Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 30 of 284
Found at i:10492494 original size:79 final size:79
Alignment explanation
Indices: 10492369--10492537 Score: 261
Period size: 79 Copynumber: 2.1 Consensus size: 79
10492359 AACCAAAATG
* *
10492369 AGAATCAGAATCAGAATCAGTAACAGAATCAATATTAGTAACAGAATTAGAATCAGAATCAAAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAATATTAGTAACAGAATCAAAATCAGAATCAAAAT
10492434 TAGGTGACAGAATC
66 TAGGTGACAGAATC
* * *
10492448 AGAATCAGAATCAGTAA-CCG-AATCAGAATCAGTATTAGTAACAGAATCAAAATCAGAATCAGA
1 AGAATCAGAATCAG-AATCAGTAA-CAGAATCAATATTAGTAACAGAATCAAAATCAGAATCAAA
10492511 ATTAGGTGACAGAATC
64 ATTAGGTGACAGAATC
10492527 AGAATCAGAAT
1 AGAATCAGAAT
10492538 GGAATGCAAT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
78 2 0.02
79 79 0.95
80 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAATATTAGTAACAGAATCAAAATCAGAATCAAAAT
TAGGTGACAGAATC
Found at i:10492702 original size:27 final size:26
Alignment explanation
Indices: 10492654--10492740 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
10492644 AGCATGGCTG
* * *
10492654 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
10492680 CCAGATACAGACATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
10492707 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
10492734 CCAGAAC
1 CCAGAAC
10492741 GCTTCCTCCG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 11 0.21
27 42 0.79
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:10493039 original size:27 final size:27
Alignment explanation
Indices: 10493000--10493167 Score: 264
Period size: 27 Copynumber: 6.2 Consensus size: 27
10492990 TGGTGTTTTA
*
10493000 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
10493027 ATAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
10493054 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
10493081 GTAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
10493108 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * *
10493135 ATAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
10493162 GTAATT
1 GTAATT
10493168 TCACAATCGA
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:10493234 original size:27 final size:27
Alignment explanation
Indices: 10493172--10493422 Score: 303
Period size: 27 Copynumber: 9.3 Consensus size: 27
10493162 GTAATTTCAC
* * *
10493172 AATCGAGGATAAAACGATAATTTTTGTA
1 AATCGAGGGTAAAACGGTAA-TTCTGTA
* *
10493200 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
10493227 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
10493254 AATCGAGGATAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
10493281 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
10493308 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
10493335 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
10493362 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
10493389 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
10493416 AATCGAG
1 AATCGAG
10493423 AGTACTTTGG
Statistics
Matches: 196, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.01
27 177 0.90
28 18 0.09
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:10493411 original size:81 final size:81
Alignment explanation
Indices: 10493172--10493422 Score: 378
Period size: 81 Copynumber: 3.1 Consensus size: 81
10493162 GTAATTTCAC
* * * *
10493172 AATCGAGGATAAAACGATAATTTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAA-TCGAGGG
1 AATCGAGGATAAAATGGTAA-TTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAACT-GAGGG
* **
10493236 TAAAACGGTAATTTTACA
64 TAAAACGGTAATTCTGTA
* * *
10493254 AATCGAGGATAAAATGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGATAAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
10493319 AAACGGTAATTCTGTA
66 AAACGGTAATTCTGTA
*
10493335 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGATAAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
10493400 AAACGGTAATTCTGTA
66 AAACGGTAATTCTGTA
10493416 AATCGAG
1 AATCGAG
10493423 AGTACTTTGG
Statistics
Matches: 154, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
81 135 0.88
82 19 0.12
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGATAAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACGGTAATTCTGTA
Found at i:10493450 original size:81 final size:79
Alignment explanation
Indices: 10493172--10493451 Score: 328
Period size: 81 Copynumber: 3.4 Consensus size: 79
10493162 GTAATTTCAC
* * * * *
10493172 AATCGAGGATAAAACGATAATTTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAA-TCGAGGG
1 AATCGAGG-TAAAATGGTAA-TTTT-TAAATTGAGGGTAAAACGGTAATTCTGTAAACT-GAGGG
* **
10493236 TAAAACGGTAATTTTACA
62 TAAAACGGTAATTCTGTA
* *
10493254 AATCGAGGATAAAATGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTA
1 AATCGAGG-TAAAATGGTAATT-TTTAAATTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
10493319 AAACGGTAATTCTGTA
64 AAACGGTAATTCTGTA
*
10493335 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
1 AATCGA-GGTAAAATGGTAATTTT-TAAATTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
10493400 AAACGGTAATTCTGTA
64 AAACGGTAATTCTGTA
*** *
10493416 AATCGAGAGTACTTTGGTAATTTTTCAAGTTGAGGG
1 AATCGAG-GTAAAATGGTAATTTTT-AAATTGAGGG
10493452 CATTTCAGTA
Statistics
Matches: 174, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
80 3 0.02
81 149 0.86
82 22 0.13
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (79 bp):
AATCGAGGTAAAATGGTAATTTTTAAATTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAA
ACGGTAATTCTGTA
Found at i:10504538 original size:58 final size:58
Alignment explanation
Indices: 10504463--10504658 Score: 214
Period size: 58 Copynumber: 3.4 Consensus size: 58
10504453 AACAAATTTG
* *
10504463 TACTTGAGAAAATTTTGAAAGAGAACCAACTGGAGATGTGAATCTGCAAGCTGGTTTA
1 TACTTAAGAAAAATTTGAAAGAGAACCAACTGGAGATGTGAATCTGCAAGCTGGTTTA
* * * * *
10504521 TACTTAAGAAAAGTTTGAAAGATAGCCAACTGGGGATGTGAATCTGCAAGCTGTTTTA
1 TACTTAAGAAAAATTTGAAAGAGAACCAACTGGAGATGTGAATCTGCAAGCTGGTTTA
* * * * * * ** * **
10504579 TACTTAAGAAAAATTTGAAAGATAGCTAGCT-AAGGATGTGAACCCACGAGCTATTTTA
1 TACTTAAGAAAAATTTGAAAGAGAACCAACTGGA-GATGTGAATCTGCAAGCTGGTTTA
10504637 TACTTAAGAAAAATTTGAAAGA
1 TACTTAAGAAAAATTTGAAAGA
10504659 TAATATAGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
58 121 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (58 bp):
TACTTAAGAAAAATTTGAAAGAGAACCAACTGGAGATGTGAATCTGCAAGCTGGTTTA
Found at i:10504795 original size:69 final size:69
Alignment explanation
Indices: 10504681--10504942 Score: 276
Period size: 69 Copynumber: 3.8 Consensus size: 69
10504671 GAGTTTTTGA
* * * * *
10504681 CTCTCGCTAACTATGTTGGAGGTTACAGTTTTTTGTCCTATGAGCCTTAATATGACAAG-TGGGA
1 CTCTCGCTAACTGTGTTGGAGGCTACA-ATTTTTATCCTACGAGCCTTAATATGA-AAGCTGGGA
10504745 GCTTTT
64 GCTTTT
*** * * * * * *
10504751 CTCTCAAAAACTATGTTAGAGGCTGCGATTTTTATCCTACGAGCCTTATTATGATAGCTGGGAGC
1 CTCTCGCTAACTGTGTTGGAGGCTACAATTTTTATCCTACGAGCCTTAATATGAAAGCTGGGAGC
*
10504816 TTTG
66 TTTT
* * * * * *
10504820 CTCTCGCTAATTGTGTTGGAGACTACAATTTTTATCCTATGAGCCTTAATATGATAGTTGAGAG-
1 CTCTCGCTAACTGTGTTGGAGGCTACAATTTTTATCCTACGAGCCTTAATATGAAAGCTGGGAGC
10504884 TTTT
66 TTTT
* *
10504888 GCTCTCGCTAACTGTGTTGGAGGCTACAATTATTATCCTGCGAGCCTTAATATGA
1 -CTCTCGCTAACTGTGTTGGAGGCTACAATTTTTATCCTACGAGCCTTAATATGA
10504943 CATAAAGGAT
Statistics
Matches: 158, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
68 5 0.03
69 133 0.84
70 20 0.13
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (69 bp):
CTCTCGCTAACTGTGTTGGAGGCTACAATTTTTATCCTACGAGCCTTAATATGAAAGCTGGGAGC
TTTT
Found at i:10504932 original size:138 final size:140
Alignment explanation
Indices: 10504676--10504942 Score: 326
Period size: 138 Copynumber: 1.9 Consensus size: 140
10504666 GTTGGGAGTT
** * *
10504676 TTTGACTCTCGCTAACTATGTTGGAGGTTACAGTTTTTTGTCCTATGAGCCTTAATATGACAAGT
1 TTTGACTCTCGCTAACTATGTTGGAGACTACAGATTTTTATCCTATGAGCCTTAATATGACAAGT
* * * * *
10504741 GGGAGCTTTTCTCTCAAAAACTATGTTAGAGGCTGCGATTTTTATCCTACGAGCCTTATTATGAT
66 GAGAGCTTTTCTCTCAAAAACTATGTTAGAGGCTACAATTATTATCCTACGAGCCTTAATATGAT
10504806 AGCTGGGAGC
131 AGCTGGGAGC
* * *
10504816 TTTG-CTCTCGCTAATTGTGTTGGAGACTACA-ATTTTTATCCTATGAGCCTTAATATGA-TAGT
1 TTTGACTCTCGCTAACTATGTTGGAGACTACAGATTTTTATCCTATGAGCCTTAATATGACAAG-
*** * * *
10504878 TGAGAG-TTTTGCTCTCGCTAACTGTGTTGGAGGCTACAATTATTATCCTGCGAGCCTTAATATG
65 TGAGAGCTTTT-CTCTCAAAAACTATGTTAGAGGCTACAATTATTATCCTACGAGCCTTAATATG
10504942 A
129 A
10504943 CATAAAGGAT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
137 6 0.06
138 74 0.69
139 23 0.21
140 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (140 bp):
TTTGACTCTCGCTAACTATGTTGGAGACTACAGATTTTTATCCTATGAGCCTTAATATGACAAGT
GAGAGCTTTTCTCTCAAAAACTATGTTAGAGGCTACAATTATTATCCTACGAGCCTTAATATGAT
AGCTGGGAGC
Found at i:10508596 original size:40 final size:40
Alignment explanation
Indices: 10508235--10508582 Score: 626
Period size: 40 Copynumber: 8.7 Consensus size: 40
10508225 ATTCGGATTG
*
10508235 ATAACTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
10508274 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
10508314 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
10508354 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
10508394 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
10508434 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
10508474 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
10508514 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
10508554 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
10508583 AGCTAGTAGC
Statistics
Matches: 297, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
39 13 0.04
40 284 0.96
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:10513450 original size:28 final size:29
Alignment explanation
Indices: 10513413--10513478 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
10513403 TAAAGTGATT
*
10513413 TTGAGTAAAAATGTATATT-AGGGATTAAA
1 TTGAG-AAAAATGTAAATTGAGGGATTAAA
* *
10513442 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
10513471 TTGTGAAA
1 TTGAGAAA
10513479 TAAATGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:10514795 original size:13 final size:12
Alignment explanation
Indices: 10514768--10514803 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
10514758 TAGATATGTT
10514768 TTGGTTGTAGAA
1 TTGGTTGTAGAA
*
10514780 TTGGTTAGTTGAA
1 TTGGTT-GTAGAA
10514793 TTGGTTGTAGA
1 TTGGTTGTAGA
10514804 TAGATGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (12 bp):
TTGGTTGTAGAA
Found at i:10521884 original size:27 final size:27
Alignment explanation
Indices: 10521854--10521905 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10521844 CCCAAATTGA
*
10521854 TAAAATAACTATTATGCCCCTATGAGG
1 TAAAATAACTAATATGCCCCTATGAGG
* *
10521881 TAAAATGACTAATATGCCCTTATGA
1 TAAAATAACTAATATGCCCCTATGA
10521906 AATCTATGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (27 bp):
TAAAATAACTAATATGCCCCTATGAGG
Found at i:10522624 original size:31 final size:31
Alignment explanation
Indices: 10522580--10522641 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
10522570 TTTAATAGAT
* *
10522580 TATCTTTTTGCTCAACAACTTGAGTTTTAAC
1 TATCATTTCGCTCAACAACTTGAGTTTTAAC
10522611 TATCATTTCGCTCAACAACTTGAGTTTTAAC
1 TATCATTTCGCTCAACAACTTGAGTTTTAAC
10522642 AATGAACGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (31 bp):
TATCATTTCGCTCAACAACTTGAGTTTTAAC
Found at i:10523672 original size:28 final size:29
Alignment explanation
Indices: 10523630--10523695 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
10523620 TAAAGTGATT
*
10523630 TTGAGTAAAAATGTATATT-ACGGATTAAA
1 TTGAG-AAAAATGTAAATTGACGGATTAAA
* * *
10523659 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGACGGATTAAA
*
10523688 TTGTGAAA
1 TTGAGAAA
10523696 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.32
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGACGGATTAAA
Found at i:10525004 original size:13 final size:12
Alignment explanation
Indices: 10524977--10525012 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
10524967 TAGATATGTT
10524977 TTGGTTGTGGAA
1 TTGGTTGTGGAA
*
10524989 TTGGTTAGTTGAA
1 TTGGTT-GTGGAA
10525002 TTGGTTGTGGA
1 TTGGTTGTGGA
10525013 TAGATGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (12 bp):
TTGGTTGTGGAA
Found at i:10530101 original size:45 final size:45
Alignment explanation
Indices: 10530037--10530125 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
10530027 CAATTAGACC
*
10530037 ATTAAAGAAAAGTTAGTAGATATTTTTGGTTATTCATCCATGGAG
1 ATTAAAGAAAAGTTAGTAGATATTTTTGGTGATTCATCCATGGAG
10530082 ATTAAAGAAAAGTTAGTAGATATTTTTGGTGATTCATCCATGGA
1 ATTAAAGAAAAGTTAGTAGATATTTTTGGTGATTCATCCATGGA
10530126 TAAATTAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (45 bp):
ATTAAAGAAAAGTTAGTAGATATTTTTGGTGATTCATCCATGGAG
Found at i:10530136 original size:45 final size:44
Alignment explanation
Indices: 10530041--10530138 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 44
10530031 TAGACCATTA
* *
10530041 AAGAAAAGTTAGTAGATATTTTTGGTTATTCATCCATGGAGATT
1 AAGAAAAGTTAGTAGATATTTTTGGTGATTCATCCATGGAAATT
10530085 AAAGAAAAGTTAGTAGATATTTTTGGTGATTCATCCATGGATAAATT
1 -AAGAAAAGTTAGTAGATATTTTTGGTGATTCATCCATGG--AAATT
10530132 -AGAAAAG
1 AAGAAAAG
10530139 GCTAAAGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
45 45 0.92
47 4 0.08
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (44 bp):
AAGAAAAGTTAGTAGATATTTTTGGTGATTCATCCATGGAAATT
Found at i:10531936 original size:44 final size:42
Alignment explanation
Indices: 10531792--10531950 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 42
10531782 AACTTGTACA
* * * *
10531792 ATGCCAACGTCCCAAATATGGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCG
* *
10531835 ATG-CTACTGTCCCAGACAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT-CG
* * *
10531877 ATGCCGATGTCCCAGACATGCTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AA-TCG
*
10531921 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
10531951 AAAACACATA
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.31
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATCG
Found at i:10532338 original size:8 final size:8
Alignment explanation
Indices: 10532325--10532349 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10532315 AAATTAGCCC
10532325 TCACATTT
1 TCACATTT
10532333 TCACATTT
1 TCACATTT
10532341 TCACATTT
1 TCACATTT
10532349 T
1 T
10532350 GACAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:10534540 original size:13 final size:13
Alignment explanation
Indices: 10534522--10534548 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10534512 GAAATTGTTC
10534522 TCTGACAAATCTG
1 TCTGACAAATCTG
10534535 TCTGACAAATCTG
1 TCTGACAAATCTG
10534548 T
1 T
10534549 GAGTGCACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TCTGACAAATCTG
Found at i:10536386 original size:47 final size:46
Alignment explanation
Indices: 10536315--10536494 Score: 177
Period size: 47 Copynumber: 3.8 Consensus size: 46
10536305 TTATCTATGT
*
10536315 GCCAGTGTAAGACATGTCTTGGACATGGCATCGACATTGAGACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACATTGAGA-GAGA
* *
10536362 GCCAGTGTAAGACATGCCTGGGACATGGCATCGACACCTAT-AGAG-GT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGACA--T-TGAGAGAGA
** * * *
10536409 GTTAGTGTAAAACCATGTCTGGGACATGGCATCGAC-TTGATAGATAA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACATTGAGAGA-GA
* * *
10536456 GCTAGTGTAAGACTATGACTGGGACATGGCATCGGCATT
1 GCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGACATT
10536495 ATACCCTATG
Statistics
Matches: 110, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 1 0.01
47 74 0.67
48 25 0.23
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGACATTGAGAGAGA
Found at i:10536480 original size:95 final size:94
Alignment explanation
Indices: 10536318--10536489 Score: 249
Period size: 95 Copynumber: 1.8 Consensus size: 94
10536308 TCTATGTGCC
* * * *
10536318 AGTGTAAGACATGTCTTGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGCCTGG
1 AGTGTAAAACATGTCTGGGACATGGCATCGACATTGAGACGAAAGCCAGTGTAAGACATGACTGG
10536383 GACATGGCATCGACACCTATAGAGGTGTT
66 GACATGGCATCGACACCTATAGAGGTGTT
* *
10536412 AGTGTAAAACCATGTCTGGGACATGGCATCGAC-TTGATA-GATAAGCTAGTGTAAGACTATGAC
1 AGTGTAAAA-CATGTCTGGGACATGGCATCGACATTGAGACGA-AAGCCAGTGTAAGAC-ATGAC
10536475 TGGGACATGGCATCG
63 TGGGACATGGCATCG
10536490 GCATTATACC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 2 0.03
94 26 0.38
95 41 0.59
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (94 bp):
AGTGTAAAACATGTCTGGGACATGGCATCGACATTGAGACGAAAGCCAGTGTAAGACATGACTGG
GACATGGCATCGACACCTATAGAGGTGTT
Found at i:10541389 original size:46 final size:45
Alignment explanation
Indices: 10541339--10541514 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
10541329 TGTTTGGGCA
10541339 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
10541385 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
10541432 TCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
10541478 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10541515 GCAGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:10541494 original size:93 final size:93
Alignment explanation
Indices: 10541335--10541507 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
10541325 AGGATGTTTG
* *
10541335 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
10541400 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
10541428 GGCATCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
10541493 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
10541508 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:10543066 original size:13 final size:12
Alignment explanation
Indices: 10543039--10543074 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
10543029 TAGATATGTT
10543039 TTGGTTGTGGAA
1 TTGGTTGTGGAA
*
10543051 TTGGTTAGTTGAA
1 TTGGTT-GTGGAA
10543064 TTGGTTGTGGA
1 TTGGTTGTGGA
10543075 TAAATGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (12 bp):
TTGGTTGTGGAA
Found at i:10546436 original size:40 final size:40
Alignment explanation
Indices: 10546274--10546429 Score: 253
Period size: 40 Copynumber: 3.9 Consensus size: 40
10546264 CCTTCAGAAT
* *
10546274 TTAG-CCGGATATAG-CAACTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAC
*
10546313 TTAGCCCGGACATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
10546353 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
10546393 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
10546430 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 4 0.04
40 105 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
Found at i:10548319 original size:22 final size:22
Alignment explanation
Indices: 10548294--10548335 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10548284 TTCGCTGCCT
* *
10548294 CTAGTATTGAGATTATCTGTAC
1 CTAGTACTGACATTATCTGTAC
*
10548316 CTAGTACTGACATTCTCTGT
1 CTAGTACTGACATTATCTGT
10548336 GAACTCTATG
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:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (22 bp):
CTAGTACTGACATTATCTGTAC
Found at i:10553871 original size:44 final size:42
Alignment explanation
Indices: 10553727--10553888 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
10553717 AACTTGTACA
* * * * *
10553727 ATGCCAACGTCCCAAATATGGTCTTACATGTAATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
* * *
10553770 ATG-CTACTATCCCAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATACG
* * * *
10553812 ATGTCGATGTCCCAGACATGCTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AA-TACG
10553856 ATGCCAACGTCCCAGACATGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAA
10553889 ACACATATCG
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 26 0.27
43 40 0.41
44 30 0.31
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:10556205 original size:33 final size:33
Alignment explanation
Indices: 10556158--10556227 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
10556148 TACGATTGAG
* *
10556158 TTCCTTCTCTCTTTGGCTAAATTCTCACTCTCT
1 TTCCTTCTCTCTTTGACCAAATTCTCACTCTCT
* *
10556191 TTCCNTCTCTCTTTGACCGAATTCTCACTCTCT
1 TTCCTTCTCTCTTTGACCAAATTCTCACTCTCT
10556224 TTCC
1 TTCC
10556228 CTCTTATCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.11, C:0.36, G:0.06, T:0.46
Consensus pattern (33 bp):
TTCCTTCTCTCTTTGACCAAATTCTCACTCTCT
Found at i:10557096 original size:47 final size:47
Alignment explanation
Indices: 10557028--10557121 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
10557018 GGTGTCTTGA
* * *
10557028 TTGAATATAGGTTTGGTACTCGTGGTGTAATAGCTTGATTTTGGGCC
1 TTGAATACAGGGTTGGTACTCGTGGTGTAATAGCTCGATTTTGGGCC
10557075 TTGAATACAGGGTTGGTACTCGTGGTGTAATAGCTCGATTTTGGGCC
1 TTGAATACAGGGTTGGTACTCGTGGTGTAATAGCTCGATTTTGGGCC
10557122 CAGTAGGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.19, C:0.13, G:0.31, T:0.37
Consensus pattern (47 bp):
TTGAATACAGGGTTGGTACTCGTGGTGTAATAGCTCGATTTTGGGCC
Found at i:10558373 original size:47 final size:47
Alignment explanation
Indices: 10558301--10558480 Score: 199
Period size: 47 Copynumber: 3.8 Consensus size: 47
10558291 TTATCTATGT
*
10558301 GCTAGTGTAAGA-CATGTCTTGGACATGGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA-GAGA
* *
10558348 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACACGTAT-AGAG-GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA--T-TGAGAGAGA
* * * *
10558395 GTTAGTGTAAAACCATGTCTGGGACATGGCATCGAC-TTGATAGATAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAGA-GA
* *
10558442 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCATT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
10558481 ATACCCTATG
Statistics
Matches: 112, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
47 76 0.68
48 26 0.23
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAGAGA
Found at i:10558465 original size:95 final size:94
Alignment explanation
Indices: 10558303--10558475 Score: 251
Period size: 95 Copynumber: 1.8 Consensus size: 94
10558293 ATCTATGTGC
* * * *
10558303 TAGTGTAAGACATGTCTTGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTG
1 TAGTGTAAAACATGTCTGGGACATGGCATCGACATTGAGACGAAAGCCAGTGTAAGACATGACTG
10558368 GGACATGGCATCGACACGTATAGAGGTGT
66 GGACATGGCATCGACACGTATAGAGGTGT
* *
10558397 TAGTGTAAAACCATGTCTGGGACATGGCATCGAC-TTGATA-GATAAGCTAGTGTAAGACCATGA
1 TAGTGTAAAA-CATGTCTGGGACATGGCATCGACATTGAGACGA-AAGCCAGTGTAAGA-CATGA
10558460 CTGGGACATGGCATCG
63 CTGGGACATGGCATCG
10558476 GCATTATACC
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
93 2 0.03
94 26 0.37
95 42 0.60
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (94 bp):
TAGTGTAAAACATGTCTGGGACATGGCATCGACATTGAGACGAAAGCCAGTGTAAGACATGACTG
GGACATGGCATCGACACGTATAGAGGTGT
Found at i:10565962 original size:15 final size:15
Alignment explanation
Indices: 10565942--10565995 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
10565932 ATATCTTGGG
10565942 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
10565957 TCTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
10565972 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
10565987 TTTCTTTAT
1 TTTCTTTAT
10565996 TCGGTTTTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:10565972 original size:30 final size:30
Alignment explanation
Indices: 10565938--10566006 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
10565928 TATCATATCT
10565938 TGGGTTTCTTTATCCTGGATCTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
* * *
10565968 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCCTGGATCTCTTTATTC
*
10565998 -GGTTTTCTT
1 TGGGTTTCTT
10566007 GTTATCTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTTTATCCTGGATCTCTTTATTC
Found at i:10576651 original size:27 final size:27
Alignment explanation
Indices: 10576620--10577164 Score: 523
Period size: 27 Copynumber: 20.3 Consensus size: 27
10576610 GAAAATGCTA
*
10576620 AAATACCCTTGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
10576647 AAATACCC-CTGATTTGTAAAATTACCG
1 AAATACCCTC-GATTTGTAAAATTACCG
* * *
10576674 AAATACCTTCGA-TTGTGAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
*
10576700 AAATACCC-CTGGTTTGTAAAATTACCG
1 AAATACCCTC-GATTTGTAAAATTACCG
* * *
10576727 AAGTACCCT-TAGTTTGTAAAATTATCG
1 AAATACCCTCGA-TTTGTAAAATTACCG
* *
10576754 AAATACCC-CTGATTTGTAAAATTATCA
1 AAATACCCTC-GATTTGTAAAATTACCG
*
10576781 AAATACCCTCGGTTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
* * **
10576808 AAGTACCC-CGACTTGTAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACCG
* * **
10576834 AAATACCCCCGGTTTGTAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACCG
** * ** **
10576861 AAATA-CCTTTAGTTACAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACCG
* * *
10576887 AAATACCCTCGATTTTTAGAATTACTG
1 AAATACCCTCGATTTGTAAAATTACCG
* * *
10576914 AAATACCCTCGATTTTTAGAATTACTG
1 AAATACCCTCGATTTGTAAAATTACCG
*
10576941 AAATACCCTCAATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
* * *
10576968 AAACACCATCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
*
10576995 AAATACCCTTGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
* **
10577022 AAATACCCTCAATTTGTAAAATTATTG
1 AAATACCCTCGATTTGTAAAATTACCG
10577049 AAATACCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
10577076 AAACACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
* * * *
10577103 CAATACCCTTG-TAGTGTAAAATTATCG
1 AAATACCCTCGAT-TTGTAAAATTACCG
* * *
10577130 AAATACCCTTG-TAGTGTAAAATGACCG
1 AAATACCCTCGAT-TTGTAAAATTACCG
*
10577157 ACATACCC
1 AAATACCC
10577165 CTGTAAGGTA
Statistics
Matches: 437, Mismatches: 69, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.00
26 61 0.14
27 372 0.85
28 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCG
Found at i:10578712 original size:12 final size:12
Alignment explanation
Indices: 10578695--10578720 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10578685 CATTCCGAAG
10578695 TATATATATACA
1 TATATATATACA
10578707 TATATATATACA
1 TATATATATACA
10578719 TA
1 TA
10578721 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:10579255 original size:28 final size:27
Alignment explanation
Indices: 10579198--10579349 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
10579188 TAAATTGTGC
*
10579198 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
10579225 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
10579253 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
10579280 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* * *
10579308 AGCACTGAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
10579335 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10579350 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 67 0.56
28 52 0.44
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:10579263 original size:55 final size:55
Alignment explanation
Indices: 10579198--10579349 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
10579188 TAAATTGTGC
*
10579198 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
10579253 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
10579308 AGCACTGAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
10579350 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:10595102 original size:42 final size:43
Alignment explanation
Indices: 10595043--10595146 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 43
10595033 CATGTAATAA
* *
10595043 ATAT-CGAAGCCACTGTCCCAGAA-AGGGTCTTACAC-AAAATC
1 ATATACGATGCCAATGTCCCA-AACAGGGTCTTACACGAAAATC
* *
10595084 ATATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATC
1 ATATACGATGCCAATGTCCCAAACAGGGTCTTACACGAAAATC
* * *
10595127 ACAAATCGATGCCAACGTCC
1 ATATA-CGATGCCAATGTCC
10595147 TAGGCGTGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
41 6 0.12
42 25 0.48
43 8 0.15
44 13 0.25
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (43 bp):
ATATACGATGCCAATGTCCCAAACAGGGTCTTACACGAAAATC
Found at i:10601746 original size:43 final size:44
Alignment explanation
Indices: 10601644--10601747 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 44
10601634 GTCCTAGATG
*
10601644 TGGTCTTACATGT-AATCAAATATCGAAGCCACTGTCTCAGACA
1 TGGTCTTACATGTAAATCAAATATCGAAGCCAATGTCTCAGACA
* * * **
10601687 AGGTCTTACA-CTAAATCATATA-CGATTCCAATGTC-CAAGACA
1 TGGTCTTACATGTAAATCAAATATCGAAGCCAATGTCTC-AGACA
10601729 TGGTCTTACATGTAAATCA
1 TGGTCTTACATGTAAATCA
10601748 CAAATCAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 25 0.50
43 24 0.48
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (44 bp):
TGGTCTTACATGTAAATCAAATATCGAAGCCAATGTCTCAGACA
Found at i:10602491 original size:12 final size:12
Alignment explanation
Indices: 10602474--10602504 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
10602464 TAGCTCAACT
10602474 CAAAATCGTCAA
1 CAAAATCGTCAA
10602486 CAAAATCGTCAA
1 CAAAATCGTCAA
10602498 CAAAATC
1 CAAAATC
10602505 AGAAATTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (12 bp):
CAAAATCGTCAA
Found at i:10603176 original size:85 final size:88
Alignment explanation
Indices: 10603066--10603283 Score: 268
Period size: 85 Copynumber: 2.5 Consensus size: 88
10603056 TGTTACACGA
* * * * *
10603066 ACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCC-ACTGTTCCAGATA
1 ACAATGCCAATGTCCCAAACGTGGTCTTACATGAAATCAAATATCGATGCCGA-TGTCCCAAACA
10603130 GGGTCTTACACG-AAATCA-AA-T
65 GGGTCTTACACGTAAATCATAAGT
* * * *
10603151 ACAATGTCGATGTCCCAAACATGGTCTTACATGAAATCAAATA-CGATGCCGATGTCCCAAACAT
1 ACAATGCCAATGTCCCAAACGTGGTCTTACATGAAATCAAATATCGATGCCGATGTCCCAAACAG
10603215 GGTCTTACACGTAAATCATAAGT
66 GGTCTTACACGTAAATCATAAGT
* * * *
10603238 -CGATGCCAACGTCCCAAACGTGGTCTTACATGAAAGCACATATCGA
1 ACAATGCCAATGTCCCAAACGTGGTCTTACATGAAATCAAATATCGA
10603284 ATCCTATGTC
Statistics
Matches: 112, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
84 26 0.23
85 45 0.40
86 37 0.33
87 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (88 bp):
ACAATGCCAATGTCCCAAACGTGGTCTTACATGAAATCAAATATCGATGCCGATGTCCCAAACAG
GGTCTTACACGTAAATCATAAGT
Found at i:10603187 original size:42 final size:42
Alignment explanation
Indices: 10603069--10603272 Score: 221
Period size: 42 Copynumber: 4.8 Consensus size: 42
10603059 TACACGAACA
* * *
10603069 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGAAATCAAATA-CG
* * * * * * *
10603112 ATGCCACTGTTCCAGATAGGGTCTTACACGAAATCAAATACA
1 ATGCCAATGTCCCAAACATGGTCTTACATGAAATCAAATACG
* *
10603154 ATGTCGATGTCCCAAACATGGTCTTACATGAAATCAAATACG
1 ATGCCAATGTCCCAAACATGGTCTTACATGAAATCAAATACG
* *
10603196 ATGCCGATGTCCCAAACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAAACATGGTCTTACATG-AAATCA-AA-TACG
* *
10603240 ATGCCAACGTCCCAAACGTGGTCTTACATGAAA
1 ATGCCAATGTCCCAAACATGGTCTTACATGAAA
10603273 GCACATATCG
Statistics
Matches: 135, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 62 0.46
43 42 0.31
44 30 0.22
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGAAATCAAATACG
Found at i:10607796 original size:25 final size:25
Alignment explanation
Indices: 10607762--10607831 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
10607752 AACCAAAACA
*
10607762 AGCCTTTGTGATGAATTATTTGAAG
1 AGCCTTTGTGGTGAATTATTTGAAG
* *
10607787 AGCCTTTGTGGCGAATTATATGAAG
1 AGCCTTTGTGGTGAATTATTTGAAG
*
10607812 AGCCTTTGTGGTGTATTATT
1 AGCCTTTGTGGTGAATTATT
10607832 AGGAAAGTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (25 bp):
AGCCTTTGTGGTGAATTATTTGAAG
Found at i:10610972 original size:53 final size:53
Alignment explanation
Indices: 10610891--10610997 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
10610881 AAGAGAAGAA
*
10610891 AAGAGAGGAGAGGTGTAACACCCGTAGCCTGTATCCATCACCAGAATAGGGTT
1 AAGAGAGGAGAGGTGTAACACCCCTAGCCTGTATCCATCACCAGAATAGGGTT
10610944 AAGAGAGGAGAGGTGTAACACCCCTAGCCTGTATCCATCACCAGAATAGGGTT
1 AAGAGAGGAGAGGTGTAACACCCCTAGCCTGTATCCATCACCAGAATAGGGTT
10610997 A
1 A
10610998 CGAAGCATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (53 bp):
AAGAGAGGAGAGGTGTAACACCCCTAGCCTGTATCCATCACCAGAATAGGGTT
Found at i:10616781 original size:23 final size:23
Alignment explanation
Indices: 10616660--10616809 Score: 139
Period size: 23 Copynumber: 6.5 Consensus size: 23
10616650 TCAGCTTGTA
*
10616660 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
*
10616684 AGAGCTTA-TCGTTTCAGCTC-GT
1 AGAGCTTACT-GTTTCAGCTCAAT
*
10616706 ATGAGCTCACTG-TT-AGCTCAAT
1 A-GAGCTTACTGTTTCAGCTCAAT
*
10616728 AGAGCTTATTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
10616750 AGAGCTTACCGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
10616773 AGAGCTTACTATTCTTCAGCTCAAG
1 AGAGCTTACT-GT-TTCAGCTCAAT
10616798 AGGAGCTTACTG
1 A-GAGCTTACTG
10616810 ATCATAGCTC
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
21 15 0.14
22 23 0.22
23 36 0.35
24 11 0.11
25 10 0.10
26 9 0.09
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:10621381 original size:40 final size:40
Alignment explanation
Indices: 10621236--10621499 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 40
10621226 TTGAATGCTG
* * *
10621236 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
10621275 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
10621315 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10621354 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10621394 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10621434 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
10621475 -CCGGGCTATGCCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
10621500 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 53 0.26
40 138 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10621517 original size:120 final size:118
Alignment explanation
Indices: 10621288--10621532 Score: 296
Period size: 120 Copynumber: 2.1 Consensus size: 118
10621278 GGACTAAGAT
* * *
10621288 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
* * * ** * *
10621353 ATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGCCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATC
* * *
10621407 CCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA
* * *
10621472 TAA-CCGGGCTATGCCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATT
65 -AATCCGGGCTAAGCCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATC
10621526 CCGAAGG
1 CCGAAGG
10621533 TATGTGATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
119 48 0.45
120 57 0.53
121 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
ATCCGGGCTAAGCCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATC
Found at i:10627576 original size:23 final size:23
Alignment explanation
Indices: 10627534--10627700 Score: 148
Period size: 23 Copynumber: 7.3 Consensus size: 23
10627524 TCAGCTCGTA
* * *
10627534 AGAGCTTACTATTTTCAGCTTATT
1 AGAGCTTACCA-TTTCAGCTCAAT
* *
10627558 GGAGCTTACCATTTCAGCTC-GT
1 AGAGCTTACCATTTCAGCTCAAT
*
10627580 ATGAGCTTACTA-TTCAGCTCAAT
1 A-GAGCTTACCATTTCAGCTCAAT
* *
10627603 AGAGCTTA-C-TGTTCATCTTAAT
1 AGAGCTTACCAT-TTCAGCTCAAT
*
10627625 AGAGCTTA-C-TGTTCATCTCAAT
1 AGAGCTTACCAT-TTCAGCTCAAT
*
10627647 AGAGCTTACCATTTCAGCTCATT
1 AGAGCTTACCATTTCAGCTCAAT
* *
10627670 AGAGCTTACCGTTTCAGCTCATT
1 AGAGCTTACCATTTCAGCTCAAT
10627693 AGAGCTTA
1 AGAGCTTA
10627701 TTGTTCTTCA
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
22 54 0.44
23 59 0.48
24 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (23 bp):
AGAGCTTACCATTTCAGCTCAAT
Found at i:10627598 original size:22 final size:22
Alignment explanation
Indices: 10627499--10627617 Score: 82
Period size: 22 Copynumber: 5.1 Consensus size: 22
10627489 GAACTCACCA
*
10627499 CAGCTTGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTA-C--TAT-T
*
10627525 CAGCTCGTAAGAGCTTACTATTTT
1 CAGCTCGTATGAGCTTACTA--TT
*
10627549 CAGCT--TATTGGAGCTTACCATTT
1 CAGCTCGTA-T-GAGCTTACTA-TT
10627572 CAGCTCGTATGAGCTTACTATT
1 CAGCTCGTATGAGCTTACTATT
* *
10627594 CAGCTC-AATAGAGCTTACTGTT
1 CAGCTCGTAT-GAGCTTACTATT
10627616 CA
1 CA
10627618 TCTTAATAGA
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
21 2 0.03
22 23 0.29
23 19 0.24
24 16 0.20
25 4 0.05
26 15 0.19
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (22 bp):
CAGCTCGTATGAGCTTACTATT
Found at i:10627625 original size:22 final size:22
Alignment explanation
Indices: 10627582--10627706 Score: 135
Period size: 22 Copynumber: 5.6 Consensus size: 22
10627572 CAGCTCGTAT
* *
10627582 GAGCTTACTATTCAGCTCAATA
1 GAGCTTACTGTTCATCTCAATA
*
10627604 GAGCTTACTGTTCATCTTAATA
1 GAGCTTACTGTTCATCTCAATA
10627626 GAGCTTACTGTTCATCTCAATA
1 GAGCTTACTGTTCATCTCAATA
* *
10627648 GAGCTTACCAT-TTCAGCTCATTA
1 GAGCTTA-C-TGTTCATCTCAATA
* * *
10627671 GAGCTTACCGTTTCAGCTCATTA
1 GAGCTTACTG-TTCATCTCAATA
*
10627694 GAGCTTATTGTTC
1 GAGCTTACTGTTC
10627707 TTCAGCTCAG
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
22 51 0.57
23 38 0.42
24 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (22 bp):
GAGCTTACTGTTCATCTCAATA
Found at i:10629652 original size:40 final size:39
Alignment explanation
Indices: 10629568--10629704 Score: 170
Period size: 39 Copynumber: 3.5 Consensus size: 39
10629558 TCGAATGATG
* * *
10629568 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
10629607 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
10629648 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
10629687 TCCGGGCTAAGCCCGAAG
1 TCCGGGCTAAGCCCGAAG
10629705 TTAAGTCCCG
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 44 0.51
40 33 0.38
41 9 0.10
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:10629737 original size:52 final size:51
Alignment explanation
Indices: 10629655--10629756 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 51
10629645 AATTCCGGGC
10629655 TAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGT
1 TAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGT
*
10629706 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
1 TAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
10629757 GCATTGGTGC
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 4 0.08
52 45 0.92
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (51 bp):
TAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGT
Found at i:10629776 original size:91 final size:92
Alignment explanation
Indices: 10629621--10629796 Score: 291
Period size: 91 Copynumber: 1.9 Consensus size: 92
10629611 GGACTAAGAT
* *
10629621 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTAA
*
10629686 TTCCGGGCTAAG-CCCGAAGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGTTAAGTC
* *
10629712 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTAA
*
10629777 ATCCGGGTTAAGTCCCGAAG
66 ATCCGGGCTAAGTCCCGAAG
10629797 GCATTTGTGC
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 71 0.91
92 7 0.09
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (92 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTAA
ATCCGGGCTAAGTCCCGAAGTTAAGTC
Found at i:10629807 original size:40 final size:40
Alignment explanation
Indices: 10629706--10629843 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
10629696 AGCCCGAAGT
* * *
10629706 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
* *
10629746 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
10629785 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGC
*
10629825 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
10629844 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 34 0.39
40 52 0.59
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
Found at i:10629809 original size:131 final size:131
Alignment explanation
Indices: 10629575--10629815 Score: 355
Period size: 131 Copynumber: 1.8 Consensus size: 131
10629565 ATGTCCGAGC
* * *
10629575 TAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCGAAGTGACTATATCCGGACTAAGACCCGAAGGCATTGGTGCGAG
*
10629640 TTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
66 TTACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
10629705 T
131 T
*
10629706 TAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGC
1 TAAGTCCCGAAGG-CTTTGTGCGAAG-TGACTATA-TCCGGACTAAGACCCGAAGGCATTGGTGC
* *
10629767 GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
63 GAGTTACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
10629816 TAACCGGGCT
Statistics
Matches: 99, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
130 36 0.36
131 54 0.55
132 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (131 bp):
TAAGTCCCGAAGGCTTTGTGCGAAGTGACTATATCCGGACTAAGACCCGAAGGCATTGGTGCGAG
TTACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
T
Found at i:10629865 original size:79 final size:79
Alignment explanation
Indices: 10629704--10629876 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 79
10629694 TAAGCCCGAA
* * **
10629704 GTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGA
1 GTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGA
10629769 GTTACTAAATCCGG
66 GTTACTAAATCCGG
* * *
10629783 GTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAAC
1 GTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAAC
*
10629847 GAG-TAGCTATATCC-G
64 GAGTTA-CTAAATCCGG
* *
10629862 GTTAAATTCCGAAGG
1 GTTAAGTCCCGAAGG
10629877 TACGTGATTC
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.02
79 55 0.68
80 24 0.30
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
GTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGA
GTTACTAAATCCGG
Found at i:10634296 original size:48 final size:48
Alignment explanation
Indices: 10634169--10634364 Score: 261
Period size: 48 Copynumber: 4.0 Consensus size: 48
10634159 TACTCAGGAG
* * * *
10634169 TCTCGCACACTAAGTGCCAATATCATGGCCCGAAGCCAACTCCATATATT
1 TCTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAAT-CA-ATATA
*
10634219 TCTCGCACCCGAAGTGCTAATAT-AGTGGCCCGAAGCCAAATCAATATA
1 TCTCGCACCCGAAGTGCCAATATCA-TGGCCCGAAGCCAAATCAATATA
* *
10634267 TCTCGCACCTGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGA-A
1 TCTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAAT-ATA
* *
10634315 GCTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTA
1 TCTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATATA
10634363 TC
1 TC
10634365 CCCTAATGAT
Statistics
Matches: 131, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
48 91 0.69
49 5 0.04
50 35 0.27
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (48 bp):
TCTCGCACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATATA
Found at i:10638770 original size:207 final size:207
Alignment explanation
Indices: 10638415--10638831 Score: 726
Period size: 207 Copynumber: 2.0 Consensus size: 207
10638405 AACAGGGCAT
* * *
10638415 ACATACTGACTTGCACCACACGGTCGGAGACGCGCTCGTGTGCCATGGCCATGGGAAATCTGGAG
1 ACATACTGACTTGCACCACACAGCCGAAGACGCGCTCGTGTGCCATGGCCATGGGAAATCTGGAG
* *
10638480 GGCTTAATGACTTGGGTCACACGACCGGTCACATGTCCATGTGCCAGCCCGTGCCTCACACACGG
66 GGCTTAATGACTTGGGTCACACGACCGGCCACATGCCCATGTGCCAGCCCGTGCCTCACACACGG
* *
10638545 CCAATAGACACGACTGTGTCTGGGCCTTGCCAAACCTGTAAGGTATACTAACTTAAATTCGAAGG
131 CCAATAGACACGACTGTGTCTGGGCCTTGCCAAACCTGTAAGCTATACTAACTTAAATTCGAAAG
10638610 GTACTCCAGGGG
196 GTACTCCAGGGG
10638622 ACATACTGACTTGCACCACACAGCCGAAGACGCGCTCGTGTGCCATGGCCATGGGAAATCTGGAG
1 ACATACTGACTTGCACCACACAGCCGAAGACGCGCTCGTGTGCCATGGCCATGGGAAATCTGGAG
* * *
10638687 GGCTTACTGACTTGGGTCACACGGCCGGCCACATGCCCATGTGTCAGCCCGTGCCTCACACACGG
66 GGCTTAATGACTTGGGTCACACGACCGGCCACATGCCCATGTGCCAGCCCGTGCCTCACACACGG
* *
10638752 CCAATAGACACGACTGTGTTTGGGCCTTGCCAAACCTGTAAGCTATACTAACTTAAATTTGAAAG
131 CCAATAGACACGACTGTGTCTGGGCCTTGCCAAACCTGTAAGCTATACTAACTTAAATTCGAAAG
10638817 GTACTCCAGGGG
196 GTACTCCAGGGG
10638829 ACA
1 ACA
10638832 CACAGCCATG
Statistics
Matches: 198, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
207 198 1.00
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.21
Consensus pattern (207 bp):
ACATACTGACTTGCACCACACAGCCGAAGACGCGCTCGTGTGCCATGGCCATGGGAAATCTGGAG
GGCTTAATGACTTGGGTCACACGACCGGCCACATGCCCATGTGCCAGCCCGTGCCTCACACACGG
CCAATAGACACGACTGTGTCTGGGCCTTGCCAAACCTGTAAGCTATACTAACTTAAATTCGAAAG
GTACTCCAGGGG
Found at i:10639908 original size:43 final size:43
Alignment explanation
Indices: 10639841--10640011 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 43
10639831 AAAGCTTGTA
* * * *
10639841 CAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* * * * ** *
10639883 CGATGCCACTGTCCCAGATAGGGTCTTACACAAAATCAAATAAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT-AT
*
10639927 -AATGCCAATGTCCCAGACATGCTCTTACACGTAATCACA-AT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
*
10639968 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
10640012 AGGTAACCTA
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 93 0.89
44 4 0.04
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:10640006 original size:86 final size:85
Alignment explanation
Indices: 10639842--10639998 Score: 208
Period size: 86 Copynumber: 1.8 Consensus size: 85
10639832 AAGCTTGTAC
* * * * * * *
10639842 AATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGATAGGGT
1 AATGCCATATCCCAGACATGCTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGGGT
10639907 CTTACACAAAATCAAATAAT
66 CTTACACAAAATCAAATAAT
* *
10639927 AATGCCAATGTCCCAGACATGCTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGACATG
1 AATGCC-ATATCCCAGACATGCTCTTACACGTAATCACATAT-CAATGCCAATGTCCCAGACAGG
10639991 GTCTTACA
64 GTCTTACA
10639999 TGTAATCACA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 8 0.13
86 53 0.87
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (85 bp):
AATGCCATATCCCAGACATGCTCTTACACGTAATCACATATCAATGCCAATGTCCCAGACAGGGT
CTTACACAAAATCAAATAAT
Found at i:10642617 original size:17 final size:17
Alignment explanation
Indices: 10642595--10642628 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10642585 TCAAGAATGT
10642595 TTTAAGATCTCATAGAG
1 TTTAAGATCTCATAGAG
10642612 TTTAAGATCTCATAGAG
1 TTTAAGATCTCATAGAG
10642629 CCTTATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
TTTAAGATCTCATAGAG
Found at i:10645345 original size:40 final size:40
Alignment explanation
Indices: 10645268--10645405 Score: 226
Period size: 40 Copynumber: 3.5 Consensus size: 40
10645258 AAACCAAGTA
* *
10645268 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
10645307 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
10645347 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
10645387 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
10645406 TTATCATCCG
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 14 0.15
40 79 0.85
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:10649147 original size:31 final size:31
Alignment explanation
Indices: 10649104--10649166 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
10649094 TAATGCAATG
10649104 TTATGTTAGAATTATAACTCTTTACTATTAT
1 TTATGTTAGAATTATAACTCTTTACTATTAT
*
10649135 TTATGTTTGAATTATAACTCTTTACTATTAT
1 TTATGTTAGAATTATAACTCTTTACTATTAT
10649166 T
1 T
10649167 GCATAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (31 bp):
TTATGTTAGAATTATAACTCTTTACTATTAT
Found at i:10652694 original size:46 final size:46
Alignment explanation
Indices: 10652644--10652819 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
10652634 TGGTTGAGCA
*
10652644 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
10652690 TCCGAACTCGTTGAGTTGAGTCCGAATTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
10652737 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
10652783 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10652820 GCGGGTTATG
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 70 0.67
47 34 0.33
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:10654431 original size:28 final size:28
Alignment explanation
Indices: 10654368--10654549 Score: 267
Period size: 28 Copynumber: 6.5 Consensus size: 28
10654358 ATATTAAGTC
*
10654368 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
10654395 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
10654423 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
10654451 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
10654479 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
10654507 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
10654536 CGCACACTTAGTGC
1 CGCACACTTAGTGC
10654550 CAATCTCATG
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.15
28 103 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:10657476 original size:40 final size:39
Alignment explanation
Indices: 10657432--10657508 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 39
10657422 AGTGACCATA
*
10657432 TCCGGACTAAG-ATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAGCAT--GAAGGCATTGGTGCGAGTTACTAAT
*
10657472 TCCGGGCTAAGCATGAAGGCATTGGTGCGAGTTACTA
1 TCCGGACTAAGCATGAAGGCATTGGTGCGAGTTACTA
10657509 TAACCGGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 22 0.65
40 10 0.29
41 2 0.06
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGCATGAAGGCATTGGTGCGAGTTACTAAT
Found at i:10657516 original size:39 final size:39
Alignment explanation
Indices: 10657447--10657521 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
10657437 ACTAAGATCC
* *
10657447 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCAT
1 GAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCAT
*
10657486 GAAGGCATTGGTGCGAGTTACT-ATAACCGGGGTAAG
1 GAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG
10657522 TCCCGAAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (39 bp):
GAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCAT
Found at i:10657556 original size:40 final size:40
Alignment explanation
Indices: 10657512--10657746 Score: 308
Period size: 40 Copynumber: 5.9 Consensus size: 40
10657502 GTTACTATAA
*
10657512 CCGGGGTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* *
10657552 CCGGGCTAAGTTCCGAAGAGCATTCATACTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* *
10657592 CCGGGCTAAGTTCCAAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
10657632 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* ** * * * *
10657672 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
* * *
10657712 CCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
10657747 CGTGTATTCG
Statistics
Matches: 174, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
Found at i:10661317 original size:257 final size:257
Alignment explanation
Indices: 10660861--10661346 Score: 972
Period size: 257 Copynumber: 1.9 Consensus size: 257
10660851 AAATTTTATG
10660861 GATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAAAGTGATTTGGAGTTTTGTAGCT
1 GATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAAAGTGATTTGGAGTTTTGTAGCT
10660926 CCAGTTATAAATAATTTAGTGACTATTGCTCAAGAAAAACAGCTTGTGCTGAATTGTGTTGTAAA
66 CCAGTTATAAATAATTTAGTGACTATTGCTCAAGAAAAACAGCTTGTGCTGAATTGTGTTGTAAA
10660991 CCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTG
131 CCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTG
10661056 TGATATTGGAAAATGATAGATGTAGATTCAGCCAAGACAGTGTGTATACGTGAAAGTGTATA
196 TGATATTGGAAAATGATAGATGTAGATTCAGCCAAGACAGTGTGTATACGTGAAAGTGTATA
10661118 GATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAAAGTGATTTGGAGTTTTGTAGCT
1 GATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAAAGTGATTTGGAGTTTTGTAGCT
10661183 CCAGTTATAAATAATTTAGTGACTATTGCTCAAGAAAAACAGCTTGTGCTGAATTGTGTTGTAAA
66 CCAGTTATAAATAATTTAGTGACTATTGCTCAAGAAAAACAGCTTGTGCTGAATTGTGTTGTAAA
10661248 CCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTG
131 CCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTG
10661313 TGATATTGGAAAATGATAGATGTAGATTCAGCCA
196 TGATATTGGAAAATGATAGATGTAGATTCAGCCA
10661347 GCCGATGTGA
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
257 229 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (257 bp):
GATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAAAGTGATTTGGAGTTTTGTAGCT
CCAGTTATAAATAATTTAGTGACTATTGCTCAAGAAAAACAGCTTGTGCTGAATTGTGTTGTAAA
CCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTG
TGATATTGGAAAATGATAGATGTAGATTCAGCCAAGACAGTGTGTATACGTGAAAGTGTATA
Found at i:10661416 original size:47 final size:47
Alignment explanation
Indices: 10661347--10661479 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 47
10661337 GATTCAGCCA
* *
10661347 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * *
10661394 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * * *
10661441 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
10661480 TCCCGAAGGG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.26
Consensus pattern (47 bp):
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
Found at i:10664972 original size:170 final size:170
Alignment explanation
Indices: 10664690--10665030 Score: 673
Period size: 170 Copynumber: 2.0 Consensus size: 170
10664680 CATATATGGT
*
10664690 ATGACTCCTAATTATCTCTGGTTGATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAA
1 ATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAA
10664755 ACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTC
66 ACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTC
10664820 GTTACTTTCCTCTGAAAGTATATTCATCAAGGTTTGTTTA
131 GTTACTTTCCTCTGAAAGTATATTCATCAAGGTTTGTTTA
10664860 ATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAA
1 ATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAA
10664925 ACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTC
66 ACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTC
10664990 GTTACTTTCCTCTGAAAGTATATTCATCAAGGTTTGTTTA
131 GTTACTTTCCTCTGAAAGTATATTCATCAAGGTTTGTTTA
10665030 A
1 A
10665031 ATAATTTATT
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (170 bp):
ATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAA
ACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGATTGTTTC
GTTACTTTCCTCTGAAAGTATATTCATCAAGGTTTGTTTA
Found at i:10665874 original size:40 final size:40
Alignment explanation
Indices: 10665830--10665947 Score: 168
Period size: 40 Copynumber: 3.0 Consensus size: 40
10665820 GCTCCTCGTT
* *
10665830 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
10665870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
10665910 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGC
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGC
10665948 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
39 21 0.30
40 48 0.68
41 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:10666590 original size:53 final size:54
Alignment explanation
Indices: 10666505--10666711 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 54
10666495 TTCATTTTTA
* * *
10666505 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
10666558 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTCCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
10666612 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
10666667 AACTTACAAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
10666712 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 41 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:10674157 original size:55 final size:52
Alignment explanation
Indices: 10674028--10674162 Score: 137
Period size: 53 Copynumber: 2.5 Consensus size: 52
10674018 AACTTACCAT
* * *
10674028 TGCCATGTCTTAACATGGTCTTACGTGGTATCCTTTCCTTATGAACTCATCAT
1 TGCCATGTCTT-ACATGGTCTTACATGGGATCCTTTCCTTATGAACTCATCAA
* * ** *
10674081 TGCCATGCCTTAGCATAGTCTTACATGGGAT-CTTTGCCTTATAGTAGTTTATCAA
1 TGCCATGTCTTA-CATGGTCTTACATGGGATCCTTT-CCTTAT-G-AACTCATCAA
10674136 TGCCATGTCTTGACATGGTCTTACATG
1 TGCCATGTCTT-ACATGGTCTTACATG
10674163 ATTTCCTTGC
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
52 5 0.07
53 31 0.46
54 1 0.01
55 29 0.43
56 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (52 bp):
TGCCATGTCTTACATGGTCTTACATGGGATCCTTTCCTTATGAACTCATCAA
Found at i:10677082 original size:45 final size:45
Alignment explanation
Indices: 10677032--10677126 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
10677022 GGTAGCATAG
10677032 CAGTAGCAGTAACAGTATTCAACACACAAAGTG-CTGAATCT-GTAA
1 CAGTAGCAGTAACAGTATTCAACACACAAAGTGTC-GAAT-TGGTAA
**
10677077 CAGTAGCAGTAACAGTATTTGACACACAAAGTGTCGAATTGGTAA
1 CAGTAGCAGTAACAGTATTCAACACACAAAGTGTCGAATTGGTAA
10677122 CAGTA
1 CAGTA
10677127 ACGGTAATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 1 0.02
45 44 0.96
46 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (45 bp):
CAGTAGCAGTAACAGTATTCAACACACAAAGTGTCGAATTGGTAA
Found at i:10677425 original size:40 final size:40
Alignment explanation
Indices: 10677349--10677427 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
10677339 CTTCATTAGA
* * *
10677349 AATTTTACAGTTCAATGCAATATACATAACATTATTCAGC
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGC
* ** *
10677389 AATTTCACAGTTCAATTCGGTATTCAAAACAATATTCAG
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAG
10677428 TATCCCATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGC
Found at i:10678213 original size:22 final size:20
Alignment explanation
Indices: 10678177--10678237 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
10678167 ATTCTGTTTG
*
10678177 TTTTGTTTCTATTTATTTTA
1 TTTTATTTCTATTTATTTTA
*
10678197 TGCTTTATTTCTTTTTATTTTA
1 T--TTTATTTCTATTTATTTTA
*
10678219 TTTTATTTATATTATATTT
1 TTTTATTTCTATT-TATTT
10678238 AATTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.32
21 5 0.15
22 18 0.53
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATTTCTATTTATTTTA
Found at i:10678451 original size:33 final size:33
Alignment explanation
Indices: 10678382--10678444 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
10678372 ATTATTTAAT
*
10678382 TAATAAATATCTCTTAATTTTAATAATAATAAA
1 TAATAAATATCTCTTAATTTAAATAATAATAAA
10678415 TAATAAATATCTAC-TAATTTAAATAA-AATA
1 TAATAAATATCT-CTTAATTTAAATAATAATA
10678445 TTATAATTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (33 bp):
TAATAAATATCTCTTAATTTAAATAATAATAAA
Found at i:10678474 original size:17 final size:17
Alignment explanation
Indices: 10678417--10678474 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
10678407 ATAATAAATA
*
10678417 ATAAATATCTACTAATTTAA
1 ATAAATAT-TA-TAA-TTAC
*
10678437 ATAAAATATTATAATTGC
1 AT-AAATATTATAATTAC
*
10678455 ATAAATATTATCATTAC
1 ATAAATATTATAATTAC
10678472 ATA
1 ATA
10678475 TGTATATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 3 0.09
20 4 0.12
21 6 0.18
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAATATTATAATTAC
Found at i:10678689 original size:3 final size:3
Alignment explanation
Indices: 10678681--10678766 Score: 76
Period size: 3 Copynumber: 29.7 Consensus size: 3
10678671 NTAATTTATT
10678681 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA -AA -ACA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * *
10678724 CAA TTAA TAA TTA TAA TAA TCAA TTA T-A TAA T-A TAA T-A TAA TA
1 TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
10678767 TATATAATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
2 11 0.16
3 53 0.76
4 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10678747 original size:20 final size:19
Alignment explanation
Indices: 10678692--10678774 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
10678682 AATAATAATA
* *
10678692 ATAATAATAATAATAATAAT
1 ATAAT-ATAATAACAATTAT
*
10678712 ATAA-AAACATAACAATTA-
1 ATAATATA-ATAACAATTAT
10678730 ATAATTATAATAATCAATTAT
1 ATAA-TATAATAA-CAATTAT
*
10678751 ATAATATAAT-ATAATATAT
1 ATAATATAATAACAAT-TAT
10678770 ATAAT
1 ATAAT
10678775 TTAAATAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
18 9 0.17
19 21 0.40
20 18 0.35
21 4 0.08
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAATATAATAACAATTAT
Found at i:10683185 original size:12 final size:12
Alignment explanation
Indices: 10683168--10683192 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10683158 TATGTATGTT
10683168 TGAAAAATATTA
1 TGAAAAATATTA
10683180 TGAAAAATATTA
1 TGAAAAATATTA
10683192 T
1 T
10683193 TATTACTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TGAAAAATATTA
Found at i:10685586 original size:27 final size:27
Alignment explanation
Indices: 10685555--10685630 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
10685545 CTACGGGCCC
10685555 ATTTGAAAAATTACCT-AAATACCTTC-
1 ATTTGAAAAATTA-CTAAAATACCTTCG
*
10685581 AGTTTGCAAAATTACTAAAATACCTTCG
1 A-TTTGAAAAATTACTAAAATACCTTCG
* *
10685609 ATTTGTAAAATTACTGAAATAC
1 ATTTGAAAAATTACTAAAATAC
10685631 TCATGTAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
26 3 0.07
27 40 0.91
28 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (27 bp):
ATTTGAAAAATTACTAAAATACCTTCG
Found at i:10685709 original size:27 final size:27
Alignment explanation
Indices: 10685664--10685715 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10685654 TTACCTTCGA
**
10685664 TTTACAAAATTATTAAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCTTAG
*
10685691 TTTACAAAATTACCGAAATACCCTT
1 TTTACAAAATTACCAAAATACCCTT
10685716 GTAGGGTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTAG
Found at i:10685726 original size:81 final size:81
Alignment explanation
Indices: 10685574--10685731 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
10685564 ATTACCTAAA
* * ** * *
10685574 TACCTTCAGTTTGCAAAATTACTAAAATACCTTCGATTTGTAAAATTACTGAAATACTCATGTAA
1 TACCTTCAGTTTACAAAATTACTAAAATACCTTAGATTTACAAAATTACCGAAATACCCATGTAA
*
10685639 GATAGAATTACCATTT
66 GATAGAAATACCATTT
* *
10685655 TACCTTC-GATTTACAAAATTATTAAAATACCCTTAG-TTTACAAAATTACCGAAATACCCTTGT
1 TACCTTCAG-TTTACAAAATTACTAAAATA-CCTTAGATTTACAAAATTACCGAAATACCCATGT
* *
10685718 AGGGTAGAAATACC
64 AAGATAGAAATACC
10685732 GAAATACCCT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.02
81 58 0.91
82 5 0.08
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (81 bp):
TACCTTCAGTTTACAAAATTACTAAAATACCTTAGATTTACAAAATTACCGAAATACCCATGTAA
GATAGAAATACCATTT
Found at i:10685731 original size:27 final size:27
Alignment explanation
Indices: 10685701--10686085 Score: 512
Period size: 27 Copynumber: 14.5 Consensus size: 27
10685691 TTTACAAAAT
*
10685701 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
10685728 TACCGAAATACCCTTGAAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
10685755 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
10685782 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** *
10685809 TACTAAAATACCCC------GTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
10685830 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
10685857 TACCAAAATACCCCTGTAGGATAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
10685884 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
10685911 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
10685938 TACCAAAATACCCCTGTAGGATAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
10685965 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
10685992 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
10686019 TACCAAAATACCCCTGTAGGATAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
10686046 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
10686073 TACCGAGATACCC
1 TACCGAAATACCC
10686086 TTGTGGGGAA
Statistics
Matches: 313, Mismatches: 39, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
21 18 0.06
27 295 0.94
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:10685828 original size:21 final size:21
Alignment explanation
Indices: 10685802--10685842 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10685792 CCCCTGTAGG
*
10685802 GTAGAATTACTAAAATACCCC
1 GTAGAATTACCAAAATACCCC
*
10685823 GTAGAATTACCGAAATACCC
1 GTAGAATTACCAAAATACCC
10685843 TTGTAGGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (21 bp):
GTAGAATTACCAAAATACCCC
Found at i:10686104 original size:81 final size:81
Alignment explanation
Indices: 10685701--10686089 Score: 628
Period size: 81 Copynumber: 4.9 Consensus size: 81
10685691 TTTACAAAAT
* * * * * * *
10685701 TACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGAAGGGTAGAAATACCGAAATAC
1 TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
10685766 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* * * *
10685782 TACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCC------GTAGAATTACCGAAATAC
1 TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
10685841 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
10685857 TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
1 TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
10685922 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
10685938 TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
1 TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
10686003 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
*
10686019 TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGATAC
1 TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
10686084 CCTTGT
66 CCTTGT
10686090 GGGGAAAAAT
Statistics
Matches: 291, Mismatches: 11, Indels: 12
0.93 0.04 0.04
Matches are distributed among these distances:
75 70 0.24
81 221 0.76
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (81 bp):
TACCAAAATACCCCTGTAGGATAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:10690581 original size:45 final size:45
Alignment explanation
Indices: 10690531--10690625 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
10690521 GGTAGCATAG
10690531 CAGTAGCAGTAACAGTATTCAACACACAAAGTG-CTGAATCT-GTAA
1 CAGTAGCAGTAACAGTATTCAACACACAAAGTGTC-GAAT-TGGTAA
**
10690576 CAGTAGCAGTAACAGTATTTGACACACAAAGTGTCGAATTGGTAA
1 CAGTAGCAGTAACAGTATTCAACACACAAAGTGTCGAATTGGTAA
10690621 CAGTA
1 CAGTA
10690626 ACGGTAATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 1 0.02
45 44 0.96
46 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (45 bp):
CAGTAGCAGTAACAGTATTCAACACACAAAGTGTCGAATTGGTAA
Found at i:10690924 original size:40 final size:40
Alignment explanation
Indices: 10690848--10690926 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
10690838 CTTCATTAGA
* * *
10690848 AATTTTACAGTTCAATGCAATATACATAACATTATTCAGC
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGC
* ** *
10690888 AATTTCACAGTTCAATTCGGTATTCAAAACAATATTCAG
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAG
10690927 TATCCCATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGC
Found at i:10691724 original size:22 final size:20
Alignment explanation
Indices: 10691688--10691748 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
10691678 ATTCTGTTTG
*
10691688 TTTTGTTTCTATTTATTTTA
1 TTTTATTTCTATTTATTTTA
*
10691708 TGCTTTATTTCTTTTTATTTTA
1 T--TTTATTTCTATTTATTTTA
*
10691730 TTTTATTTATATTATATTT
1 TTTTATTTCTATT-TATTT
10691749 AATTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.32
21 5 0.15
22 18 0.53
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATTTCTATTTATTTTA
Found at i:10691960 original size:33 final size:33
Alignment explanation
Indices: 10691891--10691953 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
10691881 ATTATTTAAT
*
10691891 TAATAAATATCTCTTAATTTTAATAATAATAAA
1 TAATAAATATCTCTTAATTTAAATAATAATAAA
10691924 TAATAAATATCTAC-TAATTTAAATAA-AATA
1 TAATAAATATCT-CTTAATTTAAATAATAATA
10691954 TTATAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (33 bp):
TAATAAATATCTCTTAATTTAAATAATAATAAA
Found at i:10692259 original size:20 final size:19
Alignment explanation
Indices: 10692232--10692286 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
10692222 ATATAAAACC
10692232 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
10692251 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
*
10692271 AT-ATAATATATATAAT
1 ATAACAAT-TATATAAT
10692287 TTATATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 12 0.38
21 4 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:10692285 original size:9 final size:9
Alignment explanation
Indices: 10692260--10692294 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
10692250 AATAATCAAT
10692260 TATATAATA
1 TATATAATA
10692269 TAATATAATA
1 T-ATATAATA
*
10692279 TATATAATT
1 TATATAATA
10692288 TATATAA
1 TATATAA
10692295 AATCTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TATATAATA
Found at i:10718113 original size:18 final size:18
Alignment explanation
Indices: 10718090--10718124 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10718080 TACTTTTGTA
*
10718090 ATCTGAATCTAAATCTGG
1 ATCTGAATCCAAATCTGG
10718108 ATCTGAATCCAAATCTG
1 ATCTGAATCCAAATCTG
10718125 AAACTGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (18 bp):
ATCTGAATCCAAATCTGG
Found at i:10721477 original size:43 final size:43
Alignment explanation
Indices: 10721380--10721535 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
10721370 TATCGAGATG
* * *
10721380 TGATTACATGTAAGACTATGTCTGGGATATTGGCAT--TGTATT
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TATT
* *
10721422 GTGAATATGTGTAAGACCATGTCTGGGACATTGGCATCATTATT
1 -TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATT
* * * * *
10721466 TGATTTA-GTGTAAGACCCTGTCTAGGACAGTGACATCGA-TATG
1 TGA-TTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATTATT
* *
10721509 TGATTACATGTAAGACCATATCTGGGA
1 TGATTACGTGTAAGACCATGTCTGGGA
10721536 TATAGCATTG
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 3 0.03
43 82 0.88
44 7 0.08
45 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATT
Found at i:10725364 original size:43 final size:43
Alignment explanation
Indices: 10725307--10725476 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
10725297 GTTACCGAGA
* * *
10725307 TGTGATTACATGTAAGACCATGTCTGGAATATTGGCATTGTAT
1 TGTGAATACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
10725350 TGTGAATACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
1 TGTGAATACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
* * * *
10725394 T-T-AATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATTG-AT
1 TGTGAA-TACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
10725435 ATGTGATTGCATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGAATACATGTAAGACCATGTCTGGGACATTGGCATTGTA
10725477 CGAGCTTTAT
Statistics
Matches: 106, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.02
42 11 0.10
43 88 0.83
44 5 0.05
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTGAATACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:10729554 original size:112 final size:112
Alignment explanation
Indices: 10729357--10729591 Score: 443
Period size: 112 Copynumber: 2.1 Consensus size: 112
10729347 CATGGCTGAG
*
10729357 ACACACGGCCATGTCTCTGCCCATGTGTTTACTACTGGGCAATCTGTTTTGCATTAGTAGGGTGC
1 ACACACGGCCATGTCTCTGCCCATGTGTTTACTACTGGGAAATCTGTTTTGCATTAGTAGGGTGC
10729422 ATGGGACACACGACCGGATCACACACCCATGGGGAAGACCGTGTGTC
66 ATGGGACACACGACCGGATCACACACCCATGGGGAAGACCGTGTGTC
* *
10729469 ACACACGGCCGTGTCTCTGCCCATGTGTTTACTACTGGGAAATCTGTTTTGCATTATTAGGGTGC
1 ACACACGGCCATGTCTCTGCCCATGTGTTTACTACTGGGAAATCTGTTTTGCATTAGTAGGGTGC
10729534 ATGGGACACACGACCGGATCACACACCCATGGGGAAGACCGTGTGTC
66 ATGGGACACACGACCGGATCACACACCCATGGGGAAGACCGTGTGTC
10729581 ACACACGGCCA
1 ACACACGGCCA
10729592 AGATACATGC
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 119 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.23
Consensus pattern (112 bp):
ACACACGGCCATGTCTCTGCCCATGTGTTTACTACTGGGAAATCTGTTTTGCATTAGTAGGGTGC
ATGGGACACACGACCGGATCACACACCCATGGGGAAGACCGTGTGTC
Found at i:10730812 original size:45 final size:45
Alignment explanation
Indices: 10730742--10730829 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
10730732 AAACATGTGC
* *
10730742 CACATACATCATGAACTCAGGCCACAACTCAATGAGTTCAGATGT
1 CACATACATCATGAACTAAGACCACAACTCAATGAGTTCAGATGT
*
10730787 CACATATATCATGAACTAAGACCACAACTCAATGAGTTCAGAT
1 CACATACATCATGAACTAAGACCACAACTCAATGAGTTCAGAT
10730830 CACATAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.23
Consensus pattern (45 bp):
CACATACATCATGAACTAAGACCACAACTCAATGAGTTCAGATGT
Found at i:10730833 original size:21 final size:21
Alignment explanation
Indices: 10730764--10730833 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
10730754 GAACTCAGGC
10730764 CACAACTCAATGAGTTCAGATGT
1 CACAACTCAATGAGTTCAGA--T
* ** * *
10730787 CACATATATC-ATGAACTAAGAC
1 CACA-A-CTCAATGAGTTCAGAT
10730809 CACAACTCAATGAGTTCAGAT
1 CACAACTCAATGAGTTCAGAT
10730830 CACA
1 CACA
10730834 TAGTTCCTAG
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
22 4 0.12
23 4 0.12
24 9 0.26
25 2 0.06
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (21 bp):
CACAACTCAATGAGTTCAGAT
Found at i:10737793 original size:10 final size:10
Alignment explanation
Indices: 10737777--10737815 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
10737767 AGTTTTAGCT
10737777 TTTATCTTTA
1 TTTATCTTTA
*
10737787 ATTATCTTTA
1 TTTATCTTTA
10737797 TTTAT-TTGTA
1 TTTATCTT-TA
10737807 TTTATCTTT
1 TTTATCTTT
10737816 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:10740461 original size:15 final size:15
Alignment explanation
Indices: 10740441--10740472 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10740431 TATAAGTAGT
10740441 GTTGCCAAATCTTAA
1 GTTGCCAAATCTTAA
10740456 GTTGCCAAATCTTAA
1 GTTGCCAAATCTTAA
10740471 GT
1 GT
10740473 GTGAACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (15 bp):
GTTGCCAAATCTTAA
Found at i:10747273 original size:55 final size:54
Alignment explanation
Indices: 10747177--10747302 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 54
10747167 AAACTTGCCA
* *
10747177 AAACAACACGGGCGTGTGACACGCCCATGTCTAAAACCCGTGACCGAACCTGTC
1 AAACAACACGGGCGTGCGACACGCCCATGTCCAAAACCCGTGACCGAACCTGTC
* ** *
10747231 AAATCAACACGGGCGTGCGACACGCCCGTG-CCAAGCAA-CCGTGGTCGAACCTGTT
1 AAA-CAACACGGGCGTGCGACACGCCCATGTCCAA--AACCCGTGACCGAACCTGTC
10747286 AAACTAACACGGGCGTG
1 AAAC-AACACGGGCGTG
10747303 GGCCTACATA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
54 7 0.11
55 53 0.85
56 2 0.03
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.14
Consensus pattern (54 bp):
AAACAACACGGGCGTGCGACACGCCCATGTCCAAAACCCGTGACCGAACCTGTC
Found at i:10751387 original size:25 final size:25
Alignment explanation
Indices: 10751353--10751400 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10751343 AACTAGGGTT
10751353 AGTTTTTTGGCTTTGGGTTTATACC
1 AGTTTTTTGGCTTTGGGTTTATACC
10751378 AGTTTTTTGGCTTTGGGTTTATA
1 AGTTTTTTGGCTTTGGGTTTATA
10751401 TCAAACAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.08, G:0.25, T:0.54
Consensus pattern (25 bp):
AGTTTTTTGGCTTTGGGTTTATACC
Found at i:10752746 original size:12 final size:12
Alignment explanation
Indices: 10752729--10752755 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10752719 TATATTTTCT
10752729 TACACTATAAAA
1 TACACTATAAAA
10752741 TACACTATAAAA
1 TACACTATAAAA
10752753 TAC
1 TAC
10752756 CATACAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (12 bp):
TACACTATAAAA
Found at i:10756718 original size:48 final size:48
Alignment explanation
Indices: 10756651--10756766 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 48
10756641 TCACCCAGGT
* * * *
10756651 ATGGTCTTACATAGTATCACA-CATCGATGCCAATCCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATAAT-GATGCCAATCCCATGTCCCACAC
** *
10756699 ATGGTCTTACATGGGATCACATAATGATGCCAATTTCTTGTCCCACAC
1 ATGGTCTTACATGGGATCACATAATGATGCCAATCCCATGTCCCACAC
10756747 ATGGTCTTACATGGGATCAC
1 ATGGTCTTACATGGGATCAC
10756767 GCATAACCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 58 0.97
49 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATAATGATGCCAATCCCATGTCCCACAC
Found at i:10759882 original size:61 final size:61
Alignment explanation
Indices: 10759801--10759926 Score: 227
Period size: 61 Copynumber: 2.1 Consensus size: 61
10759791 AGATAATAAT
*
10759801 AACA-AGATCTGTCTTAGGTTTCATTCCCATTAGGTATTTAGGGGTTTAGTTCATACTTAA
1 AACATAGATCTGTCTTAGGTTTCATTCCCATTAGGTATTTAGAGGTTTAGTTCATACTTAA
*
10759861 AACATAGATCTGTCTTCGGTTTCATTCCCATTAGGTATTTAGAGGTTTAGTTCATACTTAA
1 AACATAGATCTGTCTTAGGTTTCATTCCCATTAGGTATTTAGAGGTTTAGTTCATACTTAA
10759922 AACAT
1 AACAT
10759927 CTCAAAAGCA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 4 0.06
61 59 0.94
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (61 bp):
AACATAGATCTGTCTTAGGTTTCATTCCCATTAGGTATTTAGAGGTTTAGTTCATACTTAA
Found at i:10767033 original size:121 final size:121
Alignment explanation
Indices: 10766819--10767059 Score: 473
Period size: 121 Copynumber: 2.0 Consensus size: 121
10766809 CCCACGTTAG
10766819 GCTATTTTCCAAGCCCTTTTTATGTTCTTAACTCTTTGTACTAATATACGATATATCGACCTTTG
1 GCTATTTTCCAAGCCCTTTTTATGTTCTTAACTCTTTGTACTAATATACGATATATCGACCTTTG
*
10766884 TCATACTCTTATTTATATTTATCTTAACCATATCAAGACATTACTCATGTATACAA
66 TCATACTCTTATTTATATTTATCTTAACCACATCAAGACATTACTCATGTATACAA
10766940 GCTATTTTCCAAGCCCTTTTTATGTTCTTAACTCTTTGTACTAATATACGATATATCGACCTTTG
1 GCTATTTTCCAAGCCCTTTTTATGTTCTTAACTCTTTGTACTAATATACGATATATCGACCTTTG
10767005 TCATACTCTTATTTATATTTATCTTAACCACATCAAGACATTACTCATGTATACA
66 TCATACTCTTATTTATATTTATCTTAACCACATCAAGACATTACTCATGTATACA
10767060 TAAAATAGGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (121 bp):
GCTATTTTCCAAGCCCTTTTTATGTTCTTAACTCTTTGTACTAATATACGATATATCGACCTTTG
TCATACTCTTATTTATATTTATCTTAACCACATCAAGACATTACTCATGTATACAA
Found at i:10768391 original size:23 final size:23
Alignment explanation
Indices: 10768359--10768577 Score: 242
Period size: 23 Copynumber: 9.2 Consensus size: 23
10768349 CACTATAACA
*
10768359 TAGCTGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
* *
10768382 TAACCAAAGCTACCACTGTATTGTAACATG
1 TAGCCGAAGCTACCACTGTA---T----TG
*
10768412 TAGCCGAAGCTACCACTATATTG
1 TAGCCGAAGCTACCACTGTATTG
* *
10768435 TAGTCGAAGCTACCACTATATTG
1 TAGCCGAAGCTACCACTGTATTG
*
10768458 TAGCGGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
* *
10768481 TAGCCGAAACTACCACTGTATTA
1 TAGCCGAAGCTACCACTGTATTG
*
10768504 TAGCCGAAGCTACCACTATATTG
1 TAGCCGAAGCTACCACTGTATTG
*
10768527 TAGCCGAAGCTACCACTG-AGATG
1 TAGCCGAAGCTACCACTGTA-TTG
* *
10768550 TAGCCAAAGCTACCACTATATTG
1 TAGCCGAAGCTACCACTGTATTG
10768573 TAGCC
1 TAGCC
10768578 TATAGATTCC
Statistics
Matches: 166, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
22 1 0.01
23 143 0.86
24 1 0.01
26 1 0.01
27 1 0.01
30 19 0.11
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (23 bp):
TAGCCGAAGCTACCACTGTATTG
Found at i:10769459 original size:137 final size:137
Alignment explanation
Indices: 10769174--10769519 Score: 313
Period size: 137 Copynumber: 2.5 Consensus size: 137
10769164 CTTTTGTTGT
* * * *
10769174 GGATACTCGTCAGCTTGTGTGAA-AGGCATCGTGTAGCTACATTCTGACCGTCAGCTTGTGTGAG
1 GGATACTCGTCAGCCTGAGT-AAGCGGCATCGTGTAGCTACATTCTGACCATCAGCTTGTGTGAG
* * * * * * * * **
10769238 -AAAACTAGGTTACCACGTTTCGGGTGCTGGTGCTGAATGTCCTACCGACGATTGAGGTCTGGTA
65 TAGACCCAGGTTACCACGTTTCGAGTGCTAGTCCTAAATGTCCTACCAACGATTGAGGTCTGAAA
**
10769302 CTTGTTGT
130 CTTGTTAC
* * *
10769310 GGATACTCGTCAGCCT-ATGTAAGTGGCATCGTGTAGCTACATTCCGACCATCAGCTTGTTTGAG
1 GGATACTCGTCAGCCTGA-GTAAGCGGCATCGTGTAGCTACATTCTGACCATCAGCTTGTGTGAG
* * * * * *
10769374 TAGACCCAGGTTACCATGTTTTGATTGTTAGTCCTAAATGTCCTACCAATGGTTGAGGT-TCGAA
65 TAGACCCAGGTTACCACGTTTCGAGTGCTAGTCCTAAATGTCCTACCAACGATTGAGGTCT-GAA
*
10769438 ATTTGTTAC
129 ACTTGTTAC
* * * * * * * *
10769447 GGATGCTTGTCAGCTTGAGTAAGCAGCATTGTGTAGCTTACATTTTGATCATCAACTTGTGTGAG
1 GGATACTCGTCAGCCTGAGTAAGCGGCATCGTGTAGC-TACATTCTGACCATCAGCTTGTGTGAG
*
10769512 TAGGCCCA
65 TAGACCCA
10769520 TTTTATAGCT
Statistics
Matches: 167, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
135 2 0.01
136 55 0.33
137 80 0.48
138 30 0.18
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (137 bp):
GGATACTCGTCAGCCTGAGTAAGCGGCATCGTGTAGCTACATTCTGACCATCAGCTTGTGTGAGT
AGACCCAGGTTACCACGTTTCGAGTGCTAGTCCTAAATGTCCTACCAACGATTGAGGTCTGAAAC
TTGTTAC
Found at i:10771178 original size:20 final size:20
Alignment explanation
Indices: 10771153--10771198 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
10771143 GAAGGTTACA
10771153 TGGCTTGGCACATGGGCGTG
1 TGGCTTGGCACATGGGCGTG
10771173 TGGCTTGGCACATGGGCGTG
1 TGGCTTGGCACATGGGCGTG
10771193 TGGCTT
1 TGGCTT
10771199 AGCCATGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.09, C:0.20, G:0.43, T:0.28
Consensus pattern (20 bp):
TGGCTTGGCACATGGGCGTG
Found at i:10773116 original size:21 final size:20
Alignment explanation
Indices: 10773077--10773118 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10773067 AATATGTTGT
* *
10773077 AAAATGAAATTTTTTGATAG
1 AAAATGAAAATTATTGATAG
10773097 AAAATGAAAGATTATTGATAG
1 AAAATGAAA-ATTATTGATAG
10773118 A
1 A
10773119 TAAACTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (20 bp):
AAAATGAAAATTATTGATAG
Found at i:10778237 original size:137 final size:137
Alignment explanation
Indices: 10777991--10778256 Score: 327
Period size: 137 Copynumber: 1.9 Consensus size: 137
10777981 ATGTCATTAG
* * * * * ** *
10777991 GGTTACCATGTTTCGGGTGCTCATCCTGAATGTCCTACCGATGGCTGAGTTCTGGCATTTATTGC
1 GGTTACCATGTTTCAGGTGCTCATCCTAAATGTCCAACCAATGGCTGAGGTCCAGCATTTATTGA
** ** *
10778056 GGATACTCGTCAGCTTATGTGGAGGACATTGTGTAGCTACATTCTGACCATCAACTTGTGTGAGA
66 GGATACTAATCAGCTTATGTGGAGGACATCATGTAGCTACATTCTGACCATCAACTTCTGTGAGA
10778121 AGACCTA
131 AGACCTA
** *
10778128 GGTTACCATGTTTCAGGTGCTGGTCCTAAATGTCCAACCAATGGCTGAGGTCCAGCATTTGTTGA
1 GGTTACCATGTTTCAGGTGCTCATCCTAAATGTCCAACCAATGGCTGAGGTCCAGCATTTATTGA
* * * * *
10778193 GGATACTAATCAGCTTGT-TTGAGCGACATCATGTAGCTATATTCTGACCGTCAGCTTCTGTGAG
66 GGATACTAATCAGCTTATGTGGAG-GACATCATGTAGCTACATTCTGACCATCAACTTCTGTGAG
10778257 TAGCATCGTG
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
136 4 0.04
137 103 0.96
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (137 bp):
GGTTACCATGTTTCAGGTGCTCATCCTAAATGTCCAACCAATGGCTGAGGTCCAGCATTTATTGA
GGATACTAATCAGCTTATGTGGAGGACATCATGTAGCTACATTCTGACCATCAACTTCTGTGAGA
AGACCTA
Found at i:10778290 original size:42 final size:41
Alignment explanation
Indices: 10778219--10778298 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
10778209 GTTTGAGCGA
* * *
10778219 CATCATGTAGCTATATTCTGACCGTCAGCTTCTGTGAGTAG
1 CATCATGTAGCTACATTCCGACAGTCAGCTTCTGTGAGTAG
* *
10778260 CATCGTGTAGCTTACATTCCGACAGTCAGCTTGTGTGAG
1 CATCATGTAGC-TACATTCCGACAGTCAGCTTCTGTGAG
10778299 CAAACCCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 10 0.30
42 23 0.70
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.33
Consensus pattern (41 bp):
CATCATGTAGCTACATTCCGACAGTCAGCTTCTGTGAGTAG
Found at i:10784989 original size:43 final size:42
Alignment explanation
Indices: 10784866--10785019 Score: 148
Period size: 42 Copynumber: 3.6 Consensus size: 42
10784856 TGAGACTATG
* * *** **
10784866 TGTAAGACCATATCTAGGATATGGCATCAATATGAGACTT-CG
1 TGTAAGACCATATCTGGGATATGGCATCGATGCAAGA-TTAAA
* ** **
10784908 TGTAAGACCATATTTGGGATATGGCATCGATGTGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATGCAAGATTAAA
* *
10784950 TGTAAGACCATAGCTGGGCTATTGGCATCGATGCAAGATTAAA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATGCAAGATTAAA
*
10784993 TTTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
10785020 TGGTATGGTG
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.02
42 58 0.61
43 35 0.37
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATGCAAGATTAAA
Found at i:10788160 original size:18 final size:18
Alignment explanation
Indices: 10788137--10788171 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10788127 TCCTCGTCCT
* *
10788137 CTAAGGGGAAGCAGAAAG
1 CTAAGGGAAAGAAGAAAG
10788155 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
10788172 TCAACTAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.09, G:0.34, T:0.06
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:10792923 original size:25 final size:25
Alignment explanation
Indices: 10792895--10792951 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
10792885 AAAGCTCGTG
* * *
10792895 TGAGCATTCTGGTTCACAGCTTATC
1 TGAGCATTCTGATCCACAGCTCATC
*
10792920 TGAGCATTCTGATCCACAGCTCATG
1 TGAGCATTCTGATCCACAGCTCATC
10792945 TGAGCAT
1 TGAGCAT
10792952 ACATGTACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (25 bp):
TGAGCATTCTGATCCACAGCTCATC
Found at i:10793618 original size:20 final size:19
Alignment explanation
Indices: 10793595--10793636 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
10793585 TAAAGACGGT
10793595 AAATAC-AATGGAAAGTAATG
1 AAATACAAAT-GAAAGTAA-G
*
10793615 AAATGCAAATGAAAGTAAG
1 AAATACAAATGAAAGTAAG
10793634 AAA
1 AAA
10793637 ATTTGGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATACAAATGAAAGTAAG
Done.