTAATTTTATTAAATTATATTTAATAATAATTATATTAAGAATACGATGAAATC
Found at i:22872994 original size:13 final size:14
Alignment explanation
Indices: 22872963--22872989 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22872953 ATTGATATCT
22872963 CAAAACAAAAATTA
1 CAAAACAAAAATTA
22872977 CAAAACAAAAATT
1 CAAAACAAAAATT
22872990 GAAAATGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (14 bp):
CAAAACAAAAATTA
Found at i:22872994 original size:49 final size:49
Alignment explanation
Indices: 22872939--22873036 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
22872929 TTTGTCAATT
* *
22872939 TTGAAAATGATCAAATTGATATCTCAAAACAAAAATTACAAAACAAAAA
1 TTGAAAATGAGCAAATTGATATCTCAAAACAAAAATTACAAAAAAAAAA
22872988 TTGAAAATGAGCAAATTGATATCTCAAAACAAAAATTACAAAAAAAAAA
1 TTGAAAATGAGCAAATTGATATCTCAAAACAAAAATTACAAAAAAAAAA
22873037 AAATTAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.21
Consensus pattern (49 bp):
TTGAAAATGAGCAAATTGATATCTCAAAACAAAAATTACAAAAAAAAAA
Found at i:22873111 original size:19 final size:18
Alignment explanation
Indices: 22873070--22873108 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22873060 ATAAATTACT
22873070 AAATTAATATATGTTTTA
1 AAATTAATATATGTTTTA
22873088 AAATTAATTATAT-TTTTA
1 AAATTAA-TATATGTTTTA
22873106 AAA
1 AAA
22873109 ATTTACTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAATTAATATATGTTTTA
Found at i:22880082 original size:51 final size:51
Alignment explanation
Indices: 22880023--22880120 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
22880013 TTCATGTCTA
* * *
22880023 AGTCCACTTGAAACTTTATTTTATATAGTCTCCAAAGAAAGTGAGTGGGCC
1 AGTCCACTTGAAACTTCAATTTATATAGTCTCCAAAGAAAATGAGTGGGCC
* *
22880074 AGTCCACTTGAAACTTCAATTTATCTAGTCTCCGAAGAAAATGAGTG
1 AGTCCACTTGAAACTTCAATTTATATAGTCTCCAAAGAAAATGAGTG
22880121 CATTCAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (51 bp):
AGTCCACTTGAAACTTCAATTTATATAGTCTCCAAAGAAAATGAGTGGGCC
Found at i:22881868 original size:15 final size:14
Alignment explanation
Indices: 22881825--22881870 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
22881815 TATTTAAAAA
*
22881825 TTTATAACTTAATT
1 TTTATAATTTAATT
22881839 TTTATAATTCT-ATT
1 TTTATAATT-TAATT
22881853 TTTATAAATTTAATT
1 TTTAT-AATTTAATT
22881868 TTT
1 TTT
22881871 TTTACTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTATAATTTAATT
Found at i:22882969 original size:30 final size:31
Alignment explanation
Indices: 22882933--22882990 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
22882923 GGTATACAAA
*
22882933 TTTTTTAGGC-CCTTAAAAATTAAAAAAACT
1 TTTTTTAGACTCCTTAAAAATTAAAAAAACT
* *
22882963 TTTTTTATACTCCTTAAAAATTAGAAAA
1 TTTTTTAGACTCCTTAAAAATTAAAAAA
22882991 TAATATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (31 bp):
TTTTTTAGACTCCTTAAAAATTAAAAAAACT
Found at i:22886034 original size:16 final size:16
Alignment explanation
Indices: 22885965--22886034 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 16
22885955 AGTACACGTT
* *
22885965 TGTAATGAAATAAAGC
1 TGTAATGGAATAGAGC
* *
22885981 TGTAATTGAATAGAGT
1 TGTAATGGAATAGAGC
* **
22885997 TGTAATTGAATAGCTC
1 TGTAATGGAATAGAGC
*
22886013 TCTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
*
22886029 TATAAT
1 TGTAAT
22886035 CAGTAATTCA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:22886300 original size:21 final size:21
Alignment explanation
Indices: 22886276--22886324 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
22886266 AATTATTATT
22886276 ATATATAAT-TTA-ACAATAATA
1 ATATATAATATTAGA-AA-AATA
22886297 ATATATAATATTAGAAAAATA
1 ATATATAATATTAGAAAAATA
22886318 ATATATA
1 ATATATA
22886325 GCCATAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 20 0.77
22 5 0.19
23 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATATAATATTAGAAAAATA
Found at i:22892627 original size:11 final size:11
Alignment explanation
Indices: 22892611--22892635 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22892601 GGGCCTGTAG
22892611 AATAGACTTGT
1 AATAGACTTGT
22892622 AATAGACTTGT
1 AATAGACTTGT
22892633 AAT
1 AAT
22892636 GGCATAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (11 bp):
AATAGACTTGT
Found at i:22895629 original size:9 final size:9
Alignment explanation
Indices: 22895615--22895648 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
22895605 TATTTAAAAA
22895615 ATATATAAT
1 ATATATAAT
22895624 ATATATAAT
1 ATATATAAT
*
22895633 ATATATAAA
1 ATATATAAT
22895642 ATATATA
1 ATATATA
22895649 TATTTGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATATATAAT
Found at i:22895629 original size:11 final size:11
Alignment explanation
Indices: 22895599--22895651 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
22895589 ACCCATATTA
*
22895599 AATATATATTT
1 AATATATATAT
* *
22895610 AAAAAATATAT
1 AATATATATAT
22895621 -A-ATATATAT
1 AATATATATAT
*
22895630 AATATATATAA
1 AATATATATAT
22895641 AATATATATAT
1 AATATATATAT
22895652 TTGATTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 7 0.21
10 2 0.06
11 25 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATATATAT
Found at i:22899892 original size:54 final size:54
Alignment explanation
Indices: 22899833--22899940 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
22899823 TTAATTGAAA
* *
22899833 AAGAAAATATGGTCGACATATAAAATTTTCTTACCAAATCTATTCTTTACCCAT
1 AAGAAAATATGGTCGAAATATAAAAGTTTCTTACCAAATCTATTCTTTACCCAT
22899887 AAGAAAATATGGTCGAAATATAAAAGTTTCTTACCAAATCTATTCTTTACCCAT
1 AAGAAAATATGGTCGAAATATAAAAGTTTCTTACCAAATCTATTCTTTACCCAT
22899941 GCTTGTACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (54 bp):
AAGAAAATATGGTCGAAATATAAAAGTTTCTTACCAAATCTATTCTTTACCCAT
Found at i:22900669 original size:2 final size:2
Alignment explanation
Indices: 22900662--22900703 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
22900652 ATACATGTAA
22900662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
22900704 AACCTTCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22901639 original size:19 final size:20
Alignment explanation
Indices: 22901617--22901656 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
22901607 TTCTATCCAT
22901617 AAAATAT-TAAACCATAATC
1 AAAATATCTAAACCATAATC
22901636 AAAATATGCCTAAACCATAAT
1 AAAATAT--CTAAACCATAAT
22901657 TCACTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
22 11 0.61
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAATATCTAAACCATAATC
Found at i:22906205 original size:15 final size:15
Alignment explanation
Indices: 22906184--22906222 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
22906174 TGGTAAGTCT
*
22906184 CCTCCTCCTAGTGTT
1 CCTCCTCCTAGTGTG
* *
22906199 TCTCCTCTTAGTGTG
1 CCTCCTCCTAGTGTG
22906214 CCTCCTCCT
1 CCTCCTCCT
22906223 GTGGAGCTAC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.05, C:0.41, G:0.13, T:0.41
Consensus pattern (15 bp):
CCTCCTCCTAGTGTG
Found at i:22907674 original size:68 final size:69
Alignment explanation
Indices: 22907463--22907732 Score: 285
Period size: 69 Copynumber: 3.9 Consensus size: 69
22907453 TAATCAGTTG
* * * * * *
22907463 GGAGCTTTGCTCTTGCTAACTAG-ATTGGAGGTTGCGACTCTTCGCCTGCGAGCCTTAGTATGAC
1 GGAGCTTTACTCTCGCTAACT-GTATTTGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGAC
22907527 AGCTA
65 AGCTA
* * * * * * ***
22907532 GGAGTTTTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCGCTTGTAAGCCTTAATATGACA
1 GGAGCTTTACTCTCGCTAACTGTATTTGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGACA
22907597 GCTA
66 GCTA
* * *
22907601 AGAGCTTTACTCTCGTTAACTGTATTTGAGGCTGC-ACTCTTCGCCTACGAGCCTTAATATGATA
1 GGAGCTTTACTCTCGCTAACTGTATTTGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGACA
*
22907665 GCTG
66 GCTA
* * * * * *
22907669 GGAGCTTTACTCTCGCTAACTATA-CTGGGGCTGTGGCTCTTCGCCTACTAGCCTTAATATGACA
1 GGAGCTTTACTCTCGCTAACTGTATTTGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGACA
22907733 TGAATGTTGT
Statistics
Matches: 167, Mismatches: 32, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
67 7 0.04
68 74 0.44
69 86 0.51
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (69 bp):
GGAGCTTTACTCTCGCTAACTGTATTTGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGACA
GCTA
Found at i:22915675 original size:41 final size:40
Alignment explanation
Indices: 22915618--22915753 Score: 145
Period size: 37 Copynumber: 3.5 Consensus size: 40
22915608 CGACTTCAAG
22915618 TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTTAT
1 TCGATGAGACACTGGGTGTCAATTTATTACTTC-GATTTAT
* * *
22915659 TCGATGAGACACTGGGTGCCAA---CTTACTTCGGTTTA-
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTAT
* * *
22915695 ACTGATGAGACACTGGGTGTCAATTTACTACTTCGAATTAT
1 TC-GATGAGACACTGGGTGTCAATTTATTACTTCGATTTAT
* * *
22915736 CCGATGTGGCACTGGGTG
1 TCGATGAGACACTGGGTG
22915754 CCAAACTGGG
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
36 1 0.01
37 24 0.31
38 7 0.09
40 24 0.31
41 22 0.28
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTAT
Found at i:22915749 original size:40 final size:39
Alignment explanation
Indices: 22915619--22915753 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 39
22915609 GACTTCAAGT
*
22915619 CGATGAGACACTGGGTGTCAATTTATTACTTCAGATTTATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTC-GATTTATC
* * * *
22915660 CGATGAGACACTGGGTGCCAA-CT-TACTTCGGTTTAAC
1 CGATGAGACACTGGGTGTCAATTTATACTTCGATTTATC
* *
22915697 TGATGAGACACTGGGTGTCAATTTACTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGATTTATC
* *
22915737 CGATGTGGCACTGGGTG
1 CGATGAGACACTGGGTG
22915754 CCAAACTGGG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 24 0.31
38 7 0.09
40 26 0.34
41 20 0.26
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCGATTTATC
Found at i:22916697 original size:83 final size:83
Alignment explanation
Indices: 22916558--22916724 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
22916548 TCAATACTTT
22916558 TGAATGTTTTGATTTTGGTTATAATGACATTAAAACATCAAAAGTATAACTTTCATGCCAAAACA
1 TGAATGTTTTGATTTTGGTTATAATGACATTAAAACATCAAAAGTATAACTTTCATGCCAAAACA
22916623 ATTAATCTTACTTACCAA
66 ATTAATCTTACTTACCAA
22916641 TGAATGTTTTGATTTTGGTTATAATGACATTAAAACATCAAAAGTATAACTTTCATGCCAAAACA
1 TGAATGTTTTGATTTTGGTTATAATGACATTAAAACATCAAAAGTATAACTTTCATGCCAAAACA
22916706 ATTAATCTTACTTACCAA
66 ATTAATCTTACTTACCAA
22916724 T
1 T
22916725 TTAAGCATGC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (83 bp):
TGAATGTTTTGATTTTGGTTATAATGACATTAAAACATCAAAAGTATAACTTTCATGCCAAAACA
ATTAATCTTACTTACCAA
Found at i:22922524 original size:15 final size:15
Alignment explanation
Indices: 22922500--22922535 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22922490 ATTTTTAGTA
*
22922500 AAAAACCCTAAATCC
1 AAAAATCCTAAATCC
*
22922515 AAAAATCCTAAATCT
1 AAAAATCCTAAATCC
22922530 AAAAAT
1 AAAAAT
22922536 ATTAAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATCCTAAATCC
Found at i:22923615 original size:18 final size:20
Alignment explanation
Indices: 22923580--22923616 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22923570 GTAAATCATA
*
22923580 AAAAAATTATAAAGAATATT
1 AAAAAATGATAAAGAATATT
22923600 AAAAAATGA-AAA-AATAT
1 AAAAAATGATAAAGAATAT
22923617 ATATGAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 3 0.19
20 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAAATGATAAAGAATATT
Found at i:22924034 original size:44 final size:44
Alignment explanation
Indices: 22923984--22924073 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
22923974 AATATAAAAA
22923984 TATATTTTTAAAACTCTACTAGCAATGTACCAAATAATTTTCCT
1 TATATTTTTAAAACTCTACTAGCAATGTACCAAATAATTTTCCT
22924028 TATATTTTTAAAACTCTACTAGCAATGTACCAAATAATTTTCCT
1 TATATTTTTAAAACTCTACTAGCAATGTACCAAATAATTTTCCT
22924072 TA
1 TA
22924074 CAAAAAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (44 bp):
TATATTTTTAAAACTCTACTAGCAATGTACCAAATAATTTTCCT
Found at i:22924509 original size:29 final size:27
Alignment explanation
Indices: 22924475--22924534 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
22924465 TGTACTTTTA
*
22924475 TTTTAATAAATTTTAATATATTTGGATAT
1 TTTTAATAAATTTT-ATA-ATTTAGATAT
*
22924504 TTTTAATAAATTTTATAATTTATATAT
1 TTTTAATAAATTTTATAATTTAGATAT
22924531 TTTT
1 TTTT
22924535 TCATGTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 12 0.41
28 3 0.10
29 14 0.48
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
TTTTAATAAATTTTATAATTTAGATAT
Found at i:22924604 original size:19 final size:19
Alignment explanation
Indices: 22924472--22924639 Score: 72
Period size: 19 Copynumber: 9.2 Consensus size: 19
22924462 ACATGTACTT
* *
22924472 TTATTTTAATAAATTTTAA
1 TTATTTTTATAATTTTTAA
**
22924491 TATATTTGGAT-ATTTTTAA
1 T-TATTTTTATAATTTTTAA
* * *
22924510 TAAATTTTATAATTTAT-A
1 TTATTTTTATAATTTTTAA
* * *
22924528 -TATTTTT-TCATGTATAA
1 TTATTTTTATAATTTTTAA
*
22924545 -TATTTTTCTATATTGTTATAA
1 TTATTTTTATA-ATT-TT-TAA
*
22924566 TT-TTTTT-TCATTTTT-A
1 TTATTTTTATAATTTTTAA
22924582 -TATTTTTATAATTTTTAA
1 TTATTTTTATAATTTTTAA
* *
22924600 TTATTTCTATGATTTTGTAA
1 TTATTTTTATAATTTT-TAA
*
22924620 --ATTTTTATGA-TTTTAA
1 TTATTTTTATAATTTTTAA
22924636 TTAT
1 TTAT
22924640 AAAATATTAG
Statistics
Matches: 114, Mismatches: 20, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
15 1 0.01
16 15 0.13
17 24 0.21
18 21 0.18
19 32 0.28
20 12 0.11
21 8 0.07
22 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (19 bp):
TTATTTTTATAATTTTTAA
Found at i:22924605 original size:27 final size:27
Alignment explanation
Indices: 22924473--22924626 Score: 93
Period size: 27 Copynumber: 5.6 Consensus size: 27
22924463 CATGTACTTT
* * **
22924473 TATTTTAATAAATTTTAATATATTTGGA
1 TATTTTTATAATTTTTAAT-TATTTTTA
* * *
22924501 TATTTTTAATAAATTTT-ATAATTTATA
1 TATTTTT-ATAATTTTTAATTATTTTTA
* * *
22924528 TATTTTT-TCATGTATAA-TATTTTTCTA
1 TATTTTTATAATTTTTAATTA-TTTT-TA
* *
22924555 TATTGTTATAATTTTT-TTTCATTTTTA
1 TATTTTTATAATTTTTAATT-ATTTTTA
*
22924582 TATTTTTATAATTTTTAATTATTTCTA
1 TATTTTTATAATTTTTAATTATTTTTA
22924609 TGATTTTGTA-AATTTTTA
1 T-ATTTT-TATAATTTTTA
22924627 TGATTTTAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
25 5 0.05
26 4 0.04
27 44 0.45
28 33 0.34
29 12 0.12
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTTTTATAATTTTTAATTATTTTTA
Found at i:22924632 original size:9 final size:9
Alignment explanation
Indices: 22924502--22924633 Score: 58
Period size: 9 Copynumber: 14.6 Consensus size: 9
22924492 ATATTTGGAT
22924502 ATTTTTAATA
1 ATTTTT-ATA
*
22924512 AATTTTATA
1 ATTTTTATA
*
22924521 ATTTATAT-
1 ATTTTTATA
*
22924529 ATTTTT-TC
1 ATTTTTATA
* *
22924537 ATGTATA-A
1 ATTTTTATA
*
22924545 TATTTTTCTA
1 -ATTTTTATA
*
22924555 TATTGTTATA
1 -ATTTTTATA
* *
22924565 ATTTTTTTTC
1 A-TTTTTATA
22924575 ATTTTTAT-
1 ATTTTTATA
22924583 ATTTTTATA
1 ATTTTTATA
*
22924592 ATTTTTAATT
1 ATTTTT-ATA
* *
22924602 ATTTCTATG
1 ATTTTTATA
22924611 ATTTTGTA-A
1 ATTTT-TATA
*
22924620 ATTTTTATG
1 ATTTTTATA
22924629 ATTTT
1 ATTTT
22924634 AATTATAAAA
Statistics
Matches: 91, Mismatches: 22, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
7 1 0.01
8 19 0.21
9 42 0.46
10 29 0.32
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:22925198 original size:19 final size:18
Alignment explanation
Indices: 22925134--22925234 Score: 62
Period size: 19 Copynumber: 5.4 Consensus size: 18
22925124 ATAACAAGTT
* *
22925134 TATAAAATTATAAAACTCA
1 TATAAAAATATAAAAAT-A
*
22925153 TAGAAAAATCATAAAAATGA
1 TATAAAAAT-ATAAAAAT-A
*
22925173 -ATGAAAATATAAAAATA
1 TATAAAAATATAAAAATA
* **
22925190 TTATAAAAATTTTGAAATA
1 -TATAAAAATATAAAAATA
*
22925209 TATAAAAACATAGAAAA-A
1 TATAAAAATATA-AAAATA
22925227 TTATAAAA
1 -TATAAAA
22925235 TATTATTAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
17 1 0.02
18 18 0.29
19 36 0.57
20 8 0.13
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (18 bp):
TATAAAAATATAAAAATA
Found at i:22925225 original size:28 final size:29
Alignment explanation
Indices: 22925173--22925246 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
22925163 ATAAAAATGA
* *
22925173 ATGAAA-ATATAAAAATATTATAAAAATT
1 ATGAAATATATAAAAACATTAGAAAAATT
*
22925201 TTGAAATATATAAAAACA-TAGAAAAATT
1 ATGAAATATATAAAAACATTAGAAAAATT
*
22925229 ATAAAATATTATTAAAAA
1 ATGAAATA-TA-TAAAAA
22925247 TGGTTGAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
28 20 0.53
29 12 0.32
30 6 0.16
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (29 bp):
ATGAAATATATAAAAACATTAGAAAAATT
Found at i:22925245 original size:20 final size:19
Alignment explanation
Indices: 22925222--22925307 Score: 66
Period size: 20 Copynumber: 4.4 Consensus size: 19
22925212 AAAAACATAG
22925222 AAAAATTATAAAATATTATT
1 AAAAATTATAAAATATTA-T
** **
22925242 AAAAATGGTTGAATATTAT
1 AAAAATTATAAAATATTAT
* **
22925261 AAATATTATTAGTATATTAT
1 AAAAATTA-TAAAATATTAT
22925281 GAAAAA-TATGAAAATATTAT
1 -AAAAATTAT-AAAATATTAT
22925301 AAAAATT
1 AAAAATT
22925308 TAGAAATGAT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
19 12 0.24
20 34 0.68
21 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
AAAAATTATAAAATATTAT
Found at i:22926168 original size:46 final size:46
Alignment explanation
Indices: 22926115--22926207 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
22926105 TCAAAATGCC
*
22926115 AATTTGGTATTGATATTAAAGAAGGTATCGATAAAGGTGTACTTCT
1 AATTTGGTATCGATATTAAAGAAGGTATCGATAAAGGTGTACTTCT
22926161 AATTTGGTATCGATATTAAAGAAGGTATCGATAAAGGTGTACTTCT
1 AATTTGGTATCGATATTAAAGAAGGTATCGATAAAGGTGTACTTCT
22926207 A
1 A
22926208 TCGATACTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (46 bp):
AATTTGGTATCGATATTAAAGAAGGTATCGATAAAGGTGTACTTCT
Found at i:22931327 original size:33 final size:32
Alignment explanation
Indices: 22931290--22931354 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
22931280 TCATTTGGGC
*
22931290 TAGATTTAAGCTTTAACCCCTCATTCTTCTTGG
1 TAGATTCAAGCTTTAACCCCTCATTCTT-TTGG
* *
22931323 TAGATTCAAGCTTTAACCCGTTATTCTTTTGG
1 TAGATTCAAGCTTTAACCCCTCATTCTTTTGG
22931355 AATATTCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (32 bp):
TAGATTCAAGCTTTAACCCCTCATTCTTTTGG
Found at i:22931446 original size:174 final size:174
Alignment explanation
Indices: 22931139--22931457 Score: 476
Period size: 174 Copynumber: 1.8 Consensus size: 174
22931129 TATGAGATCC
* * *
22931139 TTCTCCTTAGTAGATTCAAGCTTTAACCCCTCATTCTTTTGGAATCTTCTTCCTCTATTGGACTT
1 TTCTCCTTAGTAGATTCAAGCTTTAACCCCTCATTCTTTTGGAATATTCTTACTCTATTGAACTT
* * * ***
22931204 TAGGAATCTCTTCAATCTCCTAGTAAACATGCTTATCTCTTTGTCTTCATCCACCTCATCACTTG
66 CAGGAATCTATTCAATCTCCTAGCAAACATGAACATCTCTTTGTCTTCATCCACCTCATCACTTG
22931269 ATTCACTATCTTCATTTGGGCTAGATTTAAGCTTTAACCCCTCA
131 ATTCACTATCTTCATTTGGGCTAGATTTAAGCTTTAACCCCTCA
* * * *
22931313 TTCTTCTTGGTAGATTCAAGCTTTAACCCGTTATTCTTTTGGAATATTCTTACTCTATTGAACTT
1 TTCTCCTTAGTAGATTCAAGCTTTAACCCCTCATTCTTTTGGAATATTCTTACTCTATTGAACTT
* * * * *
22931378 CATGAATCTATTGAATCTCCTAGCAAACATGAACATCTCTTTTTCTTCATCCACCTCTTCAGTTG
66 CAGGAATCTATTCAATCTCCTAGCAAACATGAACATCTCTTTGTCTTCATCCACCTCATCACTTG
22931443 ATTCACTATCTTCAT
131 ATTCACTATCTTCAT
22931458 GTGGTGGATT
Statistics
Matches: 127, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
174 127 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (174 bp):
TTCTCCTTAGTAGATTCAAGCTTTAACCCCTCATTCTTTTGGAATATTCTTACTCTATTGAACTT
CAGGAATCTATTCAATCTCCTAGCAAACATGAACATCTCTTTGTCTTCATCCACCTCATCACTTG
ATTCACTATCTTCATTTGGGCTAGATTTAAGCTTTAACCCCTCA
Found at i:22937878 original size:10 final size:10
Alignment explanation
Indices: 22937865--22937922 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
22937855 AACAAAAATA
22937865 ATAAAAAGTT
1 ATAAAAAGTT
22937875 ATAAAAA-TT
1 ATAAAAAGTT
**
22937884 ATTAAAATTTT
1 A-TAAAAAGTT
*
22937895 ATTAAATAGTT
1 A-TAAAAAGTT
*
22937906 ATAAAAAATT
1 ATAAAAAGTT
22937916 ATAAAAA
1 ATAAAAA
22937923 TATTAAAGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 3 0.08
10 26 0.65
11 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
ATAAAAAGTT
Found at i:22937922 original size:11 final size:10
Alignment explanation
Indices: 22937858--22937927 Score: 52
Period size: 10 Copynumber: 6.8 Consensus size: 10
22937848 TTAGTTTAAC
*
22937858 AAAAATAATA
1 AAAAATTATA
*
22937868 AAAAGTTAT-
1 AAAAATTATA
22937877 AAAAATTATTA
1 AAAAATTA-TA
**
22937888 AAATTTTATTA
1 AAAAATTA-TA
* *
22937899 AATAGTTATA
1 AAAAATTATA
22937909 AAAAATTATA
1 AAAAATTATA
22937919 AAAATATTA
1 AAAA-ATTA
22937928 AAGAGTATAG
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
9 7 0.15
10 22 0.47
11 18 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
AAAAATTATA
Found at i:22940331 original size:30 final size:29
Alignment explanation
Indices: 22940273--22940340 Score: 57
Period size: 29 Copynumber: 2.3 Consensus size: 29
22940263 ACGTTGTAAT
* ** * *
22940273 TTTTTAAAATTATGAAAATATTATAAAAT
1 TTTTTAAAATTATGAAAAAAACAAAAAAA
22940302 TTTTATAAAATTAT-AAAAAAACAAAAAAA
1 TTTT-TAAAATTATGAAAAAAACAAAAAAA
22940331 TATTATTAAA
1 T-TT-TTAAA
22940341 TATGATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 15 0.48
30 15 0.48
31 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (29 bp):
TTTTTAAAATTATGAAAAAAACAAAAAAA
Found at i:22942371 original size:26 final size:26
Alignment explanation
Indices: 22942342--22942445 Score: 109
Period size: 26 Copynumber: 4.0 Consensus size: 26
22942332 GCCTAGCGAG
*
22942342 CTTGAGTTTAAGTGGGTCAAAGGACC
1 CTTGAGTTTAAGTTGGTCAAAGGACC
* * **
22942368 CTTGAGTTTAAGTAGGTTAGGGGACC
1 CTTGAGTTTAAGTTGGTCAAAGGACC
* * **
22942394 CCTGAGTTTGAGTTGGTCGGAGGACC
1 CTTGAGTTTAAGTTGGTCAAAGGACC
* *
22942420 CTTGAGTTTGAGTTGGTCGAAGGACC
1 CTTGAGTTTAAGTTGGTCAAAGGACC
22942446 ATGAGCATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.21, C:0.15, G:0.35, T:0.29
Consensus pattern (26 bp):
CTTGAGTTTAAGTTGGTCAAAGGACC
Found at i:22943082 original size:13 final size:13
Alignment explanation
Indices: 22943064--22943088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22943054 TAATTTAATA
22943064 TTATTTTGTGTGT
1 TTATTTTGTGTGT
22943077 TTATTTTGTGTG
1 TTATTTTGTGTG
22943089 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:22944168 original size:41 final size:41
Alignment explanation
Indices: 22944119--22944263 Score: 236
Period size: 41 Copynumber: 3.5 Consensus size: 41
22944109 GACTTTAAGT
*
22944119 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAATC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
22944160 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
22944201 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
22944242 TTAGCAGGCTAAATGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
22944264 ATATGTTAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:22948637 original size:23 final size:22
Alignment explanation
Indices: 22948605--22948647 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
22948595 ATTGGAATTT
*
22948605 TAAAATTTATAAAATATAAAAAA
1 TAAAAATTATAAAAT-TAAAAAA
*
22948628 TAAAAATTATCAAATTAAAA
1 TAAAAATTATAAAATTAAAA
22948648 TACATGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAATTATAAAATTAAAAAA
Found at i:22955754 original size:12 final size:12
Alignment explanation
Indices: 22955731--22955764 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
22955721 TAGAATAAAC
22955731 CAATAT-GACAT
1 CAATATAGACAT
22955742 CAATATAGACAT
1 CAATATAGACAT
22955754 CAATATAGACA
1 CAATATAGACA
22955765 ACTACAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.24
Consensus pattern (12 bp):
CAATATAGACAT
Found at i:22960880 original size:25 final size:25
Alignment explanation
Indices: 22960852--22960929 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
22960842 AGAGAAGAGT
* * *
22960852 AAAACAAAACATAGTAGAACATAAC
1 AAAACATAACAAAGTAGAACAGAAC
* *
22960877 AAAACATAACAGAGTAGAGCAGAAC
1 AAAACATAACAAAGTAGAACAGAAC
* *
22960902 ATAACATAACAAAATAGAACAGAAC
1 AAAACATAACAAAGTAGAACAGAAC
22960927 AAA
1 AAA
22960930 GTAGAGCATA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.63, C:0.15, G:0.12, T:0.10
Consensus pattern (25 bp):
AAAACATAACAAAGTAGAACAGAAC
Found at i:22960940 original size:35 final size:35
Alignment explanation
Indices: 22960869--22960940 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 35
22960859 AACATAGTAG
* ** *
22960869 AACATAACAAAACATAACAGAGTAGAGCAGAACAT
1 AACATAACAAAACAGAACAGAACAAAGCAGAACAT
* * *
22960904 AACATAACAAAATAGAACAGAACAAAGTAGAGCAT
1 AACATAACAAAACAGAACAGAACAAAGCAGAACAT
22960939 AA
1 AA
22960941 TAGAATAAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.60, C:0.15, G:0.14, T:0.11
Consensus pattern (35 bp):
AACATAACAAAACAGAACAGAACAAAGCAGAACAT
Found at i:22960945 original size:20 final size:20
Alignment explanation
Indices: 22960922--22960974 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22960912 AAAATAGAAC
*
22960922 AGAACAAAGTAGAGCATAAT
1 AGAACAAAGCAGAGCATAAT
* *
22960942 AGAATAAAGCAGAGCATAAC
1 AGAACAAAGCAGAGCATAAT
* *
22960962 ATAACATAGCAGA
1 AGAACAAAGCAGA
22960975 ACAGAACAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.55, C:0.13, G:0.19, T:0.13
Consensus pattern (20 bp):
AGAACAAAGCAGAGCATAAT
Found at i:22960977 original size:15 final size:15
Alignment explanation
Indices: 22960951--22960999 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
22960941 TAGAATAAAG
*
22960951 CAGAGCATAACATAA
1 CAGAGCAAAACATAA
* * *
22960966 CATAGCAGAACAGAA
1 CAGAGCAAAACATAA
*
22960981 CAGAGAAAAACATAA
1 CAGAGCAAAACATAA
22960996 CAGA
1 CAGA
22961000 ACAGAATAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.57, C:0.18, G:0.16, T:0.08
Consensus pattern (15 bp):
CAGAGCAAAACATAA
Found at i:22960982 original size:20 final size:20
Alignment explanation
Indices: 22960874--22960982 Score: 58
Period size: 20 Copynumber: 5.5 Consensus size: 20
22960864 AGTAGAACAT
* * *
22960874 AACAAAACATAACAGAGTAG
1 AACAGAACATAACAAAGCAG
* *
22960894 AGCAGAACATAACATAA-CAA
1 AACAGAACATAACA-AAGCAG
* * *
22960914 AATAGAACAGAACAAAGTAG
1 AACAGAACATAACAAAGCAG
* * * * *
22960934 AGCATAATAGAATAAAGCAG
1 AACAGAACATAACAAAGCAG
* * *
22960954 AGCATAACATAACATAGCAG
1 AACAGAACATAACAAAGCAG
22960974 AACAGAACA
1 AACAGAACA
22960983 GAGAAAAACA
Statistics
Matches: 65, Mismatches: 22, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
19 2 0.03
20 62 0.95
21 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (20 bp):
AACAGAACATAACAAAGCAG
Found at i:22961017 original size:25 final size:25
Alignment explanation
Indices: 22960964--22961059 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
22960954 AGCATAACAT
*
22960964 AACATAGCAGAACAGAACAGAGAAA
1 AACATAACAGAACAGAACAGAGAAA
* ***
22960989 AACATAACAGAACAGAATAGAGTGG
1 AACATAACAGAACAGAACAGAGAAA
* * * *
22961014 AACATAACAAAATAGAACAAAGCAA
1 AACATAACAGAACAGAACAGAGAAA
* * *
22961039 AGCAAAACAGAACATAACAGA
1 AACATAACAGAACAGAACAGA
22961060 ATAGAGTAGA
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.60, C:0.16, G:0.17, T:0.07
Consensus pattern (25 bp):
AACATAACAGAACAGAACAGAGAAA
Found at i:22961089 original size:20 final size:20
Alignment explanation
Indices: 22961047--22961089 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
22961037 AAAGCAAAAC
* * * *
22961047 AGAACATAACAGAATAGAGT
1 AGAACATAAAAAAACAGAAT
22961067 AGAACATAAAAAAACAGAAT
1 AGAACATAAAAAAACAGAAT
22961087 AGA
1 AGA
22961090 GCAGAGCAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.63, C:0.09, G:0.16, T:0.12
Consensus pattern (20 bp):
AGAACATAAAAAAACAGAAT
Found at i:22961106 original size:55 final size:55
Alignment explanation
Indices: 22960874--22961115 Score: 180
Period size: 55 Copynumber: 4.3 Consensus size: 55
22960864 AGTAGAACAT
* * * * * * *
22960874 AACAAAACATAACAGAGTAGAGCAGAACATAACATAACAAAATAGAACAGAACAA
1 AACAGAACATAACAGAATAGAGCAGAACATAAAAAAACAGAACAGAACAGAGCAA
** * * * * *
22960929 AGTAGAGCATAATAGAATAAAGCAGAGCATAACATAACATAGCAGAACAGAACAGAGAAA
1 AACAGAACATAACAGAATAGAGCAGAACATAA-A-AA-A-A-CAGAACAGAACAGAGCAA
* * ** * * *
22960989 AACATAACAGAACAGAATAGAGTGGAACATAACAAAATAGAACA-AAGCAAAGCAA
1 AACAGAACATAACAGAATAGAGCAGAACATAAAAAAACAGAACAGAA-CAGAGCAA
* * * *
22961044 AACAGAACATAACAGAATAGAGTAGAACATAAAAAAACAGAATAGAGCAGAGCAG
1 AACAGAACATAACAGAATAGAGCAGAACATAAAAAAACAGAACAGAACAGAGCAA
* *
22961099 AATAGAACAAAACAGAA
1 AACAGAACATAACAGAA
22961116 GAAAAAAAAC
Statistics
Matches: 141, Mismatches: 39, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
54 2 0.01
55 95 0.67
56 2 0.01
57 2 0.01
58 3 0.02
59 1 0.01
60 36 0.26
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.10
Consensus pattern (55 bp):
AACAGAACATAACAGAATAGAGCAGAACATAAAAAAACAGAACAGAACAGAGCAA
Found at i:22961107 original size:25 final size:25
Alignment explanation
Indices: 22961039--22961100 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
22961029 AACAAAGCAA
* * *
22961039 AGCAAAACAGAACATAACAGAATAG
1 AGCAGAACAGAAAAAAACAGAATAG
* *
22961064 AGTAGAACATAAAAAAACAGAATAG
1 AGCAGAACAGAAAAAAACAGAATAG
*
22961089 AGCAGAGCAGAA
1 AGCAGAACAGAA
22961101 TAGAACAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.60, C:0.13, G:0.19, T:0.08
Consensus pattern (25 bp):
AGCAGAACAGAAAAAAACAGAATAG
Found at i:22961114 original size:15 final size:15
Alignment explanation
Indices: 22961077--22961164 Score: 70
Period size: 15 Copynumber: 5.9 Consensus size: 15
22961067 AGAACATAAA
*
22961077 AAAACAGAATAGAGC
1 AAAACAGAATAGAAC
* *
22961092 AGAGCAGAATAGAAC
1 AAAACAGAATAGAAC
* *
22961107 AAAACAGAAGA-AAA
1 AAAACAGAATAGAAC
* * *
22961121 AAAACAAAACAGAAT
1 AAAACAGAATAGAAC
* *
22961136 AAAATAGAATAGAGC
1 AAAACAGAATAGAAC
*
22961151 AAAACATAATAGAA
1 AAAACAGAATAGAA
22961165 TAGAACTGAA
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
14 11 0.20
15 43 0.80
ACGTcount: A:0.66, C:0.10, G:0.16, T:0.08
Consensus pattern (15 bp):
AAAACAGAATAGAAC
Found at i:22963917 original size:21 final size:21
Alignment explanation
Indices: 22963893--22963933 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22963883 AAAAAATTGG
*
22963893 ATAAAAACTTAAAAATAAAAA
1 ATAAAAAATTAAAAATAAAAA
*
22963914 ATAAAAAATTAAAAGTAAAA
1 ATAAAAAATTAAAAATAAAA
22963934 CCTACTCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
ATAAAAAATTAAAAATAAAAA
Found at i:22966147 original size:32 final size:32
Alignment explanation
Indices: 22966105--22966166 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
22966095 GAATGATACA
* *
22966105 AACTTAAAATAATTTAAATTAAAAAT-AACTTG
1 AACTCAAAATAATGT-AATTAAAAATCAACTTG
*
22966137 AACTCAAAATAATGTGATTAAAAATCAACT
1 AACTCAAAATAATGTAATTAAAAATCAACT
22966167 CAATTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (32 bp):
AACTCAAAATAATGTAATTAAAAATCAACTTG
Found at i:22966765 original size:2 final size:2
Alignment explanation
Indices: 22966760--22966790 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22966750 CCTCTCTCTT
22966760 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22966791 TGTAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22974668 original size:16 final size:16
Alignment explanation
Indices: 22974644--22974677 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22974634 AGTAGGAAAT
*
22974644 TATGGTATAAAATTTA
1 TATGGTATAAAACTTA
*
22974660 TATGTTATAAAACTTA
1 TATGGTATAAAACTTA
22974676 TA
1 TA
22974678 ATTTAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (16 bp):
TATGGTATAAAACTTA
Found at i:22980791 original size:23 final size:23
Alignment explanation
Indices: 22980761--22980810 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
22980751 AAGGAAAAGT
*
22980761 CCATGGCACCATATTGTGTAAGC
1 CCATGGCACCATATTGTGTAAGA
**
22980784 CCATGGCAGGATATTGTGTAAGA
1 CCATGGCACCATATTGTGTAAGA
22980807 CCAT
1 CCAT
22980811 AGCTAGTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (23 bp):
CCATGGCACCATATTGTGTAAGA
Found at i:22981051 original size:27 final size:27
Alignment explanation
Indices: 22981001--22981101 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
22980991 ACACGCTAGA
* *
22981001 AAATAGAAGCCTTTGTGATC-ATCTATG
1 AAATGGAAGCCTTTGTG-GCAATCTATG
* *
22981028 TAATGGAAGCCTTTTTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
**
22981055 AAATGGAAGCCTTTGTGGTGATCTATGG
1 AAATGGAAGCCTTTGTGGCAATCTAT-G
*
22981083 AAA-GGAATGCCTTCGTGGC
1 AAATGGAA-GCCTTTGTGGC
22981102 GTATTTTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.77
28 13 0.21
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:22981265 original size:27 final size:27
Alignment explanation
Indices: 22981235--22981286 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
22981225 AGATTGGTAG
*
22981235 ATATGGC-ATACTATAAAGGAATAGTAC
1 ATATGGCGA-ACTATAAAGAAATAGTAC
*
22981262 ATATGGCGAACTCTAAAGAAATAGT
1 ATATGGCGAACTATAAAGAAATAGT
22981287 TCCGTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (27 bp):
ATATGGCGAACTATAAAGAAATAGTAC
Found at i:22987228 original size:24 final size:24
Alignment explanation
Indices: 22987196--22987244 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22987186 GTTTGCAGAT
22987196 ACCTGTTGTCAGTTAACTTAAAAC
1 ACCTGTTGTCAGTTAACTTAAAAC
22987220 ACCTGTTGTCAGTTAACTTAAAAC
1 ACCTGTTGTCAGTTAACTTAAAAC
22987244 A
1 A
22987245 ACAAAGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (24 bp):
ACCTGTTGTCAGTTAACTTAAAAC
Found at i:22991649 original size:17 final size:18
Alignment explanation
Indices: 22991627--22991661 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22991617 GATCCAACAT
*
22991627 TTGGTTT-ATATGTATTG
1 TTGGTTTAACATGTATTG
22991644 TTGGTTTAACATGTATTG
1 TTGGTTTAACATGTATTG
22991662 GTAACCTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54
Consensus pattern (18 bp):
TTGGTTTAACATGTATTG
Found at i:22992062 original size:18 final size:18
Alignment explanation
Indices: 22992039--22992076 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22992029 AATGTTAAGG
22992039 TAAGTTAAGTAAATTTCA
1 TAAGTTAAGTAAATTTCA
22992057 TAAGTTAAGTAAATTTCA
1 TAAGTTAAGTAAATTTCA
22992075 TA
1 TA
22992077 TGGACTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (18 bp):
TAAGTTAAGTAAATTTCA
Found at i:23001691 original size:17 final size:17
Alignment explanation
Indices: 23001669--23001710 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
23001659 GCCATATTGG
*
23001669 GTGGGCTACAC-AGTCAT
1 GTGGGCCACACGAG-CAT
23001686 GTGGGCCCACACGAGCAT
1 GTGGG-CCACACGAGCAT
23001704 GTGGGCC
1 GTGGGCC
23001711 CATAACTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 13 0.59
19 2 0.09
ACGTcount: A:0.19, C:0.29, G:0.36, T:0.17
Consensus pattern (17 bp):
GTGGGCCACACGAGCAT
Found at i:23002858 original size:16 final size:17
Alignment explanation
Indices: 23002825--23002866 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23002815 TAAATATTAT
*
23002825 TTTTTTAATTAATTTAA
1 TTTTTTAATTAATATAA
*
23002842 TTTTTTCATTAA-ATAA
1 TTTTTTAATTAATATAA
23002858 TTTTCTTAA
1 TTTT-TTAA
23002867 CCCAATTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTAATTAATATAA
Found at i:23008566 original size:61 final size:62
Alignment explanation
Indices: 23008495--23008619 Score: 180
Period size: 61 Copynumber: 2.0 Consensus size: 62
23008485 TCTTATATCT
* * * * *
23008495 AAAAATTCAACAAATTTAGCCCTCAATATTTAC-AAAATTTGCCATCTAGTTCTAATTCTAA
1 AAAAAATCAACAAATTTAGCCCTAAATATTTACAAAAATTTGCAATCTAATTCTAATACTAA
* *
23008556 AAAAAATCAACAAATTTAGCCCTAAATATTTACAAAAATTTTCAATTTAATTCTAATACTAA
1 AAAAAATCAACAAATTTAGCCCTAAATATTTACAAAAATTTGCAATCTAATTCTAATACTAA
23008618 AA
1 AA
23008620 GTTAAAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
61 31 0.55
62 25 0.45
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (62 bp):
AAAAAATCAACAAATTTAGCCCTAAATATTTACAAAAATTTGCAATCTAATTCTAATACTAA
Found at i:23015187 original size:3 final size:3
Alignment explanation
Indices: 23015179--23015225 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23015169 CTTGTTTCCA
23015179 ATT 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 ATT AT
23015226 GAGTTGAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:23015712 original size:46 final size:46
Alignment explanation
Indices: 23015660--23015752 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
23015650 AATATACTTG
*
23015660 TTAAAGTAACTGCTCGGTTGTTGAAGTCGTTTTACTTTTCTACCTC
1 TTAAAGTAACTGCTCGGTTGTCGAAGTCGTTTTACTTTTCTACCTC
*
23015706 TTAAAGTAACTGTTCGGTTGTCGAAGTCGTTTTACTTTTCTACCTC
1 TTAAAGTAACTGCTCGGTTGTCGAAGTCGTTTTACTTTTCTACCTC
23015752 T
1 T
23015753 GGATTATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.44
Consensus pattern (46 bp):
TTAAAGTAACTGCTCGGTTGTCGAAGTCGTTTTACTTTTCTACCTC
Found at i:23021413 original size:31 final size:31
Alignment explanation
Indices: 23021375--23021442 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
23021365 GAAAATAAGT
23021375 TGGAAGGAAGGAGTACCTTGATATTTAGAGA
1 TGGAAGGAAGGAGTACCTTGATATTTAGAGA
23021406 TGGAAGGAAGGAGTACCTTGATATTTAGAGA
1 TGGAAGGAAGGAGTACCTTGATATTTAGAGA
23021437 T-GAAGG
1 TGGAAGG
23021443 CAATAGGGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.14
31 32 0.86
ACGTcount: A:0.35, C:0.06, G:0.34, T:0.25
Consensus pattern (31 bp):
TGGAAGGAAGGAGTACCTTGATATTTAGAGA
Found at i:23025127 original size:29 final size:29
Alignment explanation
Indices: 23025085--23025148 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
23025075 CTGTTCGACT
* * *
23025085 TGCATCACTTCTTTACCCTTGAAGTCTGA
1 TGCATCACTCCTTTACCCTTAAAGTCCGA
23025114 TGCATCACTCCTTTACCCTTAAAGTCCGA
1 TGCATCACTCCTTTACCCTTAAAGTCCGA
*
23025143 TACATC
1 TGCATC
23025149 GCCCACCTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (29 bp):
TGCATCACTCCTTTACCCTTAAAGTCCGA
Found at i:23027231 original size:35 final size:33
Alignment explanation
Indices: 23027170--23027240 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 33
23027160 AAATCATGGG
23027170 ATTTACAAGATACGTCATATCAAATCTAATCTAAT
1 ATTTACAAGATACGTCATATCAAATCT--TCTAAT
*
23027205 ATTTACAAGATATGATTC-TATC-AATCTTCTAAT
1 ATTTACAAGATACG--TCATATCAAATCTTCTAAT
23027238 ATT
1 ATT
23027241 AGTTACCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 9 0.27
35 18 0.55
36 4 0.12
37 2 0.06
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (33 bp):
ATTTACAAGATACGTCATATCAAATCTTCTAAT
Found at i:23030926 original size:20 final size:20
Alignment explanation
Indices: 23030879--23030926 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23030869 AGTTTATGCT
*
23030879 AAGTAAATGAAATGGAAAGC
1 AAGTAAATGAAATGGAAAGA
* * * *
23030899 AAGAAAATGGAATGGTAATA
1 AAGTAAATGAAATGGAAAGA
23030919 AAGTAAAT
1 AAGTAAAT
23030927 AGAGTGGTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.23, T:0.19
Consensus pattern (20 bp):
AAGTAAATGAAATGGAAAGA
Found at i:23046943 original size:49 final size:49
Alignment explanation
Indices: 23046890--23046986 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
23046880 TGAAAATTCA
*
23046890 TAAAAAATCTAATATTTTATAAAAAATTATA-AAATTAATAAAACATATT
1 TAAAAAATCTAAAATTTTATAAAAAATTATAGAAATTAA-AAAACATATT
* * * *
23046939 TAAAACATTTAAAATTTTATAAAAATTTATAGAAATTAAAAAATATAT
1 TAAAAAATCTAAAATTTTATAAAAAATTATAGAAATTAAAAAACATAT
23046987 AAAAATTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 35 0.83
50 7 0.17
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (49 bp):
TAAAAAATCTAAAATTTTATAAAAAATTATAGAAATTAAAAAACATATT
Found at i:23046980 original size:18 final size:18
Alignment explanation
Indices: 23046959--23046994 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23046949 AAAATTTTAT
* *
23046959 AAAAATTTATAGAAATTA
1 AAAAATATATAAAAATTA
23046977 AAAAATATATAAAAATTA
1 AAAAATATATAAAAATTA
23046995 TGAAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAATATATAAAAATTA
Found at i:23047000 original size:9 final size:10
Alignment explanation
Indices: 23046907--23047001 Score: 53
Period size: 10 Copynumber: 10.0 Consensus size: 10
23046897 TCTAATATTT
23046907 TATA-AAAAA
1 TATATAAAAA
*
23046916 T-TATAAAAT
1 TATATAAAAA
23046925 TA-ATAAAACA
1 TATATAAAA-A
*
23046935 TATTTAAAACA
1 TATATAAAA-A
*
23046946 T-T-TAAAAT
1 TATATAAAAA
*
23046954 TTTATAAAAA
1 TATATAAAAA
* *
23046964 TTTATAGAAA
1 TATATAAAAA
23046974 T-TA-AAAAA
1 TATATAAAAA
23046982 TATATAAAAA
1 TATATAAAAA
23046992 T-TATGAAAAA
1 TATAT-AAAAA
23047002 ATAGAAATTA
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
8 8 0.11
9 25 0.36
10 29 0.41
11 8 0.11
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
TATATAAAAA
Found at i:23047020 original size:18 final size:17
Alignment explanation
Indices: 23046967--23047020 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
23046957 ATAAAAATTT
23046967 ATAGAAATTA-AAAAATA
1 ATAGAAATTATAAAAA-A
* *
23046984 TATAAAAATTATGAAAAA
1 -ATAGAAATTATAAAAAA
23047002 ATAGAAATTATTAAAAAA
1 ATAGAAATTA-TAAAAAA
23047020 A
1 A
23047021 CTCATTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 9 0.30
18 17 0.57
19 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
ATAGAAATTATAAAAAA
Found at i:23048002 original size:21 final size:22
Alignment explanation
Indices: 23047960--23048003 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
23047950 CCAAAACCCC
*
23047960 AAACAGTCCCAAAATATCCAAA
1 AAACAGTCCCAAAATATACAAA
*
23047982 AAACAGT-CCAAAATTTACAAA
1 AAACAGTCCCAAAATATACAAA
23048003 A
1 A
23048004 CACGTTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.57, C:0.23, G:0.05, T:0.16
Consensus pattern (22 bp):
AAACAGTCCCAAAATATACAAA
Found at i:23050711 original size:23 final size:22
Alignment explanation
Indices: 23050668--23050711 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
23050658 TTCTAAGTCG
23050668 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
23050691 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
23050712 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:23050820 original size:45 final size:44
Alignment explanation
Indices: 23050756--23050848 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 44
23050746 AACAGATACT
* *
23050756 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTA-CAATCAATGATGTC
*
23050801 CGGTGGAATCAGCACATAGCAACCACCTTACAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACAATCAATGATGTC
23050845 CGGT
1 CGGT
23050849 TCACATAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 16 0.36
45 29 0.64
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACAATCAATGATGTC
Found at i:23050911 original size:51 final size:50
Alignment explanation
Indices: 23050854--23051040 Score: 229
Period size: 51 Copynumber: 3.7 Consensus size: 50
23050844 TCGGTTCACA
* *
23050854 TAGTAGCCTGCACATAGTACTACACATGTGGCCATTATCATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATTCGATACACG
* * * *
23050905 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCTGGTATGCA--
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-AT-TCG-ATACACG
*
23050956 TAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TTCGATACACG
23051006 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
23051041 CACTTTCACT
Statistics
Matches: 115, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
48 4 0.03
49 3 0.03
50 38 0.33
51 62 0.54
52 4 0.03
53 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATTCGATACACG
Found at i:23051028 original size:101 final size:101
Alignment explanation
Indices: 23050852--23051036 Score: 336
Period size: 101 Copynumber: 1.8 Consensus size: 101
23050842 GTTCGGTTCA
*
23050852 CATAGTAGCCTGCACATAGTACTACACATGTGGCCATTATCATTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATTCGATACACGTAGTAGCCTGCA
23050917 CATAGTACTACACACGTGATCGAAACTATCTGGTATG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTATG
23050954 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TTCGATACACGTAGTAGCCTGCA
23051018 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
23051037 CCATCACTTT
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
100 5 0.06
101 42 0.52
102 34 0.42
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATTCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTATG
Found at i:23053629 original size:4 final size:4
Alignment explanation
Indices: 23053589--23053613 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
23053579 CAAAATAAAT
23053589 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
23053614 ATCAACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:23054458 original size:10 final size:10
Alignment explanation
Indices: 23054443--23054631 Score: 65
Period size: 10 Copynumber: 18.9 Consensus size: 10
23054433 TGCTTAAAAA
23054443 TTATAATTTT
1 TTATAATTTT
**
23054453 TTATAATTCA
1 TTATAATTTT
* * *
23054463 TTAGAACTTA
1 TTATAATTTT
*
23054473 TTATGAATCTT
1 TTAT-AATTTT
*
23054484 TTATAACTTT
1 TTATAATTTT
*
23054494 TGATAAATTTTTT
1 TTAT-AA--TTTT
23054507 TTGATAA-TTT
1 TT-ATAATTTT
*
23054517 TTATAAGTTT
1 TTATAATTTT
* *
23054527 ATAGAATGTTT
1 TTATAAT-TTT
23054538 TTAT-ATTTT
1 TTATAATTTT
* *
23054547 TAAT-A-TGT
1 TTATAATTTT
*
23054555 TT-T-ATCTT
1 TTATAATTTT
23054563 TTATAATTACTT
1 TTATAATT--TT
*
23054575 TTATAATTTA
1 TTATAATTTT
23054585 TTAGT-A-TTT
1 TTA-TAATTTT
23054594 TTATAA-TTT
1 TTATAATTTT
*
23054603 TTATAA-TAT
1 TTATAATTTT
*
23054612 TTATAAGTTT
1 TTATAATTTT
23054622 TTATGAATTT
1 TTAT-AATTT
23054632 CTTCAAGTTT
Statistics
Matches: 133, Mismatches: 30, Indels: 31
0.69 0.15 0.16
Matches are distributed among these distances:
7 2 0.02
8 7 0.05
9 35 0.26
10 52 0.39
11 19 0.14
12 10 0.08
13 6 0.05
14 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (10 bp):
TTATAATTTT
Found at i:23054522 original size:9 final size:9
Alignment explanation
Indices: 23054504--23054740 Score: 76
Period size: 9 Copynumber: 24.8 Consensus size: 9
23054494 TGATAAATTT
23054504 TTTTTGATAA
1 TTTTT-ATAA
23054514 TTTTTATAA
1 TTTTTATAA
* *
23054523 GTTTATAGAA
1 -TTTTTATAA
23054533 TGTTTT-TATA
1 T-TTTTATA-A
23054543 TTTTTA-ATA
1 TTTTTATA-A
23054552 TGTTTTAT--
1 T-TTTTATAA
*
23054560 CTTTTATAA
1 TTTTTATAA
23054569 TTACTTTTATAA
1 -T--TTTTATAA
23054581 TTTATTAGT-A
1 TTT-TTA-TAA
23054591 TTTTTATAA
1 TTTTTATAA
23054600 TTTTTATAA
1 TTTTTATAA
*
23054609 TATTTATAA
1 TTTTTATAA
23054618 GTTTTTATGAA
1 -TTTTTAT-AA
*
23054629 TTTCTT-CAA
1 TTT-TTATAA
* *
23054638 GTTTTATGATT
1 TTTTTAT-A-A
* *
23054649 TTTTTGTAG
1 TTTTTATAA
*
23054658 CTTTTATAA
1 TTTTTATAA
*
23054667 GTTTCTATAAA
1 -TTTTTAT-AA
* *
23054678 TATTTCATAT
1 T-TTTTATAA
23054688 TTTTTAATAA
1 TTTTT-ATAA
23054698 -TTTTA-AA
1 TTTTTATAA
**
23054705 TTTGCAATAA
1 TTT-TTATAA
*
23054715 TCTTTTATGA
1 T-TTTTATAA
23054725 TTTTTATAA
1 TTTTTATAA
23054734 TTTTTAT
1 TTTTTAT
23054741 GAGAAAAATA
Statistics
Matches: 168, Mismatches: 31, Indels: 57
0.66 0.12 0.22
Matches are distributed among these distances:
7 8 0.05
8 6 0.04
9 69 0.41
10 58 0.35
11 19 0.11
12 8 0.05
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:23054584 original size:19 final size:19
Alignment explanation
Indices: 23054562--23054602 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
23054552 TGTTTTATCT
*
23054562 TTTATAATTACTTTTATAA
1 TTTATAAGTACTTTTATAA
* *
23054581 TTTATTAGTATTTTTATAA
1 TTTATAAGTACTTTTATAA
23054600 TTT
1 TTT
23054603 TTATAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATAAGTACTTTTATAA
Found at i:23054631 original size:18 final size:18
Alignment explanation
Indices: 23054574--23054625 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
23054564 TATAATTACT
*
23054574 TTTATAATTTATTAGT-ATT
1 TTTATAATTT-TTA-TAATA
23054593 TTTATAATTTTTATAATA
1 TTTATAATTTTTATAATA
23054611 TTTATAAGTTTTTAT
1 TTTATAA-TTTTTAT
23054626 GAATTTCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
19 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTATAATTTTTATAATA
Found at i:23055848 original size:20 final size:20
Alignment explanation
Indices: 23055825--23055867 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
23055815 CATTTTTTTA
23055825 TTTTATTCTTTCT-TTTCCTC
1 TTTTATT-TTTCTATTTCCTC
*
23055845 TTTTCTTTTTCTATTTCCTC
1 TTTTATTTTTCTATTTCCTC
23055865 TTT
1 TTT
23055868 CAATTGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTCTATTTCCTC
Found at i:23056878 original size:2 final size:2
Alignment explanation
Indices: 23056873--23056907 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23056863 TATATATATA
23056873 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23056908 ATGAATTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:23057534 original size:15 final size:15
Alignment explanation
Indices: 23057514--23057544 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23057504 AAAACAACAT
23057514 AACTCTTAACCTTTC
1 AACTCTTAACCTTTC
*
23057529 AACTCTTGACCTTTC
1 AACTCTTAACCTTTC
23057544 A
1 A
23057545 CTTACATAAC
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:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (15 bp):
AACTCTTAACCTTTC
Found at i:23060923 original size:15 final size:15
Alignment explanation
Indices: 23060905--23060934 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23060895 TCCCTTCTTG
*
23060905 ACCACGACCTTTTCC
1 ACCACGACCATTTCC
23060920 ACCACGACCATTTCC
1 ACCACGACCATTTCC
23060935 TCGATCTCCA
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:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCATTTCC
Found at i:23061893 original size:15 final size:15
Alignment explanation
Indices: 23061873--23061903 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23061863 AAAATAACAT
23061873 AACTCTTAACCTTTC
1 AACTCTTAACCTTTC
*
23061888 AACTCTTGACCTTTC
1 AACTCTTAACCTTTC
23061903 A
1 A
23061904 CTTACATAAC
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:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (15 bp):
AACTCTTAACCTTTC
Found at i:23064906 original size:16 final size:16
Alignment explanation
Indices: 23064881--23064923 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
23064871 TAATTTTTTA
* *
23064881 TTAAATATATAAACAT
1 TTAAAAATATAAAAAT
*
23064897 TTAAACATATAAAAAT
1 TTAAAAATATAAAAAT
*
23064913 ATAAAAATATA
1 TTAAAAATATA
23064924 TATGTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAAATATAAAAAT
Found at i:23071985 original size:28 final size:28
Alignment explanation
Indices: 23071955--23072010 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
23071945 TGTAAAGCAA
*
23071955 GGGATAAAATTGTAAAATCTAAA-AAATAG
1 GGGA-AAAATTATAAAATC-AAAGAAATAG
23071984 GGGAAAAATTATAAAATCAAAGAAATA
1 GGGAAAAATTATAAAATCAAAGAAATA
23072011 AAGAACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 3 0.12
28 18 0.72
29 4 0.16
ACGTcount: A:0.59, C:0.04, G:0.16, T:0.21
Consensus pattern (28 bp):
GGGAAAAATTATAAAATCAAAGAAATAG
Found at i:23076187 original size:20 final size:21
Alignment explanation
Indices: 23076164--23076203 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23076154 TTTGTACTTA
*
23076164 TCTAATGTC-TTTTTCTTTCT
1 TCTAATGTCATTTATCTTTCT
*
23076184 TCTAATTTCATTTATCTTTC
1 TCTAATGTCATTTATCTTTC
23076204 CAAGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.20, G:0.03, T:0.62
Consensus pattern (21 bp):
TCTAATGTCATTTATCTTTCT
Found at i:23078940 original size:29 final size:29
Alignment explanation
Indices: 23078907--23078974 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
23078897 ATCGACAAAT
** *
23078907 GAAAAGGGATAGTTTCGGCTATCGAATAC
1 GAAAAGGGATACCTTCAGCTATCGAATAC
* *
23078936 GAAAAGGGATACCTTCAGCTATCGATTAT
1 GAAAAGGGATACCTTCAGCTATCGAATAC
23078965 GAAAAGGGAT
1 GAAAAGGGAT
23078975 GATGACAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
GAAAAGGGATACCTTCAGCTATCGAATAC
Found at i:23078995 original size:29 final size:29
Alignment explanation
Indices: 23078963--23079032 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
23078953 GCTATCGATT
23078963 ATGAAAAGGGATGATGACAACCATCAACA
1 ATGAAAAGGGATGATGACAACCATCAACA
* * *
23078992 ATGAAAAGGGATGGTGACGACCATCGACA
1 ATGAAAAGGGATGATGACAACCATCAACA
23079021 ATGAAAAGGGAT
1 ATGAAAAGGGAT
23079033 AGCTTTGGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.44, C:0.14, G:0.27, T:0.14
Consensus pattern (29 bp):
ATGAAAAGGGATGATGACAACCATCAACA
Found at i:23079057 original size:30 final size:30
Alignment explanation
Indices: 23079021--23079182 Score: 146
Period size: 30 Copynumber: 5.4 Consensus size: 30
23079011 ACCATCGACA
*
23079021 ATGAAAAGGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* * * * * *
23079051 ATGAAAAGGGAT-GGTGACGACCATCGAACT
1 ATGAAAAGGGATAGCT-TCGGCTATCAAATT
* **
23079081 ATGAAAAGGGATAACTTCAACTATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* * **
23079111 ATGAAAAGGGATAGCTTCGGCTGTCGAACA
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* * *
23079141 ATGAAAAGGGATAACTTCGGTTATCAAATC
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
*
23079171 ACGAAAAGGGAT
1 ATGAAAAGGGAT
23079183 GTGTCAACCA
Statistics
Matches: 102, Mismatches: 28, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
29 2 0.02
30 99 0.97
31 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGGCTATCAAATT
Found at i:23079114 original size:60 final size:60
Alignment explanation
Indices: 23078992--23079183 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
23078982 ACCATCAACA
* *
23078992 ATGAAAAGGGATGGTGACGACCATCG-ACAATGAAAAGGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATAACTTCGGCTATCAAATT
* **
23079051 ATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAACTTCAACTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATAACTTCGGCTATCAAATT
* * * ** * *
23079111 ATGAAAAGGGATAGCT-TCGGCTGTCGAACAATGAAAAGGGATAACTTCGGTTATCAAATC
1 ATGAAAAGGGAT-GGTGACGACCATCGAACAATGAAAAGGGATAACTTCGGCTATCAAATT
*
23079171 ACGAAAAGGGATG
1 ATGAAAAGGGATG
23079184 TGTCAACCAT
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
59 27 0.23
60 86 0.75
61 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATAACTTCGGCTATCAAATT
Found at i:23086638 original size:29 final size:29
Alignment explanation
Indices: 23086605--23086672 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
23086595 ATCGACAAAT
*
23086605 GAAAAGGGATAGTTTCAG-CTATCGAATAC
1 GAAAAGGGATAG-CTCAGACTATCGAATAC
* * *
23086634 GAAAAGGGATAGCTCCGACTATCGATTAT
1 GAAAAGGGATAGCTCAGACTATCGAATAC
23086663 GAAAAGGGAT
1 GAAAAGGGAT
23086673 GGTGATGACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
GAAAAGGGATAGCTCAGACTATCGAATAC
Found at i:23086754 original size:30 final size:30
Alignment explanation
Indices: 23086718--23086969 Score: 179
Period size: 30 Copynumber: 8.4 Consensus size: 30
23086708 GGCCATCGAC
* *
23086718 TATGAAAAGGGATAGCTTCGGCTATCCAAT
1 TATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
23086748 TATGAAAAGGGAT-GGTGACGACCATCGAAT
1 TATGAAAAGGGATAGCT-TCGACTATCGAAT
* * * * * *
23086778 AATGAAAAGGGCT-GGTGACGACCATCGAAC
1 TATGAAAAGGGATAGCT-TCGACTATCGAAT
*
23086808 TATGAAAAGGGATAGCTTCGACTATCAAAT
1 TATGAAAAGGGATAGCTTCGACTATCGAAT
* * * * *
23086838 TATGAAAAGGGAT-GGTGACGACCATTGAAC
1 TATGAAAAGGGATAGCT-TCGACTATCGAAT
* **
23086868 TATGAAAAGGGATAGCTTCGGCTATTAAAT
1 TATGAAAAGGGATAGCTTCGACTATCGAAT
* * * * *
23086898 TATGAAAAGGGATGGCTTTGGCTGTCGAAC
1 TATGAAAAGGGATAGCTTCGACTATCGAAT
* * **
23086928 TATGAAAAGGGATAACTTTGGTTATCGAAT
1 TATGAAAAGGGATAGCTTCGACTATCGAAT
*
23086958 TA-AAAAAGGGAT
1 TATGAAAAGGGAT
23086970 GGATCAACGA
Statistics
Matches: 179, Mismatches: 39, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
29 13 0.07
30 162 0.91
31 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.24
Consensus pattern (30 bp):
TATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:23086840 original size:90 final size:89
Alignment explanation
Indices: 23086625--23086880 Score: 358
Period size: 90 Copynumber: 2.9 Consensus size: 89
23086615 AGTTTCAGCT
* * * *
23086625 ATCGAA-TACGAAAAGGGATAGCTCCGACTATCGATTATGAAAAGGGATGGTGATGACCATC-AA
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTGACGACCATCGAA
* * *
23086688 CAATGAAAAAGGATGGTAACGGCC
66 TAATGAAAAGGGATGGTAACGACC
*
23086712 ATCG-ACTATGAAAAGGGATAGCTTCGGCTATCCAATTATGAAAAGGGATGGTGACGACCATCGA
1 ATCGAACTATGAAAAGGGATAGCTTCGACTAT-CAATTATGAAAAGGGATGGTGACGACCATCGA
* *
23086776 ATAATGAAAAGGGCTGGTGACGACC
65 ATAATGAAAAGGGATGGTAACGACC
*
23086801 ATCGAACTATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATTGA
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATC-AATTATGAAAAGGGATGGTGACGACCATCGA
23086866 ACT-ATGAAAAGGGAT
65 A-TAATGAAAAGGGAT
23086881 AGCTTCGGCT
Statistics
Matches: 150, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
86 1 0.01
87 26 0.17
88 28 0.19
89 26 0.17
90 68 0.45
91 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (89 bp):
ATCGAACTATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGTGACGACCATCGAA
TAATGAAAAGGGATGGTAACGACC
Found at i:23086932 original size:90 final size:90
Alignment explanation
Indices: 23086634--23086940 Score: 327
Period size: 90 Copynumber: 3.4 Consensus size: 90
23086624 TATCGAATAC
* * * * *
23086634 GAAAAGGGATAGCTCCGACTATC-GATTATGAAAAGGGATGGTGATGACCATC-AACAATGAAAA
1 GAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAATAATGAAAA
* * * * *
23086697 AGGATGGTAACGGCCATC-GACTAT
66 GGGATGCTGACGACCATCAAACTAT
*
23086721 GAAAAGGGATAGCTTCGGCTATCCAATTATGAAAAGGGATGGTGACGACCATCGAATAATGAAAA
1 GAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAATAATGAAAA
* * *
23086786 GGGCTGGTGACGACCATCGAACTAT
66 GGGATGCTGACGACCATCAAACTAT
* *
23086811 GAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATTGAACT-ATGAAA
1 GAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAA-TAATGAAA
* * * * *
23086875 AGGGATAGCT-TCGGCTATTAAATTAT
65 AGGGAT-GCTGACGACCATCAAACTAT
* * * * *
23086901 GAAAAGGGATGGCTTTGGCTGTCGAACTATGAAAAGGGAT
1 GAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGAT
23086941 AACTTTGGTT
Statistics
Matches: 188, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
87 21 0.11
88 27 0.14
89 24 0.13
90 113 0.60
91 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (90 bp):
GAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAATAATGAAAA
GGGATGCTGACGACCATCAAACTAT
Found at i:23086941 original size:60 final size:60
Alignment explanation
Indices: 23086625--23086912 Score: 257
Period size: 60 Copynumber: 4.9 Consensus size: 60
23086615 AGTTTCAGCT
* * * *
23086625 ATCGAA-TACGAAAAGGGATAGCTCCGACTATC-GATTATGAAAAGGGATGGTGATGACC
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACC
* * * * * * * * * * * *
23086683 ATC-AACAATGAAAAAGGAT-GGTAACGGCCATC-GACTATGAAAAGGGATAGCT-TCGGCT
1 ATCGAACTATGAAAAGGGATAGCT-TCGACTATCAAATTATGAAAAGGGAT-GGTGACGACC
* * * * * * * *
23086741 ATCCAATTATGAAAAGGGAT-GGTGACGACCATCGAATAATGAAAAGGGCTGGTGACGACC
1 ATCGAACTATGAAAAGGGATAGCT-TCGACTATCAAATTATGAAAAGGGATGGTGACGACC
23086801 ATCGAACTATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACC
* * *
23086861 ATTGAACTATGAAAAGGGATAGCTTCGGCTATTAAATTATGAAAAGGGATGG
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGG
23086913 CTTTGGCTGT
Statistics
Matches: 186, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
57 4 0.02
58 39 0.21
59 28 0.15
60 113 0.61
61 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (60 bp):
ATCGAACTATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACC
Found at i:23086959 original size:60 final size:60
Alignment explanation
Indices: 23086625--23086971 Score: 253
Period size: 60 Copynumber: 5.9 Consensus size: 60
23086615 AGTTTCAGCT
* * * * *
23086625 ATCGAA-TACGAAAAGGGATAGCTCCGACTATC-GATTATGAAAAGGGATGGTGATGACC
1 ATCGAACTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACC
* * * * * * * * * * *
23086683 ATC-AACAATGAAAAAGGAT-GGTAACGGCCATC-GACTATGAAAAGGGATAGCT-TCGGCT
1 ATCGAACTATGAAAAGGGATAGCT-TCGGCTATCAAATTATGAAAAGGGAT-GGTGACGACC
* * * * * * * * *
23086741 ATCCAATTATGAAAAGGGAT-GGTGACGACCATCGAATAATGAAAAGGGCTGGTGACGACC
1 ATCGAACTATGAAAAGGGATAGCT-TCGGCTATCAAATTATGAAAAGGGATGGTGACGACC
*
23086801 ATCGAACTATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCGAACTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACC
* * ** * *
23086861 ATTGAACTATGAAAAGGGATAGCTTCGGCTATTAAATTATGAAAAGGGATGGCT-TTGGCT
1 ATCGAACTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGG-TGACGACC
* * * * * *
23086921 GTCGAACTATGAAAAGGGATAACTTTGGTTATCGAATTA-AAAAAGGGATGG
1 ATCGAACTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGG
23086972 ATCAACGATC
Statistics
Matches: 232, Mismatches: 49, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
57 4 0.02
58 39 0.17
59 39 0.17
60 147 0.63
61 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (60 bp):
ATCGAACTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACC
Done.