Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 5 of 325
Found at i:1473353 original size:36 final size:36
Alignment explanation
Indices: 1473244--1473355 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 36
1473234 TAAATAAAAG
* * * *
1473244 TACTGAATGACTGATTGTTACTAAATAATTG-ATCGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAAT-GT
** * *
1473280 TACTGAATAACTAATTGCTACTGAGCAAATGATTGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
* *
1473316 TATTGAATAATTAATTGCTACTGAATAATTGAATGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
1473352 TACT
1 TACT
1473356 AAATGAAATT
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
36 59 0.98
37 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (36 bp):
TACTGAATAACTAATTGCTACTGAATAATTGAATGT
Found at i:1474624 original size:61 final size:61
Alignment explanation
Indices: 1474529--1474652 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
1474519 GTGTGCCCTC
* *
1474529 TGCACGTAAAAATTTCAAGTCAGTATGCATGATAGTAAACACACGGGCAGAGATACGGTCG
1 TGCACGTAAAAATTTCAAGTCAGTATGCATGATAGTAAACACACGAGCAGAGACACGGTCG
* *
1474590 TGCACGTAAAAGTTTCAAGTCAGTATGCATGATAGTAAACACATGAGCAGAGACACGGTCG
1 TGCACGTAAAAATTTCAAGTCAGTATGCATGATAGTAAACACACGAGCAGAGACACGGTCG
1474651 TG
1 TG
1474653 TGTCTCAACT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (61 bp):
TGCACGTAAAAATTTCAAGTCAGTATGCATGATAGTAAACACACGAGCAGAGACACGGTCG
Found at i:1481824 original size:6 final size:6
Alignment explanation
Indices: 1481813--1481845 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1481803 ACAGTGACCA
1481813 TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC
1481846 CCGGCGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:1491576 original size:17 final size:17
Alignment explanation
Indices: 1491556--1491589 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1491546 AAGTTTAGGT
1491556 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
1491573 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
1491590 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:1501523 original size:14 final size:13
Alignment explanation
Indices: 1501504--1501533 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1501494 GATTTCAAGG
1501504 AATAAAAATATAAA
1 AATAAAAATA-AAA
1501518 AATAAAAATAAAA
1 AATAAAAATAAAA
1501531 AAT
1 AAT
1501534 TTGAAGGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:1502008 original size:24 final size:24
Alignment explanation
Indices: 1501981--1502032 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1501971 TTAGTAAGTC
*
1501981 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
1502005 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
1502029 AAAT
1 AAAT
1502033 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:1505397 original size:45 final size:44
Alignment explanation
Indices: 1505322--1505425 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 44
1505312 TTTTCTTTTC
*
1505322 TTTCTTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTTCTTT-CTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
* *
1505367 TTTCTTTCTTTCTCCCTTCTCTGT-TTTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTC-CT-TCTCTGTTTCGTTTTGCTCTCTG
1505412 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
1505426 TTCTTTGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
44 7 0.13
45 36 0.68
46 10 0.19
ACGTcount: A:0.00, C:0.27, G:0.09, T:0.64
Consensus pattern (44 bp):
TTTCTTTCTTTCTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:1507605 original size:24 final size:24
Alignment explanation
Indices: 1507578--1507629 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1507568 TTAGTAAGTC
*
1507578 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
1507602 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
1507626 AAAT
1 AAAT
1507630 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:1510247 original size:22 final size:22
Alignment explanation
Indices: 1510197--1510247 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
1510187 TTTGTTGCAT
* * *
1510197 TATAAATAAAAATTTTAAACTC
1 TATAAATAAAAATTATAAAATA
1510219 TATAAATAAAAAATTATAAAATA
1 TATAAAT-AAAAATTATAAAATA
1510242 TA-AAAT
1 TATAAAT
1510248 GAGTATAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
TATAAATAAAAATTATAAAATA
Found at i:1512184 original size:95 final size:96
Alignment explanation
Indices: 1512064--1512267 Score: 243
Period size: 96 Copynumber: 2.1 Consensus size: 96
1512054 GTTTTTAAAT
* ** *
1512064 TTTAGGG-TTTTAAGGAAAAAAAATT-AAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAAT
1 TTTAGGGTTTTTAAGG---AAAAATTAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAAT
* * * * *
1512127 TACTAATTTTAAAAAATTAGATTATGA-TTTAGTG
63 TA-TAAATTAAAAAAAATAGATTAGGATTTTAGGG
* * *
1512161 TTTATGGTTTTTAAGGAAAAATTAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAATTAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTAT
1512226 AAATTAAAAAAAATAGATTAGGATTTTAGGG
66 AAATTAAAAAAAATAGATTAGGATTTTAGGG
1512257 TTTAGGGTTTT
1 TTTAGGGTTTT
1512268 AGGGCATTTA
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
95 27 0.30
96 50 0.55
97 6 0.07
98 8 0.09
ACGTcount: A:0.41, C:0.01, G:0.17, T:0.41
Consensus pattern (96 bp):
TTTAGGGTTTTTAAGGAAAAATTAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTAT
AAATTAAAAAAAATAGATTAGGATTTTAGGG
Found at i:1512389 original size:47 final size:47
Alignment explanation
Indices: 1512320--1512416 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
1512310 TTTAGGGTAA
*
1512320 CTTAATTAAATTATTTGTTAATCTAAAAAAGCTTCTACGTGGACGCT
1 CTTAATTAAATTATTTGTTAATCTAAAAAACCTTCTACGTGGACGCT
1512367 CTTAATTAAATTATTTGTTAATCTAAAAAACCTTCTACGTGGACGCT
1 CTTAATTAAATTATTTGTTAATCTAAAAAACCTTCTACGTGGACGCT
1512414 CTT
1 CTT
1512417 TTGCTACAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (47 bp):
CTTAATTAAATTATTTGTTAATCTAAAAAACCTTCTACGTGGACGCT
Found at i:1512633 original size:126 final size:126
Alignment explanation
Indices: 1512403--1512941 Score: 758
Period size: 126 Copynumber: 4.3 Consensus size: 126
1512393 AAAACCTTCT
*
1512403 ACGTGGACGCTCTTTTGCTACAGTAGTCTTTGAAAAAATACAA-TTGAGAAGACGTGTCTGCGCA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATA-AATTTGAGAAGACGTGTCTGCGCA
* * *
1512467 AATAGTGTCAAAAACACTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
65 AAAAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
1512529 ACGTAGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
* *
1512594 AAAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 AAAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
1512655 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGGAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
* * * * *
1512720 ATAGTGGT-AAAAACGCTTCAAGAAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 AAAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * * **
1512781 ACGTGGATGCTCTTTTGCTACAGTGGTCTTTGAAAAAATAATTTTAAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
* * * *
1512846 ATAGTGTCAAAAATGCTTCAAGCAGGATGTATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 AAAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
1512907 ACATGGACGCTCTTTTGCTATAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
1512942 TAACTTGGGC
Statistics
Matches: 373, Mismatches: 37, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
125 4 0.01
126 367 0.98
127 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
AAAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:1514584 original size:46 final size:46
Alignment explanation
Indices: 1514533--1514705 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
1514523 GTTGAGCATT
*
1514533 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * * * * ** *
1514579 TGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATTG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGAT-GC-AAACGTC
* * *
1514626 CGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* *
1514672 CGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
1514706 AGCGGGTTAC
Statistics
Matches: 99, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 2 0.02
46 63 0.64
47 32 0.32
48 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:1514696 original size:93 final size:93
Alignment explanation
Indices: 1514528--1514698 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
1514518 GGATGGTTGA
* * * *
1514528 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
1514593 TGAGTCCGAGTTCGTGAATTGTAACTAG
66 TGAGTCCGAGTTCGTGAATTGTAACTAG
* * *
1514621 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
1514686 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
1514699 ACTTATGAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATTGTAACTAG
Found at i:1521042 original size:55 final size:55
Alignment explanation
Indices: 1520980--1521159 Score: 195
Period size: 55 Copynumber: 3.2 Consensus size: 55
1520970 TACATGAAAT
1520980 AATATAAAAATATTTAAAATGTTGCTTTATTTAAAATAATTTTCATTTTATTAAA
1 AATATAAAAATATTTAAAATGTTGCTTTATTTAAAATAATTTTCATTTTATTAAA
* * * * *
1521035 AATATAAAAATAAATTATAA--TTACTTTATTTAAAACAACCTTTT-ATCTAATTACATGAAA
1 AATATAAAAAT-ATTTAAAATGTTGCTTTATTTAAAATAA--TTTTCAT-T--TT--ATTAAA
* *
1521095 TAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTAAA
1 -AATATAAAAATATTTAAAATGTTGCTTTATTTAAAATAATTTTCATTTTATTAAA
1521151 AATATAAAA
1 AATATAAAA
1521160 GTAAATTACA
Statistics
Matches: 101, Mismatches: 12, Indels: 24
0.74 0.09 0.18
Matches are distributed among these distances:
54 16 0.16
55 22 0.22
56 16 0.16
58 4 0.04
60 15 0.15
61 13 0.13
62 15 0.15
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (55 bp):
AATATAAAAATATTTAAAATGTTGCTTTATTTAAAATAATTTTCATTTTATTAAA
Found at i:1521101 original size:61 final size:60
Alignment explanation
Indices: 1520968--1521221 Score: 209
Period size: 54 Copynumber: 4.4 Consensus size: 60
1520958 TTTATATTTT
* * *
1520968 ATTACATGAAATAATATAAAAAT-ATTTAAAATGTTGCTTTATTTAAAATAA-TTTTCAT-T-
1 ATTACATGAAATAATATAAAAATAAATTAAAA--TTACTTTATTTAAAACAACTTTT-ATCTA
* *
1521027 -TT--ATTAAA-AATATAAAAATAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
1 ATTACATGAAATAATATAAAAATAAATTAAAATTACTTTATTTAAAACAA-CTTTTATCTA
* * *
1521084 ATTACATGAAATAATATAAAAAT--ATTCAAAATGTTGCCTTATTTAAAATAA-TTTTCAT-T-
1 ATTACATGAAATAATATAAAAATAAATT-AAAA--TTACTTTATTTAAAACAACTTTT-ATCTA
* * *
1521143 -TT--ATTAAA-AATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
1 ATTACATGAAATAATATAAAAATAAATTAAAATTACTTTATTTAAAACAAC-TTTTATCTA
1521200 ATTACATGAAATAATATAAAAA
1 ATTACATGAAATAATATAAAAA
1521222 GATTCAAAAT
Statistics
Matches: 154, Mismatches: 18, Indels: 44
0.71 0.08 0.20
Matches are distributed among these distances:
54 31 0.20
55 25 0.16
56 29 0.19
57 3 0.02
58 8 0.05
59 3 0.02
60 18 0.12
61 22 0.14
62 15 0.10
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (60 bp):
ATTACATGAAATAATATAAAAATAAATTAAAATTACTTTATTTAAAACAACTTTTATCTA
Found at i:1521140 original size:116 final size:116
Alignment explanation
Indices: 1520968--1521234 Score: 480
Period size: 116 Copynumber: 2.3 Consensus size: 116
1520958 TTTATATTTT
* *
1520968 ATTACATGAAATAATATAAAAATATTTAAAATGTTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
* *
1521033 AAAATATAAAAATAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAATAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
1521084 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
*
1521149 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAATAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
*
1521200 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
1521235 TGTACAAATA
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 145 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
AAAATATAAAAATAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
Found at i:1521646 original size:18 final size:18
Alignment explanation
Indices: 1521620--1521662 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1521610 GACTAAAAAA
* *
1521620 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
1521638 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
1521656 AGGATAC
1 AGGATAC
1521663 GTACCTGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:1523393 original size:46 final size:46
Alignment explanation
Indices: 1523326--1523418 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
1523316 TTGCATTTGT
1523326 TCAACGGATATATGTTTATCATTGAAGCGAATTAGTTCTCCGACCA
1 TCAACGGATATATGTTTATCATTGAAGCGAATTAGTTCTCCGACCA
1523372 TCAACGGATATATGTTTATCATTGAAGCGAATTAGTTCTCCGACCA
1 TCAACGGATATATGTTTATCATTGAAGCGAATTAGTTCTCCGACCA
1523418 T
1 T
1523419 TGCTAACATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (46 bp):
TCAACGGATATATGTTTATCATTGAAGCGAATTAGTTCTCCGACCA
Found at i:1523517 original size:22 final size:22
Alignment explanation
Indices: 1523505--1523554 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
1523495 TAACGAGAGT
1523505 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
* *
1523527 TTTGAGA-G-ATTTGAGAGGAA
1 TTTGAGAGGAATTTAAGAGAAA
1523547 TTTGAGAG
1 TTTGAGAG
1523555 AATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 1 0.04
22 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:1523562 original size:11 final size:10
Alignment explanation
Indices: 1523505--1523562 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
1523495 TAACGAGAGT
1523505 TTTGAGAGGAA
1 TTTGAGA-GAA
*
1523516 TTTAAGAGAAA
1 TTTGAGAG-AA
1523527 TTTGAGAG-A
1 TTTGAGAGAA
1523536 TTTGAGAGGAA
1 TTTGAGA-GAA
1523547 TTTGAGAGAA
1 TTTGAGAGAA
1523557 TATTGA
1 T-TTGA
1523563 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 27 0.66
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:1523568 original size:31 final size:31
Alignment explanation
Indices: 1523505--1523568 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
1523495 TAACGAGAGT
*
1523505 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
*
1523536 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
1523567 TT
1 TT
1523569 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:1530180 original size:23 final size:22
Alignment explanation
Indices: 1530128--1530181 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
1530118 AATTGTTTTT
* * *
1530128 TTATTTAATTTGTAATTTAATA
1 TTATTTTATTTGTAAGTGAATA
*
1530150 TAATTTTTATTTGTACAGTGAATA
1 TTA-TTTTATTTGTA-AGTGAATA
1530174 TTATTTTA
1 TTATTTTA
1530182 AAGGTTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.08
23 15 0.60
24 8 0.32
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
TTATTTTATTTGTAAGTGAATA
Found at i:1531478 original size:18 final size:18
Alignment explanation
Indices: 1531455--1531499 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
1531445 TTCAGACCAC
1531455 TATTATTATATATA-TAT
1 TATTATTATATATATTAT
* *
1531472 GTATTATTATTTGTATTAT
1 -TATTATTATATATATTAT
1531491 TATTATTAT
1 TATTATTAT
1531500 CACCCCTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TATTATTATATATATTAT
Found at i:1531765 original size:21 final size:21
Alignment explanation
Indices: 1531696--1531766 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
1531686 ATTTCTATAT
*
1531696 TTATTATTATTATATAGTAGT-
1 TTATTATTTTTATATA-TAGTA
*
1531717 GTA-TATTTTTAT-TATA-TA
1 TTATTATTTTTATATATAGTA
*
1531735 CATATATATTTTTATATATAGTA
1 -TTAT-TATTTTTATATATAGTA
1531758 TTATTATTT
1 TTATTATTT
1531767 ACTTTACTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 2 0.05
19 4 0.10
20 8 0.20
21 16 0.40
22 7 0.17
23 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (21 bp):
TTATTATTTTTATATATAGTA
Found at i:1538058 original size:23 final size:23
Alignment explanation
Indices: 1538030--1538079 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1538020 CTTGAATAAA
1538030 AAATTAGGTAATTTTTTAAAAAT
1 AAATTAGGTAATTTTTTAAAAAT
*
1538053 AAATTAGGTAATTTTTTTAAAAT
1 AAATTAGGTAATTTTTTAAAAAT
1538076 AAAT
1 AAAT
1538080 AGTTCTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
AAATTAGGTAATTTTTTAAAAAT
Found at i:1539040 original size:18 final size:16
Alignment explanation
Indices: 1539009--1539050 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
1538999 AATTTTATTT
1539009 TTAAAAATTAAAATTA
1 TTAAAAATTAAAATTA
1539025 TTAAAAAGTATAAAATTA
1 TTAAAAA-T-TAAAATTA
*
1539043 TAAAAAAT
1 TTAAAAAT
1539051 CATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
TTAAAAATTAAAATTA
Found at i:1539041 original size:39 final size:40
Alignment explanation
Indices: 1538966--1539041 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
1538956 TTTAGTTAAC
*
1538966 TTTTTAAAATTTTAAAATTTCAAAAACTATATAAATTTTA
1 TTTTTAAAATATTAAAATTTCAAAAACTATATAAATTTTA
* *
1539006 TTTTTAAAA-ATTAAAATTATTAAAAAGTATA-AAATT
1 TTTTTAAAATATTAAAATT-TCAAAAACTATATAAATT
1539042 ATAAAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 13 0.41
40 19 0.59
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (40 bp):
TTTTTAAAATATTAAAATTTCAAAAACTATATAAATTTTA
Found at i:1540257 original size:15 final size:15
Alignment explanation
Indices: 1540239--1540284 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
1540229 TAATTATTTA
1540239 ATTTTAAATTAAAAT
1 ATTTTAAATTAAAAT
*
1540254 ATTTTAAAATAAAA-
1 ATTTTAAATTAAAAT
* *
1540268 AATTT-AATAAAAAT
1 ATTTTAAATTAAAAT
1540282 ATT
1 ATT
1540285 ATTTTCATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATTAAAAT
Found at i:1540777 original size:12 final size:12
Alignment explanation
Indices: 1540760--1540807 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
1540750 TAAATTTTTA
*
1540760 TTAAAAAGTATT
1 TTAAAAAATATT
1540772 TTAAAAAATATT
1 TTAAAAAATATT
**
1540784 TTAAAATTTA-T
1 TTAAAAAATATT
*
1540795 TAAAAAAATATT
1 TTAAAAAATATT
1540807 T
1 T
1540808 GATGCATCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
11 8 0.28
12 21 0.72
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:1543637 original size:13 final size:13
Alignment explanation
Indices: 1543619--1543645 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1543609 AAAGTGAAAC
1543619 CAACAGTTTATAT
1 CAACAGTTTATAT
1543632 CAACAGTTTATAT
1 CAACAGTTTATAT
1543645 C
1 C
1543646 GAATTTATTT
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:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (13 bp):
CAACAGTTTATAT
Found at i:1545645 original size:55 final size:54
Alignment explanation
Indices: 1545585--1545765 Score: 290
Period size: 55 Copynumber: 3.3 Consensus size: 54
1545575 TTATCCATTT
*
1545585 TCAATAAAATAAAATATGAATGTTCTTAAACCATAGATTTATCACTTATCCTATC
1 TCAATAAAATAAAATATGAATATT-TTAAACCATAGATTTATCACTTATCCTATC
* * *
1545640 TCAATAAAATAAAATATGAATATTTTTAAAGCATAGACTTATCACATATCCTATC
1 TCAATAAAATAAAATATGAATA-TTTTAAACCATAGATTTATCACTTATCCTATC
*
1545695 TCAATAAAATAAAATATGAATATTTGTAAACCATAGATTTATCACTTATTCTATC
1 TCAATAAAATAAAATATGAATATTT-TAAACCATAGATTTATCACTTATCCTATC
1545750 TCAATAAAATAAAATA
1 TCAATAAAATAAAATA
1545766 AAATAAATAA
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 3 0.03
55 111 0.96
56 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (54 bp):
TCAATAAAATAAAATATGAATATTTTAAACCATAGATTTATCACTTATCCTATC
Found at i:1549503 original size:16 final size:17
Alignment explanation
Indices: 1549472--1549504 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1549462 TTCATAAGTA
1549472 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
1549489 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
1549505 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:1549850 original size:46 final size:46
Alignment explanation
Indices: 1549790--1550012 Score: 306
Period size: 46 Copynumber: 4.8 Consensus size: 46
1549780 TTTGACATGA
* * *** * *
1549790 TGCCATAGTGTCTTTCAACCATGGTCTTGTTCATTTCATGTTAC-AT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ATACTGT
* *
1549836 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATACTGT
*
1549882 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATACTGT
*
1549928 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT-CATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATAC-TGT
*
1549974 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1550013 TTCAGAAAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 3 0.02
46 159 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATACTGT
Found at i:1549947 original size:92 final size:92
Alignment explanation
Indices: 1549785--1550012 Score: 350
Period size: 92 Copynumber: 2.5 Consensus size: 92
1549775 TTATCTTTGA
* * *** *
1549785 CATGATGCCATAGTGTCTTTCAACCATGGTCTTGTTCATTTCATGTTACATTGCCATGGTATCTT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATGATACATTGCCATGGTATCTT
1549850 TCAACCATGGTCTTACACATTTTATAT
66 TCAACCATGGTCTTACACATTTTATAT
* * * *
1549877 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ATCCTGTTGCCATGGTATCT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATGATAC-ATTGCCATGGTATCT
1549941 TTCAACCATGGTCTTACACATTTTATAT
65 TTCAACCATGGTCTTACACATTTTATAT
1549969 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1550013 TTCAGAAAGC
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
91 2 0.02
92 121 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (92 bp):
CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATGATACATTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTTATAT
Found at i:1552194 original size:11 final size:13
Alignment explanation
Indices: 1552174--1552205 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1552164 AATAAAATAA
1552174 TAAAATATC-ATT
1 TAAAATATCAATT
1552186 TAAAA-ATCAATT
1 TAAAATATCAATT
1552198 TAAAATAT
1 TAAAATAT
1552206 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCAATT
Found at i:1555550 original size:23 final size:23
Alignment explanation
Indices: 1555519--1555564 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1555509 GACTTCAGCA
1555519 TTATGTA-TTACTTAAAATATATT
1 TTATGTATTTACTTAAAAT-TATT
* *
1555542 TTATTTATTTATTTAAAATTATT
1 TTATGTATTTACTTAAAATTATT
1555565 ATAAAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATGTATTTACTTAAAATTATT
Found at i:1566310 original size:8 final size:8
Alignment explanation
Indices: 1566287--1566335 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
1566277 AGTAAAATTG
1566287 TAATTTTA
1 TAATTTTA
* *
1566295 TTACTTTAA
1 -TAATTTTA
1566304 TAA-TTTA
1 TAATTTTA
*
1566311 TATTTTTA
1 TAATTTTA
1566319 TAATTTTA
1 TAATTTTA
1566327 TAATTTTA
1 TAATTTTA
1566335 T
1 T
1566336 CCTATTAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
7 5 0.15
8 22 0.67
9 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (8 bp):
TAATTTTA
Found at i:1566872 original size:29 final size:31
Alignment explanation
Indices: 1566830--1566891 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
1566820 TAATAAAAGT
*
1566830 AAAATTGTACTTTAACCCCTTA-AAATTATA
1 AAAATTGTAATTTAACCCCTTACAAATTATA
* *
1566860 AAAATT-TAATTTAATCCTTTACAAATTATA
1 AAAATTGTAATTTAACCCCTTACAAATTATA
1566890 AA
1 AA
1566892 GATATAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (31 bp):
AAAATTGTAATTTAACCCCTTACAAATTATA
Found at i:1570171 original size:21 final size:22
Alignment explanation
Indices: 1570160--1570202 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 22
1570150 TCTTTAATTA
1570160 TAAATT-ATTATTTTATACATT
1 TAAATTAATTATTTTATACATT
1570181 TAAATTAATTATATTTAATACA
1 TAAATTAATTAT-TTT-ATACA
1570203 AATATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 3 0.16
24 5 0.26
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAATTAATTATTTTATACATT
Found at i:1570214 original size:24 final size:25
Alignment explanation
Indices: 1570158--1570215 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
1570148 ATTCTTTAAT
* **
1570158 TATAAATTATTATTTTATACATTTA
1 TATAAATTATTATTTAATACAAATA
* *
1570183 AATTAATTA-TATTTAATACAAATA
1 TATAAATTATTATTTAATACAAATA
1570207 TATAAATTA
1 TATAAATTA
1570216 AATGAATAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAAATTATTATTTAATACAAATA
Found at i:1571172 original size:17 final size:18
Alignment explanation
Indices: 1571150--1571187 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1571140 GATTGAACCG
*
1571150 ATTTTTTAT-ATTTTTAA
1 ATTTTTAATAATTTTTAA
*
1571167 ATTTTTAATAATTTTTTA
1 ATTTTTAATAATTTTTAA
1571185 ATT
1 ATT
1571188 AAACTGATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTAATAATTTTTAA
Found at i:1579833 original size:29 final size:29
Alignment explanation
Indices: 1579793--1579870 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
1579783 TGTTATAAAT
1579793 AATCTATTTTCGTAAATAATGTATCTGAC
1 AATCTATTTTCGTAAATAATGTATCTGAC
*
1579822 AATCTATTTTCGTAAATAATGTATCTGAT
1 AATCTATTTTCGTAAATAATGTATCTGAC
* *
1579851 AATCTATTTTCATATATAAT
1 AATCTATTTTCGTAAATAAT
1579871 AAATTTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (29 bp):
AATCTATTTTCGTAAATAATGTATCTGAC
Found at i:1581553 original size:24 final size:24
Alignment explanation
Indices: 1581510--1581568 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
1581500 CGTTACAGCA
1581510 ATTA-ATTG-TCT-CTTTTTTCAG
1 ATTATATTGTTCTACTTTTTTCAG
1581531 ATTATATTGTTCTACTTTTTTCAG
1 ATTATATTGTTCTACTTTTTTCAG
*
1581555 ATTATGTTGTTCTA
1 ATTATATTGTTCTA
1581569 ACAATTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 3 0.09
24 23 0.68
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.58
Consensus pattern (24 bp):
ATTATATTGTTCTACTTTTTTCAG
Found at i:1582432 original size:33 final size:33
Alignment explanation
Indices: 1582386--1582460 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
1582376 ACAGTACTTT
*
1582386 GCTCCTTCCAGCTCCTATCCACCACCATACTCC
1 GCTCCTTCTAGCTCCTATCCACCACCATACTCC
* * *
1582419 GCTTCTTCTAGCTCGTATCCACCACCGTACTCC
1 GCTCCTTCTAGCTCCTATCCACCACCATACTCC
1582452 GCTCCTTCT
1 GCTCCTTCT
1582461 TGTAACACCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.15, C:0.47, G:0.09, T:0.29
Consensus pattern (33 bp):
GCTCCTTCTAGCTCCTATCCACCACCATACTCC
Found at i:1583895 original size:50 final size:50
Alignment explanation
Indices: 1583771--1584019 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1583761 GATAATAACA
* * ** * *
1583771 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1583822 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1583872 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1583922 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1583977 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1584020 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1583949 original size:100 final size:104
Alignment explanation
Indices: 1583770--1584019 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
1583760 TGATAATAAC
**
1583770 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1583835 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1583872 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1583935 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1583977 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1584020 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1584135 original size:13 final size:13
Alignment explanation
Indices: 1584114--1584145 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1584104 GCTTGGATCA
*
1584114 TCATCAAATAAAT
1 TCATAAAATAAAT
1584127 TCATAAAATAAAT
1 TCATAAAATAAAT
1584140 TCATAA
1 TCATAA
1584146 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1584392 original size:30 final size:30
Alignment explanation
Indices: 1584357--1584414 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1584347 CCTCGACTCT
*
1584357 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1584387 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1584415 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1591473 original size:50 final size:50
Alignment explanation
Indices: 1591349--1591597 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1591339 GATAATAACA
* * ** * *
1591349 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1591400 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1591450 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1591500 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1591555 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1591598 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1591527 original size:100 final size:104
Alignment explanation
Indices: 1591348--1591597 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
1591338 TGATAATAAC
**
1591348 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1591413 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1591450 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1591513 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1591555 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1591598 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1591713 original size:13 final size:13
Alignment explanation
Indices: 1591692--1591723 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1591682 GCTTGGATCA
*
1591692 TCATCAAATAAAT
1 TCATAAAATAAAT
1591705 TCATAAAATAAAT
1 TCATAAAATAAAT
1591718 TCATAA
1 TCATAA
1591724 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1591970 original size:30 final size:30
Alignment explanation
Indices: 1591935--1591992 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1591925 CCTCGACTCT
*
1591935 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1591965 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1591993 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1608713 original size:31 final size:32
Alignment explanation
Indices: 1608676--1608767 Score: 132
Period size: 31 Copynumber: 2.9 Consensus size: 32
1608666 TAAGTTATAT
* *
1608676 AATATTTAAATAATTTAATGGAATGGTAAATG
1 AATATTTAAATAATTTAATAGAATGATAAATG
*
1608708 -ATATTTAAATAATTTAATAGAATGATACATG
1 AATATTTAAATAATTTAATAGAATGATAAATG
*
1608739 AAATATTTAAATAATTTAATATAATGATA
1 -AATATTTAAATAATTTAATAGAATGATA
1608768 CATAAAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
31 28 0.52
33 26 0.48
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (32 bp):
AATATTTAAATAATTTAATAGAATGATAAATG
Found at i:1608750 original size:33 final size:33
Alignment explanation
Indices: 1608676--1608777 Score: 145
Period size: 33 Copynumber: 3.2 Consensus size: 33
1608666 TAAGTTATAT
* * *
1608676 AATATTTAAATAATTTAATGGAATGGTAAATG-
1 AATATTTAAATAATTTAATAGAATGATACATGA
1608708 -ATATTTAAATAATTTAATAGAATGATACATGA
1 AATATTTAAATAATTTAATAGAATGATACATGA
* *
1608740 AATATTTAAATAATTTAATATAATGATACATAA
1 AATATTTAAATAATTTAATAGAATGATACATGA
1608773 AATAT
1 AATAT
1608778 AAATTAATCT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
31 28 0.44
33 35 0.56
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (33 bp):
AATATTTAAATAATTTAATAGAATGATACATGA
Found at i:1610265 original size:20 final size:21
Alignment explanation
Indices: 1610237--1610275 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1610227 ATTATATTTA
1610237 AATATGTAAATTTATTAAAAT
1 AATATGTAAATTTATTAAAAT
*
1610258 AATA-GTAAATTTTTTAAA
1 AATATGTAAATTTATTAAA
1610276 TATCTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
AATATGTAAATTTATTAAAAT
Found at i:1624307 original size:24 final size:25
Alignment explanation
Indices: 1624280--1624335 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
1624270 CTTTTTTTAT
*
1624280 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
1624304 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
1624329 -AAATAAA
1 TAAATAAA
1624336 TATTAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:1624321 original size:25 final size:23
Alignment explanation
Indices: 1624292--1624356 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
1624282 AATAAAAAAC
*
1624292 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
1624317 TTTAAAACATAAAAATAAAT--A
1 TTTAAAACATAAAAATAAATACA
1624338 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAATAAATA
1624357 AATAATGGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 4 0.11
24 4 0.11
25 11 0.29
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:1624349 original size:19 final size:20
Alignment explanation
Indices: 1624318--1624356 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1624308 TCAAATACAT
1624318 TTAAAACATAAAAATAAATA
1 TTAAAACATAAAAATAAATA
1624338 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAATAAATA
1624357 AATAATGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
TTAAAACATAAAAATAAATA
Found at i:1627036 original size:31 final size:31
Alignment explanation
Indices: 1626993--1627060 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
1626983 AACTTATATT
1626993 AGAAGTAAGATTGTATTTTACTCTCTACTAAA
1 AGAA-TAAGATTGTATTTTACTCTCTACTAAA
1627025 AGAATAAGATTGTATTTTACTCTCTACTAAA
1 AGAATAAGATTGTATTTTACTCTCTACTAAA
1627056 AGAAT
1 AGAAT
1627061 GGTCAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (31 bp):
AGAATAAGATTGTATTTTACTCTCTACTAAA
Found at i:1627850 original size:3 final size:3
Alignment explanation
Indices: 1627842--1627881 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1627832 AGATATTTAC
1627842 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1627882 CATCAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1628094 original size:26 final size:26
Alignment explanation
Indices: 1628046--1628123 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
1628036 AGAATAAATA
*
1628046 AAAGAAAGAAAA-ACAAGAAAAAGAAAC
1 AAAG-AAGAAAAGAAAAG-AAAAGAAAC
** * *
1628073 AGGGAAGAAACGAAATAG-AAAGAAAG
1 AAAGAAGAAAAGAAA-AGAAAAGAAAC
1628099 AAAGAAGAAAAGAAAAGAAAAGAAA
1 AAAGAAGAAAAGAAAAGAAAAGAAA
1628124 AGAAAAAGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
25 2 0.05
26 32 0.80
27 4 0.10
28 2 0.05
ACGTcount: A:0.73, C:0.04, G:0.22, T:0.01
Consensus pattern (26 bp):
AAAGAAGAAAAGAAAAGAAAAGAAAC
Found at i:1628113 original size:5 final size:5
Alignment explanation
Indices: 1628045--1628129 Score: 61
Period size: 5 Copynumber: 16.8 Consensus size: 5
1628035 AAGAATAAAT
* ** *
1628045 AAAAG -AAAG AAAA- ACAAG AAAAAG AAACAG GGAAG AAACG AAATAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG AAA-AG
1628091 -AAAG -AAAG AAAGAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG -AA-AAG AAAAG AAAAG AAAAG AAAAG AAAA
1628130 AGGAGAAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
4 13 0.20
5 37 0.58
6 11 0.17
7 3 0.05
ACGTcount: A:0.74, C:0.04, G:0.21, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:1630752 original size:42 final size:42
Alignment explanation
Indices: 1630689--1630852 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
1630679 CTTCGTTTTC
** *
1630689 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
1630732 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
1630773 TCGATGCCATAGCCCAGCTATGGTCTCACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
1630822 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1630853 GAATCACATA
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 62 0.60
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:1630832 original size:49 final size:49
Alignment explanation
Indices: 1630759--1630941 Score: 207
Period size: 49 Copynumber: 3.8 Consensus size: 49
1630749 TATGGTCTTA
* * *
1630759 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTCACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
*
1630809 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * *
1630857 CACATATCTCAT-T-GATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAAT
* * *
1630904 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTT
1630942 GTACGGAAAT
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
46 26 0.22
47 36 0.30
48 14 0.12
49 37 0.31
50 6 0.05
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:1630926 original size:47 final size:46
Alignment explanation
Indices: 1630772--1630941 Score: 196
Period size: 47 Copynumber: 3.6 Consensus size: 46
1630762 ATATTCATAT
* *
1630772 ATCGATGCCATAGCCCAGCTATGGTCTCACACGTAATCACATATCAC
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC
* * *
1630819 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTC
1 --ATCGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCAC
* * * * *
1630867 ATTGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCAC
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCAC
* *
1630914 ACCGATGCCATATCCCAGATATGGTCTT
1 ATCGATGCCATAGCCCAGATATGGTCTT
1630942 GTACGGAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
46 28 0.26
47 36 0.34
48 11 0.10
49 32 0.30
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (46 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCAC
Found at i:1630999 original size:31 final size:31
Alignment explanation
Indices: 1630964--1631112 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
1630954 CTTGTCACTT
*
1630964 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
1630995 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* *
1631026 GTAGCCGGAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
1631057 GTAGCCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
1631088 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
1631113 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 2 0.02
31 104 0.96
32 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:1631194 original size:50 final size:51
Alignment explanation
Indices: 1631088--1631216 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
1631078 CACTGATCAA
* * *
1631088 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
1631139 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
1631189 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
1631217 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:1637507 original size:50 final size:50
Alignment explanation
Indices: 1637383--1637631 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1637373 GATAATAACA
* * ** * *
1637383 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1637434 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1637484 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1637534 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1637589 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1637632 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1637561 original size:100 final size:104
Alignment explanation
Indices: 1637382--1637631 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
1637372 TGATAATAAC
**
1637382 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1637447 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1637484 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1637547 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1637589 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1637632 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1637747 original size:13 final size:13
Alignment explanation
Indices: 1637726--1637757 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1637716 GCTTGGATCA
*
1637726 TCATCAAATAAAT
1 TCATAAAATAAAT
1637739 TCATAAAATAAAT
1 TCATAAAATAAAT
1637752 TCATAA
1 TCATAA
1637758 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1638004 original size:30 final size:30
Alignment explanation
Indices: 1637969--1638026 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1637959 CCTCGACTCT
*
1637969 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1637999 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1638027 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1644506 original size:8 final size:8
Alignment explanation
Indices: 1644493--1644521 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1644483 AGATATTTGT
1644493 TAATTAAA
1 TAATTAAA
1644501 TAATTAAA
1 TAATTAAA
1644509 TAATTAAA
1 TAATTAAA
1644517 TAATT
1 TAATT
1644522 GTGTGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATTAAA
Found at i:1648265 original size:23 final size:23
Alignment explanation
Indices: 1648196--1648266 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
1648186 AAATGTCCAA
*
1648196 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
1648219 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
1648247 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
1648267 ATAATCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
28 21 0.51
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:1648292 original size:29 final size:28
Alignment explanation
Indices: 1648210--1648293 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
1648200 AACACACCAG
* *
1648210 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
1648238 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
1648266 TATAATCCATCCAAAACACACCTGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
1648294 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:1652340 original size:46 final size:46
Alignment explanation
Indices: 1652273--1652447 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
1652263 TGTAACCCGC
1652273 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
1652319 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * ** *
1652369 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1652412 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1652448 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.58
47 24 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:1652409 original size:93 final size:93
Alignment explanation
Indices: 1652281--1652452 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
1652271 GCCCATAAGT
** *
1652281 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
1652346 CGAGCTTGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
1652374 GAACTCGGACTCAACTCAATGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1652439 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
1652453 CAAATATTCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:1658224 original size:27 final size:27
Alignment explanation
Indices: 1658171--1658224 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1658161 CCTGACAGGT
* *
1658171 GCGACATGTTGAGCCTGTCAGGTAGGC
1 GCGACATGTCGAGCCTCTCAGGTAGGC
*
1658198 GCGACATGTCGTGCCTACTCAGG-AGGC
1 GCGACATGTCGAGCCT-CTCAGGTAGGC
1658225 TCAACCCGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.20
Consensus pattern (27 bp):
GCGACATGTCGAGCCTCTCAGGTAGGC
Found at i:1659218 original size:22 final size:22
Alignment explanation
Indices: 1659193--1659242 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1659183 ATTATATGTG
1659193 TTAAATAAA-ACATTT-TTTATTT
1 TTAAATAAATA-ATTTATTTA-TT
1659215 TTAAATAAATAATTTATTTATT
1 TTAAATAAATAATTTATTTATT
1659237 TTAAAT
1 TTAAAT
1659243 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAAATAAATAATTTATTTATT
Found at i:1675068 original size:21 final size:21
Alignment explanation
Indices: 1675042--1675082 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1675032 AGACGAGCAA
* *
1675042 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1675063 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1675083 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1682262 original size:17 final size:17
Alignment explanation
Indices: 1682240--1682273 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1682230 TTGTAGACTA
1682240 AAGGCAAAACTAGCCTC
1 AAGGCAAAACTAGCCTC
1682257 AAGGCAAAACTAGCCTC
1 AAGGCAAAACTAGCCTC
1682274 TTTCAGTAAA
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:0.41, C:0.29, G:0.18, T:0.12
Consensus pattern (17 bp):
AAGGCAAAACTAGCCTC
Found at i:1682741 original size:6 final size:7
Alignment explanation
Indices: 1682724--1682748 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1682714 AGATCATTTC
1682724 AAAAAAT
1 AAAAAAT
1682731 AAAAAAT
1 AAAAAAT
1682738 AAAAAAT
1 AAAAAAT
1682745 AAAA
1 AAAA
1682749 TATTATAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:1683408 original size:36 final size:35
Alignment explanation
Indices: 1683381--1683462 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 35
1683371 TTTACATTTT
* * * *
1683381 TTTATAAATTATTAATATTTTTTATTTTTTTATTTT
1 TTTATAAATT-TTAAAATTATATATTTTTATATTTT
1683417 TTTA-AAATTTTAAAATTATATATTTTTATTATTTT
1 TTTATAAATTTTAAAATTATATATTTTTA-TATTTT
*
1683452 TTAATAAATTT
1 TTTATAAATTT
1683463 ATAAGTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 15 0.38
35 14 0.36
36 10 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (35 bp):
TTTATAAATTTTAAAATTATATATTTTTATATTTT
Found at i:1683441 original size:34 final size:36
Alignment explanation
Indices: 1683368--1683462 Score: 115
Period size: 36 Copynumber: 2.7 Consensus size: 36
1683358 CATGTTATTA
* * * *
1683368 ATTTTTA-CATTTTTTTATAAATTATTAATATTTTTT
1 ATTTTTATTATTTTTTTATAAATT-TTAAAATTATAT
1683404 ATTTTT-TTATTTTTTTA-AAATTTTAAAATTATAT
1 ATTTTTATTATTTTTTTATAAATTTTAAAATTATAT
*
1683438 ATTTTTATTATTTTTTAATAAATTT
1 ATTTTTATTATTTTTTTATAAATTT
1683463 ATAAGTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
34 15 0.29
35 15 0.29
36 21 0.41
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (36 bp):
ATTTTTATTATTTTTTTATAAATTTTAAAATTATAT
Found at i:1683477 original size:34 final size:31
Alignment explanation
Indices: 1683402--1683479 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 31
1683392 TTAATATTTT
*
1683402 TTATTTTTTTA-TTTTTTTAAAATTTTAAAA
1 TTATTTTTTTATTTTTTTTAAAAATTTAAAA
*
1683432 TTATATATTTTTATTATTTTTTAATAAATTTATAAG
1 TTAT-T-TTTTTATT-TTTTTTAA-AAATTTA-AAA
1683468 TTATTTTTTTAT
1 TTATTTTTTTAT
1683480 AAATTTGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 4 0.10
31 1 0.03
32 6 0.15
33 1 0.03
34 15 0.38
35 7 0.17
36 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (31 bp):
TTATTTTTTTATTTTTTTTAAAAATTTAAAA
Found at i:1683669 original size:23 final size:24
Alignment explanation
Indices: 1683618--1683675 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
1683608 AAGATAAAAA
*
1683618 TATAATATTTAATTTAAAATTGAG
1 TATAATATTAAATTTAAAATTGAG
**
1683642 T-TAATATTAAATTTAAAATT-TT
1 TATAATATTAAATTTAAAATTGAG
1683664 TATAATATTAAA
1 TATAATATTAAA
1683676 AAATACTACG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 28 0.93
24 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (24 bp):
TATAATATTAAATTTAAAATTGAG
Found at i:1684420 original size:21 final size:21
Alignment explanation
Indices: 1684394--1684436 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1684384 TATATATGTG
* *
1684394 TATATATATACAAATTTTATA
1 TATATACATACAAAATTTATA
1684415 TATATACATACAAAATTTATA
1 TATATACATACAAAATTTATA
1684436 T
1 T
1684437 TGCATGAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATACATACAAAATTTATA
Found at i:1691736 original size:50 final size:50
Alignment explanation
Indices: 1691621--1691813 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
1691611 GATAATAACA
* ** * *
1691621 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
1691672 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
1691722 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
1691772 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1691814 TTACCCAAAT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 95 0.74
51 33 0.26
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:1691929 original size:13 final size:13
Alignment explanation
Indices: 1691908--1691939 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1691898 GCTTGGATCA
*
1691908 TCATCAAATAAAT
1 TCATAAAATAAAT
1691921 TCATAAAATAAAT
1 TCATAAAATAAAT
1691934 TCATAA
1 TCATAA
1691940 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1692186 original size:30 final size:30
Alignment explanation
Indices: 1692151--1692208 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1692141 CCTCGACTCT
*
1692151 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1692181 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1692209 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1698869 original size:49 final size:50
Alignment explanation
Indices: 1698793--1699024 Score: 316
Period size: 49 Copynumber: 4.8 Consensus size: 50
1698783 GATAATAACA
* ** *
1698793 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
1698843 TGCCCATGCCATGT-CCAGACATGGTCTTATAGGGGA-CTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
1698891 TG-CAACGCCATGTCCCAGA-ATGGTCTTACATGGGACCTCTC-TCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
1698938 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1698988 TGCCAATG-CATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
1699025 TCTTTACCAC
Statistics
Matches: 161, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
47 38 0.24
48 29 0.18
49 69 0.43
50 25 0.16
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:1699004 original size:97 final size:98
Alignment explanation
Indices: 1698793--1699024 Score: 348
Period size: 97 Copynumber: 2.4 Consensus size: 98
1698783 GATAATAACA
** *
1698793 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTGGTGCCCATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATGCGGTGCCCATGCCATGTC
*
1698858 CAGACATGGTCTTATAGGGGACTCTCATCTCGG
66 CAGACATGGTCTTACAGGGGACTCTCATCTCGG
*
1698891 TG-CAACGCCATGTCCCAGA-ATGGTCTTACATGGGACCTCTCTC-T-CGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCT-TCTCATGCGGTGCCCATGCCATGT
1698952 CCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
65 -CCAGACATGGTCTTACAGGGGA-CTCTCATCTCGG
*
1698988 TGCCAATG-CATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAC
1699025 TCTTTACCAC
Statistics
Matches: 123, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
95 16 0.13
96 39 0.32
97 45 0.37
98 23 0.19
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (98 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATGCGGTGCCCATGCCATGTC
CAGACATGGTCTTACAGGGGACTCTCATCTCGG
Found at i:1699143 original size:13 final size:13
Alignment explanation
Indices: 1699122--1699152 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1699112 GCTTAGATCA
*
1699122 TCATCAAATAAAT
1 TCATAAAATAAAT
1699135 TCATAAAATAAAT
1 TCATAAAATAAAT
1699148 TCATA
1 TCATA
1699153 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1709012 original size:14 final size:16
Alignment explanation
Indices: 1708993--1709025 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1708983 CCATGTTTCG
1708993 TATTCTTT-A-CTTAT
1 TATTCTTTAAGCTTAT
1709007 TATTCTTTAAGCTTAT
1 TATTCTTTAAGCTTAT
1709023 TAT
1 TAT
1709026 GTGATTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTCTTTAAGCTTAT
Found at i:1718587 original size:4 final size:4
Alignment explanation
Indices: 1718578--1718608 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1718568 CACCTTTGGT
1718578 TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
1718609 ATGTTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:1721111 original size:5 final size:5
Alignment explanation
Indices: 1721101--1721131 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
1721091 AATAATTAAG
1721101 TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT
1721132 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:1721201 original size:31 final size:30
Alignment explanation
Indices: 1721166--1721226 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
1721156 GAAACAGAAT
*
1721166 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
1721197 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
1721227 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:1722798 original size:39 final size:38
Alignment explanation
Indices: 1722750--1722825 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
1722740 TACCGGGTAC
*
1722750 CAACTTTACTTCG-GCTAGGCCGATGAGACACTGGGTGT
1 CAACTTTACTTCGAACTA-GCCGATGAGACACTGGGTGT
* *
1722788 CAACTATTACTTCGAACTATCCGATGAGGCACTGGGTG
1 CAACT-TTACTTCGAACTAGCCGATGAGACACTGGGTG
1722826 CCATATTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 5 0.15
39 25 0.76
40 3 0.09
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (38 bp):
CAACTTTACTTCGAACTAGCCGATGAGACACTGGGTGT
Found at i:1724621 original size:24 final size:25
Alignment explanation
Indices: 1724574--1724623 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
1724564 TTTTAGTTGA
1724574 TGACTGCAAATGCTCTGGTAATATT
1 TGACTGCAAATGCTCTGGTAATATT
*
1724599 TGACTGCTAAAT-CT-TTGTAATATT
1 TGACTGC-AAATGCTCTGGTAATATT
1724623 T
1 T
1724624 CTTTCGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 10 0.43
25 9 0.39
26 4 0.17
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (25 bp):
TGACTGCAAATGCTCTGGTAATATT
Found at i:1732651 original size:41 final size:41
Alignment explanation
Indices: 1732594--1732684 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
1732584 AAATGGGGTA
*
1732594 TGGGAGTGGCTTAGATACAAAAGGGACTGTGCCTGAGGTGT
1 TGGGAGTGGCTTAGATACAAAAGGGACTGTGCCTCAGGTGT
1732635 TGGGAGTGGCTTAGATACAAAAGGGACTGTGCCTCAGGTGT
1 TGGGAGTGGCTTAGATACAAAAGGGACTGTGCCTCAGGTGT
*
1732676 TGGGGGTGG
1 TGGGAGTGG
1732685 AGAGTTTGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.22, C:0.12, G:0.42, T:0.24
Consensus pattern (41 bp):
TGGGAGTGGCTTAGATACAAAAGGGACTGTGCCTCAGGTGT
Found at i:1743859 original size:33 final size:31
Alignment explanation
Indices: 1743805--1743870 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1743795 AGACTCAATT
* * * *
1743805 TTTTTAATATTTTCTTTTTAAATTTTATAAA
1 TTTTTAATAATTTATTTTTAAACTTGATAAA
1743836 TTTTTAATAATTTATTTAATTAAACTTGATAAA
1 TTTTTAATAATTTATTT--TTAAACTTGATAAA
1743869 TT
1 TT
1743871 AATTAAACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 15 0.52
33 14 0.48
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTTTAATAATTTATTTTTAAACTTGATAAA
Found at i:1745680 original size:72 final size:72
Alignment explanation
Indices: 1745581--1745736 Score: 240
Period size: 72 Copynumber: 2.2 Consensus size: 72
1745571 GGATCTAGTT
* * * *
1745581 AATCATTTATGATCCGTCACTCGCATACTTCACACCACTCGTTATAAGGTACTTATTATGGATTG
1 AATCA-TTAAGATCCGTCACTCACATACTTCACACCACTCGCTATAAGATACTTATTATGGATTG
1745646 TCCATGAG
65 TCCATGAG
* * *
1745654 AATCATTAAGATCCGTCACTCACATACTTCATACCACTCGCTATAAGATACTTGTTGTGGATTGT
1 AATCATTAAGATCCGTCACTCACATACTTCACACCACTCGCTATAAGATACTTATTATGGATTGT
1745719 CCATGAG
66 CCATGAG
1745726 AATCATTAAGA
1 AATCATTAAGA
1745737 CATAACAACA
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
72 71 0.93
73 5 0.07
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (72 bp):
AATCATTAAGATCCGTCACTCACATACTTCACACCACTCGCTATAAGATACTTATTATGGATTGT
CCATGAG
Found at i:1753228 original size:13 final size:12
Alignment explanation
Indices: 1753188--1753229 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1753178 ATTTCTTTTA
*
1753188 TTTTCTTGAATT
1 TTTTATTGAATT
1753200 TTTTATAT-AATT
1 TTTTAT-TGAATT
1753212 TTTTATTGAATT
1 TTTTATTGAATT
1753224 CTTTTA
1 -TTTTA
1753230 AAAATGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 1 0.04
12 19 0.73
13 6 0.23
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (12 bp):
TTTTATTGAATT
Found at i:1753363 original size:17 final size:19
Alignment explanation
Indices: 1753343--1753383 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
1753333 TTAATAAATG
1753343 AATTATTAA-AATA-TAAT
1 AATTATTAATAATATTAAT
1753360 AA-T-TTAATAATATTAAT
1 AATTATTAATAATATTAAT
1753377 AATTATT
1 AATTATT
1753384 TTGTAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.20
16 5 0.25
17 8 0.40
18 1 0.05
19 2 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTATTAATAATATTAAT
Found at i:1759518 original size:17 final size:17
Alignment explanation
Indices: 1759483--1759518 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1759473 ATATATGTTC
*
1759483 TATTGTTGGAATTAAAT
1 TATTGTTGGAAATAAAT
*
1759500 TATTGTTGGAAATATAT
1 TATTGTTGGAAATAAAT
1759517 TA
1 TA
1759519 ACGAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (17 bp):
TATTGTTGGAAATAAAT
Found at i:1759719 original size:21 final size:21
Alignment explanation
Indices: 1759690--1759749 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
1759680 GGTGGATCAA
* *
1759690 CTCTTACGAGCTTTTGTTCAG
1 CTCTCACGAGCTTCTGTTCAG
1759711 CTCTCACGAGCTTCTGTTCAG
1 CTCTCACGAGCTTCTGTTCAG
* * *
1759732 CTTTTATGAGCTTCTGTT
1 CTCTCACGAGCTTCTGTT
1759750 AACGATGTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.43
Consensus pattern (21 bp):
CTCTCACGAGCTTCTGTTCAG
Found at i:1760485 original size:52 final size:52
Alignment explanation
Indices: 1760428--1760532 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
1760418 GTTTTTTATA
1760428 TGTATAAATTTCATATTTGAAATGAATTGATATGATTAAAGTTTATACAAGC
1 TGTATAAATTTCATATTTGAAATGAATTGATATGATTAAAGTTTATACAAGC
1760480 TGTATAAATTTCATATTTGAAATGAATTGATATGATTAAAGTTTATACAAGC
1 TGTATAAATTTCATATTTGAAATGAATTGATATGATTAAAGTTTATACAAGC
1760532 T
1 T
1760533 TACTAAGCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (52 bp):
TGTATAAATTTCATATTTGAAATGAATTGATATGATTAAAGTTTATACAAGC
Found at i:1764180 original size:14 final size:14
Alignment explanation
Indices: 1764161--1764190 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1764151 TTATATCGAG
1764161 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
1764175 ACCAATCCAATTCA
1 ACCAATCCAAATCA
1764189 AC
1 AC
1764191 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:1766048 original size:485 final size:485
Alignment explanation
Indices: 1765203--1766177 Score: 1878
Period size: 485 Copynumber: 2.0 Consensus size: 485
1765193 CAATCTCAAG
1765203 CATTTAAGAATATAATTCAAGTTACACGAACTTACCTTGATACTTGTTTGTAAACAGTAAAAATC
1 CATTTAAGAATATAATTCAAGTTACACGAACTTACCTTGATACTTGTTTGTAAACAGTAAAAATC
1765268 TACTAATCCCGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATATTCTGGATTTGGTGT
66 TACTAATCCCGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATATTCTGGATTTGGTGT
* *
1765333 AAAAATTATGAAATACCAGCTTAGAGAACCCTCCTATGGCGTTTTTAGCTGCTGGAATTGAAGGG
131 AAAAATTATGAAATACCAGCTTAGAGAACCCTCCTATGACGTTTTTAGCTGCTGGAATTGAAGAG
* *
1765398 AAATGAAGAGAAATCTAGATATTTCCTATTTAGTGCTAGCTTTATTTAGTTAATTTTGTAATATT
196 AAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGCTTTATTTAGTTAATTTTGCAATATT
1765463 CCAATTTTACCCTTAATTTATCAATTTTTCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATA
261 CCAATTTTACCCTTAATTTATCAATTTTTCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATA
1765528 AATTTTGGGTCTAATTGCCTTTTAAATCCTTTCTCATTAGACTCTTAAGCTATTTAATCATTCTA
326 AATTTTGGGTCTAATTGCCTTTTAAATCCTTTCTCATTAGACTCTTAAGCTATTTAATCATTCTA
*
1765593 GCAACTTTTACACCTATTACAATTTAGTCCTTTTCATTTAATTAACTACCCAAACATTAAAATTT
391 GCAACTTTTACACCTATTACAATTTAGTCATTTTCATTTAATTAACTACCCAAACATTAAAATTT
1765658 CCTAACGAAATTTTAACACCACACTAATAA
456 CCTAACGAAATTTTAACACCACACTAATAA
1765688 CATTTAAGAATATAATTCAAGTTACACGAACTTACCTTGATACTTGTTTGTAAACAGTAAAAATC
1 CATTTAAGAATATAATTCAAGTTACACGAACTTACCTTGATACTTGTTTGTAAACAGTAAAAATC
* *
1765753 TACTAATCCCGAACTTTTTCCTTTCCTCGATCTATCTTCGTATTTGAATCTTCTGGATTTGGTGT
66 TACTAATCCCGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATATTCTGGATTTGGTGT
1765818 AAAAATTATGAAATACCAGCTTAGAGAACCCTCCTATGACGTTTTTAGCTGCTGGAATTGAAGAG
131 AAAAATTATGAAATACCAGCTTAGAGAACCCTCCTATGACGTTTTTAGCTGCTGGAATTGAAGAG
1765883 AAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGCTTTATTTAGTTAATTTTGCAATATT
196 AAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGCTTTATTTAGTTAATTTTGCAATATT
1765948 CCAATTTTACCCTTAATTTATCAATTTTTCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATA
261 CCAATTTTACCCTTAATTTATCAATTTTTCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATA
1766013 AATTTTGGGTCTAATTGCCTTTTAAATCCTTTCTCATTAGACTCTTAAGCTATTTAATCATTCTA
326 AATTTTGGGTCTAATTGCCTTTTAAATCCTTTCTCATTAGACTCTTAAGCTATTTAATCATTCTA
1766078 GCAACTTTTACACCTATTACAATTTAGTCATTTTCATTTAATTAACTACCCAAACATTAAAATTT
391 GCAACTTTTACACCTATTACAATTTAGTCATTTTCATTTAATTAACTACCCAAACATTAAAATTT
*
1766143 CCTAACGAAATTTTAATACCACACTAATAA
456 CCTAACGAAATTTTAACACCACACTAATAA
1766173 CATTT
1 CATTT
1766178 CATAAATATT
Statistics
Matches: 482, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
485 482 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (485 bp):
CATTTAAGAATATAATTCAAGTTACACGAACTTACCTTGATACTTGTTTGTAAACAGTAAAAATC
TACTAATCCCGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATATTCTGGATTTGGTGT
AAAAATTATGAAATACCAGCTTAGAGAACCCTCCTATGACGTTTTTAGCTGCTGGAATTGAAGAG
AAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGCTTTATTTAGTTAATTTTGCAATATT
CCAATTTTACCCTTAATTTATCAATTTTTCTGCTGATTTCATACCCTTGCCGTCCAGCCCAAATA
AATTTTGGGTCTAATTGCCTTTTAAATCCTTTCTCATTAGACTCTTAAGCTATTTAATCATTCTA
GCAACTTTTACACCTATTACAATTTAGTCATTTTCATTTAATTAACTACCCAAACATTAAAATTT
CCTAACGAAATTTTAACACCACACTAATAA
Found at i:1768265 original size:14 final size:14
Alignment explanation
Indices: 1768246--1768275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1768236 TTATATCGAG
1768246 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
1768260 ACCAATCCAATTCA
1 ACCAATCCAAATCA
1768274 AC
1 AC
1768276 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:1771582 original size:53 final size:53
Alignment explanation
Indices: 1771501--1771651 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
1771491 CTTACACGGT
* *
1771501 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
1771556 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
1771609 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
1771652 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:1779093 original size:53 final size:53
Alignment explanation
Indices: 1779012--1779162 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
1779002 CTTACACGGT
* *
1779012 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
1779067 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
1779120 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
1779163 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:1783703 original size:19 final size:21
Alignment explanation
Indices: 1783679--1783729 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
1783669 CCCGACCAAA
*
1783679 GTCAAAAGA-A-AAACAGCGT
1 GTCAAAAGAGAGAAAAAGCGT
1783698 GTCAAAAGACAGAGAAAAAGCGT
1 GTCAAAAG--AGAGAAAAAGCGT
1783721 GTCAAAAGA
1 GTCAAAAGA
1783730 CAGACTACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.30
21 2 0.07
22 1 0.04
23 16 0.59
ACGTcount: A:0.53, C:0.14, G:0.24, T:0.10
Consensus pattern (21 bp):
GTCAAAAGAGAGAAAAAGCGT
Found at i:1783723 original size:23 final size:24
Alignment explanation
Indices: 1783688--1783733 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
1783678 AGTCAAAAGA
1783688 AAAACAGCGTGTCAAAAGACAGAG
1 AAAACAGCGTGTCAAAAGACAGAG
1783712 AAAA-AGCGTGTCAAAAGACAGA
1 AAAACAGCGTGTCAAAAGACAGA
1783734 CTACACAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (24 bp):
AAAACAGCGTGTCAAAAGACAGAG
Found at i:1801867 original size:23 final size:23
Alignment explanation
Indices: 1801782--1801865 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
1801772 CTTAATGCCG
*
1801782 TTCTGGTGTGTCTGGGTGGATTA
1 TTCTGGTGTGTTTGGGTGGATTA
*
1801805 TTCTGGTGTGTTTGGGTGGATCA
1 TTCTGGTGTGTTTGGGTGGATTA
* * *
1801828 TTCTAGTGTGTTCGGTTGGATTA
1 TTCTGGTGTGTTTGGGTGGATTA
*
1801851 TTATGGTGTGTTTGG
1 TTCTGGTGTGTTTGG
1801866 TTAGATCCGT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.10, C:0.07, G:0.37, T:0.46
Consensus pattern (23 bp):
TTCTGGTGTGTTTGGGTGGATTA
Found at i:1818691 original size:87 final size:87
Alignment explanation
Indices: 1818547--1818725 Score: 274
Period size: 87 Copynumber: 2.1 Consensus size: 87
1818537 GAAGAGATGT
* * *
1818547 TAAAAGAAATGTATTAGAAGAACAAATAAAAACATATAAAAAGGAATATTTGTTAAACAACGGAA
1 TAAAAGAAATGTATTAGAAAAACAAAAAAAAACATAAAAAAAGGAATATTTGTTAAACAACGGAA
1818612 AACAAA-AAA-ATATATATATA
66 AACAAACAAATATATATATATA
*
1818632 TAAAAGAAA-GTGTTAGAAAAACAACAAAAAAACTTATAAAAAAAGGAATATTTGTTAAACAACG
1 TAAAAGAAATGTATTAGAAAAACAA-AAAAAAAC--ATAAAAAAAGGAATATTTGTTAAACAACG
1818696 GAAAACAAACAAATATATATATATA
63 GAAAACAAACAAATATATATATATA
1818721 TAAAA
1 TAAAA
1818726 CTTAAGATAA
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
84 13 0.15
85 16 0.19
87 37 0.44
88 3 0.04
89 16 0.19
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (87 bp):
TAAAAGAAATGTATTAGAAAAACAAAAAAAAACATAAAAAAAGGAATATTTGTTAAACAACGGAA
AACAAACAAATATATATATATA
Found at i:1820838 original size:14 final size:15
Alignment explanation
Indices: 1820814--1820846 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1820804 AAAATTGAAA
*
1820814 TTTATTTTTTATATT
1 TTTATTTTTTAAATT
1820829 TTTA-TTTTTAAATT
1 TTTATTTTTTAAATT
1820843 TTTA
1 TTTA
1820847 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTTAAATT
Found at i:1820847 original size:8 final size:8
Alignment explanation
Indices: 1820819--1820876 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
1820809 TGAAATTTAT
*
1820819 TTTTTATA
1 TTTTTAAA
1820827 TTTTT--A
1 TTTTTAAA
1820833 TTTTTAAA
1 TTTTTAAA
1820841 TTTTTAAA
1 TTTTTAAA
*
1820849 -ATTTAAA
1 TTTTTAAA
1820856 TTTGTTAAAA
1 TTT-TT-AAA
*
1820866 GTTTTAAA
1 TTTTTAAA
1820874 TTT
1 TTT
1820877 GTCGATGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 6 0.15
7 6 0.15
8 20 0.49
9 4 0.10
10 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:1833148 original size:16 final size:16
Alignment explanation
Indices: 1833127--1833159 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1833117 ATCCACTAAT
*
1833127 CCACTACCACCAACAA
1 CCACTACCAACAACAA
1833143 CCACTACCAACAACAA
1 CCACTACCAACAACAA
1833159 C
1 C
1833160 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.48, G:0.00, T:0.06
Consensus pattern (16 bp):
CCACTACCAACAACAA
Found at i:1837787 original size:17 final size:17
Alignment explanation
Indices: 1837765--1837798 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1837755 ATCCACTAAT
*
1837765 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1837782 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1837799 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Done.