Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 42 of 444
Found at i:10323360 original size:12 final size:12
Alignment explanation
Indices: 10323321--10323363 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
10323311 ATTTTTAAAA
10323321 TTAAATTTAATG
1 TTAAATTTAATG
**
10323333 TTAAATTTAAAA
1 TTAAATTTAATG
10323345 TTAAATTTAATG
1 TTAAATTTAATG
10323357 TTAAATT
1 TTAAATT
10323364 AACTCGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (12 bp):
TTAAATTTAATG
Found at i:10330754 original size:44 final size:44
Alignment explanation
Indices: 10330691--10330778 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
10330681 AGTTTGAGAA
10330691 AATTTCTTTAAACACTATTAAGTGTTTGTGTACAGACGCACCTT
1 AATTTCTTTAAACACTATTAAGTGTTTGTGTACAGACGCACCTT
*
10330735 AATTTCTTTAAACATTATTAAGTGTTTGTGTACAGACGCACCTT
1 AATTTCTTTAAACACTATTAAGTGTTTGTGTACAGACGCACCTT
10330779 CCTCCAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (44 bp):
AATTTCTTTAAACACTATTAAGTGTTTGTGTACAGACGCACCTT
Found at i:10331540 original size:27 final size:25
Alignment explanation
Indices: 10331510--10331563 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
10331500 ATTCTAACAG
10331510 TTTCATTTT-TCTCTTATTTTCAACTTT
1 TTTC-TTTTATCTCTTATTTT-AA-TTT
*
10331537 TTTCTTTTATCTCTTCTTTTAATTT
1 TTTCTTTTATCTCTTATTTTAATTT
10331562 TT
1 TT
10331564 AATTATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 6 0.24
27 14 0.56
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTCTTTTATCTCTTATTTTAATTT
Found at i:10334513 original size:31 final size:31
Alignment explanation
Indices: 10334468--10334548 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
10334458 GTCATTAATT
* *
10334468 TATTCAAAAATTTTCATTTAGGTTATTAAAC
1 TATTTAAAAGTTTTCATTTAGGTTATTAAAC
* * * *
10334499 TCTTTGAAAGTTTTCATTTAGGTTGTTGAAC
1 TATTTAAAAGTTTTCATTTAGGTTATTAAAC
*
10334530 TATTTAAAAGTTTTTATTT
1 TATTTAAAAGTTTTCATTT
10334549 GACTCACTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (31 bp):
TATTTAAAAGTTTTCATTTAGGTTATTAAAC
Found at i:10339016 original size:23 final size:22
Alignment explanation
Indices: 10338988--10339098 Score: 73
Period size: 24 Copynumber: 4.8 Consensus size: 22
10338978 CTAATTTATT
*
10338988 ATTTAAATTATTTAAATTATAAA
1 ATTTAAATTATTTAAATT-CAAA
10339011 ATTT-AATTCAATTTAAATTCAAA
1 ATTTAAATT--ATTTAAATTCAAA
* * *
10339034 ACTTAAATTAAATT-AACTCAAATA
1 ATTTAAATT-ATTTAAATTC-AA-A
*
10339058 ATTTAAATAATTTAAAATTCAAA
1 ATTTAAATTATTT-AAATTCAAA
* *
10339081 ATTCAAAATTCTTTAAAT
1 ATT-TAAATTATTTAAAT
10339099 CTAATTGTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
22 8 0.12
23 27 0.39
24 30 0.43
25 4 0.06
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTTAAATTATTTAAATTCAAA
Found at i:10341001 original size:31 final size:31
Alignment explanation
Indices: 10340966--10341085 Score: 132
Period size: 31 Copynumber: 3.9 Consensus size: 31
10340956 GTAAGTCACC
* * * *
10340966 GAACTATTCAAAAGTTTTTATTTAAATTAAT
1 GAACTATTTAAAAGTTCTCATTTAAATTATT
**
10340997 GAACTATTTAAAAGTTCTCATTTAGGTTATT
1 GAACTATTTAAAAGTTCTCATTTAAATTATT
* **
10341028 GAACCATTTAAAAGTTCTCATTTAGGTTATT
1 GAACTATTTAAAAGTTCTCATTTAAATTATT
* * *
10341059 AAACTATTTAAAAGTTTTTATTTAAAT
1 GAACTATTTAAAAGTTCTCATTTAAAT
10341086 CACTGAGTTG
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (31 bp):
GAACTATTTAAAAGTTCTCATTTAAATTATT
Found at i:10342441 original size:121 final size:121
Alignment explanation
Indices: 10342227--10342471 Score: 418
Period size: 121 Copynumber: 2.0 Consensus size: 121
10342217 CGGAACAACA
*
10342227 ATGCTAAACTAAGCTTCAGTGTCGAGTGGACTGTAATATATTTTTAGCAGATTCCAAGACACGTA
1 ATGCTAAACTAAGCTTCAGTGTCGAGTGGACTGTAATATAGTTTTAGCAGATTCCAAGACACGTA
* *
10342292 TAATATCAGCTTCCCCAAGACTGATTTCAAGTCTAGTGAAGAACCTCAAGTCCGCC
66 TAATATCAGCTTCCCCAAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCACC
* * *
10342348 ATGCTAAACTCAGCTTCAGTGTCGAGTGGACTGTAATATAGTTTTAGCAGATTCCAAGACGCGTG
1 ATGCTAAACTAAGCTTCAGTGTCGAGTGGACTGTAATATAGTTTTAGCAGATTCCAAGACACGTA
* *
10342413 TAATATCAGGTTCCCCTAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCACC
66 TAATATCAGCTTCCCCAAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCACC
10342469 ATG
1 ATG
10342472 TTCGATGTTG
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 116 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (121 bp):
ATGCTAAACTAAGCTTCAGTGTCGAGTGGACTGTAATATAGTTTTAGCAGATTCCAAGACACGTA
TAATATCAGCTTCCCCAAGACTGATTTCAAGGCTAGTGAAGAACCTCAAGTCCACC
Found at i:10345330 original size:19 final size:19
Alignment explanation
Indices: 10345306--10345393 Score: 61
Period size: 19 Copynumber: 4.4 Consensus size: 19
10345296 CTTAATAAAA
10345306 ATAAAAATAAATAAAAATT
1 ATAAAAATAAATAAAAATT
* **
10345325 ATAAAAATAATTAAATTTT
1 ATAAAAATAAATAAAAATT
**
10345344 AATTAAAAATTAAATAATTATT
1 -A-TAAAAA-TAAATAAAAATT
* *
10345366 -TAAAATTAGATAAAAGAATT
1 ATAAAAATAAAT-AAA-AATT
10345386 ATAAAAAT
1 ATAAAAAT
10345394 CGTAAAAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
18 4 0.08
19 23 0.44
20 4 0.08
21 12 0.23
22 9 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAAAAATAAATAAAAATT
Found at i:10351053 original size:23 final size:23
Alignment explanation
Indices: 10351026--10351069 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10351016 TTTTTGGTTA
10351026 TTACTAATGTT-CCACTTATTATT
1 TTACTAATGTTACCA-TTATTATT
*
10351049 TTACTATTGTTACCATTATTA
1 TTACTAATGTTACCATTATTA
10351070 AATAGTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (23 bp):
TTACTAATGTTACCATTATTATT
Found at i:10353591 original size:9 final size:9
Alignment explanation
Indices: 10353577--10353602 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10353567 ATTACCCATT
10353577 GAACACTAG
1 GAACACTAG
10353586 GAACACTAG
1 GAACACTAG
10353595 GAACACTA
1 GAACACTA
10353603 ATAGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (9 bp):
GAACACTAG
Found at i:10355779 original size:6 final size:6
Alignment explanation
Indices: 10355767--10355800 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10355757 GGTAATGCAA
* *
10355767 AGTGTT GGTGTT GGTGTT AGTGTT AGTGTT AGTG
1 AGTGTT AGTGTT AGTGTT AGTGTT AGTGTT AGTG
10355801 GGTATATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (6 bp):
AGTGTT
Found at i:10358118 original size:23 final size:24
Alignment explanation
Indices: 10358069--10358120 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
10358059 CTATGTTAAA
* *
10358069 AAAAAATTAATTATAAAAATATTC
1 AAAAAATTAATAATAAAAATATAC
10358093 AAAAAATT-ATAAT-AAAATAATAC
1 AAAAAATTAATAATAAAAAT-ATAC
10358116 AAAAA
1 AAAAA
10358121 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 12 0.48
24 8 0.32
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAAAATTAATAATAAAAATATAC
Found at i:10358120 original size:24 final size:25
Alignment explanation
Indices: 10358068--10358120 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
10358058 GCTATGTTAA
* *
10358068 AAAAAAATTAATTATAAAAATATTC
1 AAAAAAATTAATAATAAAAATATAC
10358093 -AAAAAATT-ATAAT-AAAATAATAC
1 AAAAAAATTAATAATAAAAAT-ATAC
10358116 AAAAA
1 AAAAA
10358121 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 5 0.21
23 7 0.29
24 12 0.50
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAAAAATTAATAATAAAAATATAC
Found at i:10373898 original size:63 final size:63
Alignment explanation
Indices: 10373799--10373924 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
10373789 ACAAGTTTCG
10373799 ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCGGCAATTAAGTACTTACT
1 ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCGGCAATTAAGTACTTACT
*
10373862 ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCGGTAATTAAGTACTTACT
1 ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCGGCAATTAAGTACTTACT
10373925 TGCCAAGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (63 bp):
ATCTTATCTTGTAGGTACCAAAGTAACTGTCTATACAGACCACTCGGCAATTAAGTACTTACT
Found at i:10376625 original size:24 final size:24
Alignment explanation
Indices: 10376597--10376646 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
10376587 ACTGAATAGT
10376597 GTAAGAAATTTAACATTTACTTAA
1 GTAAGAAATTTAACATTTACTTAA
10376621 GTAAGAAATTTAACATTTACTTAA
1 GTAAGAAATTTAACATTTACTTAA
10376645 GT
1 GT
10376647 CATATATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (24 bp):
GTAAGAAATTTAACATTTACTTAA
Found at i:10377419 original size:6 final size:6
Alignment explanation
Indices: 10377408--10377442 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
10377398 CACCACAACG
10377408 GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
10377443 GGTACAACAA
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:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:10378384 original size:3 final size:3
Alignment explanation
Indices: 10378376--10378457 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
10378366 AATTTGGATG
10378376 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10378423 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10378458 TCGTATGTCT
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 76 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10380185 original size:2 final size:2
Alignment explanation
Indices: 10380178--10380208 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10380168 TTGCTAATTT
10380178 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
10380209 TCTGCATACA
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:10381554 original size:14 final size:14
Alignment explanation
Indices: 10381530--10381569 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
10381520 AGTCCTAATT
10381530 TTTCTTTTCTTTTTC
1 TTTC-TTTCTTTTTC
10381545 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
10381559 TTTCTTTCTTT
1 TTTCTTTCTTT
10381570 CCCTGCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:10382976 original size:29 final size:29
Alignment explanation
Indices: 10382909--10382978 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
10382899 TAAAAAGGGA
10382909 ACACGGTCATGTGGGGCCTGTGTTGGGCC
1 ACACGGTCATGTGGGGCCTGTGTTGGGCC
**
10382938 ACACAATCATGTGGGGCCTGTGTTGGGCC
1 ACACGGTCATGTGGGGCCTGTGTTGGGCC
10382967 ACACGGTCATGT
1 ACACGGTCATGT
10382979 CACACACCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (29 bp):
ACACGGTCATGTGGGGCCTGTGTTGGGCC
Found at i:10392038 original size:35 final size:36
Alignment explanation
Indices: 10391991--10392062 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
10391981 GCAACCATAT
10391991 ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
1 ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
10392027 ATTG-AAATTCAACTGAAAGAACATCAAAGTTTCAA
1 ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
10392062 A
1 A
10392063 CATTCCAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (36 bp):
ATTGAAAATTCAACTGAAAGAACATCAAAGTTTCAA
Found at i:10403500 original size:30 final size:30
Alignment explanation
Indices: 10403465--10403522 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
10403455 CACGGCCATG
* *
10403465 ACACACCGGTATCTGG-TCTACCCGTGTGTC
1 ACACACAGGCATCTGGATC-ACCCGTGTGTC
*
10403495 ACACACAGGCATGTGGATCACCCGTGTG
1 ACACACAGGCATCTGGATCACCCGTGTG
10403523 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.22
Consensus pattern (30 bp):
ACACACAGGCATCTGGATCACCCGTGTGTC
Found at i:10405333 original size:25 final size:25
Alignment explanation
Indices: 10405286--10405334 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10405276 TAAATTTTTC
*
10405286 TTAATTTTTAATTTTATTCAATTAG
1 TTAATTTTTAATTTCATTCAATTAG
*
10405311 TTAATTTTTCAA-TTCATTGAATTA
1 TTAATTTTT-AATTTCATTCAATTA
10405335 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
TTAATTTTTAATTTCATTCAATTAG
Found at i:10413738 original size:18 final size:18
Alignment explanation
Indices: 10413697--10413735 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10413687 ATTTTGGTTA
*
10413697 AAATTAAATTAATCGATT
1 AAATTAAATTAATCAATT
*
10413715 AAATTAATTTAATTCAATT
1 AAATTAAATTAA-TCAATT
10413734 AA
1 AA
10413736 TTAGTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATTAAATTAATCAATT
Found at i:10414684 original size:26 final size:26
Alignment explanation
Indices: 10414655--10414762 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
10414645 TGGTACAAAT
*
10414655 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10414681 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10414707 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10414733 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10414759 TGAT
1 TGAT
10414763 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10415953 original size:8 final size:8
Alignment explanation
Indices: 10415940--10415969 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10415930 AGATCGAGAC
10415940 AAGCCGAA
1 AAGCCGAA
10415948 AAGCCGAA
1 AAGCCGAA
*
10415956 ATGCCGAA
1 AAGCCGAA
10415964 AAGCCG
1 AAGCCG
10415970 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:10416408 original size:27 final size:26
Alignment explanation
Indices: 10416359--10416526 Score: 185
Period size: 27 Copynumber: 6.2 Consensus size: 26
10416349 AGGAAGCGTC
*
10416359 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
10416386 CTGGTGGCTCTGCTACATATATCTG-T
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* *
10416412 CCTCGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTGAT
* *
10416440 CTGGTGACTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
10416467 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* *
10416494 CTGGTGGCTCTACCACAATATCTATAT
1 CTGGTGGCTCTGCCACAATATCT-GAT
10416521 CTGGTG
1 CTGGTG
10416527 ACTTCATCAC
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.07
27 111 0.91
28 3 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:10416438 original size:54 final size:54
Alignment explanation
Indices: 10416356--10416516 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 54
10416346 TGGAGGAAGC
*
10416356 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCTACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
10416410 GTCCTCGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * *
10416464 GTTCTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTACCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCT
10416517 ATATCTGGTG
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 8 0.08
54 89 0.92
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:10416501 original size:81 final size:81
Alignment explanation
Indices: 10416359--10416529 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
10416349 AGGAAGCGTC
* *
10416359 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCTACATATATCTGTCCTCGTGGCTAT
1 CTGGTGACTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTCGTGGCTAT
*
10416424 GCCACAATTATCT-GAT
66 ACCACAA-TATCTAGAT
* * * * *
10416440 CTGGTGACTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTC
1 CTGGTGACTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTCGTGGCTA
*
10416504 TACCACAATATCTATAT
65 TACCACAATATCTAGAT
10416521 CTGGTGACT
1 CTGGTGACT
10416530 TCATCACAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 7 0.09
81 72 0.91
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (81 bp):
CTGGTGACTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTCGTGGCTAT
ACCACAATATCTAGAT
Found at i:10419454 original size:17 final size:17
Alignment explanation
Indices: 10419419--10419456 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10419409 TTGTTTGTTG
*
10419419 TGGGCTAGGGTTTAGTT
1 TGGGCTAGGGTTTAATT
10419436 TGGGCCTAGGG-TTAATT
1 TGGG-CTAGGGTTTAATT
10419453 TGGG
1 TGGG
10419457 TTTAAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.13, C:0.08, G:0.42, T:0.37
Consensus pattern (17 bp):
TGGGCTAGGGTTTAATT
Found at i:10419907 original size:44 final size:44
Alignment explanation
Indices: 10419786--10420421 Score: 149
Period size: 44 Copynumber: 13.8 Consensus size: 44
10419776 CAGAGAGGCT
* * * *
10419786 AGACTTGTAGCTTTAATCTGTTCCACTACAACTTTAGTGAA-ATA
1 AGACTTGTAACTTCAATCTGCTCCACTACAACTTCAG-GAAGATA
* * * * *
10419830 AGA-TTAGCTATCTTCAGTTTGCCCCACTGCAACTTCAGGAAGATA
1 AGACTT-G-TAACTTCAATCTGCTCCACTACAACTTCAGGAAGATA
* *
10419875 AGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGAAGACA
1 AGACTTGTAACTTCAATCTGCTCCACTACAACTTCAGGAAGATA
* * * ** *
10419919 AGGTTAATGGTAACTTTAATCTGCTCTGCTACAACTTCAGGGAGATA
1 A-G--ACTTGTAACTTCAATCTGCTCCACTACAACTTCAGGAAGATA
* ** * **
10419966 AGA-TTAATGGCTTCAATATGCTCCACTGTAACTTCA-GAGAGATA
1 AGACTT-GTAACTTCAATCTGCTCCACTACAACTTCAGGA-AGATA
* ** * * * * *
10420010 AGATTCACCATGATAGA-TTTGATCCGATCTACTGCAACTTCA-GAGGTATA
1 AG----A-CTTG-TA-ACTTCAATCTGCTCCACTACAACTTCAGGAAG-ATA
* ** * *
10420060 GGACTTGTAACTCCTAGCTTTAATCTATTCCACTGCAACTTCAGGGAA-ATG
1 AGACTTGTAACT--T--C---AATCTGCTCCACTACAACTTCA-GGAAGATA
* * * * *
10420111 AGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 AGACTTG-TAACTTCAATCTGCTCCACTACAACTTCAGGAAGATA
* * **
10420156 AGACTTGTAACTTCAACCTGCTCAACTGTAACTTCATGG-AGATA
1 AGACTTGTAACTTCAATCTGCTCCACTACAACTTCA-GGAAGATA
* * * * * * ** * *
10420200 AG-GTTCATGACTTTAATTTGTTCCACTGTAACTTTAGGGAGATA
1 AGACTT-GTAACTTCAATCTGCTCCACTACAACTTCAGGAAGATA
* * * * * *
10420244 AGATTTGTTTATTTCTTTACCTGCTCCACTACAACTTTAAGG-AGATA
1 AGACTTG-TAACTTC--AATCTGCTCCACTACAAC-TTCAGGAAGATA
** * * * * * * *
10420291 AGGTTTATAGCTTTAATCTGCTCTATTGCAACTTCAGGGAGATA
1 AGACTTGTAACTTCAATCTGCTCCACTACAACTTCAGGAAGATA
* * * *
10420335 AGATTTTCCATGATAACTTCGATATGCTCCACTGCAACTTCAGGAAGATA
1 AGA-----CTTG-TAACTTCAATCTGCTCCACTACAACTTCAGGAAGATA
* * ** * *
10420385 AAATTTGTGGCTTCAATTTGCTCCACTGCAACTTCAG
1 AGACTTGTAACTTCAATCTGCTCCACTACAACTTCAG
10420422 AGAGACAAGA
Statistics
Matches: 426, Mismatches: 121, Indels: 90
0.67 0.19 0.14
Matches are distributed among these distances:
43 14 0.03
44 179 0.42
45 70 0.16
46 8 0.02
47 57 0.13
48 7 0.02
49 2 0.00
50 59 0.14
51 24 0.06
52 4 0.01
53 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
AGACTTGTAACTTCAATCTGCTCCACTACAACTTCAGGAAGATA
Found at i:10419951 original size:47 final size:47
Alignment explanation
Indices: 10419853--10419975 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 47
10419843 TCAGTTTGCC
* * *
10419853 CCACTGCAACTTCAGGAAGATAAGACT--T-GTAACTTCAACCTGCT
1 CCACTACAACTTCAGGAAGACAAGATTAATGGTAACTTCAACCTGCT
* * *
10419897 CCACTACAACTTCAGGAAGACAAGGTTAATGGTAACTTTAATCTGCT
1 CCACTACAACTTCAGGAAGACAAGATTAATGGTAACTTCAACCTGCT
** * *
10419944 CTGCTACAACTTCAGGGAGATAAGATTAATGG
1 CCACTACAACTTCAGGAAGACAAGATTAATGG
10419976 CTTCAATATG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 23 0.35
46 1 0.02
47 41 0.63
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (47 bp):
CCACTACAACTTCAGGAAGACAAGATTAATGGTAACTTCAACCTGCT
Found at i:10420294 original size:91 final size:88
Alignment explanation
Indices: 10420128--10420340 Score: 239
Period size: 91 Copynumber: 2.4 Consensus size: 88
10420118 CTATCTTCAG
* ** *
10420128 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCAACTGTAACTTCAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTGCTCAACTACAACTTCAA
10420193 GGAGATAAGGTTCAT-GACTTTAA
66 GGAGATAAGGTTCATAG-CTTTAA
* * * * * * * *
10420216 TTTGTTCCACTGTAACTTTAGGGAGATAAGATTTGTTTATTTCTTTACCTGCTCCACTACAACTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTC--AACCTGCTCAACTACAACTT
* *
10420281 TAAGGAGATAAGGTTTATAGCTTTAA
63 CAAGGAGATAAGGTTCATAGCTTTAA
* *
10420307 TCTGCTCTATTGCAACTTCAGGGAGATAAGATTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
10420341 TCCATGATAA
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 30 0.30
89 5 0.05
91 65 0.64
92 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (88 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTGCTCAACTACAACTTCAA
GGAGATAAGGTTCATAGCTTTAA
Found at i:10420384 original size:50 final size:48
Alignment explanation
Indices: 10420317--10420483 Score: 155
Period size: 50 Copynumber: 3.5 Consensus size: 48
10420307 TCTGCTCTAT
*
10420317 TGCAACTTCAGGGAGATAAGATTTTCCATGATAACTTCGATATGCTCCAC
1 TGCAACTTCAGGAAGATAAGATTTT-CATG-TAACTTCGATATGCTCCAC
* ** * *
10420367 TGCAACTTCAGGAAGATAA-A-ATT--TGTGGCTTCAATTTGCTCCAC
1 TGCAACTTCAGGAAGATAAGATTTTCATGTAACTTCGATATGCTCCAC
* ** *
10420411 TGCAACTTCA-GAGAGACAAGATTCGCTATGGTAACTTCGATATACTCCAC
1 TGCAACTTCAGGA-AGATAAGATTTTC-AT-GTAACTTCGATATGCTCCAC
*
10420461 TGCAACTTCAGGGAGATAAGATT
1 TGCAACTTCAGGAAGATAAGATT
10420484 AATGGCTTCA
Statistics
Matches: 92, Mismatches: 17, Indels: 16
0.74 0.14 0.13
Matches are distributed among these distances:
43 2 0.02
44 30 0.33
45 3 0.03
48 2 0.02
49 2 0.02
50 52 0.57
51 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (48 bp):
TGCAACTTCAGGAAGATAAGATTTTCATGTAACTTCGATATGCTCCAC
Found at i:10420407 original size:94 final size:93
Alignment explanation
Indices: 10420265--10420500 Score: 283
Period size: 94 Copynumber: 2.5 Consensus size: 93
10420255 TTTCTTTACC
* * * * * * * *
10420265 TGCTCCACTACAACTTTAAGGAGATAAGGTTTATAGCTTTAATCTGCTCTATTGCAACTTCAGGG
1 TGCTCCACTGCAAC-TTCAGGAGATAAGATTTATGGCTTCAATCTGCTCCACTGCAACTTCAGAG
* **
10420330 AGATAAGATTTTCCATGATAACTTCGATA
65 AGACAAGATTCGCCATGATAACTTCGATA
* * *
10420359 TGCTCCACTGCAACTTCAGGAAGATAAAATTTGTGGCTTCAATTTGCTCCACTGCAACTTCAGAG
1 TGCTCCACTGCAACTTCAGG-AGATAAGATTTATGGCTTCAATCTGCTCCACTGCAACTTCAGAG
* *
10420424 AGACAAGATTCGCTATGGTAACTTCGATA
65 AGACAAGATTCGCCATGATAACTTCGATA
* *
10420453 TACTCCACTGCAACTTCAGGGAGATAAGATTAATGGCTTCAATCTGCT
1 TGCTCCACTGCAACTTCA-GGAGATAAGATTTATGGCTTCAATCTGCT
10420501 TAAGATTCGC
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
93 5 0.04
94 112 0.94
95 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (93 bp):
TGCTCCACTGCAACTTCAGGAGATAAGATTTATGGCTTCAATCTGCTCCACTGCAACTTCAGAGA
GACAAGATTCGCCATGATAACTTCGATA
Found at i:10420615 original size:46 final size:46
Alignment explanation
Indices: 10420565--10420653 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
10420555 ATTTGTGATT
* * * *
10420565 TCTTCCATCCATCCCACTACTACTCAGGGGTATAGGATTTGTACCA
1 TCTTCAATCCATCCCACTACAAATCAGGGGTATAAGATTTGTACCA
*
10420611 TCTTCAATCCATCCCACTGCAAATCAGGGGTATAAGATTTGTA
1 TCTTCAATCCATCCCACTACAAATCAGGGGTATAAGATTTGTA
10420654 TCATTGATCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTACAAATCAGGGGTATAAGATTTGTACCA
Found at i:10425204 original size:12 final size:13
Alignment explanation
Indices: 10425187--10425215 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10425177 TTATTTTATT
10425187 TAAAAATAAAAA-
1 TAAAAATAAAAAC
10425199 TAAAAATAAAAAC
1 TAAAAATAAAAAC
10425212 TAAA
1 TAAA
10425216 TCCTTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAAAATAAAAAC
Found at i:10428058 original size:11 final size:9
Alignment explanation
Indices: 10428030--10428059 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
10428020 AGTACCTCGC
10428030 AGAAAAGAG
1 AGAAAAGAG
10428039 AGAAAAGAG
1 AGAAAAGAG
10428048 AGAAAAGAG
1 AGAAAAGAG
10428057 AGA
1 AGA
10428060 TGGAACAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
AGAAAAGAG
Found at i:10428557 original size:28 final size:27
Alignment explanation
Indices: 10428513--10428578 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
10428503 ATTGAATTAG
10428513 TAAT-TTATTATAAATATA-AA-TATATA
1 TAATATTATT-TAAATATATAATTA-ATA
10428539 TAATTATTATTTAATATATATAATTAATA
1 TAA-TATTATTTAA-ATATATAATTAATA
10428568 TAATATTATTT
1 TAATATTATTT
10428579 CATAACATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
26 3 0.09
27 4 0.11
28 18 0.51
29 8 0.23
30 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TAATATTATTTAAATATATAATTAATA
Found at i:10428568 original size:9 final size:10
Alignment explanation
Indices: 10428526--10428571 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
10428516 TTTATTATAA
*
10428526 ATATAAATAT
1 ATATAATTAT
10428536 ATATAATTATT
1 ATATAATTA-T
*
10428547 ATTTAA-TAT
1 ATATAATTAT
10428556 ATATAATTA-
1 ATATAATTAT
10428565 ATATAAT
1 ATATAAT
10428572 ATTATTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 13 0.42
10 12 0.39
11 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATATAATTAT
Found at i:10428571 original size:18 final size:18
Alignment explanation
Indices: 10428525--10428573 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
10428515 ATTTATTATA
10428525 AATATAAATATATATAATT
1 AATAT-AATATATATAATT
*
10428544 ATTATTTAATATATATAATT
1 A--ATATAATATATATAATT
10428564 AATATAATAT
1 AATATAATAT
10428574 TATTTCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 14 0.54
21 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATAATATATATAATT
Found at i:10429293 original size:48 final size:48
Alignment explanation
Indices: 10429222--10429317 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
10429212 ATGTGGATAA
*
10429222 ATCATTGTTTATGTTTTATTTTGGCTGTACCGTCACCAGACTTGCAAC
1 ATCATTGTTTATGTTTTATTTTGGCTGTACCATCACCAGACTTGCAAC
*
10429270 ATCATTGTTTATGTTTTATTTTGGCTGTACCATCACCAGGCTTGCAAC
1 ATCATTGTTTATGTTTTATTTTGGCTGTACCATCACCAGACTTGCAAC
10429318 TAAAATAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (48 bp):
ATCATTGTTTATGTTTTATTTTGGCTGTACCATCACCAGACTTGCAAC
Found at i:10429987 original size:30 final size:28
Alignment explanation
Indices: 10429951--10430016 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
10429941 TATTAAAATA
*
10429951 AAGGGCTT-TTTTGAGTAAAAACTATAAGTT
1 AAGGGCTTATTTT-ACTAAAAA--ATAAGTT
*
10429981 AAGGGCTTATTTTACTAAAAAATAGGTT
1 AAGGGCTTATTTTACTAAAAAATAAGTT
10430009 AAGGGCTT
1 AAGGGCTT
10430017 GTTTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 14 0.42
30 15 0.45
31 4 0.12
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (28 bp):
AAGGGCTTATTTTACTAAAAAATAAGTT
Found at i:10434960 original size:21 final size:22
Alignment explanation
Indices: 10434934--10434974 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10434924 CTAAGTTCAC
*
10434934 TTTGGATTTTCTT-TTTTATGT
1 TTTGGATATTCTTCTTTTATGT
10434955 TTTGGATATTCTTCTTTTAT
1 TTTGGATATTCTTCTTTTAT
10434975 TTCAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.68
Consensus pattern (22 bp):
TTTGGATATTCTTCTTTTATGT
Found at i:10438526 original size:20 final size:19
Alignment explanation
Indices: 10438494--10438534 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10438484 AAAACCCCAA
10438494 TTTTTCCTTTTTCTTTCCC
1 TTTTTCCTTTTTCTTTCCC
* *
10438513 TTTTTCTTTCTTTCTTTTCC
1 TTTTTCCTT-TTTCTTTCCC
10438533 TT
1 TT
10438535 ATCTGTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTCCTTTTTCTTTCCC
Found at i:10438653 original size:25 final size:24
Alignment explanation
Indices: 10438608--10438657 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
10438598 TTATTATACT
*
10438608 AATATAGTATAATTATATTAATATA
1 AATATAATATAATTATATTAA-ATA
*
10438633 AATATAATATTATT-TACTTAAATA
1 AATATAATATAATTATA-TTAAATA
10438657 A
1 A
10438658 TAAGTAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATAATATAATTATATTAAATA
Found at i:10439221 original size:35 final size:36
Alignment explanation
Indices: 10439141--10439230 Score: 89
Period size: 35 Copynumber: 2.5 Consensus size: 36
10439131 ATATATATAT
*
10439141 ATATATATATATATTTTTAATTTATTTTTAATTTGTTG
1 ATATA-ATATTTA-TTTTAATTTATTTTTAATTTGTTG
* *
10439179 AGA-AATATTTATTTTAA-TTA-TTTTAATATTTTTG
1 ATATAATATTTATTTTAATTTATTTTTAAT-TTGTTG
10439213 ATATAATATATT-TTTTAA
1 ATATAATAT-TTATTTTAA
10439231 AAATAATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
33 7 0.16
34 10 0.22
35 17 0.38
36 8 0.18
37 1 0.02
38 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (36 bp):
ATATAATATTTATTTTAATTTATTTTTAATTTGTTG
Found at i:10444319 original size:19 final size:21
Alignment explanation
Indices: 10444297--10444339 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
10444287 TAAATGTAAA
10444297 TTAAATTA-TTAAAATT-TTT
1 TTAAATTACTTAAAATTATTT
*
10444316 TT-AATTACTTATAATTATTT
1 TTAAATTACTTAAAATTATTT
10444336 TTAA
1 TTAA
10444340 CCCATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 5 0.25
21 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATTACTTAAAATTATTT
Found at i:10446927 original size:21 final size:21
Alignment explanation
Indices: 10446867--10446927 Score: 52
Period size: 24 Copynumber: 2.7 Consensus size: 21
10446857 TAATACATCA
*
10446867 AAAATATTAAAAAAATTAAAAT
1 AAAAT-TTCAAAAAATTAAAAT
*
10446889 AAATATTTTCCAACAAATTGAAAAT
1 AAA-A-TTT-CAAAAAATT-AAAAT
10446914 AAAATTT-AAAAAAT
1 AAAATTTCAAAAAAT
10446928 ATGTAGACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.19
22 3 0.09
23 6 0.19
24 9 0.28
25 8 0.25
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATTTCAAAAAATTAAAAT
Found at i:10448210 original size:94 final size:93
Alignment explanation
Indices: 10447945--10448386 Score: 313
Period size: 94 Copynumber: 4.7 Consensus size: 93
10447935 CAAGTAATTT
** * * * *
10447945 TTTATAACTTTATAAAATTTAGTTAAGTGCCTTAAGAGGCTAGAAGCAATTCATCTATTAAA-TT
1 TTTATAACTTTATAAAATTTAACTAAGTGTCTTAAGAGACTAGAAGTAA-TCTTCTATTAAACTT
* ** * * * **
10448009 CAGCAAGTTATTT--ATTCTTGGAGTGTCTAT
65 -AGCGAGCAATTTCCTTTC-AGG-GTGTTTGC
* * * * * * *
10448039 TTTATAATTTTATAAAATTTAGCTAAGTG-CTTTAGAGACTAGAAGCAGTCTTTCTATTAGACTC
1 TTTATAACTTTATAAAATTTAACTAAGTGTCTTAAGAGACTAGAAGTAATC-TTCTATTAAACTT
* * *
10448103 AACGAGCAGTTTCCTTTCAGGGTGTTTGT
65 AGCGAGCAATTTCCTTTCAGGGTGTTTGC
* * * *
10448132 TTTATAACTTTGTAAAATTTAACTAAGTGTCTTAAGTGGCTAGAAATAATCATTCTATTAAACTT
1 TTTATAACTTTATAAAATTTAACTAAGTGTCTTAAGAGACTAGAAGTAATC-TTCTATTAAACTT
* *
10448197 AGTGAGCAATTTCC-TCCTAGGGTGTTTGC
65 AGCGAGCAATTTCCTTTC-AGGGTGTTTGC
* * * * * * *
10448226 TTTATAACTTTGTAAAATTTAGCTAAGTGTCTTATGAGATTAGAAGTGATTCTTTTATTAAATTT
1 TTTATAACTTTATAAAATTTAACTAAGTGTCTTAAGAGACTAGAAGT-AATCTTCTATTAAACTT
* *
10448291 AGCGAGCAATTTCCTATC-GAGGTGTCTGC
65 AGCGAGCAATTTCCTTTCAG-GGTGTTTGC
* * * * * ** *
10448320 TTTAAAACTTTATAAAA-TGAAGCTAAGTGTCTTAAAAGGCTAGCAGTTTTTCTGCTATTAAACT
1 TTTATAACTTTATAAAATTTAA-CTAAGTGTCTTAAGAGACTAGAAG-TAATCTTCTATTAAACT
10448384 TAG
64 TAG
10448387 TGGGCCTGAA
Statistics
Matches: 277, Mismatches: 60, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
92 2 0.01
93 68 0.25
94 199 0.72
95 8 0.03
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.40
Consensus pattern (93 bp):
TTTATAACTTTATAAAATTTAACTAAGTGTCTTAAGAGACTAGAAGTAATCTTCTATTAAACTTA
GCGAGCAATTTCCTTTCAGGGTGTTTGC
Found at i:10448384 original size:188 final size:187
Alignment explanation
Indices: 10448039--10448388 Score: 404
Period size: 188 Copynumber: 1.9 Consensus size: 187
10448029 GAGTGTCTAT
* *
10448039 TTTATAATTTTATAAAATTTAGCTAAGTGCTTTAGAGACTAGAAGCAGTCTTTCTATTAGACTCA
1 TTTATAACTTTATAAAATTTAGCTAAGTGCTTTAGAGACTAGAAGCAGTCTTTCTATTAAACTCA
* * * * * * * **
10448104 ACGAGCAGTTTCCTTTCAGGGTGTTTGTTTTATAACTTTGTAAAATTTAACTAAGTGTCTTAAGT
66 ACGAGCAATTTCCTATCAGGGTGTCTGCTTTAAAACTTTATAAAATTGAACTAAGTGTCTTAAAA
*
10448169 GGCTAGAAATAATCATTCTATTAAACTTAGTGAGCAATTTCCTCCTAGGGTGTTTGC
131 GGCTAGAAATAATCATGCTATTAAACTTAGTGAGCAATTTCCTCCTAGGGTGTTTGC
* * * * *
10448226 TTTATAACTTTGTAAAATTTAGCTAAGTG-TCTTATGAGATTAGAAGTGATTCTTT-TATTAAAT
1 TTTATAACTTTATAAAATTTAGCTAAGTGCT-TTA-GAGACTAGAAG-CAGTCTTTCTATTAAAC
* *
10448289 TTAGCGAGCAATTTCCTATC-GAGGTGTCTGCTTTAAAACTTTATAAAA-TGAAGCTAAGTGTCT
63 TCAACGAGCAATTTCCTATCAG-GGTGTCTGCTTTAAAACTTTATAAAATTGAA-CTAAGTGTCT
** **
10448352 TAAAAGGCTAGCAGTTTTTC-TGCTATTAAACTTAGTG
126 TAAAAGGCTAG-AAATAATCATGCTATTAAACTTAGTG
10448389 GGCCTGAAAG
Statistics
Matches: 134, Mismatches: 23, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
186 1 0.01
187 34 0.25
188 89 0.66
189 10 0.07
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (187 bp):
TTTATAACTTTATAAAATTTAGCTAAGTGCTTTAGAGACTAGAAGCAGTCTTTCTATTAAACTCA
ACGAGCAATTTCCTATCAGGGTGTCTGCTTTAAAACTTTATAAAATTGAACTAAGTGTCTTAAAA
GGCTAGAAATAATCATGCTATTAAACTTAGTGAGCAATTTCCTCCTAGGGTGTTTGC
Found at i:10448658 original size:132 final size:132
Alignment explanation
Indices: 10448503--10448776 Score: 324
Period size: 133 Copynumber: 2.1 Consensus size: 132
10448493 TATCTGCCAA
** **
10448503 GTACACATGACATGACATTTATTCTTAGGC-GA-ATTGAAAAA-AATAATATTTTTTTACAATAA
1 GTACACACAACATGACATTTATTCTT--GCAGACACAGAAAAATAATAATA-TTTTTTACAATAA
* * *
10448565 AATATATATTTTACCT-TTCATCGCAGTGTGCCTGAAATGGCTAGGATATGCTTACTCATCTA-C
63 AATATATATTTTACATCTT-ATCGCAGTGTGCCTGAAAAGACTAGGATATGCTTACTCATCTATC
10448628 CGACGAG
127 CG-CGAG
* * *
10448635 GTACACACAACATGATATTTATTCTTGCATGACCCAGAAAAATATTAATATTTTTTACAATAAAA
1 GTACACACAACATGACATTTATTCTTGCA-GACACAGAAAAATAATAATATTTTTTACAATAAAA
* * * * *
10448700 TATATATTTTACATCTTATTGGAGTGTGTCTGAAAAGACTAGGATATGCTTACTCATTTATCTGC
65 TATATATTTTACATCTTATCGCAGTGTGCCTGAAAAGACTAGGATATGCTTACTCATCTATCCGC
10448765 GAG
130 GAG
10448768 GTACACACA
1 GTACACACA
10448777 TTTATTCCTA
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
130 2 0.02
132 25 0.21
133 84 0.69
134 10 0.08
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (132 bp):
GTACACACAACATGACATTTATTCTTGCAGACACAGAAAAATAATAATATTTTTTACAATAAAAT
ATATATTTTACATCTTATCGCAGTGTGCCTGAAAAGACTAGGATATGCTTACTCATCTATCCGCG
AG
Found at i:10449034 original size:260 final size:257
Alignment explanation
Indices: 10448547--10449034 Score: 529
Period size: 260 Copynumber: 1.9 Consensus size: 257
10448537 TGAAAAAAAT
* *
10448547 AATATTTTTTTACAATAAAATATATATTTTACCTTTCATCGCAGTGTGCCTGAAATGGCTAGGAT
1 AATATTTTTTTACAATAAAATATATATTTTACCTTTCA-CG-AGTGTGCCTAAAAAGGCTAGGAT
* * * * * * * *
10448612 ATGCTTACTCATCTACCGACGAGGTACACACAACATGATATTTATTCTTGCATGACCCAGAAAAA
64 ATGCTCACTCATCTACCAACCAGATACACACAACACGACATTTATTCATGCATGACCCAAAAAAA
** * * * * *
10448677 TATTAATATTTTTTACAATAAAATATATATTTTACATCTTATTGGAGTGTGTCTGAAAAGACTAG
129 TAGCAATATTTTTTACAAAAAAATATATATATTACATCTAATCGAAGTGTGTCTGAAAAGACTAG
* * * *
10448742 GATATGCTTACTCATTTATCTGCGAGGTACACACATTTATTCCTATATGGTTTGGAAATATATC
194 GATATGCTTACTCATTTACCGGCAAAGTACACACATTTATTCCTATATGGTTTGGAAATATATC
*
10448806 AATATTTTTTTTACAATAAAATATATA-TTTACCTCTTGA-G-GTGTGCCTAAAAAGGCTAGGAT
1 AATA-TTTTTTTACAATAAAATATATATTTTACCT-TTCACGAGTGTGCCTAAAAAGGCTAGGAT
* * * *** * * *
10448868 GTGCTCACTTATTTACCAACCAGATACACATGGCACGGCATTTATTCATGCGTGACTCAAAAAAA
64 ATGCTCACTCATCTACCAACCAGATACACACAACACGACATTTATTCATGCATGACCCAAAAAAA
*
10448933 TAGCAATATTTTTTTTACTACAAAAAATATATATATTACCTCTAATCGAAGTGTG-CTTGAAAAG
129 TAGCAATA--TTTTTTAC-A-AAAAAATATATATATTACATCTAATCGAAGTGTGTC-TGAAAAG
* *
10448997 GCTAGGATGTGC-T-CGTCTATTTACCGGCAAAGTACACA
189 ACTAGGATATGCTTAC-TC-ATTTACCGGCAAAGTACACA
10449035 TGGTGCGACA
Statistics
Matches: 186, Mismatches: 34, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
256 74 0.40
258 10 0.05
259 16 0.09
260 86 0.46
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (257 bp):
AATATTTTTTTACAATAAAATATATATTTTACCTTTCACGAGTGTGCCTAAAAAGGCTAGGATAT
GCTCACTCATCTACCAACCAGATACACACAACACGACATTTATTCATGCATGACCCAAAAAAATA
GCAATATTTTTTACAAAAAAATATATATATTACATCTAATCGAAGTGTGTCTGAAAAGACTAGGA
TATGCTTACTCATTTACCGGCAAAGTACACACATTTATTCCTATATGGTTTGGAAATATATC
Found at i:10449047 original size:137 final size:131
Alignment explanation
Indices: 10448805--10449050 Score: 307
Period size: 137 Copynumber: 1.8 Consensus size: 131
10448795 GGAAATATAT
* *
10448805 CAATATTTTTTTTACAATAAAATATATATTTACCTCTTGAGGTGTGCCTAAAAAGGCTAGGATGT
1 CAATATTTTTTTTACAAAAAAATATATATTTACCTCTTGAAGTGTGCCTAAAAAGGCTAGGATGT
* *
10448870 GCTCACTTATTTACCAACCAGATACACATGGCACGGCATTTATTCATGCGTGACTCAAAAAAATA
66 GCTCACTTATTTACCAACAAGATACACATGGCACGACATTTATTCATGCGTGACTCAAAAAAATA
10448935 G
131 G
* *
10448936 CAATATTTTTTTTACTACAAAAAATATATATATTACCTCTAATCGAAGTGTGCTTGAAAAGGCTA
1 CAATATTTTTTTTAC-A-AAAAAATATATAT-TTACCTCT--T-GAAGTGTGCCTAAAAAGGCTA
* ** **
10449001 GGATGTGCTC-GTCTATTTACCGGCAA-AGTACACATGGTGCGACATTTATT
60 GGATGTGCTCACT-TATTTACCAACAAGA-TACACATGGCACGACATTTATT
10449051 TTGTTACTTG
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
131 15 0.16
132 1 0.01
133 12 0.12
134 8 0.08
136 3 0.03
137 57 0.59
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (131 bp):
CAATATTTTTTTTACAAAAAAATATATATTTACCTCTTGAAGTGTGCCTAAAAAGGCTAGGATGT
GCTCACTTATTTACCAACAAGATACACATGGCACGACATTTATTCATGCGTGACTCAAAAAAATA
G
Found at i:10450189 original size:2 final size:2
Alignment explanation
Indices: 10450182--10450206 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10450172 TATAGAATTC
10450182 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 T
10450207 TATGTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10458196 original size:17 final size:18
Alignment explanation
Indices: 10458176--10458214 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10458166 TAAAAACTAT
10458176 AAAAAAA-AACCCAAAAG
1 AAAAAAAGAACCCAAAAG
* *
10458193 AAAAAAAGAATCGAAAAG
1 AAAAAAAGAACCCAAAAG
10458211 AAAA
1 AAAA
10458215 TCAAGGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.77, C:0.10, G:0.10, T:0.03
Consensus pattern (18 bp):
AAAAAAAGAACCCAAAAG
Found at i:10459436 original size:24 final size:24
Alignment explanation
Indices: 10459383--10459436 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
10459373 TAAGATGACT
*
10459383 ATATAAAATTTTTAATAAATAAAA
1 ATATAAAATTATTAATAAATAAAA
* *
10459407 AAATAAAATTATTAAT-ATTAAATA
1 ATATAAAATTATTAATAAATAAA-A
10459431 ATATAA
1 ATATAA
10459437 TATAATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAAAATTATTAATAAATAAAA
Found at i:10459505 original size:20 final size:20
Alignment explanation
Indices: 10459480--10459519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10459470 ATGTATGGAT
10459480 CTAAAATGAGCTTGGATTAA
1 CTAAAATGAGCTTGGATTAA
*
10459500 CTAAAATGAGTTTGGATTAA
1 CTAAAATGAGCTTGGATTAA
10459520 TCTTTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (20 bp):
CTAAAATGAGCTTGGATTAA
Found at i:10462892 original size:46 final size:45
Alignment explanation
Indices: 10462836--10463011 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
10462826 TATTTGGGCA
10462836 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
10462882 TCTGAACTCGTTGAGTTGAGTCCTAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
10462929 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
10462975 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10463012 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:10462991 original size:93 final size:93
Alignment explanation
Indices: 10462832--10463003 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
10462822 AGGATATTTG
* * *
10462832 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
10462897 TTGAGTCCTAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
10462925 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
10462990 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
10463004 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:10464604 original size:33 final size:33
Alignment explanation
Indices: 10464558--10464673 Score: 142
Period size: 33 Copynumber: 3.5 Consensus size: 33
10464548 GGACCTTTCC
* * * *
10464558 TTTCTAGTTGTACACCCGAAGTGCACATTCCCT
1 TTTCAAGTGGTACACACGAAGTGCACATACCCT
*
10464591 TTTCAAGTGGTACACACGAAGTGTACATACCCT
1 TTTCAAGTGGTACACACGAAGTGCACATACCCT
* * * *
10464624 TTTCAATTTGTACACACGAAGTGCACGTAACCT
1 TTTCAAGTGGTACACACGAAGTGCACATACCCT
*
10464657 TTTCAAGTGGTATACAC
1 TTTCAAGTGGTACACAC
10464674 AGAGTATCCC
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (33 bp):
TTTCAAGTGGTACACACGAAGTGCACATACCCT
Found at i:10464691 original size:33 final size:33
Alignment explanation
Indices: 10464654--10464734 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
10464644 GTGCACGTAA
*
10464654 CCTTTTCAAGTGGTATACACAGAGTATCCCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATCCCTTT
* *
10464687 CCTTTTCAAGTGGTATACACAAAGTATGCTTTT
1 CCTTTTCAAGTGGTATACACAAAGTATCCCTTT
*
10464720 CCTTTCCAAGTGGTA
1 CCTTTTCAAGTGGTA
10464735 CATTCCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATCCCTTT
Found at i:10464691 original size:66 final size:66
Alignment explanation
Indices: 10464550--10464711 Score: 166
Period size: 66 Copynumber: 2.5 Consensus size: 66
10464540 TTTCCGATGG
* * ** *
10464550 ACCTTTCC-TTTCTAGTTGTACACCCGAAGTGCACATTCCCTTTTCAAGTGGTACACACGAAGTG
1 ACCTTTCCTTTTCAAGTTGTACACACGAAGTGCACATAACCTTTTCAAGTGGTACACACGAAGTA
10464614 T
66 T
* ** * * *
10464615 ACATACCCTTTTCAATTTGTACACACGAAGTGCACGTAACCTTTTCAAGTGGTATACAC-AGAGT
1 ACCTTTCCTTTTCAAGTTGTACACACGAAGTGCACATAACCTTTTCAAGTGGTACACACGA-AGT
10464679 AT
65 AT
* * * *
10464681 CCCTTTCCTTTTCAAGTGGTATACACAAAGT
1 ACCTTTCCTTTTCAAGTTGTACACACGAAGT
10464712 ATGCTTTTCC
Statistics
Matches: 76, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
65 6 0.08
66 70 0.92
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (66 bp):
ACCTTTCCTTTTCAAGTTGTACACACGAAGTGCACATAACCTTTTCAAGTGGTACACACGAAGTA
T
Found at i:10465410 original size:20 final size:22
Alignment explanation
Indices: 10465370--10465410 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
10465360 TGTAAAAGTG
*
10465370 ATTTCTCTATCAATAACCTTTC
1 ATTTCTCTATCAATAAACTTTC
10465392 ATTTC-CTATC-ATAAACTTT
1 ATTTCTCTATCAATAAACTTT
10465411 AAATTTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTC
Found at i:10465796 original size:16 final size:16
Alignment explanation
Indices: 10465775--10465810 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10465765 ACTTCTCACC
10465775 TTTAATTC-TATAACT
1 TTTAATTCTTATAACT
10465790 ATTTAATTCTTATAACT
1 -TTTAATTCTTATAACT
10465807 TTTA
1 TTTA
10465811 GAATTTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTCTTATAACT
Found at i:10469947 original size:16 final size:16
Alignment explanation
Indices: 10469926--10469960 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10469916 TATTTGTTAA
10469926 TTAATTCTCAATTGAG
1 TTAATTCTCAATTGAG
10469942 TTAATTCTCAATTGAG
1 TTAATTCTCAATTGAG
10469958 TTA
1 TTA
10469961 TTGTACCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAATTCTCAATTGAG
Found at i:10472955 original size:13 final size:13
Alignment explanation
Indices: 10472937--10473005 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
10472927 AATTTTTTAT
10472937 TAAATTTATATTA
1 TAAATTTATATTA
10472950 TAAATTT-TATT-
1 TAAATTTATATTA
10472961 TAAA--TATATTA
1 TAAATTTATATTA
*
10472972 TAAAAATTA-ATTA
1 T-AAATTTATATTA
*
10472985 TATAATATA-ATTA
1 TA-AATTTATATTA
10472998 TATAATTT
1 TA-AATTT
10473006 GATTATTGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
9 1 0.02
10 4 0.09
11 5 0.11
12 8 0.17
13 27 0.57
14 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAAATTTATATTA
Found at i:10473010 original size:26 final size:23
Alignment explanation
Indices: 10472943--10473011 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 23
10472933 TTATTAAATT
*
10472943 TATATTATAAATTTTATT-TAAA
1 TATATTATAAATTTAATTATAAA
*
10472965 TATATTATAAAAATTAATTATATAA
1 TATATTAT-AAATTTAATTATA-AA
*
10472990 TATAATTATATAATTTGATTAT
1 TAT-ATTATA-AATTTAATTAT
10473012 TGCAAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 2 0.05
25 6 0.16
26 14 0.37
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TATATTATAAATTTAATTATAAA
Found at i:10473869 original size:31 final size:30
Alignment explanation
Indices: 10473808--10473875 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
10473798 TGCATGATTA
* *
10473808 TATATATGAAACTTTAGTTTCAACTTTATAC
1 TATAT-TGAAACTTGAGTTTCAACTATATAC
10473839 TATATTGAAACTTGAGATTT-AATCTATATAC
1 TATATTGAAACTTGAG-TTTCAA-CTATATAC
*
10473870 TTTATT
1 TATATT
10473876 TTTTATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (30 bp):
TATATTGAAACTTGAGTTTCAACTATATAC
Found at i:10476437 original size:35 final size:35
Alignment explanation
Indices: 10476387--10476458 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
10476377 CATCTTCGGA
* *
10476387 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAAAATGGAAAGGAATCTTCAAAGATAT
* *
10476422 GCTTGGCAAAAATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAAAATGGAAAGGAATCTTCAAAGATAT
10476457 GC
1 GC
10476459 GATCCTAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (35 bp):
GCTTGGCAAAAATGGAAAGGAATCTTCAAAGATAT
Found at i:10484555 original size:35 final size:35
Alignment explanation
Indices: 10484516--10484587 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
10484506 CATCTCCGGA
*
10484516 GCTTGGCAAATATGGAAAGTAG-TCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT
*
10484551 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
10484586 GC
1 GC
10484588 GATCCTAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:10486623 original size:43 final size:43
Alignment explanation
Indices: 10486562--10486646 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
10486552 TTAATAAAAA
10486562 GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATTT
1 GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATTT
10486605 GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATT
1 GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATT
10486647 GTACCCTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (43 bp):
GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATTT
Found at i:10489830 original size:2 final size:2
Alignment explanation
Indices: 10489823--10489854 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10489813 CAACAATGAA
10489823 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10489855 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10490022 original size:6 final size:6
Alignment explanation
Indices: 10490011--10490044 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10490001 AACTGAACTA
* *
10490011 AAGAGG AAGAGG AAGAGG AAGAGA AAGAGA AAGA
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGA
10490045 AACCTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (6 bp):
AAGAGG
Found at i:10491518 original size:8 final size:9
Alignment explanation
Indices: 10491490--10491527 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
10491480 CAACTTAATT
10491490 TATATTAAA
1 TATATTAAA
*
10491499 TAAATATAAA
1 TATAT-TAAA
10491509 TAT-TTAAA
1 TATATTAAA
10491517 TATATTAAA
1 TATATTAAA
10491526 TA
1 TA
10491528 AATTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 7 0.28
9 12 0.48
10 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TATATTAAA
Found at i:10491761 original size:95 final size:95
Alignment explanation
Indices: 10491583--10491767 Score: 221
Period size: 95 Copynumber: 1.9 Consensus size: 95
10491573 TCATAAAAGC
* *
10491583 TTTTATTATTTATTACCATAACAGTAAAAAAATTAGAATTTATATATTTTTAATATTAATCATGT
1 TTTTATTATTTATTACCATAACAATAAAAAAATTAAAATTTATATATTTTTAATATTAATCATGT
* *
10491648 ACTGATCAAGACATAATATTTTAATAATTT
66 ACTAATCAAGACACAATATTTTAATAATTT
* ** * * *
10491678 TTTTATTATTTATTACTATAACAATAAAAATGTTAAAATATT-TATATTTTTTATATTATTTATG
1 TTTTATTATTTATTACCATAACAATAAAAAAATTAAAAT-TTATATATTTTTAATATTAATCATG
* * *
10491742 TA-TCAATCGATATACAATATTTTAAT
65 TACT-AATCAAGACACAATATTTTAAT
10491768 TGATGTAATT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 1 0.01
95 72 0.96
96 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.48
Consensus pattern (95 bp):
TTTTATTATTTATTACCATAACAATAAAAAAATTAAAATTTATATATTTTTAATATTAATCATGT
ACTAATCAAGACACAATATTTTAATAATTT
Found at i:10493961 original size:29 final size:30
Alignment explanation
Indices: 10493894--10493972 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
10493884 AATTAAATCA
*
10493894 AAATCAAAGTTTTATGTATATATATGAACC
1 AAATCAAAGTTTCATGTATATATATGAACC
* *
10493924 ACAAGTC-AAGTTTCATGTGTATA-ATTATACC
1 A-AA-TCAAAGTTTCATGTATATATATGA-ACC
10493955 AAATCAAAG-TTCATGTAT
1 AAATCAAAGTTTCATGTAT
10493973 CAAATTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
29 10 0.24
30 9 0.22
31 20 0.49
32 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (30 bp):
AAATCAAAGTTTCATGTATATATATGAACC
Found at i:10511546 original size:37 final size:37
Alignment explanation
Indices: 10511499--10511569 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
10511489 TCTCCACGTG
*
10511499 CGTCTGACACTCCACTGCGGCCATATGCAAAAAACCA
1 CGTCTGACACTCCACTACGGCCATATGCAAAAAACCA
* *
10511536 CGTCTGACACTCCACTACGGCCATCTGTAAAAAA
1 CGTCTGACACTCCACTACGGCCATATGCAAAAAA
10511570 ACCAACACGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.18
Consensus pattern (37 bp):
CGTCTGACACTCCACTACGGCCATATGCAAAAAACCA
Found at i:10512777 original size:19 final size:18
Alignment explanation
Indices: 10512738--10512787 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
10512728 ATACATATTT
10512738 TTATCTATTTCATTTTTTTA
1 TTATCTA-TT-ATTTTTTTA
10512758 TCT-TCTATTATTTTTATTA
1 T-TATCTATTATTTTT-TTA
10512777 TTATCTATTAT
1 TTATCTATTAT
10512788 GTATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.26
19 14 0.52
20 5 0.19
21 1 0.04
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATCTATTATTTTTTTA
Found at i:10512996 original size:12 final size:12
Alignment explanation
Indices: 10512953--10513004 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
10512943 TATAATCGGC
10512953 TTCTTTTATTTA
1 TTCTTTTATTTA
10512965 TTTTCTTTTATTGTA
1 --TTCTTTTATT-TA
*
10512980 -CCTTTTATTTA
1 TTCTTTTATTTA
10512991 TTCTTTTATTTA
1 TTCTTTTATTTA
10513003 TT
1 TT
10513005 TGCTACTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.06
12 20 0.59
14 10 0.29
15 2 0.06
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (12 bp):
TTCTTTTATTTA
Found at i:10521407 original size:44 final size:44
Alignment explanation
Indices: 10521324--10521699 Score: 200
Period size: 44 Copynumber: 8.4 Consensus size: 44
10521314 GTTATCATGG
* * *
10521324 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
* * * * *
10521368 TAAACCTTATCTCCCTGAAGTTCCAGTAGAACAGGTTGAAGTTA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
** * ** * *
10521412 CAAGTCTTATCTCCTTGAAGTTGTAGTGGAACAGACTGAAGATA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
* * * * * * *
10521456 GCAAATCTTATCTCTCTAAAGTTACAATAGAACAAATTAAAGCTA
1 -CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
* * * * * **
10521501 TAAACCTTATTTCCCTAAAGTTACAGTGGAACAGGTTAAAAATAAA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCT--A
** * *
10521547 CAAAATTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTGAAGACAGACTA
1 CAAACCTTATCTCCCTGA-AGTTACAGTGGAACAGATT---GA-AG-CTA
* * * * * * * *
10521596 CAAATCTTATCTCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
* * * * *
10521640 -AGAACATTATCTCTCTGAAGTTGCAGTGGAGCATG-TTGAAGTTA
1 CA-AACCTTATCTCCCTGAAGTTACAGTGGAACA-GATTGAAGCTA
**
10521684 CAAGTCTTATCTCCCT
1 CAAACCTTATCTCCCT
10521700 AAATTTATCT
Statistics
Matches: 251, Mismatches: 68, Indels: 26
0.73 0.20 0.08
Matches are distributed among these distances:
43 1 0.00
44 147 0.59
45 37 0.15
46 30 0.12
49 33 0.13
50 2 0.01
51 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
Found at i:10521452 original size:88 final size:89
Alignment explanation
Indices: 10521328--10521534 Score: 218
Period size: 89 Copynumber: 2.3 Consensus size: 89
10521318 TCATGGCAAA
* * * * * *
10521328 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-TAAACCTTATCTCCCTGAAGTTCC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAACCTTATCTCCCTAAAGTTAC
*
10521392 AGTAGAACAGGTTGAAGTTACAAG
66 AATAGAACAGGTTGAAGTTACAAG
* * * *
10521416 TCTTATCTCCTTGAAGTTGTAGTGGAACAGACTGAAGATAGCAAATCTTATCTCTCTAAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAACCTTATCTCCCTAAAGTTAC
** * * * *
10521481 AATAGAACAAATTAAAGCTATAAA
66 AATAGAACAGGTTGAAGTTACAAG
* * * *
10521505 CCTTATTTCCCTAAAGTTACAGTGGAACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAG
10521535 GTTAAAAATA
Statistics
Matches: 95, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
88 35 0.37
89 60 0.63
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAACCTTATCTCCCTAAAGTTAC
AATAGAACAGGTTGAAGTTACAAG
Found at i:10521500 original size:133 final size:132
Alignment explanation
Indices: 10521323--10521700 Score: 393
Period size: 133 Copynumber: 2.8 Consensus size: 132
10521313 AGTTATCATG
* * *
10521323 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAACCTTATCTCCCTGAAG
1 GCAAATCTTATCT-CCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAG
* * * *
10521388 TTCCAGTAGAACAGGTTGAAGTTACAAGTCTTATCT-CCTTGAAGTTGTAGTGGAACAGACTGAA
65 TTACAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTAG-AGTTGCAGTGGAACAGACTGAA
*
10521452 GATA
129 GACA
* * * * * *
10521456 GCAAATCTTATCTCTCTAAAGTTACAATAGAACAAATTAAAGCTATAAACCTTATTTCCCTAAAG
1 GCAAATCTTATCTC-CTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAG
* * * * * *
10521521 TTACAGTGGAACAGGTTAAAAATAAACAAAAT-TTATCTCCCTAGAGTTGCAGTGGAGCAGATTG
65 TTACAGTGGAACAGGTT-GAAGT-TAC-AAGTCTTATCTCCCTAGAGTTGCAGTGGAACAGACTG
10521585 AAGACA
127 AAGACA
* * *
10521591 GACTACAAATCTTATCTCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCA-AGAACATTATCTCTC
1 G----CAAATCTTATCTCC-TAAAGTTGCAGTAGAGCAGATTAAAGCTATA-AACCTTATCTCCC
* * *
10521655 TGAAGTTGCAGTGGAGCATGTTGAAGTTACAAGTCTTATCTCCCTA
60 TGAAGTTACAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTA
10521701 AATTTATCTC
Statistics
Matches: 197, Mismatches: 36, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
132 1 0.01
133 69 0.35
134 3 0.02
135 31 0.16
136 10 0.05
137 13 0.07
138 5 0.03
139 65 0.33
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (132 bp):
GCAAATCTTATCTCCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGT
TACAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTAGAGTTGCAGTGGAACAGACTGAAGA
CA
Found at i:10521753 original size:44 final size:44
Alignment explanation
Indices: 10521699--10521914 Score: 146
Period size: 44 Copynumber: 4.9 Consensus size: 44
10521689 CTTATCTCCC
* * *
10521699 TAAAT-TTATCTCCTTGATGTTGCAGTAGAGAAGATTGAAACCA
1 TAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACCA
* * * * * *
10521742 TTAATCTTATCTCCCTAAAGATACAGTGGAGCAGATTAAAACCA
1 TAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACCA
* * * * * * * ***
10521786 TAAACCTTATTTCCTTGAAATTGTAGTGGAGCAGGTTGAAGTTA
1 TAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACCA
* * ***
10521830 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATGG
1 TAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAA-ACCA
** * * * *
10521875 CGAATTTTATCTCCTTGAAGTTTCAGTGGAGCAGATTGAA
1 TAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAA
10521915 GATGCGATCT
Statistics
Matches: 130, Mismatches: 41, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
43 4 0.03
44 91 0.70
45 35 0.27
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (44 bp):
TAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAACCA
Found at i:10521886 original size:45 final size:44
Alignment explanation
Indices: 10521791--10522002 Score: 210
Period size: 44 Copynumber: 4.8 Consensus size: 44
10521781 AACCATAAAC
* * * * * * * *
10521791 CTTATTTCCTTGAAATTGTAGTGGAGCAGGTTGAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAAT
* *
10521835 CTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GCGAAT
* * *
10521880 TTTATCTCCTTGAAGTTTCAGTGGAGCAGATTGAAGATGCG-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAAT
* * * * *
10521923 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTGTAGATGCGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAAT
* * * *
10521967 CTAATCTCCCTAAAGTTACAGTGGAGTAGATTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
10522003 CACTAATTCC
Statistics
Matches: 135, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
43 36 0.27
44 62 0.46
45 37 0.27
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAAT
Found at i:10521925 original size:88 final size:88
Alignment explanation
Indices: 10521791--10522002 Score: 221
Period size: 87 Copynumber: 2.4 Consensus size: 88
10521781 AACCATAAAC
* * * *
10521791 CTTATTTCCTTGAAATTGT-AGTGGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCTTGAAGTT-TCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
**
10521855 GTAGAGTAGATTGAAGATGGCGAAT
65 GTAGAACAGATTGAAGAT-GCGAAT
* * * * *
10521880 TTTATCTCCTTGAAGTTTCAGTGGAGCAGATTGAAGATGC-GATCTTATTTCCCTGAAGTTGTAG
1 CTTATCTCCTTGAAGTTTCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAG
* * *
10521944 TGGAACAGATTGTAGATGCGAGT
66 TAGAACAGATTGAAGATGCGAAT
* * * * *
10521967 CTAATCTCCCTAAAGTTACAGTGGAGTAGATTGAAG
1 CTTATCTCCTTGAAGTTTCAGTGGAGCAGATTGAAG
10522003 CACTAATTCC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
87 35 0.34
88 35 0.34
89 32 0.31
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (88 bp):
CTTATCTCCTTGAAGTTTCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAG
TAGAACAGATTGAAGATGCGAAT
Found at i:10525222 original size:12 final size:12
Alignment explanation
Indices: 10525179--10525230 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
10525169 TATAATCAGC
10525179 TTCTTTTATTTA
1 TTCTTTTATTTA
10525191 TTTTCTTTTATTGT-
1 --TTCTTTTATT-TA
**
10525205 GCCTTTTATTTA
1 TTCTTTTATTTA
10525217 TTCTTTTATTTA
1 TTCTTTTATTTA
10525229 TT
1 TT
10525231 TGCTACTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 1 0.03
12 20 0.62
14 10 0.31
15 1 0.03
ACGTcount: A:0.13, C:0.10, G:0.04, T:0.73
Consensus pattern (12 bp):
TTCTTTTATTTA
Found at i:10526861 original size:25 final size:25
Alignment explanation
Indices: 10526808--10526861 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
10526798 TACTTTACCG
* *
10526808 TTCTTTTTTTTTCTTTTTTCCTATT
1 TTCTTTTTTTTTCTTTTTGCCTATC
*
10526833 TTCTTTTATTTTTCTTTTTGCTTA-C
1 TTCTTTT-TTTTTCTTTTTGCCTATC
10526858 TTCT
1 TTCT
10526862 ATAAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.76
Consensus pattern (25 bp):
TTCTTTTTTTTTCTTTTTGCCTATC
Found at i:10528392 original size:21 final size:21
Alignment explanation
Indices: 10528344--10528393 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
10528334 ATGTCCCCTT
*
10528344 CACACGGGCATGTGTAACTTC
1 CACATGGGCATGTGTAACTTC
10528365 CACATGGGCATGTGTAACTTC
1 CACATGGGCATGTGTAACTTC
*
10528386 CATATGGG
1 CACATGGG
10528394 TGTGTAGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (21 bp):
CACATGGGCATGTGTAACTTC
Found at i:10528399 original size:19 final size:20
Alignment explanation
Indices: 10528353--10528399 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
10528343 TCACACGGGC
10528353 ATGTGTAACTTCCACATGGG
1 ATGTGTAACTTCCACATGGG
*
10528373 CATGTGTAACTTCCATATGGG
1 -ATGTGTAACTTCCACATGGG
10528394 -TGTGTA
1 ATGTGTA
10528400 GACCCCCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.24
21 19 0.76
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (20 bp):
ATGTGTAACTTCCACATGGG
Found at i:10532720 original size:28 final size:28
Alignment explanation
Indices: 10532672--10532725 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
10532662 TTTTTACTAA
10532672 AAAAATATACAAAAAATAAAA-AAATTC
1 AAAAATATACAAAAAATAAAATAAATTC
*
10532699 AAAAATAATACAGTAAAA-AAAATAAAT
1 AAAAAT-ATACA-AAAAATAAAATAAAT
10532726 ACGAAAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 6 0.26
28 9 0.39
29 8 0.35
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAAATATACAAAAAATAAAATAAATTC
Found at i:10533040 original size:15 final size:15
Alignment explanation
Indices: 10532983--10533045 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 15
10532973 ATTCAGCAGC
*
10532983 AAGGAGAAGAAAATAA
1 AAGGAGAAGAAAA-AG
*
10532999 AAGGA-AAGAAAGGAG
1 AAGGAGAAGAAA-AAG
10533014 AAGAGAAGGAAGAAAAAG
1 AAG-G-A-GAAGAAAAAG
10533032 AAGGAGAAGAAAAA
1 AAGGAGAAGAAAAA
10533046 AAGAAGGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
15 19 0.49
16 7 0.18
17 2 0.05
18 5 0.13
19 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (15 bp):
AAGGAGAAGAAAAAG
Found at i:10537134 original size:33 final size:32
Alignment explanation
Indices: 10537062--10537136 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
10537052 AGGAGTGGAG
*
10537062 TACTGCAGTGGATACGGGCCGGGGCAGTGCTA
1 TACTGCGGTGGATACGGGCCGGGGCAGTGCTA
* *
10537094 TAATGCGGTGGATATGGGCCGGGAG-AGGTGCTA
1 TACTGCGGTGGATACGGGCCGGG-GCA-GTGCTA
*
10537127 TGCTGCGGTG
1 TACTGCGGTG
10537137 TGTACGACCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 21 0.58
33 15 0.42
ACGTcount: A:0.17, C:0.17, G:0.44, T:0.21
Consensus pattern (32 bp):
TACTGCGGTGGATACGGGCCGGGGCAGTGCTA
Found at i:10537273 original size:71 final size:72
Alignment explanation
Indices: 10537182--10537321 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 72
10537172 CCCCCCCGAT
*
10537182 GAGCCCGAGAAATTGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
1 GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
10537247 CGATGAC
66 CGATGAC
* * * *
10537254 GAGCCC-AGAAATAGTCATTGCCTGCCAAATCCGGATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
10537318 CGAT
66 CGAT
10537322 CGCTCGGACT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 57 0.90
72 6 0.10
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (72 bp):
GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAAAGTGAATG
CGATGAC
Found at i:10539399 original size:22 final size:21
Alignment explanation
Indices: 10539371--10539412 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
10539361 TAGTACATAA
10539371 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATAT-TTATTTAAG
*
10539393 TGTTTTAAATATTTTTTTAA
1 TGTTTTAAATATTTATTTAA
10539413 TAAATAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAAATATTTATTTAAG
Found at i:10539463 original size:15 final size:14
Alignment explanation
Indices: 10539443--10539505 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
10539433 ACTTTATTCA
10539443 TATTTTTTCGTATAT
1 TATTTTTTC-TATAT
* *
10539458 TATTTTTT-AAAAT
1 TATTTTTTCTATAT
*
10539471 ATATTATTTTCTATTT
1 -TATT-TTTTCTATAT
10539487 TATTTTTT-TATAT
1 TATTTTTTCTATAT
10539500 TATTTT
1 TATTTT
10539506 AGCAAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 13 0.33
14 8 0.21
15 16 0.41
16 2 0.05
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (14 bp):
TATTTTTTCTATAT
Found at i:10539593 original size:11 final size:12
Alignment explanation
Indices: 10539578--10539607 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
10539568 GATTTTGACA
10539578 CTTTTTTCGTAT
1 CTTTTTTCGTAT
10539590 -TTTTTTCGTAT
1 CTTTTTTCGTAT
10539601 CTTTTTT
1 CTTTTTT
10539608 TTAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (12 bp):
CTTTTTTCGTAT
Found at i:10539702 original size:20 final size:22
Alignment explanation
Indices: 10539663--10539703 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10539653 TAGTACATAA
10539663 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATATATTATTTAAG
10539685 TGTTTTAAATAT-TT-TTTAA
1 TGTTTTAAATATATTATTTAA
10539704 TAAATAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TGTTTTAAATATATTATTTAAG
Found at i:10539967 original size:150 final size:140
Alignment explanation
Indices: 10539839--10540456 Score: 446
Period size: 127 Copynumber: 4.4 Consensus size: 140
10539829 ATGTAAGTGT
*
10539839 TTTTTTATACTAATTTAATAAATAACCCTGATTTT-GACACTTT-TT-GTATTTTTTTGTATCTT
1 TTTTTTATA-TAATTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTTTTTGTATATT
* * * *
10539901 ATTTTTTAAAATAT-TATTTTCGTA-TTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAA
64 ATTTTTTAAAATATAT-TTTTCCTATTTTATTT-TT-ATATTATTTTAGCAAAAAATGTTTCAAA
10539964 TGTATTATTTCAATA
126 TGTATTATTTCAATA
** *
10539979 TTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
1 TTTTTTATATAATTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTT-GTATATT
* **
10540044 ATTTTTTAAAATATATTTTTCTTATTTTATTTTTATATTATTTTAGCAAAAAA-AATTCAAATGT
64 ATTTTTTAAAATATATTTTTCCTATTTTATTTTTATATTATTTTAGCAAAAAATGTTTCAAATGT
* *
10540108 ATTAATT-AACTG
129 ATTATTTCAA-TA
* * * *
10540120 TTTCTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTT-GATACTTTCTTCGTAATTTTTTT
1 TTTTTTATA-TAA------TTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A----TTT
* * * *
10540184 ATTTTCGTATATTA-TTTTTAATATATATATTTTCGTATTTTATTTCTTTATATTA-TTTAGTAC
53 -TTTT-GTATATTATTTTTTAAAATATAT-TTTTCCTATTTTA-TT-TTTATATTATTTTAGCAA
* *
10540247 ATAATGCTTCAAATGTATTATTT-AAGTA
113 AAAATGTTTCAAATGTATTATTTCAA-TA
**
10540275 -TTTTTATATTTTTTAAT--A-AACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTA
1 TTTTTTATATAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTT-GTATATTA
** * * **
10540336 TTTTTTAAAA-ATA----T--TA--TT-TTGGTATTTTATTTTAGCATAAAATCATTCAAATGTA
65 TTTTTTAAAATATATTTTTCCTATTTTATTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTA
10540391 TTATTT-AAGT-
130 TTATTTCAA-TA
* * * * *
10540401 TTTTTTATATTAATTTAATAAGTAA-CCTGACTTTGGCACCTTGTTCGTATTTTTTT
1 TTTTTTATA-TAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTT
10540457 ATTTTCAGAT
Statistics
Matches: 393, Mismatches: 51, Indels: 78
0.75 0.10 0.15
Matches are distributed among these distances:
126 6 0.02
127 40 0.10
128 7 0.02
129 2 0.01
130 27 0.07
131 4 0.01
133 1 0.00
138 16 0.04
139 15 0.04
140 35 0.09
141 27 0.07
142 27 0.07
143 30 0.08
144 30 0.08
145 2 0.01
146 1 0.00
147 32 0.08
148 4 0.01
152 16 0.04
153 26 0.07
154 18 0.05
155 27 0.07
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (140 bp):
TTTTTTATATAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTGTATATTAT
TTTTTAAAATATATTTTTCCTATTTTATTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTAT
TATTTCAATA
Found at i:10539972 original size:292 final size:287
Alignment explanation
Indices: 10539187--10540456 Score: 1469
Period size: 291 Copynumber: 4.4 Consensus size: 287
10539177 AGTAAAATAT
* * *
10539187 TTTCGTATATTATTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTATTTTT
1 TTTCCTATTTTATTTTTTATATTATTTTAGCAAAAATGTTTCAAATGTATTATGTAAGTATTTTT
10539252 TTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTTTTTT
66 TTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTTTTTT
* *
10539317 TAAATATATTACTTTCGTATTATTTAATTTTAAAACCCTTATTTTAGTACATAATGTTTTAAATA
131 TAAATATATTACTTTCGTATTATTT-ATCTTAAAA--CTTATTTTAGTACATAATGTTTCAAATA
*
10539382 TATTATTTAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATA-T
193 TATTATTTAAGTATTTTAAATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATT
10539446 TTTTTCGTATATTATTTTTTAAAATATATTA
257 TTTTTCGTATATTATTTTTTAAAATATATTA
* *
10539477 TTTTCTATTTTATTTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTATTTT
1 TTTCCTATTTTA-TTTTTTATATTATTTTAGCAAAAATGTTTCAAATGTATTATGTAAGTATTTT
10539542 TTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTTCGTATTTTTTTCGTATCTTTTT
65 TTTATATTAATTTAATAAATAACACTGATTTTGACAC-TTTTTCGTATTTTTTTCGTATCTTTTT
* *
10539607 TTTAAAATATATTACTTTCGTATTATTTATTTTAAAACCCTTATTTTAGTACATAATGTTTTAAA
129 TTT-AAATATATTACTTTCGTATTATTTATCTTAAAA--CTTATTTTAGTACATAATGTTTCAAA
*
10539672 TATATTATTTAAGTGTTTTAAATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATA-
191 TATATTATTTAAGTATTTTAAATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATAT
10539736 TTTTTTCGTATATTATTTTTTAAAATATATTA
256 TTTTTTCGTATATTATTTTTTAAAATATATTA
10539768 TTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTATGT
1 TTTCCTATTTTATTTTTTATATTATTTTAGC-AAAAATGTTTCAAATGTATTATG--TA--A-GT
* *
10539833 AAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTT-GTATTTTTTT-GT
60 -A---TTTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGT
* * *
10539896 ATCTTATTTTTTAAA-ATATTATTTTCGTATT-TATT-TCTTCATA-TTATTTTAGTACATAATG
121 ATCTT-TTTTTTAAATATATTACTTTCGTATTAT-TTATCTTAAAACTTATTTTAGTACATAATG
* ** *
10539957 TTTCAAATGTATTATTTCAA-TATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTT
184 TTTCAAATATATTATTT-AAGTATTTTAAATATTTTTT-AATAAATAACCCTGATTTTAGCACTT
*
10540021 TATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATT-
247 TATTCATATTTTTTTCGTATATTATTTTTTAAAATATATTA
* *** * *
10540061 TTTCTTATTTTA-TTTTTATATTATTTTAGCAAAAAAAATTCAAATGTATTAAT-TAACT-GTTT
1 TTTCCTATTTTATTTTTTATATTATTTTAGCAAAAATGTTTCAAATGTATT-ATGTAAGTATTTT
* * * *
10540123 CTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTT
65 TTTATATTAA------TTTAATAAATAACACTGATTTTGACACTTT-TTCGT-A----TTT-TTT
* * * * * *
10540188 TCGTATATTATTTTT-AATATATATATTTTCGTATT-TTATTTCTTTATA-TTA-TTTAGTACAT
117 TCGTATCTTTTTTTTAAATATAT-TACTTTCGTATTATT-TATCTTAAAACTTATTTTAGTACAT
* * *
10540249 AATGCTTCAAATGTATTATTTAAGTATTTT-TATATTTTTTAAT--A-AACCCTGATTTTAGCAC
180 AATGTTTCAAATATATTATTTAAGTATTTTAAATATTTTTTAATAAATAACCCTGATTTTAGCAC
*
10540310 TTTATTCGTATTTTTTTCGTATATTATTTTTTAAAA-ATATTA
245 TTTATTCATATTTTTTTCGTATATTATTTTTTAAAATATATTA
** ** *
10540352 -TT--T-TGGTA-----T-T-TTATTTTAGCATAAAATCATTCAAATGTATTATTTAAG--TTTT
1 TTTCCTATTTTATTTTTTATATTATTTTAGCA-AAAATGTTTCAAATGTATTATGTAAGTATTTT
* * * *
10540404 TTTATATTAATTTAATAAGTAAC-CTGACTTTGGCACCTTGTTCGTATTTTTTT
65 TTTATATTAATTTAATAAATAACACTGATTTTGACA-CTTTTTCGTATTTTTTT
10540457 ATTTTCAGAT
Statistics
Matches: 891, Mismatches: 46, Indels: 108
0.85 0.04 0.10
Matches are distributed among these distances:
268 4 0.00
269 3 0.00
273 1 0.00
274 14 0.02
275 14 0.02
281 36 0.04
282 21 0.02
283 1 0.00
286 1 0.00
287 32 0.04
288 3 0.00
289 4 0.00
290 36 0.04
291 263 0.30
292 159 0.18
293 71 0.08
294 39 0.04
295 33 0.04
296 75 0.08
297 21 0.02
298 16 0.02
299 5 0.01
300 39 0.04
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (287 bp):
TTTCCTATTTTATTTTTTATATTATTTTAGCAAAAATGTTTCAAATGTATTATGTAAGTATTTTT
TTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTTTTTT
TAAATATATTACTTTCGTATTATTTATCTTAAAACTTATTTTAGTACATAATGTTTCAAATATAT
TATTTAAGTATTTTAAATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTT
TCGTATATTATTTTTTAAAATATATTA
Found at i:10540013 original size:584 final size:571
Alignment explanation
Indices: 10539184--10540368 Score: 1497
Period size: 584 Copynumber: 2.0 Consensus size: 571
10539174 ATAAGTAAAA
* *
10539184 TATTTTCGTATATTATTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTATT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAATGTTTCAAATGTATTATGTAAGTATT
*
10539249 TTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTTT
66 TTTTTATACTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTTT
* *
10539314 TTTTAAATATATTACTTTCGTATTATTTAATTTTAAAACCCTTATTTTAGTACATAATGTTTTAA
131 TTTTAAATATATTACTTTCGTATTATTT-ATCTTAAAA--CTTATTTTAGTACATAATGTTTCAA
* *
10539379 ATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCAT
193 ATATATTATTTAAGTATTTTAAATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCAT
10539444 A-TTTTTTCGTATATTATTTTTTAAAATATATTATTT-TCTATTTTATTTTTTTATATTATTTTA
258 ATTTTTTTCGTATATTATTTTTTAAAATATATT-TTTCT-TATTTTA--TTTTTATATTATTTTA
*** * * * *
10539507 GCAAAAATGTTTTAAATGTATT-ATGTAAGTATTTTTTTATATTAA-TTTAATAAATAACACTGA
319 GCAAAAAAAATTCAAATGTATTAAT-TAACT-GTTTCTTATATTAAGTTTAATAAATAACACTGA
* * *
10539570 TTTTGACACTTTTTTCGT-A-TTT-TTTTCGTATCTTTTTTTTAAAATATATTACTTTCGTATTA
382 TTTTGACACTTTCTTCGTAATTTTATTTTCGTATATTATTTTTAAAATATA-TACTTTCGTATT-
* * *
10539632 TT-TATT-TTAAAACCCTTATTTTAGTACATAATGTTTTAAATATATTATTTAAGTGTTTTAAAT
445 TTAT-TTCTTAAAA---TTA-TTTAGTACATAATGCTTCAAATATATTATTTAAGTATTTT-AAT
10539695 ATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATA-TTTTTTCGTATATTATTTTTTAA
504 ATTTTTTAAT--A-AACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATATTATTTTTTAA
10539759 AATATAT
566 AA-ATAT
*
10539766 TA-TTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTA
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGC-AAAAATGTTTCAAATGTATTATG--TA--A
*
10539830 TGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTT-GTATTTTTTT
61 -GT-A---TTTTTTTATACTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTT
* * *
10539894 -GTATCTTATTTTTTAAA-ATATTATTTTCGTATT-TATT-TCTTCATA-TTATTTTAGTACATA
121 CGTATCTT-TTTTTTAAATATATTACTTTCGTATTAT-TTATCTTAAAACTTATTTTAGTACATA
* ** *
10539954 ATGTTTCAAATGTATTATTTCAA-TATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCA
184 ATGTTTCAAATATATTATTT-AAGTATTTTAAATATTTTTTCAATAAATAACCCTGATTTTAGCA
*
10540018 CTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTTTTCTTATTTTATTTTTATATT
248 CTTTATTCATATTTTTTTCGTATATTATTTTTTAAAATATATTTTTCTTATTTTATTTTTATATT
*
10540083 ATTTTAGCAAAAAAAATTCAAATGTATTAATTAACTGTTTCTTATATTAAGGGTTTTTTACTAAA
313 ATTTTAGCAAAAAAAATTCAAATGTATTAATTAACTGTTTCTTATATTAA--G---TTTAATAAA
* * *
10540148 TAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTAATATATATA
373 TAACACTGATTTTGACACTTTCTTCGTAA---TTTTATTTTCGTATATTATTTTTAAAATATATA
* * * *
10540213 TTTTCGTATTTTATTTCTTTATATTATTTAGTACATAATGCTTCAAATGTATTATTTAAGTATTT
435 CTTTCGTATTTTATTTCTTAAAATTATTTAGTACATAATGCTTCAAATATATTATTTAAGTATTT
* *
10540278 TTATATTTTTTAATAAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTA
500 TAATATTTTTTAATAAACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATATTATTTTTTA
10540343 AAAATAT
565 AAAATAT
*
10540350 TATTTTGGTATTTTATTTT
1 TATTTTCGTATTTTATTTT
10540369 AGCATAAAAT
Statistics
Matches: 529, Mismatches: 42, Indels: 61
0.84 0.07 0.10
Matches are distributed among these distances:
581 41 0.08
582 62 0.12
583 2 0.00
584 123 0.23
585 74 0.14
586 1 0.00
587 51 0.10
588 39 0.07
589 27 0.05
590 19 0.04
591 48 0.09
592 19 0.04
593 23 0.04
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (571 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAATGTTTCAAATGTATTATGTAAGTATT
TTTTTATACTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTCGTATCTTTT
TTTTAAATATATTACTTTCGTATTATTTATCTTAAAACTTATTTTAGTACATAATGTTTCAAATA
TATTATTTAAGTATTTTAAATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCATATT
TTTTTCGTATATTATTTTTTAAAATATATTTTTCTTATTTTATTTTTATATTATTTTAGCAAAAA
AAATTCAAATGTATTAATTAACTGTTTCTTATATTAAGTTTAATAAATAACACTGATTTTGACAC
TTTCTTCGTAATTTTATTTTCGTATATTATTTTTAAAATATATACTTTCGTATTTTATTTCTTAA
AATTATTTAGTACATAATGCTTCAAATATATTATTTAAGTATTTTAATATTTTTTAATAAACCCT
GATTTTAGCACTTTATTCATATTTTTTTCGTATATTATTTTTTAAAAATAT
Found at i:10540142 original size:440 final size:443
Alignment explanation
Indices: 10539408--10540367 Score: 1049
Period size: 440 Copynumber: 2.2 Consensus size: 443
10539398 TAAATATTTT
10539408 TTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTCGTATATTATTTTTTAAAATAT
1 TTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTCGTATATTATTTTTTAAAATAT
* * *
10539473 ATTATTTTCTATTTTATTTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATTATGTAAGTA
66 ATTATTTTCTATTTTATTTCTTCATATTATTTTAGCAAAAATGTTTCAAATGTATTATGTAAGTA
* *
10539538 TTTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTTCGTATTTTTTTCGTATCT
131 TTTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTATTCGTATTTTTTTCGTATAT
* * ***
10539603 TTTTTTTAAAATATATTACTTTCGTATTATTTATTTTAAAACCCTTATTTTAGTACATAATGTTT
196 TTTTTTTAAAATATATTA-TTTCGTATTATTTATTTTAAAA--CTTATTTTAGCACAAAAAAATT
* * *
10539668 TAAATATATTATTTAAGTGTTTTAAATATTTTTTAATAAATAACCCTGATTTT-AGCACTTTATT
258 CAAATATATTAATTAACTGTTTTAAATATTTTTTAATAAATAACCCTGATTTTGA-CACTTTATT
10539732 C-A-TATT-TTTTCGTATATTATTTTTTAAAATATAT-TATTTCCTATTTTATTT-TTTATATTA
322 CAATTATTATTTTCGTATATTA-TTTTTAAAATATATAT-TTTCCTATTTTATTTCTTTATATTA
*
10539792 TTTTAGCAAAAAATGTTTCAAATGTATTATGTATATTATGTAAGTGTTTTTTTATACTAA
385 -TTTAGCAAAAAATGCTTCAAATGTATTATGTATATTATGTAAGTGTTTTTTTATACTAA
* * *
10539852 TTTAATAAATAACCCTGATTTT-GACACTTT-TT-GTATTTTTTTGTATCTTATTTTTT-AAA-A
1 TTTAATAAATAACCCTGATTTTAG-CACTTTATTCATATTTTTTCGTATATTATTTTTTAAAATA
* * *
10539912 TATTATTTTCGTA-TTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTCA
65 TATTATTTTC-TATTTTATTTCTTCATATTATTTTAGCA-AAAATGTTTCAAATGTATTATGT-A
* * *
10539976 A-TA-TTTTTTATATT-TTTTCAATAAATATCCCTGATTTT-AGCACTTTATTCGTATTTTTTTC
127 AGTATTTTTTTATATTAATTT-AATAAATAACACTGATTTTGA-CACTTTATTCGTATTTTTTTC
* * *
10540037 GTATATTATTTTTTAAAATATATT-TTTCTTA-T-TTTATTTTTATA-TTATTTTAGCA-AAAAA
190 GTATATT-TTTTTTAAAATATATTATTTCGTATTATTTATTTTAAAACTTATTTTAGCACAAAAA
* * *
10540097 AATTCAAATGTATTAATTAACTGTTTCTTATATTAAGGGTTTTTTACTAAATAACCCTGATTTTG
254 AATTCAAATATATTAATTAACTG-TT-TTA-AAT-A---TTTTTTAATAAATAACCCTGATTTTG
* * * * *
10540162 ATACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTAATATATATATTTTCGTATTTTAT
312 ACACTTTATTC--AA--TTATTATTTTCGTATATTATTTTTAAAATATATATTTTCCTATTTTAT
* * *
10540227 TTCTTTATATTATTTAGTACATAATGCTTCAAATGTATTAT-T-TA--A-GT-A-----TTTTTA
373 TTCTTTATATTATTTAGCAAAAAATGCTTCAAATGTATTATGTATATTATGTAAGTGTTTTTTTA
**
10540281 TA-TTT
438 TACTAA
*
10540286 TTTAAT--A-AACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAA-A
1 TTTAATAAATAACCCTGATTTTAGCACTTTATTCATA-TTTTTTCGTATATTATTTTTTAAAATA
*
10540347 TATTATTTTGGTATTTTATTT
65 TATTATTTT-CTATTTTATTT
10540368 TAGCATAAAA
Statistics
Matches: 443, Mismatches: 42, Indels: 70
0.80 0.08 0.13
Matches are distributed among these distances:
431 18 0.04
432 4 0.01
433 23 0.05
434 38 0.09
435 26 0.06
436 9 0.02
437 11 0.02
438 1 0.00
439 10 0.02
440 120 0.27
441 46 0.10
442 24 0.05
443 4 0.01
444 30 0.07
445 1 0.00
446 55 0.12
447 23 0.05
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (443 bp):
TTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTCGTATATTATTTTTTAAAATAT
ATTATTTTCTATTTTATTTCTTCATATTATTTTAGCAAAAATGTTTCAAATGTATTATGTAAGTA
TTTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTATTCGTATTTTTTTCGTATAT
TTTTTTTAAAATATATTATTTCGTATTATTTATTTTAAAACTTATTTTAGCACAAAAAAATTCAA
ATATATTAATTAACTGTTTTAAATATTTTTTAATAAATAACCCTGATTTTGACACTTTATTCAAT
TATTATTTTCGTATATTATTTTTAAAATATATATTTTCCTATTTTATTTCTTTATATTATTTAGC
AAAAAATGCTTCAAATGTATTATGTATATTATGTAAGTGTTTTTTTATACTAA
Found at i:10540200 original size:13 final size:13
Alignment explanation
Indices: 10540182--10540241 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
10540172 CGTAATTTTT
10540182 TTATTTTCGTATA
1 TTATTTTCGTATA
**
10540195 TTATTTTTAATATA
1 TTA-TTTTCGTATA
*
10540209 TATATTTTCGTATT
1 T-TATTTTCGTATA
*
10540223 TTA-TTTCTTTATA
1 TTATTTTC-GTATA
10540236 TTATTT
1 TTATTT
10540242 AGTACATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
12 4 0.11
13 11 0.31
14 19 0.53
15 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (13 bp):
TTATTTTCGTATA
Found at i:10540976 original size:17 final size:17
Alignment explanation
Indices: 10540954--10540999 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
10540944 CTTTTCTTTC
10540954 CTTCTTTTTCCTTCCCT
1 CTTCTTTTTCCTTCCCT
*
10540971 CTTCTTCTTCTCCTTCTCT
1 CTTCTT-TT-TCCTTCCCT
*
10540990 TTTCTTTTTC
1 CTTCTTTTTC
10541000 TTTTTCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 8 0.32
18 4 0.16
19 13 0.52
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (17 bp):
CTTCTTTTTCCTTCCCT
Found at i:10541000 original size:22 final size:22
Alignment explanation
Indices: 10540970--10541011 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10540960 TTTCCTTCCC
10540970 TCTTCTTCTTCTCCTTCTCTTT
1 TCTTCTTCTTCTCCTTCTCTTT
* * *
10540992 TCTTTTTCTTTTTCTTCTCT
1 TCTTCTTCTTCTCCTTCTCT
10541012 CAGCCGCAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TCTTCTTCTTCTCCTTCTCTTT
Found at i:10541055 original size:3 final size:3
Alignment explanation
Indices: 10541047--10541103 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
10541037 TCCTTTTTCT
* *
10541047 TTC TTC TTC TTC -TC TTC TTC -CC TTC TTC -CC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
10541092 TCTC TTT TTC TT
1 T-TC TTC TTC TT
10541104 TGCTGAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:10541064 original size:8 final size:8
Alignment explanation
Indices: 10541051--10541094 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
10541041 TTTTCTTTCT
10541051 TCTTCTTC
1 TCTTCTTC
10541059 TCTTCTTC
1 TCTTCTTC
*
10541067 CCTTCTTC
1 TCTTCTTC
*
10541075 CCTTCTTC
1 TCTTCTTC
10541083 TTCTTCTTC
1 -TCTTCTTC
10541092 TCT
1 TCT
10541095 CTTTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 26 0.79
9 7 0.21
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (8 bp):
TCTTCTTC
Found at i:10541097 original size:16 final size:16
Alignment explanation
Indices: 10541026--10541103 Score: 65
Period size: 16 Copynumber: 5.0 Consensus size: 16
10541016 CGCAGGCCTC
* *
10541026 CTTCTCTCCTCTCCTT
1 CTTCTCTCTTCTTCTT
10541042 -TT-TCT-TTCTTCTT
1 CTTCTCTCTTCTTCTT
*
10541055 CTTCTCTTCTTC-CCTT
1 CTTCTC-TCTTCTTCTT
*
10541071 CTTCCCTTCTTCTTCTT
1 CTTCTC-TCTTCTTCTT
*
10541088 CTTCTCTCTTTTTCTT
1 CTTCTCTCTTCTTCTT
10541104 TGCTGAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.12
14 5 0.10
15 4 0.08
16 24 0.48
17 11 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTCTCTCTTCTTCTT
Found at i:10541102 original size:19 final size:19
Alignment explanation
Indices: 10541047--10541103 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
10541037 TCCTTTTTCT
10541047 TTCTTCTTCTTCTCTTCTTC
1 TTCTTCTTC-TCTCTTCTTC
*
10541067 -CCTTCTTC-C-CTTCTTC
1 TTCTTCTTCTCTCTTCTTC
*
10541083 TTCTTCTTCTCTCTTTTTC
1 TTCTTCTTCTCTCTTCTTC
10541102 TT
1 TT
10541104 TGCTGAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 7 0.23
17 8 0.26
18 1 0.03
19 15 0.48
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (19 bp):
TTCTTCTTCTCTCTTCTTC
Found at i:10541783 original size:47 final size:46
Alignment explanation
Indices: 10541732--10541909 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 46
10541722 TGGTTGAGCA
10541732 TCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCGAATG
* * *
10541779 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10541824 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10541872 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGG
10541910 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 27 0.24
47 65 0.59
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10541890 original size:93 final size:94
Alignment explanation
Indices: 10541729--10541899 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 94
10541719 GGATGGTTGA
* *
10541729 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
10541794 TTGAGTCCGAGTTCGTGAGATGTAACTAG
66 TTGAGTCCGAGTTCGTGAGATGTAACTAG
*
10541823 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
10541887 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
10541900 TCGCTTATGG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 45 0.61
94 29 0.39
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (94 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10549349 original size:46 final size:46
Alignment explanation
Indices: 10549299--10549474 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10549289 TGGTTGAGCA
10549299 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10549345 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10549390 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10549438 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10549475 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10549455 original size:93 final size:93
Alignment explanation
Indices: 10549296--10549467 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10549286 GGATGGTTGA
* *
10549296 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10549361 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10549389 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10549454 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
10549468 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10553176 original size:25 final size:25
Alignment explanation
Indices: 10553147--10553194 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10553137 TTATAATATG
* * *
10553147 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
10553172 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
10553195 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:10553263 original size:20 final size:20
Alignment explanation
Indices: 10553238--10553296 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
10553228 TAAATATGGT
10553238 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
10553258 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
10553278 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
10553297 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:10553377 original size:23 final size:24
Alignment explanation
Indices: 10553347--10553441 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
10553337 GAGGAAGTGA
10553347 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
10553370 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
10553394 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
10553418 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
10553442 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:10553415 original size:47 final size:49
Alignment explanation
Indices: 10553348--10553441 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
10553338 AGGAAGTGAA
*
10553348 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
10553395 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
10553442 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:10553684 original size:38 final size:38
Alignment explanation
Indices: 10553633--10553727 Score: 147
Period size: 38 Copynumber: 2.4 Consensus size: 38
10553623 CGTTTACAGT
10553633 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACAT-GA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAA-ATAGA
10553671 AAAGGCTTCGGCCCAGTATTATGAAATATGAAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAAATA-GA
*
10553710 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
10553728 GCATGATTGA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
37 2 0.04
38 33 0.62
39 5 0.09
40 13 0.25
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAAATAGA
Found at i:10561464 original size:25 final size:25
Alignment explanation
Indices: 10561435--10561482 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10561425 TTATAATATG
* * *
10561435 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
10561460 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
10561483 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:10561551 original size:20 final size:20
Alignment explanation
Indices: 10561526--10561584 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
10561516 TAAATATGGT
10561526 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
10561546 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
10561566 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
10561585 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Done.