Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 14 of 74
Found at i:3793011 original size:31 final size:32
Alignment explanation
Indices: 3792967--3793027 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 32
3792957 TACTATGCTT
3792967 AAAAAAATGAAAGATGAA-AAAAA-TAAAAAATA
1 AAAAAAATGAAAGA--AAGAAAAATTAAAAAATA
3792999 AAAAAAAT-AAAGAAAGAAAAATTAAAAAA
1 AAAAAAATGAAAGAAAGAAAAATTAAAAAA
3793028 AAGACTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 5 0.19
31 12 0.44
32 8 0.30
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.11
Consensus pattern (32 bp):
AAAAAAATGAAAGAAAGAAAAATTAAAAAATA
Found at i:3793030 original size:16 final size:16
Alignment explanation
Indices: 3792984--3793031 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
3792974 TGAAAGATGA
3792984 AAAAAATAAAAAATAA-
1 AAAAAATAAAAAA-AAG
*
3793000 AAAAAAT-AAAGAAAG
1 AAAAAATAAAAAAAAG
*
3793015 AAAAATTAAAAAAAAG
1 AAAAAATAAAAAAAAG
3793031 A
1 A
3793032 CTCATGACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 15 0.56
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAAATAAAAAAAAG
Found at i:3793762 original size:21 final size:21
Alignment explanation
Indices: 3793719--3793762 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
3793709 TTAGCCAGCA
* *
3793719 TTTGCATAGCATGCATTGAAT
1 TTTGCATAGCATACACTGAAT
* *
3793740 TTTGCATAGCATATACTGCAT
1 TTTGCATAGCATACACTGAAT
3793761 TT
1 TT
3793763 AGGAAAGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (21 bp):
TTTGCATAGCATACACTGAAT
Found at i:3794125 original size:26 final size:26
Alignment explanation
Indices: 3794096--3794147 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3794086 CTATTTAGAA
3794096 GAGCCATTTATTTT-CTCAAAGTTATG
1 GAGCCATTTATTTTGC-CAAAGTTATG
3794122 GAGCCATTTATTTTGCCAAAGTTATG
1 GAGCCATTTATTTTGCCAAAGTTATG
3794148 TTGCCTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (26 bp):
GAGCCATTTATTTTGCCAAAGTTATG
Found at i:3794145 original size:68 final size:69
Alignment explanation
Indices: 3794059--3794186 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 69
3794049 AGGAGCTTTG
*
3794059 TTTATTTTTCTCAAAGTTATGTTACCTCTATTTAGAAG-AGCCATTTA-TTTTCTCAAAGTTATG
1 TTTATTTTGCTCAAAGTTATGTTACCTCTATTTAG-AGTAGCCATTTATTTTTC-CAAAGTTATG
3794122 GAGCCA
64 GAGCCA
* *
3794128 TTTATTTTGC-CAAAGTTATGTTGCCTCTATTTAGAGTAGCTATTTATTTTTCCAAAGTT
1 TTTATTTTGCTCAAAGTTATGTTACCTCTATTTAGAGTAGCCATTTATTTTTCCAAAGTT
3794187 CTATTGCCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
67 2 0.04
68 38 0.70
69 14 0.26
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (69 bp):
TTTATTTTGCTCAAAGTTATGTTACCTCTATTTAGAGTAGCCATTTATTTTTCCAAAGTTATGGA
GCCA
Found at i:3794271 original size:45 final size:45
Alignment explanation
Indices: 3794168--3794528 Score: 279
Period size: 45 Copynumber: 8.1 Consensus size: 45
3794158 TTAGAGTAGC
*
3794168 TATTTATTTTTCCAAAGTTCTATT--GCCTC-TATTTAGAGGAG-TTT
1 TATTTATTTTTCAAAAG-TC-ATTGAGCCTCTTA-TTAGAGGAGCTTT
* * * *
3794212 TGTTTA-TTTTCAAAAGTCTTTGAGCCTCTTATTAAATGAGCTTT
1 TATTTATTTTTCAAAAGTCATTGAGCCTCTTATTAGAGGAGCTTT
* * *
3794256 TATTTATTTTTCAAAAGCCATTAAGCCTC-TATTTATAGGAGC-TT
1 TATTTATTTTTCAAAAGTCATTGAGCCTCTTA-TTAGAGGAGCTTT
* *
3794300 TGTTTATTTTCTCTAAAA-TCATTGAGCCTCTGTA-TAGAGGAAC---
1 TATTTATTTT-TC-AAAAGTCATTGAGCCTCT-TATTAGAGGAGCTTT
* ** * * *
3794343 AATTTATTTTTTGAAAGTCGTTCAGCCTC-TATTTAGATGAGC-TT
1 TATTTATTTTTCAAAAGTCATTGAGCCTCTTA-TTAGAGGAGCTTT
* * *
3794387 TATTTATTTTTTAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTT
1 TATTTATTTTTCAAAAGTCATTGAGCCTCTTATTAGAGGAGCTTT
3794432 TATTTATTTTTCAAAAGTCATTGAGCCTCTGT-TTAGAGGAGCTTT
1 TATTTATTTTTCAAAAGTCATTGAGCCTCT-TATTAGAGGAGCTTT
* * **
3794477 GT-TTATTTTTTTCAAAAGTTATTGAGTTTCTGT-TTAGAGGAGCATTT
1 -TATT-TATTTTTCAAAAGTCATTGAGCCTCT-TATTAGAGGAGC-TTT
3794524 TATTT
1 TATTT
3794529 TTCAAAATGG
Statistics
Matches: 257, Mismatches: 38, Indels: 42
0.76 0.11 0.12
Matches are distributed among these distances:
40 2 0.01
41 5 0.02
42 20 0.08
43 29 0.11
44 61 0.24
45 92 0.36
46 41 0.16
47 7 0.03
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (45 bp):
TATTTATTTTTCAAAAGTCATTGAGCCTCTTATTAGAGGAGCTTT
Found at i:3794414 original size:131 final size:132
Alignment explanation
Indices: 3794224--3794471 Score: 344
Period size: 131 Copynumber: 1.9 Consensus size: 132
3794214 TTTATTTTCA
* *
3794224 AAAGTCTTTGAGCCTCTTATTAAATGAGCTTTTATTTATTTTTCAAAAGCCATTAAGCCTCT-AT
1 AAAGTCGTTCAGCCTCTTATTAAATGAGCTTTTATTTATTTTTCAAAAGCCATTAAGCCTCTGA-
* *
3794288 TTATAGGAGC-TTTGTTTATTTTCTCTAAAA-TCATTGAGCCTCTGTATAGAGGAACAATTTATT
65 TTAAAGGAGCTTTTATTTATTTT-TC-AAAAGTCATTGAGCCTCTGTATAGAGGAACAATTTATT
3794351 TTTTG
128 TTTTG
* * * *
3794356 AAAGTCGTTCAGCCTC-TATTTAGATGAGC-TTTATTTATTTTTTAAAAGTCATTGAGCCTCTGA
1 AAAGTCGTTCAGCCTCTTA-TTAAATGAGCTTTTATTTATTTTTCAAAAGCCATTAAGCCTCTGA
*
3794419 TTAAAGGAGCTTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGA
65 TTAAAGGAGCTTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTATAGAGGA
3794472 GCTTTGTTTA
Statistics
Matches: 103, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
130 4 0.04
131 64 0.62
132 35 0.34
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (132 bp):
AAAGTCGTTCAGCCTCTTATTAAATGAGCTTTTATTTATTTTTCAAAAGCCATTAAGCCTCTGAT
TAAAGGAGCTTTTATTTATTTTTCAAAAGTCATTGAGCCTCTGTATAGAGGAACAATTTATTTTT
TG
Found at i:3794438 original size:176 final size:176
Alignment explanation
Indices: 3794192--3794530 Score: 484
Period size: 176 Copynumber: 1.9 Consensus size: 176
3794182 AAGTTCTATT
* * * * *
3794192 GCCTCTATTTAGAGGAGTTTTGTTTATTTTCAAAAGTCTTTGAGCCTCTTATTAAATGAGCTTTT
1 GCCTCTATTTAGAGGAGCTTTATTTATTTTCAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTTT
*
3794257 ATTTATTTTTCAAAAGCCATTAAGCCTCTATTTATAGGAGCTTTGTTTA-TTTTCTCTAAAA-TC
66 ATTTATTTTTCAAAAGCCATTAAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCTC-AAAAGTC
3794320 ATTGAGCCTCTGTATAGAGGAACAATTTATTTTTTGAAAGTCGTTCA
130 ATTGAGCCTCTGTATAGAGGAACAATTTATTTTTTGAAAGTCGTTCA
* *
3794367 GCCTCTATTTAGATGAGCTTTATTTATTTTTTAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTT
1 GCCTCTATTTAGAGGAGCTTTATTTA-TTTTCAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTT
* * * * *
3794432 TATTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTTCAAAAGTT
65 TATTTATTTTTCAAAAGCCATTAAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCTCAAAAGTC
** * * *
3794497 ATTGAGTTTCTGTTTAGAGGAGCATTTTATTTTT
130 ATTGAGCCTCTGTATAGAGGAACAATTTATTTTT
3794531 CAAAATGGTA
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
175 23 0.16
176 84 0.59
177 36 0.25
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.46
Consensus pattern (176 bp):
GCCTCTATTTAGAGGAGCTTTATTTATTTTCAAAAGTCATTGAGCCTCTGATTAAAGGAGCTTTT
ATTTATTTTTCAAAAGCCATTAAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCTCAAAAGTCA
TTGAGCCTCTGTATAGAGGAACAATTTATTTTTTGAAAGTCGTTCA
Found at i:3794760 original size:11 final size:11
Alignment explanation
Indices: 3794744--3794784 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
3794734 CTACGTTTAT
3794744 TAATAAAAAAA
1 TAATAAAAAAA
3794755 TAATAAAAAAA
1 TAATAAAAAAA
3794766 T--TAAAAAAA
1 TAATAAAAAAA
3794775 TGAA-AAAAAA
1 T-AATAAAAAA
3794785 GTTGAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.33
11 18 0.67
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (11 bp):
TAATAAAAAAA
Found at i:3794772 original size:20 final size:20
Alignment explanation
Indices: 3794747--3794784 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3794737 CGTTTATTAA
3794747 TAAAAAAAT-AATAAAAAAAT
1 TAAAAAAATGAA-AAAAAAAT
3794767 TAAAAAAATGAAAAAAAA
1 TAAAAAAATGAAAAAAAA
3794785 GTTGAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (20 bp):
TAAAAAAATGAAAAAAAAAT
Found at i:3795626 original size:5 final size:5
Alignment explanation
Indices: 3795606--3795646 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
3795596 TTCTTTATTT
3795606 TTTTA TTTTTA GTTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
3795647 TCAATGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 24 0.71
6 10 0.29
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:3795814 original size:118 final size:118
Alignment explanation
Indices: 3795653--3795964 Score: 413
Period size: 119 Copynumber: 2.6 Consensus size: 118
3795643 TTTTTCAATG
*
3795653 ATTTTCC-T-AAAATAAAATTCTCAAAAAAATATTTTTGAGGGAAAGTTGAAAATATCAATTTTC
1 ATTTTCCTTGAAAATAAAATT-TTAAAAAAATATTTTTGA-GGAAAGTTGAAAATATCAATTTTC
* * *
3795716 TTTGAAAATAAAAAGGTTTAAAAAA-ATATTTTTAGGGAAAAGTTTAAAGTATCA
64 TTTGAAAATAAAAAGGTTTAAAAAATATATTTTTAGAGAAAAGTTGAAAGCATCA
*
3795770 ATTTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGGAGGAAAGTT-AAAATTATCAATTTTC
1 ATTTTCCTTGAAAATAAAATTTTAAAAAAATATTTTT-GAGGAAAGTTGAAAA-TATCAATTTTC
*
3795834 CTTGAAAATAAAAAGGTTTAAAAAATATATTTTTAGAGAAAAGTTGAAAGCATCA
64 TTTGAAAATAAAAAGGTTTAAAAAATATATTTTTAGAGAAAAGTTGAAAGCATCA
* * * * *
3795889 ATTTTCCTTGAAAATAAATTTTTTAAAAAAGTA-TTTTAAGAAAAAGTTGAAAGTATCAATTTT-
1 ATTTTCCTTGAAAATAAA-ATTTTAAAAAAATATTTTTGAG-GAAAGTTGAAAATATCAATTTTC
3795952 TCTT-AAAATAAAA
64 T-TTGAAAATAAAA
3795965 TTTCTAAAAT
Statistics
Matches: 173, Mismatches: 13, Indels: 17
0.85 0.06 0.08
Matches are distributed among these distances:
117 10 0.06
118 70 0.40
119 78 0.45
120 15 0.09
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (118 bp):
ATTTTCCTTGAAAATAAAATTTTAAAAAAATATTTTTGAGGAAAGTTGAAAATATCAATTTTCTT
TGAAAATAAAAAGGTTTAAAAAATATATTTTTAGAGAAAAGTTGAAAGCATCA
Found at i:3795827 original size:58 final size:58
Alignment explanation
Indices: 3795661--3795982 Score: 341
Period size: 58 Copynumber: 5.4 Consensus size: 58
3795651 TGATTTTCCT
* *
3795661 AAAATAAAATTCTCAAAAAAATATTTTT-GAGGGAAAGTTGAAAA-TATCAA-TTTTCTTTG
1 AAAATAAAATT-TTAAAAAAATATTTTTAGA-GAAAAGTT-AAAAGTATCAATTTTTC-TTG
* * *
3795720 AAAATAAAAAGGTTTAAAAAAATATTTTTAGGGAAAAGTTTAAAGTATCAATTTTTCTTG
1 AAAAT-AAAA-TTTTAAAAAAATATTTTTAGAGAAAAGTTAAAAGTATCAATTTTTCTTG
* * * *
3795780 AAAATAAAATTTTAAAAAAATATTTTTGGAGGAAAGTTAAAATTATCAATTTTCCTTG
1 AAAATAAAATTTTAAAAAAATATTTTTAGAGAAAAGTTAAAAGTATCAATTTTTCTTG
* * * *
3795838 AAAATAAAAAGGTTTAAAAAATATATTTTTAGAGAAAAGTTGAAAGCATCAATTTTCCTTG
1 AAAAT-AAAA-TTTTAAAAAA-ATATTTTTAGAGAAAAGTTAAAAGTATCAATTTTTCTTG
* * * *
3795899 AAAATAAATTTTTTAAAAAAGTATTTTAAGA-AAAAGTTGAAAGTATCAATTTTTCTT-
1 AAAATAAA-ATTTTAAAAAAATATTTTTAGAGAAAAGTTAAAAGTATCAATTTTTCTTG
3795956 AAAATAAAATTTCTAAAATAAA-ATTTT
1 AAAATAAAATTT-TAAAA-AAATATTTT
3795983 CAAAAAAAGA
Statistics
Matches: 226, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
56 3 0.01
57 18 0.08
58 73 0.32
59 25 0.11
60 61 0.27
61 46 0.20
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.37
Consensus pattern (58 bp):
AAAATAAAATTTTAAAAAAATATTTTTAGAGAAAAGTTAAAAGTATCAATTTTTCTTG
Found at i:3795974 original size:14 final size:15
Alignment explanation
Indices: 3795950--3795981 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
3795940 AGTATCAATT
3795950 TTTCTTAAAATAAAA
1 TTTCTTAAAATAAAA
3795965 TTTC-TAAAATAAAA
1 TTTCTTAAAATAAAA
3795979 TTT
1 TTT
3795982 TCAAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTCTTAAAATAAAA
Found at i:3795983 original size:15 final size:15
Alignment explanation
Indices: 3795949--3795987 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
3795939 AAGTATCAAT
3795949 TTTTCTTAAAATAAAA
1 TTTTC-TAAAATAAAA
3795965 -TTTCTAAAATAAAA
1 TTTTCTAAAATAAAA
3795979 TTTTC-AAAA
1 TTTTCTAAAA
3795988 AAAGATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTTCTAAAATAAAA
Found at i:3795997 original size:73 final size:73
Alignment explanation
Indices: 3795899--3796111 Score: 281
Period size: 73 Copynumber: 2.9 Consensus size: 73
3795889 ATTTTCCTTG
** *
3795899 AAAAT-AAATTTTTTAAAAAAG-TATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATA
1 AAAATAAAATTTTCAAAAAAAGATATTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATA
3795962 AAATTTCT
66 AAATTTCT
* *
3795970 AAAATAAAATTTTCAAAAAAAGATATTTTGAGGAAAAA-TTGAAAGTATCAATTTTCCTTAAAGT
1 AAAATAAAATTTTCAAAAAAAGATATTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAT
3796034 AAAATTTCT
65 AAAATTTCT
* * * * *
3796043 AAAATAAAATTTTCAAAAAAATACATTTTGGGAAAAAGTT-AGAAGTACCAATTTTTCTCAAAAA
1 AAAATAAAATTTTCAAAAAAAGATATTTTAGGAAAAAGTTGA-AAGTATCAATTTTTCT-TAAAA
3796107 TAAAA
64 TAAAA
3796112 ATTATCAAGA
Statistics
Matches: 124, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
71 5 0.04
72 22 0.18
73 82 0.66
74 15 0.12
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (73 bp):
AAAATAAAATTTTCAAAAAAAGATATTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATA
AAATTTCT
Found at i:3796125 original size:60 final size:60
Alignment explanation
Indices: 3796043--3796160 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
3796033 TAAAATTTCT
* **
3796043 AAAATAAAATTTTCAAAAAAATACATTTTGGGAAAAAGTT-AGAAGTACCAATTTTTCTCA
1 AAAATAAAATTATCAAAAAAATACATTTTAAGAAAAAGTTGA-AAGTACCAATTTTTCTCA
* * *
3796103 AAAATAAAAATTATC-AAGAAATATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCT
1 AAAAT-AAAATTATCAAAAAAATACATTTTAAGAAAAAGTTGAAAGTACCAATTTTTCT
3796161 TATACAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 41 0.82
61 9 0.18
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (60 bp):
AAAATAAAATTATCAAAAAAATACATTTTAAGAAAAAGTTGAAAGTACCAATTTTTCTCA
Found at i:3796723 original size:24 final size:23
Alignment explanation
Indices: 3796692--3796737 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
3796682 GTTATGACAA
*
3796692 TATCATTTTCAT-ATTTTATTTTG
1 TATCATTTT-ATCATATTATTTTG
3796715 TATCGATTTTATCATATTATTTT
1 TATC-ATTTTATCATATTATTTT
3796738 ATCGTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (23 bp):
TATCATTTTATCATATTATTTTG
Found at i:3796989 original size:23 final size:24
Alignment explanation
Indices: 3796934--3796989 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
3796924 ATTATTAAAT
3796934 ACAATAATAATACAAAAAAAGATAA
1 ACAATAA-AATACAAAAAAAGATAA
*
3796959 ACAA-AAAATACAAGAAAAGGA-AA
1 ACAATAAAATACAA-AAAAAGATAA
3796982 A-AATAAAA
1 ACAATAAAA
3796990 CAGGGGGTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.07
23 14 0.50
24 8 0.29
25 4 0.14
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.11
Consensus pattern (24 bp):
ACAATAAAATACAAAAAAAGATAA
Found at i:3797865 original size:21 final size:22
Alignment explanation
Indices: 3797828--3797881 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
3797818 TTTTTGAATT
3797828 TTTTTATT-TTTTAAAATATTA
1 TTTTTATTATTTTAAAATATTA
*
3797849 TTTTTATTATTTT-AAATTTTA
1 TTTTTATTATTTTAAAATATTA
* *
3797870 TTATTAATATTT
1 TTTTTATTATTT
3797882 ATGCATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATTATTTTAAAATATTA
Found at i:3799555 original size:27 final size:26
Alignment explanation
Indices: 3799506--3799556 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
3799496 TATATTATTT
**
3799506 ATAATAATAATTTTATGTTAAATACA
1 ATAATAATAATTTTATGAAAAATACA
3799532 ATAATTAATAATTTTATGAAAAATA
1 ATAA-TAATAATTTTATGAAAAATA
3799557 TTAATGTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (26 bp):
ATAATAATAATTTTATGAAAAATACA
Found at i:3808486 original size:26 final size:25
Alignment explanation
Indices: 3808451--3808520 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 25
3808441 ATTGAATTTA
* *
3808451 AATATTAATTTTAATGAAATTTATT
1 AATATAAATTTTAATAAAATTTATT
*
3808476 CAATATAAATTTTTTTATAAAATTTATT
1 -AATATAAA--TTTTAATAAAATTTATT
3808504 AAT-TAAATTTATAATAA
1 AATATAAATTT-TAATAA
3808521 TTTTTTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 3 0.08
25 5 0.14
26 11 0.30
27 3 0.08
28 15 0.41
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (25 bp):
AATATAAATTTTAATAAAATTTATT
Found at i:3808532 original size:24 final size:23
Alignment explanation
Indices: 3808489--3808541 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
3808479 TATAAATTTT
3808489 TTTATAAAATTTATTAATTA-AA
1 TTTATAAAATTTATTAATTATAA
*
3808511 TTTATAATAATTTTTTTAATTATAA
1 TTTATAA-AA-TTTATTAATTATAA
3808536 -TTATAA
1 TTTATAA
3808542 CAAACTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 7 0.26
23 2 0.07
24 16 0.59
25 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTATAAAATTTATTAATTATAA
Found at i:3811541 original size:10 final size:10
Alignment explanation
Indices: 3811528--3811568 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
3811518 TAAAATTTTT
3811528 TAAAAAATTA
1 TAAAAAATTA
*
3811538 TAAAAAATTT
1 TAAAAAATTA
3811548 TAATAAAA-TA
1 TAA-AAAATTA
3811558 -AAAAAATTA
1 TAAAAAATTA
3811567 TA
1 TA
3811569 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 14 0.54
11 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:3811541 original size:20 final size:21
Alignment explanation
Indices: 3811506--3811565 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 21
3811496 AAGACATAAA
* *
3811506 AATAATATTATATAAAATTTTTT
1 AATAAAATTATA-AAAA-ATTTT
3811529 AA-AAAATTATAAAAAATTTT
1 AATAAAATTATAAAAAATTTT
3811549 AATAAAA-TA-AAAAAATT
1 AATAAAATTATAAAAAATT
3811566 ATATTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 8 0.24
20 8 0.24
21 8 0.24
22 8 0.24
23 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAAAATTATAAAAAATTTT
Found at i:3811555 original size:22 final size:22
Alignment explanation
Indices: 3811512--3811555 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3811502 TAAAAATAAT
* *
3811512 ATTATATAAAATTTTTTAAAAA
1 ATTATAAAAAATTTTATAAAAA
3811534 ATTATAAAAAATTTTAATAAAA
1 ATTATAAAAAATTTT-ATAAAA
3811556 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTATAAAAAATTTTATAAAAA
Found at i:3820526 original size:2 final size:2
Alignment explanation
Indices: 3820521--3820551 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3820511 GCGCGCGCAC
3820521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3820552 AAAACGCGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3830419 original size:32 final size:32
Alignment explanation
Indices: 3830383--3830447 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
3830373 GTGAAATCAA
*
3830383 TAGCATAATTGGTTTAAGGAACGTATAGGGAG
1 TAGCATAATTGGTTTAAGGAACATATAGGGAG
*
3830415 TAGCATAATTGGTTTAAGGAGCATATAGGGAG
1 TAGCATAATTGGTTTAAGGAACATATAGGGAG
3830447 T
1 T
3830448 TTTAGCTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.06, G:0.31, T:0.29
Consensus pattern (32 bp):
TAGCATAATTGGTTTAAGGAACATATAGGGAG
Found at i:3840070 original size:14 final size:13
Alignment explanation
Indices: 3840046--3840075 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3840036 ATAATTTAAG
*
3840046 TATTTTGAAAAAT
1 TATTTTTAAAAAT
3840059 TATTTTTAAAAAT
1 TATTTTTAAAAAT
3840072 TATT
1 TATT
3840076 GAAGGTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TATTTTTAAAAAT
Found at i:3840798 original size:34 final size:33
Alignment explanation
Indices: 3840752--3840874 Score: 151
Period size: 34 Copynumber: 3.7 Consensus size: 33
3840742 AGTAAAAAAT
*
3840752 TATTTTTAAAAATATATTTTTGAATAATTATAA
1 TATTTTTAAAAATAAATTTTTGAATAATTATAA
* * *
3840785 TATTTTTTGAAAATACATTTTTAAATAATTATAA
1 TA-TTTTTAAAAATAAATTTTTGAATAATTATAA
3840819 TATTTTTAAAAATAAATTTTTGATATAATTA-AGA
1 TATTTTTAAAAATAAATTTTTGA-ATAATTATA-A
*
3840853 -AGTTTTTAAAAATGAATTTTTG
1 TA-TTTTTAAAAATAAATTTTTG
3840875 GTATATTAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
33 22 0.28
34 57 0.72
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.50
Consensus pattern (33 bp):
TATTTTTAAAAATAAATTTTTGAATAATTATAA
Found at i:3840890 original size:34 final size:34
Alignment explanation
Indices: 3840754--3840892 Score: 133
Period size: 34 Copynumber: 4.1 Consensus size: 34
3840744 TAAAAAATTA
* * *
3840754 TTTTTAAAAATATATTTTTGA-ATAATTATAATAT
1 TTTTTAAAAATAAATTTTTGATATAATTA-AAAAG
* * * *
3840788 TTTTTGAAAATACATTTTT-AAATAATTATAATA-
1 TTTTTAAAAATAAATTTTTGATATAATTA-AAAAG
*
3840821 TTTTTAAAAATAAATTTTTGATATAATTAAGAAG
1 TTTTTAAAAATAAATTTTTGATATAATTAAAAAG
* *
3840855 TTTTTAAAAATGAATTTTTGGTAT-ATTAAAAAAG
1 TTTTTAAAAATAAATTTTTGATATAATT-AAAAAG
3840889 TTTT
1 TTTT
3840893 CGAAAATTCA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
33 23 0.25
34 68 0.75
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (34 bp):
TTTTTAAAAATAAATTTTTGATATAATTAAAAAG
Found at i:3841359 original size:2 final size:2
Alignment explanation
Indices: 3841352--3841388 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3841342 ATCAAGTCTT
3841352 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3841389 AAGGATGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3855335 original size:28 final size:26
Alignment explanation
Indices: 3855275--3855335 Score: 61
Period size: 27 Copynumber: 2.2 Consensus size: 26
3855265 CAAATCATTT
* *
3855275 TATTTTTATTGTAATTAAATAATTTT
1 TATTTTTATTGTAATTAAATAATCTA
3855301 TATTTTTTATT-TATATCTAAATAAATCTA
1 TA-TTTTTATTGTA-AT-TAAAT-AATCTA
3855330 TATTTT
1 TATTTT
3855336 ACGAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
26 4 0.14
27 10 0.34
28 9 0.31
29 6 0.21
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
TATTTTTATTGTAATTAAATAATCTA
Found at i:3855406 original size:28 final size:29
Alignment explanation
Indices: 3855353--3855417 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
3855343 ATTTACGTTA
*
3855353 AAAT-TTTATTTGAATATAATAAAAATTT
1 AAATATTTATTTGAATATAATAAAAATAT
*
3855381 AAATATTTATTTGAATCTAAT-AAAATAT
1 AAATATTTATTTGAATATAATAAAAATAT
3855409 AAA-ATTTAT
1 AAATATTTAT
3855418 CTAAATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 6 0.18
28 13 0.38
29 15 0.44
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATATTTATTTGAATATAATAAAAATAT
Found at i:3855424 original size:22 final size:22
Alignment explanation
Indices: 3855395--3855440 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
3855385 ATTTATTTGA
3855395 ATCTAATAAAAT-ATAAAATTT
1 ATCTAATAAAATAATAAAATTT
3855416 ATCTAAATAAAATAATAAAATTT
1 ATCT-AATAAAATAATAAAATTT
3855439 AT
1 AT
3855441 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 11 0.48
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
ATCTAATAAAATAATAAAATTT
Found at i:3859571 original size:2 final size:2
Alignment explanation
Indices: 3859564--3859589 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3859554 TGGGGACATT
3859564 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
3859590 ATTTTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3865961 original size:14 final size:16
Alignment explanation
Indices: 3865931--3865966 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
3865921 TACTAATTTC
3865931 AATTTTTGTTAATAAT
1 AATTTTTGTTAATAAT
*
3865947 AATTTTTTTATAATAAT
1 AATTTTTGT-TAATAAT
3865964 AAT
1 AAT
3865967 ATTGGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTTTTGTTAATAAT
Found at i:3865994 original size:17 final size:16
Alignment explanation
Indices: 3865974--3866005 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3865964 AATATTGGTA
3865974 TAATTAAAACTAAAAAT
1 TAATTAAAAC-AAAAAT
3865991 TAATTAAAACAAAAA
1 TAATTAAAACAAAAA
3866006 CAAAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
TAATTAAAACAAAAAT
Found at i:3866368 original size:14 final size:13
Alignment explanation
Indices: 3866349--3866378 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
3866339 ACTCATACCC
3866349 AAACAGAAACACAA
1 AAACAGAAACA-AA
3866363 AAACAGAAACAAA
1 AAACAGAAACAAA
3866376 AAA
1 AAA
3866379 TAAAGACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.77, C:0.17, G:0.07, T:0.00
Consensus pattern (13 bp):
AAACAGAAACAAA
Found at i:3867080 original size:18 final size:17
Alignment explanation
Indices: 3867059--3867105 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
3867049 TTTTTTTTGG
* *
3867059 TTTTTTATATTTTATTA
1 TTTTTTATATTTGAGTA
3867076 TTTTTGT-TATTTTGAGTA
1 TTTTT-TATA-TTTGAGTA
3867094 TTTTTTATATTT
1 TTTTTTATATTT
3867106 ATGCATGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTTTATATTTGAGTA
Found at i:3876150 original size:110 final size:108
Alignment explanation
Indices: 3876000--3876329 Score: 401
Period size: 110 Copynumber: 3.0 Consensus size: 108
3875990 AAAGATTTTG
* * *
3876000 TGATTTGTAAGATCTCTGGGCATAAATTCAATTCTTGGTGTTATCCCGATCAATTCTTGATTTTT
1 TGATTTCTAAGACCTCTGGGCATAAATTCAATTCGTGGTGTTATCCCGATCAATTCTT-ATTTTT
*
3876065 TGACTTGCGGTGTTGTCCTAGTTGATTCTATAAGACTTTCGGACA
65 TGACTTGC-GTGTTGTCCTAGTTGATTCTGTAAGACTTTCGGACA
* * **
3876110 TGATTTCTAAGACCTCTGGGCATAAATTCGATTCGCGGTGTTATTTCGATCAATTCATTATTTTT
1 TGATTTCTAAGACCTCTGGGCATAAATTCAATTCGTGGTGTTATCCCGATCAATTC-TTATTTTT
* * * * *
3876175 TGACTTGTCGTATTATCC-AGTTAATTTTGTAAGACTTCCGGACA
65 TGACTTG-CGTGTTGTCCTAGTTGATTCTGTAAGACTTTCGGACA
* * * * * * *
3876219 TGATTTTTAAGACCTCCGGGCATAAATTCAATTTGTGATGTTATCCCAATCGATTTTTAATTTTT
1 TGATTTCTAAGACCTCTGGGCATAAATTCAATTCGTGGTGTTATCCCGATCAATTCTT-ATTTTT
* *
3876284 TGACTTGCAGTGTTGTCATAGTTGATTCTGTAAGACCTTCGGACA
65 TGACTTGC-GTGTTGTCCTAGTTGATTCTGTAAGACTTTCGGACA
3876329 T
1 T
3876330 AAATTTGATT
Statistics
Matches: 184, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
108 3 0.02
109 86 0.47
110 92 0.50
111 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (108 bp):
TGATTTCTAAGACCTCTGGGCATAAATTCAATTCGTGGTGTTATCCCGATCAATTCTTATTTTTT
GACTTGCGTGTTGTCCTAGTTGATTCTGTAAGACTTTCGGACA
Found at i:3876375 original size:88 final size:87
Alignment explanation
Indices: 3876226--3876412 Score: 216
Period size: 88 Copynumber: 2.1 Consensus size: 87
3876216 ACATGATTTT
* * * *
3876226 TAAGACCTCCGGGCATAAATTCAATTTGTGATGTTATCCCAATCGATTTTTAATTTTTTGACTTG
1 TAAGACCTCCGGACATAAATTCAATTCGTGATGTTATCCCAATCGATTTATAATTTTTTGACTTA
* *
3876291 CAGTGTTGTCATAGTTGATTCTG
66 C-GTGTTGTCATAGTCGATTCTA
* ** * *
3876314 TAAGACCTTCGGACATAAATTTGATTCGT-AGTGTTATCTCGATCGATTCTAT-ATTTTTTGACT
1 TAAGACCTCCGGACATAAATTCAATTCGTGA-TGTTATCCCAATCGATT-TATAATTTTTTGACT
*
3876377 TACGTGTTGTCCTAGTCGATTCTA
64 TACGTGTTGTCATAGTCGATTCTA
*
3876401 TAAAACCTCCGG
1 TAAGACCTCCGG
3876413 GTATGATTCT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
87 29 0.35
88 52 0.63
89 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (87 bp):
TAAGACCTCCGGACATAAATTCAATTCGTGATGTTATCCCAATCGATTTATAATTTTTTGACTTA
CGTGTTGTCATAGTCGATTCTA
Found at i:3876561 original size:131 final size:132
Alignment explanation
Indices: 3876318--3876804 Score: 583
Period size: 131 Copynumber: 3.7 Consensus size: 132
3876308 ATTCTGTAAG
* * * *
3876318 ACCTTCGGACATAAATTTGATTCGTAGTGTTATCTCGATCGATTCTATATTTTTTGACTTAC-GT
1 ACCTCCGGGCATAAATTCGATTCGTAGTGTTATCCCGATCGATTCTATATTTTTTGACTTACAGT
* * *
3876382 GTTGTCCTAGTCGATTCTATAAAACCTCCGGGTATGATTCTTATGACCTTCAAACATGATTTCTA
66 GTTGTCCCAGTCGATTCTATAAAACCTCTGGGTATGATTCCTATGACCTTCAAACATGATTTCTA
3876447 AA
131 AA
3876449 ACCTCCGGGCATAAATTCGATTCGTAGTGTTATCCCGATCGATTCTATATTTTTTGACTTAC-GT
1 ACCTCCGGGCATAAATTCGATTCGTAGTGTTATCCCGATCGATTCTATATTTTTTGACTTACAGT
*
3876513 GTTGTCCTAGTCGATTCTATAAAACCTCTGGGTATGATTCCTATGACCTTCAAACATGATTTCTA
66 GTTGTCCCAGTCGATTCTATAAAACCTCTGGGTATGATTCCTATGACCTTCAAACATGATTTCTA
3876578 AA
131 AA
* * * * *
3876580 ACCTCCGGGCATAAATTCGATTCGCAGTGTTATCCCGATCGATTCTTTATTTTTTAACTTGCAAT
1 ACCTCCGGGCATAAATTCGATTCGTAGTGTTATCCCGATCGATTCTATATTTTTTGACTTACAGT
* * * * * ** * * *
3876645 GTTGTCCCAATTGATTCTGTAAGACCT-TCGAGCGTGATTCCTAAGACC-TCTGAACATGATTCC
66 GTTGTCCCAGTCGATTCTATAAAACCTCT-GGGTATGATTCCTATGACCTTC-AAACATGATTTC
*
3876708 TAAG
129 TAAA
* * * * * *
3876712 ACCTCCGAGCATAAATTCGATT--TACGATGTTTTCTCGATTGATTCCT-TATTTTTCGACTGAC
1 ACCTCCGGGCATAAATTCGATTCGTA-G-TGTTATCCCGATCGATT-CTATATTTTTTGACTTAC
* * *
3876774 GGTGTTGTCCCAGTTGATTCTATAAGACCTC
63 AGTGTTGTCCCAGTCGATTCTATAAAACCTC
3876805 CGGGCATAAA
Statistics
Matches: 313, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
130 1 0.00
131 187 0.60
132 123 0.39
133 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (132 bp):
ACCTCCGGGCATAAATTCGATTCGTAGTGTTATCCCGATCGATTCTATATTTTTTGACTTACAGT
GTTGTCCCAGTCGATTCTATAAAACCTCTGGGTATGATTCCTATGACCTTCAAACATGATTTCTA
AA
Found at i:3876691 original size:22 final size:22
Alignment explanation
Indices: 3876664--3876723 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
3876654 ATTGATTCTG
*
3876664 TAAGACCTTCGAGCGTGATTCC
1 TAAGACCTTCGAGCATGATTCC
*
3876686 TAAGACC-TCTGAACATGATTCC
1 TAAGACCTTC-GAGCATGATTCC
*
3876708 TAAGACCTCCGAGCAT
1 TAAGACCTTCGAGCAT
3876724 AAATTCGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 29 0.91
23 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (22 bp):
TAAGACCTTCGAGCATGATTCC
Found at i:3877121 original size:22 final size:22
Alignment explanation
Indices: 3877091--3877144 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
3877081 ATCGATTTTG
* *
3877091 TAAGTCCTCTAGGCATGACTCC
1 TAAGACCTCCAGGCATGACTCC
* * *
3877113 TAAGACCTCCGGGCATGATTTC
1 TAAGACCTCCAGGCATGACTCC
3877135 TAAGACCTCC
1 TAAGACCTCC
3877145 GATCATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (22 bp):
TAAGACCTCCAGGCATGACTCC
Found at i:3877145 original size:22 final size:22
Alignment explanation
Indices: 3877102--3877145 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3877092 AAGTCCTCTA
3877102 GGCATGACTCCTAAGACCTCCG
1 GGCATGACTCCTAAGACCTCCG
* *
3877124 GGCATGATTTCTAAGACCTCCG
1 GGCATGACTCCTAAGACCTCCG
3877146 ATCATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (22 bp):
GGCATGACTCCTAAGACCTCCG
Found at i:3877220 original size:183 final size:183
Alignment explanation
Indices: 3876900--3877233 Score: 517
Period size: 183 Copynumber: 1.8 Consensus size: 183
3876890 CTTTTGGGCA
* * * *
3876900 CGATTCTGTAAATCCTCTAAGCATGACTCTTAAGACCTTCGGGCATGATTTCTAAGACCTTCGGG
1 CGATTCTGTAAATCCTCTAAGCATGACTCCTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAG
** *
3876965 CATAAATTCGATTCGCGATGTTATCCCGATCGATTTTTTATTTTTTGACTTGCAGTATTGTCTCA
66 CATAAATTCGATTCGCGATGTTATCCCGATCGATTCCTTATTTTTTAACTTGCAGTATTGTCTCA
3877030 GTCGATTCTATAAGACCTCCGGGCATAAATTTAATTTACGGTGTTATCCCGAT
131 GTCGATTCTATAAGACCTCCGGGCATAAATTTAATTTACGGTGTTATCCCGAT
* * * *
3877083 CGATTTTGTAAGTCCTCTAGGCATGACTCCTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAT
1 CGATTCTGTAAATCCTCTAAGCATGACTCCTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAG
* * * *
3877148 CATAAATTTGATTCGTGATGTTATCTCGATCGATTCCTTATTTTTTAACTTGCAGTGTTGTC-CT
66 CATAAATTCGATTCGCGATGTTATCCCGATCGATTCCTTATTTTTTAACTTGCAGTATTGTCTC-
3877212 AGTCGATTCTATAAGACCTCCG
130 AGTCGATTCTATAAGACCTCCG
3877234 AGGATGATTT
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
182 1 0.01
183 134 0.99
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (183 bp):
CGATTCTGTAAATCCTCTAAGCATGACTCCTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAG
CATAAATTCGATTCGCGATGTTATCCCGATCGATTCCTTATTTTTTAACTTGCAGTATTGTCTCA
GTCGATTCTATAAGACCTCCGGGCATAAATTTAATTTACGGTGTTATCCCGAT
Found at i:3877264 original size:21 final size:21
Alignment explanation
Indices: 3877225--3877264 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3877215 CGATTCTATA
*
3877225 AGACCTCCGAGGATGATTTCT
1 AGACCTCCGAGGATAATTTCT
3877246 AGACCTCCG-GGCATAATTT
1 AGACCTCCGAGG-ATAATTT
3877265 TGATTCGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
AGACCTCCGAGGATAATTTCT
Found at i:3877316 original size:109 final size:110
Alignment explanation
Indices: 3877113--3877353 Score: 299
Period size: 109 Copynumber: 2.2 Consensus size: 110
3877103 GCATGACTCC
* * * *
3877113 TAAGACCTCCGGGCATGATTTCTAAGACCTCCGATCATAAATTTGATTCGTGATGTTATCTCGAT
1 TAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAAATTTGATTCGCGATGTTATCCCAAT
*
3877178 CGATTCCTTATTTTTTAACTTGCAGTGTTGTCCTAGTCGATTCTA
66 CGATTCCTTATTTTTTAACTTACAGTGTTGTCCTAGTCGATTCTA
* * *
3877223 TAAGACCTCCGAGG-ATGATTTCT-AGACCTCCGGGCATAATTTTGATTCGCGATGTTCTCCCAA
1 TAAGACCTCCG-GGCATGATTTCTAAGACCTCCGAGCATAAATTTGATTCGCGATGTTATCCCAA
** * * * *
3877286 TCGATTTTTTATTTTTTGACTTAC-GATGTTGTCTTAGTCGATTTTC
65 TCGATTCCTTATTTTTTAACTTACAG-TGTTGTCCTAGTCGATTCTA
* *
3877332 TAAGACCTCCGGGTATAATTTC
1 TAAGACCTCCGGGCATGATTTC
3877354 GATTCGTAAT
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
108 3 0.03
109 88 0.78
110 20 0.18
111 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (110 bp):
TAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAAATTTGATTCGCGATGTTATCCCAAT
CGATTCCTTATTTTTTAACTTACAGTGTTGTCCTAGTCGATTCTA
Found at i:3877394 original size:36 final size:36
Alignment explanation
Indices: 3877347--3877427 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
3877337 CCTCCGGGTA
** * *
3877347 TAATTTCGATTCGTAATGTTGTCTCGATCGATTCTT
1 TAATTTCGATTCACAATGTTATCCCGATCGATTCTT
* **
3877383 TAATTTTGATTCACGGTGTTATCCCGATCGATTCTT
1 TAATTTCGATTCACAATGTTATCCCGATCGATTCTT
3877419 TAATTTCGA
1 TAATTTCGA
3877428 CTATCAGTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.46
Consensus pattern (36 bp):
TAATTTCGATTCACAATGTTATCCCGATCGATTCTT
Found at i:3877669 original size:16 final size:16
Alignment explanation
Indices: 3877650--3877684 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3877640 TACTAATTTC
3877650 AATTTTTGT-TAATAAT
1 AATTTTT-TATAATAAT
3877666 AATTTTTTATAATAAT
1 AATTTTTTATAATAAT
3877682 AAT
1 AAT
3877685 ATTGGTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.06
16 17 0.94
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
AATTTTTTATAATAAT
Found at i:3877724 original size:17 final size:17
Alignment explanation
Indices: 3877692--3877724 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3877682 AATATTGGTA
*
3877692 TAATTAAAACTAAAAAT
1 TAATTAAAACAAAAAAT
3877709 TAATTAAAACAAAAAA
1 TAATTAAAACAAAAAA
3877725 AAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
TAATTAAAACAAAAAAT
Found at i:3878057 original size:14 final size:13
Alignment explanation
Indices: 3878038--3878067 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
3878028 ACCTATACCC
3878038 AAACAGAAACATAA
1 AAACAGAAACA-AA
3878052 AAACAGAAACAAA
1 AAACAGAAACAAA
3878065 AAA
1 AAA
3878068 TAAAGACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.77, C:0.13, G:0.07, T:0.03
Consensus pattern (13 bp):
AAACAGAAACAAA
Found at i:3878623 original size:21 final size:22
Alignment explanation
Indices: 3878585--3878625 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3878575 TCAATCCATT
3878585 TGAACCGGTATCGAACCACTAG
1 TGAACCGGTATCGAACCACTAG
*
3878607 TGAACCGGTCT-GAACCACT
1 TGAACCGGTATCGAACCACT
3878626 GGACCACCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (22 bp):
TGAACCGGTATCGAACCACTAG
Found at i:3879141 original size:16 final size:16
Alignment explanation
Indices: 3879117--3879172 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
3879107 AAACCTTAGG
3879117 ATTCTAAAACCCCTAAA
1 ATTC-AAAACCCCTAAA
* * *
3879134 ATTCAAAATCCTTTAA
1 ATTCAAAACCCCTAAA
*
3879150 A-TCCAAACCCCTAAA
1 ATTCAAAACCCCTAAA
*
3879165 ATCCAAAA
1 ATTCAAAA
3879173 TTTTAAAACC
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
15 11 0.38
16 14 0.48
17 4 0.14
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (16 bp):
ATTCAAAACCCCTAAA
Found at i:3879168 original size:15 final size:15
Alignment explanation
Indices: 3879123--3879171 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
3879113 TAGGATTCTA
*
3879123 AAACCCCTAAAATTCA
1 AAACCCCTAAAA-TCC
* * *
3879139 AAATCCTTTAAATCC
1 AAACCCCTAAAATCC
3879154 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
3879169 AAA
1 AAA
3879172 ATTTTAAAAC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:3879236 original size:39 final size:38
Alignment explanation
Indices: 3879146--3879219 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
3879136 TCAAAATCCT
* *
3879146 TTAAATCCAAACCCCTAAAATCCAAAATTTTAAAACCCC
1 TTAAATTCAAACCCCTAAAATCCAAAATCTTAAAA-CCC
*
3879185 TTAAATTCAAACCCCTAAAATCTAAAATCTTAAAA
1 TTAAATTCAAACCCCTAAAATCCAAAATCTTAAAA
3879220 TCTAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (38 bp):
TTAAATTCAAACCCCTAAAATCCAAAATCTTAAAACCC
Found at i:3886493 original size:24 final size:23
Alignment explanation
Indices: 3886466--3886512 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3886456 CTACGAAATA
3886466 TATT-AAAATAATCAAAATTAATTT
1 TATTCAAAA-AATC-AAATTAATTT
*
3886490 TATTCAAAAAATCAATTTAATTT
1 TATTCAAAAAATCAAATTAATTT
3886513 GTTTGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 8 0.38
25 4 0.19
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTCAAAAAATCAAATTAATTT
Found at i:3888746 original size:143 final size:144
Alignment explanation
Indices: 3888535--3888875 Score: 399
Period size: 144 Copynumber: 2.4 Consensus size: 144
3888525 CTTCTCGTAG
* * *
3888535 AAAGCTCCAAATCATATTTAATATTATTCTATGAATTTTGATGCATT-GAAATCTTTATTTGTAC
1 AAAGCTTCAAATCATATTTAATATTATTCTATGAATTTTGATGCATTAAAAATCTTTATTTGCAC
* * *
3888599 CTCAAAAATGA-TGAAATTACC-AAATGCCCTTTAGGGATATTTTTGTAACTTGACCTTCTT-GA
66 CTC-AAAAGGAGTAAAATTACCAAAATGCCCTTTAGGGACATTTTTGTAACTTGA-CTTCTTCGA
3888661 TG-TTGGTTTTTTATAA
129 -GATTGGTTTTTTATAA
* * *
3888677 AAAGCTTCAAATCATATTTTTATATTATTCCATTAATTTTGATGCATTAAAAAT-TTTGA-TTGC
1 AAAGCTTCAAATCATA-TTTAATATTATTCTATGAATTTTGATGCATTAAAAATCTTT-ATTTGC
* * * * * *
3888740 AGCTCAAAAGGAGTAAAATTACCAAAATGCTCTTTAGGGGCATTTTTGTAATTTGATTTTTTCGA
64 ACCTCAAAAGGAGTAAAATTACCAAAATGCCCTTTAGGGACATTTTTGTAACTTGACTTCTTCGA
3888805 GATTGGTTTTTTATAA
129 GATTGGTTTTTTATAA
* * * * *
3888821 AAAACTTCATATCATAATTAAATATTATTTTATGAATTTTGATTCATTAAAAATC
1 AAAGCTTCAAATCAT-ATTTAATATTATTCTATGAATTTTGATGCATTAAAAATC
3888876 ATGAAAATGA
Statistics
Matches: 167, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
142 21 0.13
143 52 0.31
144 93 0.56
145 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (144 bp):
AAAGCTTCAAATCATATTTAATATTATTCTATGAATTTTGATGCATTAAAAATCTTTATTTGCAC
CTCAAAAGGAGTAAAATTACCAAAATGCCCTTTAGGGACATTTTTGTAACTTGACTTCTTCGAGA
TTGGTTTTTTATAA
Found at i:3897949 original size:27 final size:27
Alignment explanation
Indices: 3897919--3897972 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3897909 TTATGTTCTC
3897919 CATGAACTTTGTTACTGTAATTTTTTT
1 CATGAACTTTGTTACTGTAATTTTTTT
3897946 CATGAACTTTGTTACTGTAATTTTTTT
1 CATGAACTTTGTTACTGTAATTTTTTT
3897973 ATTAAATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (27 bp):
CATGAACTTTGTTACTGTAATTTTTTT
Found at i:3898678 original size:25 final size:23
Alignment explanation
Indices: 3898623--3898682 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
3898613 CAAAATTTTC
* *
3898623 AGCCTTCATTGCTGACTTTTTTA
1 AGCCTTCATTGTTGACTTATTTA
* *
3898646 GGCTTTCATTGTTGAATCTTATTTA
1 AGCCTTCATTGTTG-A-CTTATTTA
3898671 AGCCTTCATTGT
1 AGCCTTCATTGT
3898683 CGAACCCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 11 0.38
24 1 0.03
25 17 0.59
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (23 bp):
AGCCTTCATTGTTGACTTATTTA
Found at i:3902359 original size:22 final size:22
Alignment explanation
Indices: 3902333--3902376 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3902323 TGTATATTTA
3902333 TATTTGTA-TCTCTAGAATTAAG
1 TATTTGTATTC-CTAGAATTAAG
3902355 TATTTGTATTCCTAGAATTAAG
1 TATTTGTATTCCTAGAATTAAG
3902377 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (22 bp):
TATTTGTATTCCTAGAATTAAG
Found at i:3903356 original size:11 final size:11
Alignment explanation
Indices: 3903340--3903369 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3903330 GCAATATCTG
*
3903340 ACAAATCTCGA
1 ACAAATCTCAA
3903351 ACAAATCTCAA
1 ACAAATCTCAA
3903362 ACAAATCT
1 ACAAATCT
3903370 TTTATGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:3903618 original size:23 final size:22
Alignment explanation
Indices: 3903588--3903655 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 22
3903578 TAAGCTTACT
3903588 TCTTCCCATGTCTCAAACCAAGC
1 TCTTCCCATGTCTCAAACCAA-C
* *
3903611 TCTTCCCATATCTCGAACTGTCAAC
1 TCTTCCCATGTCTCAAAC---CAAC
*
3903636 TCTTCTCATGTCTCAAACCA
1 TCTTCCCATGTCTCAAACCA
3903656 TCGGCTCTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.05
23 16 0.43
25 16 0.43
26 3 0.08
ACGTcount: A:0.25, C:0.37, G:0.07, T:0.31
Consensus pattern (22 bp):
TCTTCCCATGTCTCAAACCAAC
Found at i:3903646 original size:48 final size:49
Alignment explanation
Indices: 3903588--3903693 Score: 135
Period size: 50 Copynumber: 2.2 Consensus size: 49
3903578 TAAGCTTACT
* * *
3903588 TCTTCCCATGTCTCAAACCA-AGCTCTTCCCATATCTCGAA-CTGTCAAC
1 TCTTCTCATGTCTCAAACCACAGCTCTTCCCACATCTCAAATCT-TCAAC
* *
3903636 TCTTCTCATGTCTCAAACCATCGGCTCTTCCCACATCTTAAATCTTCAAC
1 TCTTCTCATGTCTCAAACCA-CAGCTCTTCCCACATCTCAAATCTTCAAC
3903686 TCTTCTCA
1 TCTTCTCA
3903694 CGTTTCGAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 19 0.38
50 29 0.58
51 2 0.04
ACGTcount: A:0.24, C:0.37, G:0.07, T:0.33
Consensus pattern (49 bp):
TCTTCTCATGTCTCAAACCACAGCTCTTCCCACATCTCAAATCTTCAAC
Found at i:3903713 original size:50 final size:50
Alignment explanation
Indices: 3903588--3903713 Score: 132
Period size: 50 Copynumber: 2.6 Consensus size: 50
3903578 TAAGCTTACT
* * * *
3903588 TCTTCCCATGTCTCAAACCA--AGCTCTTCCCATATCTCGAACTGTCAAC
1 TCTTCTCACGTCTCAAACCATCAGCTCTTCCCACATCTCAAACTGTCAAC
* * *
3903636 TCTTCTCATGTCTCAAACCATCGGCTCTTCCCACATCTTAAATCT-TCAAC
1 TCTTCTCACGTCTCAAACCATCAGCTCTTCCCACATCTCAAA-CTGTCAAC
* * *
3903686 TCTTCTCACGTTTCGAACCTTCAGCTCT
1 TCTTCTCACGTCTCAAACCATCAGCTCT
3903714 GATACCACTT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 19 0.29
50 44 0.68
51 2 0.03
ACGTcount: A:0.22, C:0.37, G:0.08, T:0.33
Consensus pattern (50 bp):
TCTTCTCACGTCTCAAACCATCAGCTCTTCCCACATCTCAAACTGTCAAC
Found at i:3903745 original size:31 final size:31
Alignment explanation
Indices: 3903707--3903791 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
3903697 TTCGAACCTT
* *
3903707 CAGCTCTGATACCACTTGTTGGGGAACACCA
1 CAGCTCTGATACCATTTGTTGGGAAACACCA
*
3903738 CAGCTCTGATACCATTTGTTGAGAAACACCA
1 CAGCTCTGATACCATTTGTTGGGAAACACCA
3903769 CAGCTCTGATACCATTTGTTGGG
1 CAGCTCTGATACCATTTGTTGGG
3903792 CTAAAAGCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGAAACACCA
Found at i:3904345 original size:52 final size:52
Alignment explanation
Indices: 3904274--3904430 Score: 178
Period size: 52 Copynumber: 3.0 Consensus size: 52
3904264 TATAACCATA
*
3904274 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTTCTAT-AAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTTCT-TCAAGT
* * *
3904326 CAAACTTGCCTATTAAGAATCCTTTTCCTTTTAGAATTCTTC-TCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTTCTT-CAAGT
* * * *
3904378 CAAACTTACCTATTAAGAGT-CCTCTTTCTCTTGGAATTCTTCTT-TTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTC-TCCTCTTAGAATTCTTCTTCTT-CAAGT
3904430 C
1 C
3904431 TTCTTGTCCA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
50 1 0.01
51 5 0.06
52 83 0.92
53 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTTCTTCAAGT
Found at i:3904471 original size:11 final size:11
Alignment explanation
Indices: 3904455--3904496 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
3904445 GCAATATCTG
*
3904455 ACAAATCTCGA
1 ACAAATCTCAA
*
3904466 ACAAATCTCTA
1 ACAAATCTCAA
3904477 ACAAATCTCAA
1 ACAAATCTCAA
3904488 ACAAATCTC
1 ACAAATCTC
3904497 TTATGGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:3904480 original size:22 final size:22
Alignment explanation
Indices: 3904455--3904497 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3904445 GCAATATCTG
*
3904455 ACAAATCTCGAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
3904477 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
3904498 TATGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:3907595 original size:12 final size:12
Alignment explanation
Indices: 3907580--3907610 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
3907570 GCGGCTGTTG
3907580 CTGTTGTTGTAA
1 CTGTTGTTGTAA
3907592 CTGTTGTTGTAA
1 CTGTTGTTGTAA
3907604 CTGTTGT
1 CTGTTGT
3907611 AATTGATGCT
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:0.13, C:0.10, G:0.26, T:0.52
Consensus pattern (12 bp):
CTGTTGTTGTAA
Found at i:3907625 original size:3 final size:3
Alignment explanation
Indices: 3907617--3907664 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
3907607 TTGTAATTGA
** * * *
3907617 TGC TGC TGC TGC AAC TGC TGC TGG TGC TGC TGG TGC TGC TGA TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
3907665 AATTGCAACT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.06, C:0.27, G:0.35, T:0.31
Consensus pattern (3 bp):
TGC
Found at i:3907644 original size:9 final size:9
Alignment explanation
Indices: 3907632--3907664 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
3907622 CTGCTGCAAC
3907632 TGCTGCTGG
1 TGCTGCTGG
3907641 TGCTGCTGG
1 TGCTGCTGG
*
3907650 TGCTGCTGA
1 TGCTGCTGG
3907659 TGCTGC
1 TGCTGC
3907665 AATTGCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.39, T:0.33
Consensus pattern (9 bp):
TGCTGCTGG
Found at i:3908227 original size:15 final size:15
Alignment explanation
Indices: 3908207--3908241 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3908197 ACATTTGTGC
3908207 CTGCTGCTGTGGCTG
1 CTGCTGCTGTGGCTG
* *
3908222 CTGCTGCTGTTGTTG
1 CTGCTGCTGTGGCTG
3908237 CTGCT
1 CTGCT
3908242 TTATCATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.34, T:0.40
Consensus pattern (15 bp):
CTGCTGCTGTGGCTG
Found at i:3908458 original size:15 final size:15
Alignment explanation
Indices: 3908438--3908468 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3908428 GCCGGCGGCA
*
3908438 GCTGTTGTGGTTGTT
1 GCTGTTGTGCTTGTT
3908453 GCTGTTGTGCTTGTT
1 GCTGTTGTGCTTGTT
3908468 G
1 G
3908469 TGGCTGTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.39, T:0.52
Consensus pattern (15 bp):
GCTGTTGTGCTTGTT
Found at i:3926007 original size:2 final size:2
Alignment explanation
Indices: 3926000--3926032 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3925990 TGCTTCTCGC
3926000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3926033 AGAATTCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3927186 original size:31 final size:31
Alignment explanation
Indices: 3927149--3927207 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
3927139 GGAAAACATG
3927149 AGAAGATAGTGTAGAAATCTGATTCTCCATA
1 AGAAGATAGTGTAGAAATCTGATTCTCCATA
3927180 AGAAGATAGTGTAGAAATCTGATTCTCC
1 AGAAGATAGTGTAGAAATCTGATTCTCC
3927208 TACATTAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (31 bp):
AGAAGATAGTGTAGAAATCTGATTCTCCATA
Found at i:3929123 original size:27 final size:27
Alignment explanation
Indices: 3929082--3929171 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
3929072 ACTTGCCAAT
* *
3929082 TTCCCAACCAACCCCTTCAAAACTATA
1 TTCCCAACCAGCCCCTTCAAAACTAGA
3929109 TTCCCAACCAGCCCCTTCAAAACTAGA
1 TTCCCAACCAGCCCCTTCAAAACTAGA
* * *
3929136 ATCTCAACCAGCCCCTTCAAAACCAGA
1 TTCCCAACCAGCCCCTTCAAAACTAGA
*
3929163 TTCTCAACC
1 TTCCCAACC
3929172 TACCCAACCT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.34, C:0.41, G:0.04, T:0.20
Consensus pattern (27 bp):
TTCCCAACCAGCCCCTTCAAAACTAGA
Found at i:3930334 original size:18 final size:18
Alignment explanation
Indices: 3930311--3930345 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3930301 AACCAACCAG
3930311 CATCCAAGC-TTCCACCCT
1 CATCCAA-CTTTCCACCCT
3930329 CATCCAACTTTCCACCC
1 CATCCAACTTTCCACCC
3930346 AATGACTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.23, C:0.51, G:0.03, T:0.23
Consensus pattern (18 bp):
CATCCAACTTTCCACCCT
Found at i:3947522 original size:28 final size:28
Alignment explanation
Indices: 3947478--3947532 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
3947468 CATGATTTAG
*
3947478 CTATCTAACTTGCCCTGGTTTCCTTATT
1 CTATATAACTTGCCCTGGTTTCCTTATT
* *
3947506 CTATATAACTTGTCCTGGTTTCTTTAT
1 CTATATAACTTGCCCTGGTTTCCTTAT
3947533 CTGGAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.16, C:0.24, G:0.11, T:0.49
Consensus pattern (28 bp):
CTATATAACTTGCCCTGGTTTCCTTATT
Found at i:3950597 original size:9 final size:9
Alignment explanation
Indices: 3950583--3950619 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
3950573 AATTTAATGA
3950583 TTTATATAT
1 TTTATATAT
3950592 TTTATATAT
1 TTTATATAT
3950601 TTATATCATAT
1 TT-TAT-ATAT
3950612 TTTATATA
1 TTTATATA
3950620 AAAATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 14 0.54
10 6 0.23
11 6 0.23
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTATATAT
Found at i:3950631 original size:20 final size:20
Alignment explanation
Indices: 3950584--3950632 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
3950574 ATTTAATGAT
***
3950584 TTATATATTTTATATATTTA
1 TTATATATTTTATATAAAAA
3950604 -TATCATATTTTATATAAAAA
1 TTAT-ATATTTTATATAAAAA
3950624 TTATATATT
1 TTATATATT
3950633 ATAATTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATATTTTATATAAAAA
Found at i:3950719 original size:23 final size:21
Alignment explanation
Indices: 3950671--3950721 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
3950661 ATATGTTTTT
*
3950671 TATT-TTATTAAATTTATATA
1 TATTATTATTAAATTTAAATA
3950691 TAATTATTATTAAAATTTAAATTA
1 T-ATTATTATT-AAATTTAAA-TA
3950715 TATTATT
1 TATTATT
3950722 TTTATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 5 0.19
23 14 0.54
24 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTATTAAATTTAAATA
Found at i:3951468 original size:12 final size:12
Alignment explanation
Indices: 3951451--3951494 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
3951441 GACTATGATC
3951451 TATAAGATAATA
1 TATAAGATAATA
3951463 TATAAGATAA-A
1 TATAAGATAATA
3951474 T-TAAGA-AATTA
1 TATAAGATAA-TA
3951485 TATAAGATAA
1 TATAAGATAA
3951495 ATTATTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.07
10 5 0.18
11 4 0.14
12 15 0.54
13 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (12 bp):
TATAAGATAATA
Found at i:3951486 original size:22 final size:22
Alignment explanation
Indices: 3951453--3951498 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
3951443 CTATGATCTA
3951453 TAAGATAATATATAAGATAAAT
1 TAAGATAATATATAAGATAAAT
3951475 TAAGA-AATTATATAAGATAAAT
1 TAAGATAA-TATATAAGATAAAT
3951497 TA
1 TA
3951499 TTTCATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
TAAGATAATATATAAGATAAAT
Found at i:3952059 original size:16 final size:16
Alignment explanation
Indices: 3952035--3952096 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
3952025 AATTATGTTG
3952035 ATATAATTAAAATATA
1 ATATAATTAAAATATA
* *
3952051 ATATTATTAAATTATA
1 ATATAATTAAAATATA
* *
3952067 TTTTAATTAAATAATGATA
1 ATATAATT-AA-AAT-ATA
*
3952086 ATATATTTAAA
1 ATATAATTAAA
3952097 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
16 19 0.56
17 3 0.09
18 4 0.12
19 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATATAATTAAAATATA
Found at i:3952166 original size:40 final size:44
Alignment explanation
Indices: 3952114--3952223 Score: 122
Period size: 40 Copynumber: 2.5 Consensus size: 44
3952104 TAAAAATTTT
*
3952114 AATAATTATATTTATCATATTATTTTAATA-TTTAAATT-A-TA
1 AATAATTCTATTTATCATATTATTTTAATATTTTAAATTAATTA
* *
3952155 AAT-ATTTTATTT-TAATATTAATTTTAATATTTTTAAATTAATTA
1 AATAATTCTATTTATCATATT-ATTTTAATA-TTTTAAATTAATTA
*
3952199 ATTAATTCTATTTAATCATATTATT
1 AATAATTCTATTT-ATCATATTATT
3952224 CATATATAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
39 6 0.11
40 17 0.30
41 3 0.05
42 8 0.14
43 1 0.02
44 4 0.07
45 8 0.14
46 3 0.05
47 6 0.11
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (44 bp):
AATAATTCTATTTATCATATTATTTTAATATTTTAAATTAATTA
Found at i:3952185 original size:20 final size:20
Alignment explanation
Indices: 3952130--3952197 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
3952120 TATATTTATC
*
3952130 ATATT-ATTTTAATATTTAA
1 ATATTAATTTTAATATTTTA
*
3952149 ATTATAAATATTT--TATTTTA
1 A-TATTAAT-TTTAATATTTTA
3952169 ATATTAATTTTAATATTTTTA
1 ATATTAATTTTAATA-TTTTA
3952190 A-ATTAATT
1 ATATTAATT
3952198 AATTAATTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
18 3 0.08
19 7 0.17
20 19 0.47
21 8 0.20
22 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTAATTTTAATATTTTA
Found at i:3952228 original size:9 final size:10
Alignment explanation
Indices: 3952211--3952247 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
3952201 TAATTCTATT
3952211 TAATCATAT-
1 TAATCATATA
*
3952220 TATTCATATA
1 TAATCATATA
3952230 TAATCATATA
1 TAATCATATA
3952240 -AATCATAT
1 TAATCATAT
3952248 CATATTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (10 bp):
TAATCATATA
Found at i:3952245 original size:19 final size:19
Alignment explanation
Indices: 3952211--3952247 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3952201 TAATTCTATT
* *
3952211 TAATCATATTATTCATATA
1 TAATCATATAAATCATATA
3952230 TAATCATATAAATCATAT
1 TAATCATATAAATCATAT
3952248 CATATTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATCATATAAATCATATA
Found at i:3953143 original size:24 final size:24
Alignment explanation
Indices: 3953111--3953160 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3953101 GAGTGCAAAC
*
3953111 ATAATAATT-AAATTTTTATTAAAT
1 ATAAAAATTAAAATTTTT-TTAAAT
*
3953135 ATAAAAATTAAAATTTTTTTATAT
1 ATAAAAATTAAAATTTTTTTAAAT
3953159 AT
1 AT
3953161 TAATCGAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATAAAAATTAAAATTTTTTTAAAT
Found at i:3954252 original size:12 final size:12
Alignment explanation
Indices: 3954218--3954256 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3954208 ATGACGTATG
3954218 AATTTATTAAATT
1 AATTTATTAAA-T
*
3954231 AATATATTAAAT
1 AATTTATTAAAT
*
3954243 AATTTTTTAAAT
1 AATTTATTAAAT
3954255 AA
1 AA
3954257 AATGTATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AATTTATTAAAT
Found at i:3959538 original size:13 final size:13
Alignment explanation
Indices: 3959522--3959546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3959512 AAATGATTAA
3959522 TCCAATTTTTTTC
1 TCCAATTTTTTTC
3959535 TCCAATTTTTTT
1 TCCAATTTTTTT
3959547 AATGGCGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (13 bp):
TCCAATTTTTTTC
Found at i:3980962 original size:3 final size:3
Alignment explanation
Indices: 3980954--3980996 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
3980944 ATCACGAGAG
3980954 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
3980997 TTATTACCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3984392 original size:2 final size:2
Alignment explanation
Indices: 3984385--3984415 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3984375 GCAGCCTCAA
3984385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3984416 AAGGAAACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3985773 original size:12 final size:12
Alignment explanation
Indices: 3985753--3985782 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3985743 TGAAAGTAGT
*
3985753 TTGAGTTTGAAC
1 TTGAATTTGAAC
3985765 TTGAATTTGAAC
1 TTGAATTTGAAC
3985777 TTGAAT
1 TTGAAT
3985783 AAGCGTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (12 bp):
TTGAATTTGAAC
Found at i:4001808 original size:21 final size:22
Alignment explanation
Indices: 4001783--4001844 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 22
4001773 AATGGAAGAA
4001783 AAGAAGAGAAGAAAAAAAAAAG
1 AAGAAGAGAAGAAAAAAAAAAG
*
4001805 -AGAATGAG-AG-AAAGAAAAAG
1 AAGAA-GAGAAGAAAAAAAAAAG
4001825 AAGAA-A-AAGAAAAAAAAAAG
1 AAGAAGAGAAGAAAAAAAAAAG
4001845 TAAAGTGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
19 3 0.09
20 18 0.53
21 10 0.29
22 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.02
Consensus pattern (22 bp):
AAGAAGAGAAGAAAAAAAAAAG
Found at i:4002316 original size:11 final size:12
Alignment explanation
Indices: 4002299--4002327 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
4002289 TTTAATTCAA
4002299 CTATTTATTTAT
1 CTATTTATTTAT
4002311 -TATTTATTTAT
1 CTATTTATTTAT
4002322 CTATTT
1 CTATTT
4002328 TTCATGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (12 bp):
CTATTTATTTAT
Found at i:4003091 original size:16 final size:16
Alignment explanation
Indices: 4003022--4003093 Score: 69
Period size: 15 Copynumber: 4.6 Consensus size: 16
4003012 CTTAAAGCTT
*
4003022 TTAAATCCCT-AAATC
1 TTAAAACCCTAAAATC
*
4003037 TTAAAACCCCAAAA-C
1 TTAAAACCCTAAAATC
**
4003052 TTCAAAACAATAAAATC
1 TT-AAAACCCTAAAATC
*
4003069 -CAAAACCCTAAAATC
1 TTAAAACCCTAAAATC
4003084 TTAAAACCCT
1 TTAAAACCCT
4003094 CTAAACCCTA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
15 23 0.52
16 20 0.45
17 1 0.02
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (16 bp):
TTAAAACCCTAAAATC
Found at i:4003185 original size:15 final size:15
Alignment explanation
Indices: 4003165--4003224 Score: 70
Period size: 15 Copynumber: 4.0 Consensus size: 15
4003155 TTTAAAACCC
*
4003165 TCAAAACCCTATAAT
1 TCAAAACCCTAAAAT
4003180 TCAAAACCCTAAAAT
1 TCAAAACCCTAAAAT
*
4003195 CTCAAGA-CCTAAAACT
1 -TCAAAACCCTAAAA-T
4003211 TC-AAACCCTAAAAT
1 TCAAAACCCTAAAAT
4003225 CCTTAAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 3 0.08
15 30 0.77
16 6 0.15
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (15 bp):
TCAAAACCCTAAAAT
Found at i:4003370 original size:15 final size:15
Alignment explanation
Indices: 4003346--4003389 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4003336 TCGAAATCCC
4003346 AAAA-CCAAAACCTT
1 AAAACCCAAAACCTT
* *
4003360 AGAACCCAAAATCTT
1 AAAACCCAAAACCTT
4003375 AAAACCCTAAAACCT
1 AAAACCC-AAAACCT
4003390 CGAAACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 3 0.12
15 15 0.62
16 6 0.25
ACGTcount: A:0.52, C:0.30, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAACCCAAAACCTT
Found at i:4004556 original size:15 final size:16
Alignment explanation
Indices: 4004536--4004569 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4004526 TCTTTATAAT
*
4004536 ATAAAAAA-TAATTAA
1 ATAAAAAACAAATTAA
4004551 ATAAAAAACAAATTAA
1 ATAAAAAACAAATTAA
4004567 ATA
1 ATA
4004570 GGGAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAAAACAAATTAA
Found at i:4006094 original size:142 final size:144
Alignment explanation
Indices: 4005813--4006095 Score: 333
Period size: 147 Copynumber: 2.0 Consensus size: 144
4005803 CATTTTTTAT
* * *
4005813 TATTTTCAATTAATTTTAAGTGACATCATATATGACATTTTATTCTTGACTTAGCAAATGTGACA
1 TATTATCAATTAATTTTAAGTGACATCATATATGACATTTTA-T-GTGACTTAACAAA-GTGACA
* * * * * *
4005878 TCAAATCAAACAAAAAAATATATATCCCAATAATATAAAAATATTTCATACGTGCAGAAATTCAA
63 TCAAATAAAAAAAAAAAATATATATCACAATAAAATAAAAATATTTCATACATGCAAAAATTCAA
4005943 TCAATTATATCTCAACA
128 TCAATTATATCTCAACA
*
4005960 TATTATCAATTAATTTTAAGTGACATCATATATGACATTTTA-GTGTCTTAAC-AA-TGACATCA
1 TATTATCAATTAATTTTAAGTGACATCATATATGACATTTTATGTGACTTAACAAAGTGACATC-
* * * * * *
4006022 AATGATAAAAAAAAAAAATCTTTAT-AGAATAAAAT-CAAATATTTCATATATGTAAAAATTCAA
65 AA--ATAAAAAAAAAAAATATATATCACAATAAAATAAAAATATTTCATACATGCAAAAATTCAA
4006085 TCAATTATATC
128 TCAATTATATC
4006096 CGGACATCTT
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
141 7 0.06
142 36 0.31
143 9 0.08
144 24 0.21
147 41 0.35
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (144 bp):
TATTATCAATTAATTTTAAGTGACATCATATATGACATTTTATGTGACTTAACAAAGTGACATCA
AATAAAAAAAAAAAATATATATCACAATAAAATAAAAATATTTCATACATGCAAAAATTCAATCA
ATTATATCTCAACA
Found at i:4008590 original size:17 final size:17
Alignment explanation
Indices: 4008569--4008605 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4008559 TGTTTTTTTA
4008569 TAAAAACT-AATAAAAT
1 TAAAAACTCAATAAAAT
*
4008585 TAAAAATTCAATAAAAT
1 TAAAAACTCAATAAAAT
4008602 TAAA
1 TAAA
4008606 GATTAATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAAACTCAATAAAAT
Found at i:4014269 original size:12 final size:12
Alignment explanation
Indices: 4014252--4014277 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4014242 TCTAAAGTTA
4014252 TATATATATATT
1 TATATATATATT
4014264 TATATATATATT
1 TATATATATATT
4014276 TA
1 TA
4014278 AGATTATTAA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATATATATT
Found at i:4024332 original size:21 final size:21
Alignment explanation
Indices: 4024308--4024353 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4024298 AACAAACATG
** *
4024308 TATTTCATGGGAAAAAACTTC
1 TATTTCATACGAAAAAACTCC
4024329 TATTTTCATACGAAAAAACTCC
1 TA-TTTCATACGAAAAAACTCC
4024351 TAT
1 TAT
4024354 GGTAAAATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (21 bp):
TATTTCATACGAAAAAACTCC
Found at i:4029680 original size:19 final size:19
Alignment explanation
Indices: 4029656--4029698 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4029646 ACTAAAAGAG
4029656 ATTAAGA-GAGTCTATGGAT
1 ATTAAGAGGA-TCTATGGAT
4029675 ATTAAGAGGATCTATGGAT
1 ATTAAGAGGATCTATGGAT
4029694 ATTAA
1 ATTAA
4029699 TTATTGAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (19 bp):
ATTAAGAGGATCTATGGAT
Found at i:4031968 original size:2 final size:2
Alignment explanation
Indices: 4031963--4031993 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4031953 TGTGTGTGTC
4031963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4031994 GCTATAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4035021 original size:30 final size:28
Alignment explanation
Indices: 4034987--4035067 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 28
4034977 TTAAAATATA
4034987 TTATTTTACTAACATAAATTTTTATATTTT
1 TTATTTTACTAA-ATAAATTTTTA-ATTTT
*
4035017 TTATTGTA-TCAAATAAATTTTTAATTTT
1 TTATTTTACT-AAATAAATTTTTAATTTT
* *
4035045 TAATTTATATCCAAATAAATTTT
1 TTATTT-TA-CTAAATAAATTTT
4035068 AACATTTAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 9 0.21
29 14 0.33
30 20 0.47
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (28 bp):
TTATTTTACTAAATAAATTTTTAATTTT
Found at i:4035038 original size:29 final size:30
Alignment explanation
Indices: 4035000--4035067 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
4034990 TTTTACTAAC
* *
4035000 ATAAATTTTTATATTTTTTA-TTGTAT-CAA
1 ATAAATTTTTA-ATTTTTAATTTATATCCAA
4035029 ATAAATTTTTAATTTTTAATTTATATCCAA
1 ATAAATTTTTAATTTTTAATTTATATCCAA
4035059 ATAAATTTT
1 ATAAATTTT
4035068 AACATTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 7 0.20
29 16 0.46
30 12 0.34
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (30 bp):
ATAAATTTTTAATTTTTAATTTATATCCAA
Found at i:4037363 original size:2 final size:2
Alignment explanation
Indices: 4037356--4037388 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4037346 CAGTGACGAG
*
4037356 AT AT AT AT AT AT AT AT AT AT AC AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4037389 TTTAAGAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4054126 original size:15 final size:15
Alignment explanation
Indices: 4054106--4054135 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4054096 CGTAATTTAT
*
4054106 CATAAGATATTCTAC
1 CATAAGATAATCTAC
4054121 CATAAGATAATCTAC
1 CATAAGATAATCTAC
4054136 GTCATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (15 bp):
CATAAGATAATCTAC
Found at i:4055125 original size:61 final size:62
Alignment explanation
Indices: 4054986--4055125 Score: 158
Period size: 61 Copynumber: 2.3 Consensus size: 62
4054976 TTTTTTGGGC
* * * * **
4054986 AAAAACATTTTGAAGAATCTCTTATAAAAAATTAAAAGAGATTATTTAAGGTATTTTTGGTT
1 AAAAACATCTTGAATAATCTCTTATAAAAAATTAAAAGAGATTATTGAAAGTATTTTTAATT
* * * * *
4055048 AAAAATACCTTAAATAATC-CTTATTAAAAATTTAAAA-AGATTATTGAAAGTGTTTTTAATT
1 AAAAACATCTTGAATAATCTCTTA-TAAAAAATTAAAAGAGATTATTGAAAGTATTTTTAATT
4055109 AAAAACATCTTGAATAA
1 AAAAACATCTTGAATAA
4055126 CCCAATTCGA
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
61 37 0.59
62 26 0.41
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.37
Consensus pattern (62 bp):
AAAAACATCTTGAATAATCTCTTATAAAAAATTAAAAGAGATTATTGAAAGTATTTTTAATT
Found at i:4055690 original size:63 final size:63
Alignment explanation
Indices: 4055598--4055732 Score: 150
Period size: 63 Copynumber: 2.1 Consensus size: 63
4055588 AAAAAATGAT
** **
4055598 AAAATTATTGAAAGTGTTTTTGATTAAAAATAT-ATTT-AATAATC-ACTTACAAAAAATTTAAT
1 AAAATTATTGAAAGCATTTTT-AACAAAAA-ATGATTTCAATAATCGACTTACAAAAAATTT-AT
4055660 A
63 A
* * * *
4055661 AAAATTATTGAAAGCATTTTTAACAAAAAATGCTTTCAATGATCGCCTTACAAAAAATTTTTA
1 AAAATTATTGAAAGCATTTTTAACAAAAAATGATTTCAATAATCGACTTACAAAAAATTTATA
4055724 AAAATTATT
1 AAAATTATT
4055733 CAATATATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
61 2 0.03
62 9 0.15
63 36 0.59
64 14 0.23
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (63 bp):
AAAATTATTGAAAGCATTTTTAACAAAAAATGATTTCAATAATCGACTTACAAAAAATTTATA
Found at i:4056071 original size:13 final size:14
Alignment explanation
Indices: 4056039--4056076 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
4056029 ATTTCCTTAA
*
4056039 AATCAAATTATTCTG
1 AATCAAA-TATTCAG
4056054 AATCAAATATT-AG
1 AATCAAATATTCAG
4056067 AATCAAATAT
1 AATCAAATAT
4056077 CCAACAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 4 0.18
15 7 0.32
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (14 bp):
AATCAAATATTCAG
Found at i:4057003 original size:81 final size:81
Alignment explanation
Indices: 4056905--4057067 Score: 290
Period size: 81 Copynumber: 2.0 Consensus size: 81
4056895 TGTATGTAGC
4056905 AGATTTCTTCATGGGATATTCAATATATTTACCATGGCAAGTAGCAAAAAATGCAGAAAGAATTT
1 AGATTTCTTCATGGGATATTCAATATATTTACCATGGCAAGTAGCAAAAAATGCAGAAAGAATTT
*
4056970 TCAATGTAAGCTTATA
66 CCAATGTAAGCTTATA
* * *
4056986 AGATTTCTTCGTGGGATATTCAATATATTTCCCATGGCAAGTAGCAAAAAATGCAGAAAGCATTT
1 AGATTTCTTCATGGGATATTCAATATATTTACCATGGCAAGTAGCAAAAAATGCAGAAAGAATTT
4057051 CCAATGTAAGCTTATA
66 CCAATGTAAGCTTATA
4057067 A
1 A
4057068 AGAATTAATG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (81 bp):
AGATTTCTTCATGGGATATTCAATATATTTACCATGGCAAGTAGCAAAAAATGCAGAAAGAATTT
CCAATGTAAGCTTATA
Found at i:4058432 original size:3 final size:3
Alignment explanation
Indices: 4058426--4058452 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4058416 ACGGTGAAGA
4058426 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
4058453 AGGAGGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:4059235 original size:6 final size:6
Alignment explanation
Indices: 4059224--4059278 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
4059214 TGCCACAGCA
* * * *
4059224 AGAGAG AGAGAG AGAGAG AGAGAC AGAGAT AGAGAC AGAGAC AGAGAC
1 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC
4059272 AGAGAC A
1 AGAGAC A
4059279 TCGCTTGCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.51, C:0.09, G:0.38, T:0.02
Consensus pattern (6 bp):
AGAGAC
Found at i:4060342 original size:18 final size:18
Alignment explanation
Indices: 4060319--4060473 Score: 105
Period size: 18 Copynumber: 8.6 Consensus size: 18
4060309 AATTTTACTT
4060319 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
4060337 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
4060355 ATAAATAATATTATAAT-
1 ATAAATAATATTATATTA
*
4060372 A-AAATATTATTACTTTAATTA
1 ATAAATAATATTA---T-ATTA
*
4060393 ATAAAGATTATAATAATATATTA
1 AT--A-A--ATAATATTATATTA
*
4060416 ATAAATAA-AAT-TATTA
1 ATAAATAATATTATATTA
*
4060432 ATAAATAACA-TACTATTA
1 ATAAATAATATTA-TATTA
4060450 AT--AT-A-A-TATATTA
1 ATAAATAATATTATATTA
4060463 ATAAATAATAT
1 ATAAATAATAT
4060474 AAAGAATAAT
Statistics
Matches: 113, Mismatches: 5, Indels: 38
0.72 0.03 0.24
Matches are distributed among these distances:
13 7 0.06
14 3 0.03
15 3 0.03
16 27 0.24
17 6 0.05
18 45 0.40
19 1 0.01
20 3 0.03
21 2 0.02
23 6 0.05
24 2 0.02
25 1 0.01
27 7 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:4060451 original size:61 final size:62
Alignment explanation
Indices: 4060341--4060457 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 62
4060331 ATATTAATAA
* * **
4060341 ATAATATTATATTAATAAATAATATTATAATAAAATATTATTACTTTAAT-TAATAAAGATT
1 ATAATAATATATTAATAAATAAAATTATAATAAAATAACATTACTTTAATATAATAAAGATT
4060402 ATAATAATATATTAATAAATAAAATTATTAAT-AAATAACA-TACTATTAATATAATA
1 ATAATAATATATTAATAAATAAAATTA-TAATAAAATAACATTACT-TTAATATAATA
4060458 TATTAATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
60 4 0.08
61 36 0.73
62 9 0.18
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (62 bp):
ATAATAATATATTAATAAATAAAATTATAATAAAATAACATTACTTTAATATAATAAAGATT
Done.