Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 9 of 138
Found at i:2503313 original size:48 final size:49
Alignment explanation
Indices: 2503242--2503336 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 49
2503232 TATCCGAAGT
* *
2503242 CATTTGCATATTCTCGATGGTGATATCTGAGT-TTAAAGTTTGAATTTA
1 CATTTACATATTCTCGATGGTGATATCCGAGTATTAAAGTTTGAATTTA
* * *
2503290 CATTTACATTTTCTCGGTGGTGATATCCGAGTATTAATGTTTGAATT
1 CATTTACATATTCTCGATGGTGATATCCGAGTATTAAAGTTTGAATT
2503337 GCATTTTCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 28 0.68
49 13 0.32
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (49 bp):
CATTTACATATTCTCGATGGTGATATCCGAGTATTAAAGTTTGAATTTA
Found at i:2503411 original size:147 final size:147
Alignment explanation
Indices: 2502804--2503397 Score: 809
Period size: 147 Copynumber: 4.0 Consensus size: 147
2502794 AAGATTTGAA
* * * * * *
2502804 TTGCATCTTTTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCT-TGACG
1 TTGCATATTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTACATTTGCATTCCCTCAG-TG
* * *
2502868 ATGATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTCAAGTTGT-CTTC-A
65 GTGATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTT-TCCTTCTA
* * *
2502931 GTGATGATATTTGAAGTCTT
129 -TGACGATATCTGAAGTCAT
* * *
2502951 TTGCATATTCTCGATGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTCCTCAGTGG
1 TTGCATATTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTACATTTGCATTCCCTCAGTGG
* * *
2503016 TGATATCTAAATATTAAAGCTTGAATTACATTTTCTCGATAGTGATATTCGAGTTTCCTT-TGAT
66 TGATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCT-AT
*
2503080 GACGATATTTGAAGTCAT
130 GACGATATCTGAAGTCAT
2503098 TTGCATATTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTACATTTGCATTCCCTCAGTGG
1 TTGCATATTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTACATTTGCATTCCCTCAGTGG
* *
2503163 TGATATACAAGTATTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCGATG
66 TGATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCTATG
* *
2503228 GCGATATCCGAAGTCAT
131 ACGATATCTGAAGTCAT
* ** *
2503245 TTGCATATTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTACATTTACATTTTCTCGGTGG
1 TTGCATATTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTACATTTGCATTCCCTCAGTGG
* * * * * * *
2503310 TGATATCCGAGTATTAATGTTTGAATTGCATTTTCTCAATGGTAATATTCGAGTTTTCTTCTATG
66 TGATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCTATG
*
2503375 GCGATATCTGAAGTCAT
131 ACGATATCTGAAGTCAT
2503392 TTGCAT
1 TTGCAT
2503398 CTTTTTGGTG
Statistics
Matches: 402, Mismatches: 40, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
146 1 0.00
147 399 0.99
148 2 0.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (147 bp):
TTGCATATTCTCGATGGTGATATCTGAGTTTAAAGTTTGAATTTACATTTGCATTCCCTCAGTGG
TGATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCTATG
ACGATATCTGAAGTCAT
Found at i:2503674 original size:99 final size:95
Alignment explanation
Indices: 2503471--2503798 Score: 273
Period size: 99 Copynumber: 3.3 Consensus size: 95
2503461 AATGGTTTAA
* * ** *
2503471 TTTAAAGTTGTTGAGCCTCTGCTGA-AATGAG-CTTTTTTCAAGATGAGAATTTTTTTAAAGTTG
1 TTTAAAGTTGTTGAGCCTCTACTGAGAA-AAGTC-TTTTTCAA-A--AGAA-AATTTTAAAGTCG
* * * * *
2503534 TTGAGCCTTTGCTGAAAAGAGCTTTTTTCAAAATAAAATT
60 TTGAGCCTCTGTTG-AGAGAGCTTTTTT-AAGAT-GAA-T
* * * * *
2503574 TTTAAAGTTATAGAGCCTCTGCTGAGAAAAGTTTTTTTCAAAATAAAATTTTAAAGTCGTTGAGC
1 TTTAAAGTTGTTGAGCCTCTACTGAGAAAAGTCTTTTTCAAAAGAAAATTTTAAAGTCGTTGAGC
2503639 CTCTGTTGAGATGAGCTTTTTCTAAGATGAGAT
66 CTCTGTTGAGA-GAGCTTTTT-TAAGATGA-AT
* *** * *
2503672 TTTAAAGTTGTTGAGTCTCTAACTGAGATGGGTCTTTTTCAAAAGAGAATATTAAAGTCGTTGAG
1 TTTAAAGTTGTTGAGCCTCT-ACTGAGAAAAGTCTTTTTCAAAAGAAAATTTTAAAGTCGTTGAG
* *
2503737 CCTCTATTAAGAGAAGCTTTTTTTTAAGATGAAAT
65 CCTCTGTTGAGAG-AGC--TTTTTTAAGATG-AAT
2503772 TTTAAAGTTGTTGAGCCTCTACTGAGA
1 TTTAAAGTTGTTGAGCCTCTACTGAGA
2503799 GGAACCTTTT
Statistics
Matches: 188, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
98 22 0.12
99 92 0.49
100 32 0.17
101 6 0.03
102 1 0.01
103 33 0.18
104 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (95 bp):
TTTAAAGTTGTTGAGCCTCTACTGAGAAAAGTCTTTTTCAAAAGAAAATTTTAAAGTCGTTGAGC
CTCTGTTGAGAGAGCTTTTTTAAGATGAAT
Found at i:2503792 original size:100 final size:98
Alignment explanation
Indices: 2503573--2503798 Score: 283
Period size: 99 Copynumber: 2.3 Consensus size: 98
2503563 AAAATAAAAT
* * * *** * * *
2503573 TTTTAAAGTTATAGAGCCTCTGCTGAGAAAAGTTTTTTTCAAAATAAAATTTTAAAGTCGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTACTGAGATGGGTCTTTTTCAAAAGAAAATATTAAAGTCGTTGAG
* * *
2503638 CCTCTGTTGAGATGAGCTTTTTCTAAGATGAGA
66 CCTCTATTAAGATGAGCTTTTTCTAAGATGAAA
* *
2503671 TTTTAAAGTTGTTGAGTCTCTAACTGAGATGGGTCTTTTTCAAAAGAGAATATTAAAGTCGTTGA
1 TTTTAAAGTTGTTGAGCCTCT-ACTGAGATGGGTCTTTTTCAAAAGAAAATATTAAAGTCGTTGA
*
2503736 GCCTCTATTAAGA-GAAGCTTTTTTTTAAGATGAAA
65 GCCTCTATTAAGATG-AGC-TTTTTCTAAGATGAAA
2503771 TTTTAAAGTTGTTGAGCCTCTACTGAGA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGA
2503799 GGAACCTTTT
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
98 19 0.17
99 56 0.51
100 34 0.31
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (98 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGATGGGTCTTTTTCAAAAGAAAATATTAAAGTCGTTGAG
CCTCTATTAAGATGAGCTTTTTCTAAGATGAAA
Found at i:2503809 original size:50 final size:48
Alignment explanation
Indices: 2503471--2503799 Score: 268
Period size: 50 Copynumber: 6.6 Consensus size: 48
2503461 AATGGTTTAA
*
2503471 TTTAAAGTTGTTGAGCCTCTGCTGAAATGAGCTTTTTTCAAGATGAGAATTTT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTTCAAGATGA-AA---T
* * * *
2503524 TTTAAAGTTGTTGAGCCTTTGCTGAAAAGAGCTTTTTTCAAAATAAAATT
1 TTTAAAGTTGTTGAGCCTCTGCTG-AGAGAGCTTTTTTCAAGATGAAA-T
* * * * * *
2503574 TTTAAAGTTATAGAGCCTCTGCTGAGAAAAGTTTTTTTCAAAATAAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAG-AGAGCTTTTTTCAAGATGAAAT
* * *
2503623 TTTAAAGTCGTTGAGCCTCTGTTGAGATGAGC-TTTTTCTAAGATGAGAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTTC-AAGATGAAAT
* * * *
2503672 TTTAAAGTTGTTGAGTCTCTAACTGAGATG-GGTCTTTTTCAA-AAGAGAAT
1 TTTAAAGTTGTTGAGCCTCT-GCTGAGA-GAGCT-TTTTTCAAGATGA-AAT
* * ** * *
2503722 ATTAAAGTCGTTGAGCCTCTATTAAGAGAAGCTTTTTTTTAAGATGAAAT
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAG-AGC-TTTTTTCAAGATGAAAT
*
2503772 TTTAAAGTTGTTGAGCCTCTACTGAGAG
1 TTTAAAGTTGTTGAGCCTCTGCTGAGAG
2503800 GAACCTTTTT
Statistics
Matches: 227, Mismatches: 37, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
48 8 0.04
49 60 0.26
50 105 0.46
51 10 0.04
52 2 0.01
53 39 0.17
54 3 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (48 bp):
TTTAAAGTTGTTGAGCCTCTGCTGAGAGAGCTTTTTTCAAGATGAAAT
Found at i:2504089 original size:20 final size:20
Alignment explanation
Indices: 2504049--2504104 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
2504039 TAATATTATT
* *
2504049 ATTAAATAAAATA-ATAAAA
1 ATTAAAAAAAATACAAAAAA
*
2504068 ATTAAACAAAATACAAAAAA
1 ATTAAAAAAAATACAAAAAA
* *
2504088 ATGAAAAAAAAAACAAA
1 ATTAAAAAAAATACAAA
2504105 CAGAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (20 bp):
ATTAAAAAAAATACAAAAAA
Found at i:2508299 original size:30 final size:30
Alignment explanation
Indices: 2508175--2508332 Score: 108
Period size: 30 Copynumber: 5.3 Consensus size: 30
2508165 ATTAAAATAA
*
2508175 TAAA-AAAGTTTTTGAATTTTATCATTT-TATT
1 TAAATAAA-TTTTTAAATTTTA--ATTTATATT
* * * * *
2508206 TAAATAATTTTTTATATTTTTA-TTACACTC
1 TAAATAAATTTTTAAATTTTAATTTATA-TT
* ** * * *
2508236 T-AATAAATTCTTAACCTTTACTTTACATC
1 TAAATAAATTTTTAAATTTTAATTTATATT
2508265 TAAATAAATTTTTAAATTTTAATTTATATT
1 TAAATAAATTTTTAAATTTTAATTTATATT
** * *
2508295 TAAATAAACGTTTAACTTTTAATTTGTATT
1 TAAATAAATTTTTAAATTTTAATTTATATT
2508325 TAAATAAA
1 TAAATAAA
2508333 CTCTTAACAT
Statistics
Matches: 99, Mismatches: 23, Indels: 11
0.74 0.17 0.08
Matches are distributed among these distances:
28 2 0.02
29 18 0.18
30 63 0.64
31 14 0.14
32 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.51
Consensus pattern (30 bp):
TAAATAAATTTTTAAATTTTAATTTATATT
Found at i:2508340 original size:30 final size:30
Alignment explanation
Indices: 2508237--2508340 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 30
2508227 ATTACACTCT
* * * * *
2508237 AATAAATTCTTAACCTTTACTTTACATCTA
1 AATAAACTCTTAACTTTTAATTTATATTTA
* * *
2508267 AATAAATTTTTAAATTTTAATTTATATTTA
1 AATAAACTCTTAACTTTTAATTTATATTTA
*
2508297 AATAAACGT-TTAACTTTTAATTTGTATTTA
1 AATAAAC-TCTTAACTTTTAATTTATATTTA
2508327 AATAAACTCTTAAC
1 AATAAACTCTTAAC
2508341 ATAAATTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 1 0.02
30 61 0.97
31 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (30 bp):
AATAAACTCTTAACTTTTAATTTATATTTA
Found at i:2508444 original size:29 final size:29
Alignment explanation
Indices: 2508375--2508457 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
2508365 TATAACTTAC
* * *
2508375 TTAATATAAATTAAAAA-ATAATACTTTAT
1 TTAA-ATAAAATAAAAATATAAAAATTTAT
*
2508404 TTGAAA-ACAATAAAAATATAAAAATTTAT
1 TT-AAATAAAATAAAAATATAAAAATTTAT
2508433 TTAAATAAAATATTAAAAT-TAAAAA
1 TTAAATAAAATA--AAAATATAAAAA
2508458 ACTCTTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
28 11 0.25
29 20 0.45
30 8 0.18
31 5 0.11
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (29 bp):
TTAAATAAAATAAAAATATAAAAATTTAT
Found at i:2518680 original size:23 final size:23
Alignment explanation
Indices: 2518654--2518713 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
2518644 TCGAGCTGAA
2518654 AGCTAGGGATAAAAAAGAAAAAG
1 AGCTAGGGATAAAAAAGAAAAAG
*
2518677 AGCTAGGGATAAAAAAGAGAAAG
1 AGCTAGGGATAAAAAAGAAAAAG
*
2518700 AGCTAGAGATAAAA
1 AGCTAGGGATAAAA
2518714 GTAGTTGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.58, C:0.05, G:0.27, T:0.10
Consensus pattern (23 bp):
AGCTAGGGATAAAAAAGAAAAAG
Found at i:2529258 original size:21 final size:21
Alignment explanation
Indices: 2529220--2529259 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2529210 TCTAAAAAAA
* *
2529220 TTAAAAATAAATATATATATT
1 TTAAAAATAAAAAAATATATT
*
2529241 TTAAAATTAAAAAAATATA
1 TTAAAAATAAAAAAATATA
2529260 ATTATTGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAAATAAAAAAATATATT
Found at i:2556846 original size:50 final size:52
Alignment explanation
Indices: 2556769--2556865 Score: 153
Period size: 50 Copynumber: 1.9 Consensus size: 52
2556759 AAGTCTTTTG
2556769 TTTGACTAAATTGGATCATAAGTTCCAGGCAATCTCATTCACTCGTCTGTTA
1 TTTGACTAAATTGGATCATAAGTTCCAGGCAATCTCATTCACTCGTCTGTTA
* * *
2556821 TTTGACT-AATTGGATC-TAAGTTCCAGGCACTTTTATTCACTCGTC
1 TTTGACTAAATTGGATCATAAGTTCCAGGCAATCTCATTCACTCGTC
2556866 GTTCGCTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 26 0.62
51 9 0.21
52 7 0.17
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (52 bp):
TTTGACTAAATTGGATCATAAGTTCCAGGCAATCTCATTCACTCGTCTGTTA
Found at i:2559639 original size:7 final size:7
Alignment explanation
Indices: 2559627--2559657 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2559617 TCAACTAGAC
2559627 CAAGAGG
1 CAAGAGG
2559634 CAAGAGG
1 CAAGAGG
*
2559641 CCAGAGG
1 CAAGAGG
2559648 CAAGAGG
1 CAAGAGG
2559655 CAA
1 CAA
2559658 AAGTCAGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.39, T:0.00
Consensus pattern (7 bp):
CAAGAGG
Found at i:2562649 original size:39 final size:39
Alignment explanation
Indices: 2562595--2562673 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
2562585 TCCACATCCA
2562595 ATTTATAGCAATAGATTATAGAATGTACTATTATATAAT
1 ATTTATAGCAATAGATTATAGAATGTACTATTATATAAT
2562634 ATTTATAGCAATAGATTATAGAATGTACTATTATATAAT
1 ATTTATAGCAATAGATTATAGAATGTACTATTATATAAT
2562673 A
1 A
2562674 GTATATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (39 bp):
ATTTATAGCAATAGATTATAGAATGTACTATTATATAAT
Found at i:2578479 original size:15 final size:17
Alignment explanation
Indices: 2578454--2578491 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2578444 TTTGTAAGGA
2578454 TTTTTATTTGAAA-ATT
1 TTTTTATTTGAAAGATT
2578470 TTTTTA-TTGAAATGATT
1 TTTTTATTTGAAA-GATT
2578487 TTTTT
1 TTTTT
2578492 TTAGTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
17 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (17 bp):
TTTTTATTTGAAAGATT
Found at i:2578732 original size:11 final size:12
Alignment explanation
Indices: 2578718--2578749 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2578708 AAAATGAGCC
2578718 AAAAATAAAAT-
1 AAAAATAAAATG
2578729 AAAAATAAAATG
1 AAAAATAAAATG
2578741 AAAAA-AAAA
1 AAAAATAAAA
2578750 CCTTGTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAAATAAAATG
Found at i:2578748 original size:27 final size:28
Alignment explanation
Indices: 2578696--2578749 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
2578686 AAAACCATAA
***
2578696 AAAACTAAAAATAAAATGAGCCAAAAAT
1 AAAACTAAAAATAAAATGAAAAAAAAAT
2578724 AAAA-TAAAAATAAAATGAAAAAAAAA
1 AAAACTAAAAATAAAATGAAAAAAAAA
2578750 CCTTGTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.13
Consensus pattern (28 bp):
AAAACTAAAAATAAAATGAAAAAAAAAT
Found at i:2579246 original size:20 final size:19
Alignment explanation
Indices: 2579190--2579248 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
2579180 AATTCTCCAA
*
2579190 AAACTTAAATCAAACCCTAA
1 AAACTTAAATCAAA-CCTAG
** *
2579210 AAACCCAAATCTAACCTAG
1 AAACTTAAATCAAACCTAG
2579229 AAACTTTAAATCAAACCTAG
1 AAAC-TTAAATCAAACCTAG
2579249 GATTTCCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.20
Consensus pattern (19 bp):
AAACTTAAATCAAACCTAG
Found at i:2579661 original size:9 final size:9
Alignment explanation
Indices: 2579649--2579718 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
2579639 ATTATTATAT
2579649 CTATAATAA
1 CTATAATAA
2579658 CTATAA-AA
1 CTATAATAA
2579666 -TATAATATA
1 CTATAATA-A
*
2579675 GTATAATAA
1 CTATAATAA
* *
2579684 -TAATTATTA
1 CT-ATAATAA
* *
2579693 TTATAATAG
1 CTATAATAA
2579702 CTATAATAA
1 CTATAATAA
2579711 CTATAATA
1 CTATAATA
2579719 TTATGATATA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
7 5 0.10
8 4 0.08
9 32 0.65
10 8 0.16
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (9 bp):
CTATAATAA
Found at i:2579698 original size:44 final size:49
Alignment explanation
Indices: 2579642--2579734 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 49
2579632 TATTATTATT
2579642 ATTATATCTATAATAACTATAA-AA-TATAATA-TA-G-TATAATAATA
1 ATTATATCTATAATAACTATAATAACTATAATATTATGATATAATAATA
*
2579686 ATTATTAT-TATAATAGCTATAATAACTATAATATTATGATATAATAATA
1 ATTA-TATCTATAATAACTATAATAACTATAATATTATGATATAATAATA
2579735 GTGATATACT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
44 17 0.40
45 5 0.12
46 7 0.17
47 2 0.05
48 1 0.02
49 10 0.24
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (49 bp):
ATTATATCTATAATAACTATAATAACTATAATATTATGATATAATAATA
Found at i:2580262 original size:120 final size:120
Alignment explanation
Indices: 2579929--2580678 Score: 694
Period size: 120 Copynumber: 6.2 Consensus size: 120
2579919 AAACCAAGTG
* * * * * * * * *
2579929 ATAATAAATGATCTAGACTAAGCCAAGATTAGGTGATTGGGATGAAACTATGAGTAAAAAATGAA
1 ATAAGAAATGATTTGGACTAAGCCAAGATTGGGTGACTGGGACGAAACCACGAGTCAAAAATGAA
* * * * * ** *
2579994 GCAACTAGGACTAAGTCAAGGTCAAAAATAAATGACCAAGACGAAACCACAAGTC
66 GCGACCAGGACCAAGTCAAGGTCAAAAATAAATGATCGAGATAAAACCACGAGTC
* ** * *
2580049 ATAAGAAATGATCTGGAACTAAGCCAAGATTGGGTGA-TCGAAATGAAATCACGAGTCAAAAATG
1 ATAAGAAATGATTTGG-ACTAAGCCAAGATTGGGTGACT-GGGACGAAACCACGAGTCAAAAATG
* * ** * * *
2580113 AAGCGACTAGGACCAAATCAAAATAAAAAATAAATGATCGGGATAAAACCACAAGTC
64 AAGCGACCAGGACCAAGTCAAGGTCAAAAATAAATGATCGAGATAAAACCACGAGTC
* * * *
2580170 ATAAGAAATGATTTGGATTAAGCCAAGATTGGATAACTGGGACGAAACCACGAGTCAAAAACGAA
1 ATAAGAAATGATTTGGACTAAGCCAAGATTGGGTGACTGGGACGAAACCACGAGTCAAAAATGAA
* * *
2580235 GCAACCAGGA-CAGAGTCGAGGTCAAAAATAAATGATCGAGATAAAACTACGAGTC
66 GCGACCAGGACCA-AGTCAAGGTCAAAAATAAATGATCGAGATAAAACCACGAGTC
* ** * * * *
2580290 ATAAGAAATTATTTAAACTAAGTCAAGATTGGGTGACTAGGATGAAACCACGAGTCAAAAATAAA
1 ATAAGAAATGATTTGGACTAAGCCAAGATTGGGTGACTGGGACGAAACCACGAGTCAAAAATGAA
** * * * * * ** * *
2580355 ATGACTAAGATCGAGTCAAGATTGAAAATAAATGATCGGGATAAAACCATGAGTC
66 GCGACCAGGACCAAGTCAAGGTCAAAAATAAATGATCGAGATAAAACCACGAGTC
* * ** * * * *
2580410 ATAAGAAATGATTTGGACTGAGCCAAGATTAGGTGACTAAGACAAAATCACAAGTAAAAAATGAA
1 ATAAGAAATGATTTGGACTAAGCCAAGATTGGGTGACTGGGACGAAACCACGAGTCAAAAATGAA
* * * * * * * *
2580475 GTGATCAAGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAATCACGAGTC
66 GCGACCAGGACCAAGTCAAGGTCAAAAATAAATGATCGAGATAAAACCACGAGTC
* * * * * * *
2580530 ATAAAAAATTATTTAGACTAAGCCAAGATTGGGTGACAGGGACGAAATCACAAGTCAAAAATAAA
1 ATAAGAAATGATTTGGACTAAGCCAAGATTGGGTGACTGGGACGAAACCACGAGTCAAAAATGAA
* * * * * *
2580595 GCGACCAGGACCAAGTCGAGGTTAAAAATAAATAATCGAGACAAAATCATGAGTC
66 GCGACCAGGACCAAGTCAAGGTCAAAAATAAATGATCGAGATAAAACCACGAGTC
* *
2580650 ACAAGAAATGATTTGGATTAAGCCAAGAT
1 ATAAGAAATGATTTGGACTAAGCCAAGAT
2580679 CAGGTGATCA
Statistics
Matches: 512, Mismatches: 113, Indels: 10
0.81 0.18 0.02
Matches are distributed among these distances:
119 2 0.00
120 409 0.80
121 101 0.20
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (120 bp):
ATAAGAAATGATTTGGACTAAGCCAAGATTGGGTGACTGGGACGAAACCACGAGTCAAAAATGAA
GCGACCAGGACCAAGTCAAGGTCAAAAATAAATGATCGAGATAAAACCACGAGTC
Found at i:2580401 original size:240 final size:240
Alignment explanation
Indices: 2579923--2580685 Score: 834
Period size: 240 Copynumber: 3.2 Consensus size: 240
2579913 TAGATGAAAC
* * * * * * * *
2579923 CAAGTGATAATAAATGATCTAGACTAAGCCAAGATTAGGTGATTGGGATGAAACTATGAGTAAAA
1 CAAGTCATAAGAAATGATTTGGACTAAGCCAAGATTAGGTGACTGGGACGAAACCACGAGTAAAA
* * * * * * *
2579988 AATGAAGCAACTAGGACTA-AGTCAAGGTCAAAAATAAATGACCAAGACGAAACCACAAGTCATA
66 AATGAAGCAACCAGGAC-AGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACTACGAGTCATA
* ** * * *
2580052 AGAAATGATCTGGAACTAAGCCAAGATTGGGTGA-TCGAAATGAAATCACGAGTCAAAAATGAAG
130 AGAAATTAT-TTAAACTAAGCCAAGATTGGGTGACTAG-GATGAAATCACGAGTCAAAAATAAAG
* * *
2580116 CGACTAGGACCAAATCAAAATAAAAAATAAATGATCGGGATAAAACCA
193 CGACTAGGACCAAGTCAAGATTAAAAATAAATGATCGGGATAAAACCA
* * *
2580164 CAAGTCATAAGAAATGATTTGGATTAAGCCAAGATT-GGATAACTGGGACGAAACCACGAGTCAA
1 CAAGTCATAAGAAATGATTTGGACTAAGCCAAGATTAGG-TGACTGGGACGAAACCACGAGTAAA
* *
2580228 AAACGAAGCAACCAGGACAGAGTCGAGGTCAAAAATAAATGATCGAGATAAAACTACGAGTCATA
65 AAATGAAGCAACCAGGACAGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACTACGAGTCATA
* * **
2580293 AGAAATTATTTAAACTAAGTCAAGATTGGGTGACTAGGATGAAACCACGAGTCAAAAATAAAATG
130 AGAAATTATTTAAACTAAGCCAAGATTGGGTGACTAGGATGAAATCACGAGTCAAAAATAAAGCG
* * * *
2580358 ACTAAGATCGAGTCAAGATTGAAAATAAATGATCGGGATAAAACCA
195 ACTAGGACCAAGTCAAGATTAAAAATAAATGATCGGGATAAAACCA
** * ** * * *
2580404 TGAGTCATAAGAAATGATTTGGACTGAGCCAAGATTAGGTGACTAAGACAAAATCACAAGTAAAA
1 CAAGTCATAAGAAATGATTTGGACTAAGCCAAGATTAGGTGACTGGGACGAAACCACGAGTAAAA
** * * * *
2580469 AATGAAGTGATCAAGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAA-TCACGAGTCATA
66 AATGAAGCAACCAGGACAGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACT-ACGAGTCATA
* * * *
2580533 AAAAATTATTTAGACTAAGCCAAGATTGGGTGAC-AGGGACGAAATCACAAGTCAAAAATAAAGC
130 AGAAATTATTTAAACTAAGCCAAGATTGGGTGACTA-GGATGAAATCACGAGTCAAAAATAAAGC
* * * * * * *
2580597 GACCAGGACCAAGTCGAGGTTAAAAATAAATAATCGAGACAAAATCA
194 GACTAGGACCAAGTCAAGATTAAAAATAAATGATCGGGATAAAACCA
** * * *
2580644 TGAGTCACAAGAAATGATTTGGATTAAGCCAAGATCAGGTGA
1 CAAGTCATAAGAAATGATTTGGACTAAGCCAAGATTAGGTGA
2580686 TCAAAACAAA
Statistics
Matches: 437, Mismatches: 79, Indels: 13
0.83 0.15 0.02
Matches are distributed among these distances:
239 2 0.00
240 319 0.73
241 116 0.27
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (240 bp):
CAAGTCATAAGAAATGATTTGGACTAAGCCAAGATTAGGTGACTGGGACGAAACCACGAGTAAAA
AATGAAGCAACCAGGACAGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACTACGAGTCATAA
GAAATTATTTAAACTAAGCCAAGATTGGGTGACTAGGATGAAATCACGAGTCAAAAATAAAGCGA
CTAGGACCAAGTCAAGATTAAAAATAAATGATCGGGATAAAACCA
Found at i:2580785 original size:360 final size:360
Alignment explanation
Indices: 2580045--2580759 Score: 830
Period size: 360 Copynumber: 2.0 Consensus size: 360
2580035 CGAAACCACA
* * * * ** * *
2580045 AGTCATAAGAAATGATCTGGAACTAAGCCAAGATTGGGTGATCGAA-ATGAAATCACGAGTCAAA
1 AGTCATAAGAAATGATTTGG-ACTGAGCCAAGATTAGGTGA-CTAAGACAAAATCACAAGTAAAA
* * * * * ** *
2580109 AATGAAGCGA-CTAGGACCAAATCAAAATAAAAAATAAATGATCGGGATAAAACCACAAGTCATA
64 AATGAAGTGATC-AAGACCGAGTCGAGGTCAAAAATAAATGATCGGGATAAAACCACAAGTCATA
* * * * * *
2580173 AGAAATGATTTGGATTAAGCCAAGATTGGATAACTGGGACGAAACCACGAGTCAAAAACGAAGCA
128 AAAAATGATTTAGACTAAGCCAAGATTGGATAACAGGGACGAAACCACAAGTCAAAAACAAAGCA
* * * *
2580238 ACCAGGACAGAGTCGAGGTCAAAAATAAATGATCGAGATAAAACTACGAGTCATAAGAAATTATT
193 ACCAGGACAGAGTCGAGGTCAAAAATAAATAATCGAGACAAAACTACGAGTCACAAGAAATGATT
* ** ** ** * *
2580303 TAAACTAAGTCAAGATTGGGTGACTAGGATGAAACCACGAGTCAAAAATAAAATGACTAAGATCG
258 TAAACTAAGCCAAGATCAGGTGACTAAAACAAAACCACGAGTCAAAAATAAAACGACCAAGATCG
*
2580368 AGTCAAGATTGAAAATAAATGATCGGGATAAAACCATG
323 AGTCAAGATTCAAAATAAATGATCGGGATAAAACCATG
2580406 AGTCATAAGAAATGATTTGGACTGAGCCAAGATTAGGTGACTAAGACAAAATCACAAGTAAAAAA
1 AGTCATAAGAAATGATTTGGACTGAGCCAAGATTAGGTGACTAAGACAAAATCACAAGTAAAAAA
* * *
2580471 TGAAGTGATCAAGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAATCACGAGTCATAAAA
66 TGAAGTGATCAAGACCGAGTCGAGGTCAAAAATAAATGATCGGGATAAAACCACAAGTCATAAAA
* * * * * *
2580536 AATTATTTAGACTAAGCCAAGATTGGGTGACAGGGACGAAATCACAAGTCAAAAATAAAGCGACC
131 AATGATTTAGACTAAGCCAAGATTGGATAACAGGGACGAAACCACAAGTCAAAAACAAAGCAACC
* *
2580601 AGGACCA-AGTCGAGGTTAAAAATAAATAATCGAGACAAAA-TCATGAGTCACAAGAAATGATTT
196 AGGA-CAGAGTCGAGGTCAAAAATAAATAATCGAGACAAAACT-ACGAGTCACAAGAAATGATTT
** * *
2580664 GGATTAAGCCAAGATCAGGTGA-TCAAAACAAAACCATGAGTCAAAAATAAAAACGACCAAGATC
259 AAACTAAGCCAAGATCAGGTGACT-AAAACAAAACCACGAGTCAAAAAT-AAAACGACCAAGATC
* * *
2580728 GAGTCGAGATTCAAGATGAATGA-CTGGGATAA
322 GAGTCAAGATTCAAAATAAATGATC-GGGATAA
2580760 TGTTGCAGGT
Statistics
Matches: 293, Mismatches: 54, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
359 5 0.02
360 227 0.77
361 61 0.21
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (360 bp):
AGTCATAAGAAATGATTTGGACTGAGCCAAGATTAGGTGACTAAGACAAAATCACAAGTAAAAAA
TGAAGTGATCAAGACCGAGTCGAGGTCAAAAATAAATGATCGGGATAAAACCACAAGTCATAAAA
AATGATTTAGACTAAGCCAAGATTGGATAACAGGGACGAAACCACAAGTCAAAAACAAAGCAACC
AGGACAGAGTCGAGGTCAAAAATAAATAATCGAGACAAAACTACGAGTCACAAGAAATGATTTAA
ACTAAGCCAAGATCAGGTGACTAAAACAAAACCACGAGTCAAAAATAAAACGACCAAGATCGAGT
CAAGATTCAAAATAAATGATCGGGATAAAACCATG
Found at i:2581114 original size:21 final size:20
Alignment explanation
Indices: 2581072--2581118 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2581062 CCCTTGTAAA
*
2581072 TCATTTTCTCATACTTATTT
1 TCATTTTCTCATACTTAGTT
2581092 TCATTTGTCTCAT-CTTGAGTT
1 TCATTT-TCTCATACTT-AGTT
2581113 TC-TTTT
1 TCATTTT
2581119 AAAAGAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 11 0.46
ACGTcount: A:0.15, C:0.19, G:0.06, T:0.60
Consensus pattern (20 bp):
TCATTTTCTCATACTTAGTT
Found at i:2586105 original size:20 final size:21
Alignment explanation
Indices: 2586080--2586119 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2586070 CTAGAAAAAT
*
2586080 CCCAAAATT-TTCCAAATTTA
1 CCCAAAATTCTTCAAAATTTA
*
2586100 CCCAAATTTCTTCAAAATTT
1 CCCAAAATTCTTCAAAATTT
2586120 CTCTAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (21 bp):
CCCAAAATTCTTCAAAATTTA
Found at i:2586174 original size:20 final size:21
Alignment explanation
Indices: 2586124--2586180 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
2586114 AAATTTCTCT
2586124 AGAAACTT-AAATCAAACCCC
1 AGAAACTTCAAATCAAACCCC
* * *
2586144 AAAAAC-CCAAATCTAA-CCC
1 AGAAACTTCAAATCAAACCCC
*
2586163 AGAAACTTCAAATTAAAC
1 AGAAACTTCAAATCAAAC
2586181 ATAGGATTAC
Statistics
Matches: 27, Mismatches: 7, Indels: 5
0.69 0.18 0.13
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.53, C:0.28, G:0.04, T:0.16
Consensus pattern (21 bp):
AGAAACTTCAAATCAAACCCC
Found at i:2586569 original size:9 final size:9
Alignment explanation
Indices: 2586551--2586676 Score: 83
Period size: 9 Copynumber: 14.6 Consensus size: 9
2586541 AATAAAATAA
*
2586551 AATAATTAT
1 AATAACTAT
2586560 AATAACTAT
1 AATAACTAT
*
2586569 AAGAACTAT
1 AATAACTAT
2586578 AATAA-TAT
1 AATAACTAT
*
2586586 AATATAATAT
1 AATA-ACTAT
2586596 AGTATAA-TA-
1 A--ATAACTAT
* *
2586605 ATTATAGTAT
1 AATA-ACTAT
2586615 AATAA-TAAT
1 AATAACT-AT
2586624 AATAACTAT
1 AATAACTAT
*
2586633 AATAGCTAT
1 AATAACTAT
2586642 AATAACTAT
1 AATAACTAT
2586651 AAT--C--T
1 AATAACTAT
2586656 AATAA-TAT
1 AATAACTAT
2586664 AATAA-TAT
1 AATAACTAT
2586672 AATAA
1 AATAA
2586677 TAGTGATATA
Statistics
Matches: 97, Mismatches: 7, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
5 4 0.04
7 3 0.03
8 23 0.24
9 53 0.55
10 10 0.10
11 1 0.01
12 3 0.03
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (9 bp):
AATAACTAT
Found at i:2586582 original size:3 final size:3
Alignment explanation
Indices: 2586541--2586678 Score: 63
Period size: 3 Copynumber: 49.3 Consensus size: 3
2586531 AGGAAAGAAA
* *
2586541 AAT AA- AAT AA- AAT AAT TAT AAT AACT -AT AAG AACT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT
* * *
2586584 -AT AAT -AT AAT -AT AGT -AT AAT AAT TAT AGT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
2586627 AACT -AT AAT AGCT -AT AAT AACT -AT AAT -CT AAT AAT -AT AAT AAT
1 AA-T AAT AAT A-AT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
2586670 -AT AAT AAT A
1 AAT AAT AAT A
2586679 GTGATATACT
Statistics
Matches: 101, Mismatches: 14, Indels: 40
0.65 0.09 0.26
Matches are distributed among these distances:
2 22 0.22
3 75 0.74
4 4 0.04
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:2586589 original size:5 final size:5
Alignment explanation
Indices: 2586579--2586675 Score: 58
Period size: 5 Copynumber: 19.2 Consensus size: 5
2586569 AAGAACTATA
* * *
2586579 ATAAT ATAAT ATAAT ATAGT ATAAT A-ATT ATAGT ATAAT AATAAT AATAACT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT -ATAA-T
** * *
2586631 ATAAT A-GCT ATAAT A-ACT ATAAT CTAAT A-ATAT AATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT -ATAAT ATAAT A
2586676 ATAGTGATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
4 9 0.13
5 43 0.61
6 17 0.24
7 2 0.03
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:2586631 original size:55 final size:57
Alignment explanation
Indices: 2586542--2586678 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 57
2586532 GGAAAGAAAA
* *
2586542 ATAA-AATAAAATAATTATAATAACT-ATAAGAACTATAATA-ATATAATATAATATAGT
1 ATAATAATATAATAA-TATAATAA-TAATAAGAACTATAATAGATATAATA-AATATAAT
* * * *
2586599 ATAATAAT-T-ATAGTATAATAATAATAATAACTATAATAGCTATAATAACTATAAT
1 ATAATAATATAATAATATAATAATAATAAGAACTATAATAGATATAATAAATATAAT
*
2586654 CTAATAATATAATAATATAATAATA
1 ATAATAATATAATAATATAATAATA
2586679 GTGATATACT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
54 1 0.01
55 35 0.52
56 11 0.16
57 17 0.25
58 3 0.04
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (57 bp):
ATAATAATATAATAATATAATAATAATAAGAACTATAATAGATATAATAAATATAAT
Found at i:2586667 original size:73 final size:69
Alignment explanation
Indices: 2586542--2586677 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 69
2586532 GGAAAGAAAA
*
2586542 ATAAAATAAAATAATTATAATAACTATAAGAACTATAATAATATAATATAATATAGTATAATAAT
1 ATAAAATAAAATAACTATAATAACTATAAGAACTATAATAATATAATATAATA-A-TATAATAAT
2586607 TATAGT
64 TATAGT
* * *
2586613 ATAATAATAATAATAACTATAATAGCTATAATAACTATAAT-CTAATAATATAATAATATAATAA
1 ATAA-AATAA-AATAACTATAATAACTATAAGAACTATAATAAT-ATAATATAATAATATAATAA
2586677 T
63 T
2586678 AGTGATATAC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
71 13 0.22
72 7 0.12
73 38 0.66
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.35
Consensus pattern (69 bp):
ATAAAATAAAATAACTATAATAACTATAAGAACTATAATAATATAATATAATAATATAATAATTA
TAGT
Found at i:2586709 original size:9 final size:8
Alignment explanation
Indices: 2586557--2586711 Score: 67
Period size: 9 Copynumber: 19.2 Consensus size: 8
2586547 ATAAAATAAT
2586557 TATAATAAC
1 TATAAT-AC
*
2586566 TATAAGAAC
1 TATAA-TAC
*
2586575 TATAATAA
1 TATAATAC
2586583 TATAATA-
1 TATAATAC
*
2586590 TA-ATATAG
1 TATA-ATAC
2586598 TATAATA-
1 TATAATAC
* *
2586605 -ATTATAG
1 TATAATAC
*
2586612 TATAATAA
1 TATAATAC
2586620 TAATAATAAC
1 T-ATAAT-AC
2586630 TATAATAGC
1 TATAATA-C
2586639 TATAATAAC
1 TATAAT-AC
2586648 TATAAT-C
1 TATAATAC
*
2586655 --TAATAA
1 TATAATAC
*
2586661 TATAATAA
1 TATAATAC
*
2586669 TATAATAA
1 TATAATAC
*
2586677 TAGTGATA-
1 TA-TAATAC
2586685 TACT-ATAC
1 TA-TAATAC
2586693 TATAATAC
1 TATAATAC
2586701 TAGTAATAC
1 TA-TAATAC
2586710 TA
1 TA
2586712 ATAGAAAAAA
Statistics
Matches: 119, Mismatches: 10, Indels: 34
0.73 0.06 0.21
Matches are distributed among these distances:
5 4 0.03
6 6 0.05
7 10 0.08
8 47 0.39
9 49 0.41
10 3 0.03
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (8 bp):
TATAATAC
Found at i:2592851 original size:329 final size:329
Alignment explanation
Indices: 2592252--2592880 Score: 1042
Period size: 329 Copynumber: 1.9 Consensus size: 329
2592242 TAAATGCGTA
* ** *
2592252 TGTCACGGGTCGAGACTTAAGCTTCGAATTCGCACGGCTTCGGGACCCGAGCATTCACCCTTCCG
1 TGTCACGGGTCGAGACTTAAGCTCCGAACCCGCACGGCTCCGGGACCCGAGCATTCACCCTTCCG
*
2592317 GCATCCCAGATCAGCCTTCCAGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
66 ACATCCCAGATCAGCCTTCCAGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
* * *
2592382 TTGGCCTCACGGTTTTGTCTTACAAAAGGTGCCTCACAAGGCGAAAATGGTGTGAACCCTTTTAT
131 TTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGACGAAAATGGTGTGAACCCTTTTAT
*
2592447 ACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCTCTTAAGTCCGTGACATT
196 ACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAAGTCCGTGACATT
*
2592512 CTCCCGCACCCAATCTCGTGACGCCCTCGTCACGGAGGCTGGCGGTTTAGGACTGGCTCTGATAC
261 CTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCTGGCGGTTTAGGACTGGCTCTGATAC
2592577 CACT
326 CACT
* * **
2592581 TGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGGCATTCACCCTTTTG
1 TGTCACGGGTCGAGACTTAAGCTCCGAACCCGCACGGCTCCGGGACCCGAGCATTCACCCTTCCG
* * *
2592646 ACGTCTCAGATCAGCCTTCCTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
66 ACATCCCAGATCAGCCTTCCAGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
* * * *
2592711 TTGGGCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAATACGGAGATGGTGTGAACCCTTTTAT
131 TTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGACGAAAATGGTGTGAACCCTTTTAT
* *
2592776 ATCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAGGTCCGTGACATT
196 ACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAAGTCCGTGACATT
*
2592841 CTCTCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCT
261 CTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCT
2592881 AGCCACCCTG
Statistics
Matches: 276, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
329 276 1.00
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.25
Consensus pattern (329 bp):
TGTCACGGGTCGAGACTTAAGCTCCGAACCCGCACGGCTCCGGGACCCGAGCATTCACCCTTCCG
ACATCCCAGATCAGCCTTCCAGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCC
TTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGACGAAAATGGTGTGAACCCTTTTAT
ACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAAGTCCGTGACATT
CTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCTGGCGGTTTAGGACTGGCTCTGATAC
CACT
Found at i:2596049 original size:3 final size:3
Alignment explanation
Indices: 2596041--2596084 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2596031 AATACTTCCA
2596041 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2596085 CTAGATTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2604816 original size:43 final size:42
Alignment explanation
Indices: 2604709--2604830 Score: 106
Period size: 43 Copynumber: 2.8 Consensus size: 42
2604699 CCGCTGTGTA
* *
2604709 TTATTATCGTATTAAATATATAAAATATAAA-AATAATTACAT
1 TTATT-TCATATTAAATATATAAAATATAAATTATAATTACAT
** *
2604751 TTATTTTTTATAAAATACATATAAAATATAATATTATAA-TA-AT
1 TTATTTCATATTAAAT--ATATAAAATATAA-ATTATAATTACAT
*
2604794 ATTATTTACATATTAAATATATAAAATAAAAAATTAT
1 -TTATTT-CATATTAAATATATAAAAT-ATAAATTAT
2604831 CTTATGATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
41 8 0.12
42 5 0.08
43 29 0.45
44 12 0.18
45 11 0.17
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (42 bp):
TTATTTCATATTAAATATATAAAATATAAATTATAATTACAT
Found at i:2638290 original size:7 final size:7
Alignment explanation
Indices: 2638280--2638314 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
2638270 TTAATTATTA
2638280 AAAATAT
1 AAAATAT
2638287 AAAATAT
1 AAAATAT
2638294 AAAATAT
1 AAAATAT
*
2638301 AATATAT
1 AAAATAT
*
2638308 AATATAT
1 AAAATAT
2638315 TTTATTATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
AAAATAT
Found at i:2638993 original size:18 final size:18
Alignment explanation
Indices: 2638970--2639006 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2638960 AGGTTTTGGC
2638970 GTTGGATGCGGCTTCGGA
1 GTTGGATGCGGCTTCGGA
* *
2638988 GTTGGATGGGGTTTCGGA
1 GTTGGATGCGGCTTCGGA
2639006 G
1 G
2639007 GTCTCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.49, T:0.30
Consensus pattern (18 bp):
GTTGGATGCGGCTTCGGA
Found at i:2647386 original size:2 final size:2
Alignment explanation
Indices: 2647379--2647410 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2647369 ATCTCTATGC
*
2647379 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2647411 GTATGCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2651944 original size:5 final size:5
Alignment explanation
Indices: 2651934--2651963 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
2651924 GATTGATGTT
2651934 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
2651964 AATATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:2660517 original size:13 final size:13
Alignment explanation
Indices: 2660499--2660523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2660489 TGATCATATT
2660499 ATTTTAAAATAAA
1 ATTTTAAAATAAA
2660512 ATTTTAAAATAA
1 ATTTTAAAATAA
2660524 TAAAAAAAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTTTAAAATAAA
Found at i:2663652 original size:27 final size:28
Alignment explanation
Indices: 2663586--2663658 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
2663576 TCACTTTTTC
* * *
2663586 AATATTTTAATATTTTTATTTTTTGTTA
1 AATATTTTAATATATTTAATGTTTGTTA
*
2663614 AA-A-TTTAAAATAATTTAATGTTTGTTA
1 AATATTTTAATAT-ATTTAATGTTTGTTA
*
2663641 AATATTTTAATATTTTTA
1 AATATTTTAATATATTTA
2663659 TTATTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
26 7 0.19
27 15 0.42
28 7 0.19
29 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (28 bp):
AATATTTTAATATATTTAATGTTTGTTA
Found at i:2667653 original size:36 final size:36
Alignment explanation
Indices: 2667606--2667680 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
2667596 AAAAAAAAAA
* *
2667606 CATAGACTGAGATGAGCTTACCGGGACATTAGAATC
1 CATAGACTGAGACGAGATTACCGGGACATTAGAATC
*
2667642 CATAGACTGAGACGAGATTACCGGGACATTTGAATC
1 CATAGACTGAGACGAGATTACCGGGACATTAGAATC
2667678 CAT
1 CAT
2667681 TTGAGTCGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (36 bp):
CATAGACTGAGACGAGATTACCGGGACATTAGAATC
Found at i:2670944 original size:56 final size:56
Alignment explanation
Indices: 2670879--2670991 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
2670869 TTCCAATATA
2670879 TAATTTTTCTCCCTATGGTATAGCTCACATTATCTTGTCTAAATCTTCTCAAAATT
1 TAATTTTTCTCCCTATGGTATAGCTCACATTATCTTGTCTAAATCTTCTCAAAATT
2670935 TAATTTTTCTCCCTATGGTATAGCTCACATTATCTTGTCTAAATCTTCTCAAAATT
1 TAATTTTTCTCCCTATGGTATAGCTCACATTATCTTGTCTAAATCTTCTCAAAATT
2670991 T
1 T
2670992 TTGCTTACTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (56 bp):
TAATTTTTCTCCCTATGGTATAGCTCACATTATCTTGTCTAAATCTTCTCAAAATT
Found at i:2671779 original size:25 final size:27
Alignment explanation
Indices: 2671742--2671796 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
2671732 GATACTAATT
*
2671742 TTATGACAATTTTT-ACA-TTTTTACA
1 TTATGACAATTTTTAACACATTTTACA
* *
2671767 TTATGATACTTTTTAACACATTTTACA
1 TTATGACAATTTTTAACACATTTTACA
2671794 TTA
1 TTA
2671797 AATTATACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 12 0.48
26 3 0.12
27 10 0.40
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.51
Consensus pattern (27 bp):
TTATGACAATTTTTAACACATTTTACA
Found at i:2671906 original size:21 final size:20
Alignment explanation
Indices: 2671876--2671915 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2671866 TTATTTATAA
* *
2671876 TAATTTTTTATGTTATCAATT
1 TAATTATTTACGTTA-CAATT
2671897 TAATTATTTACGTTACAAT
1 TAATTATTTACGTTACAAT
2671916 AAAATCTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TAATTATTTACGTTACAATT
Found at i:2672077 original size:17 final size:20
Alignment explanation
Indices: 2672055--2672101 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
2672045 ATGTTAACTT
*
2672055 TAATTTTTTGTTT-TAA-AA
1 TAATTTTTTATTTATAATAA
2672073 T-ATTTTTTATTTATAATAA
1 TAATTTTTTATTTATAATAA
2672092 TAATTTTTTA
1 TAATTTTTTA
2672102 CATTACTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 4 0.16
19 3 0.12
20 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TAATTTTTTATTTATAATAA
Found at i:2677096 original size:22 final size:21
Alignment explanation
Indices: 2677054--2677099 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2677044 TAAAAATATG
***
2677054 AAAAATATTTCTTATTTTTTT
1 AAAAATATTTCTTAAAATTTT
2677075 AAAACATATTTCTTAAAATTTT
1 AAAA-ATATTTCTTAAAATTTT
2677097 AAA
1 AAA
2677100 TTAATGTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAAATATTTCTTAAAATTTT
Found at i:2677923 original size:18 final size:18
Alignment explanation
Indices: 2677896--2677930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2677886 TTACTTCGAT
2677896 TTAATATTTCTTGGATTA
1 TTAATATTTCTTGGATTA
* *
2677914 TTAATTTTTCTTTGATT
1 TTAATATTTCTTGGATT
2677931 TTTCTTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.63
Consensus pattern (18 bp):
TTAATATTTCTTGGATTA
Found at i:2681543 original size:47 final size:47
Alignment explanation
Indices: 2681475--2681572 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
2681465 TAACTCCCAC
*
2681475 TTTTTTATGATAGTGTTTAGTTGTTTCAGTTAATATGCCTAGAGAAT
1 TTTTTTATGATAGTGTTTAGTTGTTTCAGTTAATATGCCTAGAGAAA
2681522 TTTTTTATGATAGTGTTTAGTTGTTTCAGTTAATATGCCTAGAGAAA
1 TTTTTTATGATAGTGTTTAGTTGTTTCAGTTAATATGCCTAGAGAAA
2681569 TTTT
1 TTTT
2681573 GCTTTCTGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (47 bp):
TTTTTTATGATAGTGTTTAGTTGTTTCAGTTAATATGCCTAGAGAAA
Found at i:2682931 original size:9 final size:9
Alignment explanation
Indices: 2682917--2682950 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2682907 ACGACATAAT
2682917 AATATTAAA
1 AATATTAAA
2682926 AATATTAAA
1 AATATTAAA
* *
2682935 AATAATAAT
1 AATATTAAA
2682944 AATATTA
1 AATATTA
2682951 TTAATATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AATATTAAA
Found at i:2682952 original size:21 final size:21
Alignment explanation
Indices: 2682914--2682954 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2682904 CAAACGACAT
*
2682914 AATAATATTAAAAATATTAAA
1 AATAATAATAAAAATATTAAA
* *
2682935 AATAATAATAATATTATTAA
1 AATAATAATAAAAATATTAA
2682955 TATTATTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATAATAAAAATATTAAA
Found at i:2682956 original size:18 final size:18
Alignment explanation
Indices: 2682913--2682956 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2682903 TCAAACGACA
*
2682913 TAATAATATTAAAAATAT
1 TAATAATAATAAAAATAT
* *
2682931 TAAAAATAATAATAATAT
1 TAATAATAATAAAAATAT
*
2682949 TATTAATA
1 TAATAATA
2682957 TTATTAATAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAATAATAATAAAAATAT
Found at i:2687373 original size:16 final size:16
Alignment explanation
Indices: 2687349--2687392 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
2687339 TTATTTGGTT
* *
2687349 AATTCAATTAATTTTA
1 AATTGAATTAATTTAA
2687365 AATTGAATT-ATTTAA
1 AATTGAATTAATTTAA
*
2687380 AATCGAATTAATT
1 AATTGAATTAATT
2687393 AAATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (16 bp):
AATTGAATTAATTTAA
Found at i:2695493 original size:20 final size:21
Alignment explanation
Indices: 2695463--2695506 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2695453 CCTTTTTTTT
*
2695463 TTTTGTTTTTTCTTC-CCTTTC
1 TTTTGTTTTTT-TTCTCCATTC
2695484 TTTT-TTTTTTTTCTCCATTC
1 TTTTGTTTTTTTTCTCCATTC
2695504 TTT
1 TTT
2695507 AAAGTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTGTTTTTTTTCTCCATTC
Found at i:2701624 original size:23 final size:24
Alignment explanation
Indices: 2701598--2701657 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
2701588 TTATATAGAT
*
2701598 AAAATTTATA-AAATTTTTTATTAA
1 AAAATTTAAATAAATTTTTTA-TAA
**
2701622 AAATAAGTAAATAAATTTTTTATAA
1 AAA-ATTTAAATAAATTTTTTATAA
*
2701647 AAAATTCAAAT
1 AAAATTTAAAT
2701658 TGATAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
24 8 0.29
25 10 0.36
26 10 0.36
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AAAATTTAAATAAATTTTTTATAA
Found at i:2704566 original size:46 final size:47
Alignment explanation
Indices: 2704497--2704585 Score: 128
Period size: 45 Copynumber: 1.9 Consensus size: 47
2704487 TCAAATTTGA
* *
2704497 TTAAATTTTTTTTAATTTAAATTCGATTGAAGATAAAAATTAAATTAT
1 TTAAATTTTATTTAATTTAAATTCGATT-AAGATAAAAAATAAATTAT
*
2704545 TTAAA-TTTATTTAA-TTAAATTCGATTAATATAAAAAATAAA
1 TTAAATTTTATTTAATTTAAATTCGATTAAGATAAAAAATAAA
2704586 CTTAATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 13 0.34
46 12 0.32
47 8 0.21
48 5 0.13
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.45
Consensus pattern (47 bp):
TTAAATTTTATTTAATTTAAATTCGATTAAGATAAAAAATAAATTAT
Found at i:2720444 original size:11 final size:11
Alignment explanation
Indices: 2720430--2720459 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2720420 TTGATAAATT
*
2720430 ATTTGAATTTA
1 ATTTGAATTAA
2720441 ATTTGAATTAA
1 ATTTGAATTAA
2720452 ATTTGAAT
1 ATTTGAAT
2720460 ATGATTAAGT
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:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (11 bp):
ATTTGAATTAA
Found at i:2728042 original size:936 final size:936
Alignment explanation
Indices: 2726253--2728226 Score: 2293
Period size: 936 Copynumber: 2.1 Consensus size: 936
2726243 TTAAGAATTT
* * * * * * ** * * *
2726253 TTTTCTCTTAAAATTCTTCTTCTGCAAGTCTTCTTGTTTATCAAGTAATAACTAATCAATC-CTA
1 TTTTCTCTCAAAATTCTTCTTTTACAAGTTTTTTTATCCATCAAGCAATATCTAAACAATCTC-A
* * * * *
2726317 AATAAATCTGTTATGAGATTTGAGTTATTATTCATAACAATC-TCTA-TCTCAACTCAAATTTC-
65 AATAAATCTGTTATGAGATTTAAGTCATTATTCCTAACAATCTTC-ACT-TTAACTCAAAATTCA
* * * * * * * ***
2726379 ATCAAACATCTATCTTT-ATGCTA-ATATGCTTGGCTCCACCTGCAATAGAAGTT-TTATAATC-
128 AT-AAACAACTAT-TTTCATACTAGACATACTTGACTCCACCTACAAT-GAAATTATCGCAATCA
* * * * * * *
2726440 TTTTTCTATTATGTGTTTACGCTTCATGTAAATCGATCTATCAAAGCATGAACTCAAACTCCTCT
190 TATTT-TATTGTATGTTCATGCTTCACGTAAATCAATCTATCAAAGCATGAACTCAAACTCCTCT
* * * *
2726505 CTTGAACTGAGCTTTTTTGGGCTTGCCTCTTCTTTTCATGGCTTAAACCAATAGCTTTTTCACGT
254 CTTGAACTGAGCTCTTTTGGGCTTGCCTCTTCTTTCCATGGCTCAAACCAATAACTTTTTCACGT
* * * *
2726570 CTTGAACCTTCAACTCTGATACTACTTATTAGGGATCTCCACAGTTCTAATACCACTTGTTTGGC
319 CTTGAACCTTCAACTCTGATACCACTTATTAGGGATCACCACACTTCTAATACCACTTGTTAGGC
*** * *
2726635 AAAAAATTTTAATCCAATCAAGTCAATGAAAGTAAAATCAAATAATCAATCAATCACATAAGAGA
384 AAAAAACCCTAATCCAATCAAGCCAACGAAAGTAAAATCAAATAATCAATCAATCACATAAGAGA
* * ** * * *
2726700 TAACAATTTAACGTGGTTTAGTCCAATTGACCTATGTCTACGGATGAAAAATAAGATCCATTAGT
449 TAACAATTTAACGTGATTTAGTCAAATCAACCTATGTCCACGAATGAAAAACAAGATCCATTAGT
* *
2726765 TGTAGAAAATTATAAACAAATATCAAATCAAATCAAACACTCATAACTAATACCCATAGACTCTC
514 TGTAGAAAATTACAAACAAATATAAAATCAAATCAAACACTCATAACTAATACCCATAGACTCTC
* * ** * * *
2726830 TCAATCTTCTTTAGTTTTATGGAGTATTCTCAACACAAATAAATACATCTCATGTGCACCCTTTT
579 TCAATCTCCTCTAGTCCTATGAAGTATTCTCAACACAAACAAATACATCTCATGTGCACCCTTTC
* * * *
2726895 AATATAAACAAACATATACCACATGTACCCATTCATCATACTTATGTGTAAACTCTCAATCTTTT
644 AACACAAACAAACATATACCACATGTACCCATTCATCATACTTATATGGAAACTCTCAATCTTTT
* ** * *
2726960 CTAATCCACTCTCATGTACCATACAAGTATACATACCCATAAAACACAAATTTCTAGTAATTTTA
709 CTAATCCACTCTCATGCACCATACAAACATACATACCCATAAAACACAAATCTCTAGTAATCTTA
* * *
2727025 TGGGATATCTATTCCATAAAACTCTACAATTCTCTTACATATTTTTTTCATACTTAACCCTGTAA
774 TGGGATATCTATCCCATAAAACCCTAAAATTCTCTTACATATTTTTTTCATACTTAACCCTGTAA
* *
2727090 AGATTTCATATATTTATAAGCATACAAACTTGA-CTATTAAAAAT-TATTTTCCTCTTAAAATT-
839 AGATTTCACATATTTATAAACATACAAACTT-ATCTATTAAAAATCTATTTT-CTCTTAAAATTC
**
2727152 TTTCTTTTACAAGTCAAACTTATTTTTTAAAAATCTA
902 TTT-TTTTACAAGTCAAACTTACATTTTAAAAATC-A
* * * * * *
2727189 TTTTCTTTTAAAATT-TTTTTTTGCAAGTTTTTTTATCCATCAAGTAATATCTAAACAATCTCCA
1 TTTTCTCTCAAAATTCTTCTTTTACAAGTTTTTTTATCCATCAAGCAATATCTAAACAATCTCAA
2727253 ATAAATCTGTTATG-GAATTTAAGTCATTATTCCTAACAATCTTCACTTTAACTCAAAATTCAAT
66 ATAAATCTGTTATGAG-ATTTAAGTCATTATTCCTAACAATCTTCACTTTAACTCAAAATTCAAT
2727317 AAACAACTATTTTCATACTAGACATACTTGACTCCACCTACAATGAAATTATCGCAATCATATTT
130 AAACAACTATTTTCATACTAGACATACTTGACTCCACCTACAATGAAATTATCGCAATCATATTT
* **
2727382 TATTGTATGTTCATGCTTCACGTAAATCAATCTATCAAAGTATGAACTTGAACTCCTCTCTTGAA
195 TATTGTATGTTCATGCTTCACGTAAATCAATCTATCAAAGCATGAACTCAAACTCCTCTCTTGAA
* * *
2727447 TTGAGCTCTTTTGGGTTTGCCTCTTCTTTCCATGTCTCAAACC-ATCAACTTTTTTCACGTCTTG
260 CTGAGCTCTTTTGGGCTTGCCTCTTCTTTCCATGGCTCAAACCAAT-AAC-TTTTTCACGTCTTG
* * * *
2727511 AACCTTCAGCTCTGATACCACTTGTTAGGGATCA-CACAACTT-TGATACCAGTTGTTAGGCAAA
323 AACCTTCAACTCTGATACCACTTATTAGGGATCACCAC-ACTTCTAATACCACTTGTTAGGCAAA
* *
2727574 AAGCCCTAATCCAATCAAGCCAACGAAAGTGAAATCAAATAATCAATCAATCACATAAGAGATAA
387 AAACCCTAATCCAATCAAGCCAACGAAAGTAAAATCAAATAATCAATCAATCACATAAGAGATAA
* * * *
2727639 TAATTTAACGTGATTT-GATCAAATCAACTTATGTCCATGAATGAGAAACAAG-TCCATTAGTTG
452 CAATTTAACGTGATTTAG-TCAAATCAACCTATGTCCACGAATGAAAAACAAGATCCATTAGTTG
* * * * *
2727702 TAGAGAATTACAAACAAGTATAAAATCAAATCAAACACTCATAACTAATACCTATAGGCAT-TTT
516 TAGAAAATTACAAACAAATATAAAATCAAATCAAACACTCATAACTAATACCCATAGAC-TCTCT
* * * *
2727766 CAATCTCCTCTAGTCCTATGAAGTATTCTCAACCCAAACGAATACATTTCATGTGCATCCTTTCA
580 CAATCTCCTCTAGTCCTATGAAGTATTCTCAACACAAACAAATACATCTCATGTGCACCCTTTCA
* * ** ** *
2727831 ACACAAACAAATATATACCCATATGTATTCATTCATCATACTTATATGGACCCTCTCAATTTTTT
645 ACACAAACAAACATATA-CCACATGTACCCATTCATCATACTTATATGGAAACTCTCAATCTTTT
* ** * * * * *
2727896 TTAATCCACTCTCATGCATTATATAAACATACATACCTATAAGACATAAATCTCTAGTAGTCTTA
709 CTAATCCACTCTCATGCACCATACAAACATACATACCCATAAAACACAAATCTCTAGTAATCTTA
* * * * * **
2727961 TAGTG-TGTTTATCCCATAAAACCCTAAAATT-TCTT-TATATCTTTTTCTCATATTTAACTTTG
774 T-GGGATATCTATCCCATAAAACCCTAAAATTCTCTTACATAT-TTTTT-TCATACTTAACCCTG
* * * * *
2728023 TAGTA-ATTTTACCTATTTATAAACATACAAACTTATCTATTAAGAATCTATTTTCTCTTAGAAT
836 TA-AAGATTTCACATATTTATAAACATACAAACTTATCTATTAAAAATCTATTTTCTCTTAAAAT
* *
2728087 TCTTTTTTTACAAGTCAAACTTGCATTTTAAGAATCA
900 TCTTTTTTTACAAGTCAAACTTACATTTTAAAAATCA
* * * *
2728124 TTTTCTCTCATAATTCTTCTTTTATAAGTTTTTTTATCTATCAAGCAATATCTAATCAATCTCAA
1 TTTTCTCTCAAAATTCTTCTTTTACAAGTTTTTTTATCCATCAAGCAATATCTAAACAATCTCAA
* *
2728189 ATAAATCTGTTATGAGATTTGAGTCATTATTCTTAACA
66 ATAAATCTGTTATGAGATTTAAGTCATTATTCCTAACA
2728227 TAGATTGCAG
Statistics
Matches: 870, Mismatches: 144, Indels: 48
0.82 0.14 0.05
Matches are distributed among these distances:
934 8 0.01
935 265 0.30
936 533 0.61
937 64 0.07
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (936 bp):
TTTTCTCTCAAAATTCTTCTTTTACAAGTTTTTTTATCCATCAAGCAATATCTAAACAATCTCAA
ATAAATCTGTTATGAGATTTAAGTCATTATTCCTAACAATCTTCACTTTAACTCAAAATTCAATA
AACAACTATTTTCATACTAGACATACTTGACTCCACCTACAATGAAATTATCGCAATCATATTTT
ATTGTATGTTCATGCTTCACGTAAATCAATCTATCAAAGCATGAACTCAAACTCCTCTCTTGAAC
TGAGCTCTTTTGGGCTTGCCTCTTCTTTCCATGGCTCAAACCAATAACTTTTTCACGTCTTGAAC
CTTCAACTCTGATACCACTTATTAGGGATCACCACACTTCTAATACCACTTGTTAGGCAAAAAAC
CCTAATCCAATCAAGCCAACGAAAGTAAAATCAAATAATCAATCAATCACATAAGAGATAACAAT
TTAACGTGATTTAGTCAAATCAACCTATGTCCACGAATGAAAAACAAGATCCATTAGTTGTAGAA
AATTACAAACAAATATAAAATCAAATCAAACACTCATAACTAATACCCATAGACTCTCTCAATCT
CCTCTAGTCCTATGAAGTATTCTCAACACAAACAAATACATCTCATGTGCACCCTTTCAACACAA
ACAAACATATACCACATGTACCCATTCATCATACTTATATGGAAACTCTCAATCTTTTCTAATCC
ACTCTCATGCACCATACAAACATACATACCCATAAAACACAAATCTCTAGTAATCTTATGGGATA
TCTATCCCATAAAACCCTAAAATTCTCTTACATATTTTTTTCATACTTAACCCTGTAAAGATTTC
ACATATTTATAAACATACAAACTTATCTATTAAAAATCTATTTTCTCTTAAAATTCTTTTTTTAC
AAGTCAAACTTACATTTTAAAAATCA
Found at i:2733557 original size:19 final size:20
Alignment explanation
Indices: 2733520--2733563 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
2733510 TCGAACTGAA
*
2733520 TTATACATATTTTTTAATTT
1 TTATACATATTTTTAAATTT
*
2733540 TTATATATA-TTTTAAATTT
1 TTATACATATTTTTAAATTT
2733559 TTATA
1 TTATA
2733564 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATACATATTTTTAAATTT
Found at i:2733654 original size:17 final size:18
Alignment explanation
Indices: 2733618--2733661 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
2733608 AAAATTTTAT
*
2733618 ATTAAAATAATATATAAAA
1 ATTAAAA-AAAATATAAAA
2733637 ATTAAAAAAAAT-TAAAA
1 ATTAAAAAAAATATAAAA
2733654 ATTAAAAA
1 ATTAAAAA
2733662 TCGATAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.54
18 4 0.17
19 7 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTAAAAAAAATATAAAA
Found at i:2735645 original size:23 final size:22
Alignment explanation
Indices: 2735595--2735645 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
2735585 GTAAGTCTTC
2735595 TTTTTTTTTTTTTTTACAAAAA
1 TTTTTTTTTTTTTTTACAAAAA
* * *
2735617 GCTTTTTTTTTTCTTTA-TAAAA
1 -TTTTTTTTTTTTTTTACAAAAA
2735639 TTTTTTT
1 TTTTTTT
2735646 GGTAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 6 0.25
22 4 0.17
23 14 0.58
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTTTTTTTTTTTTACAAAAA
Found at i:2736182 original size:46 final size:45
Alignment explanation
Indices: 2736107--2736310 Score: 139
Period size: 46 Copynumber: 4.4 Consensus size: 45
2736097 TCCTCTGGGC
* * *** *
2736107 AGAGGCTCAACAACTTAAAAAAAAATAAAAAAAGTTCATCCAAGT
1 AGAGGCTCAACAATTTTAAAAATTTTAAAAAAAGCTCATCCAAGT
* *
2736152 AGAGGCTCAACAATTTTTAAAAATTTTAAAAAAA-CTTCCTCTAAGT
1 AGAGGCTCAACAA-TTTTAAAAATTTTAAAAAAAGC-TCATCCAAGT
* * * *
2736198 AGAGGCTTAACAACTTTAAAAATCTTATCTTGAAAAAA-CTCATTTC-AGT
1 AGAGGCTCAACAATTTTAAAAA---T-T-TTAAAAAAAGCTCA-TCCAAGT
* * * *
2736247 AGAGGTTCAACGACTTTTAAAAA--TTAAAAAAAGCTCCTCTAAGT
1 AGAGGCTCAAC-AATTTTAAAAATTTTAAAAAAAGCTCATCCAAGT
*
2736291 AGAGGCTCAACAACTTTAAA
1 AGAGGCTCAACAATTTTAAA
2736311 TATCATCTTG
Statistics
Matches: 123, Mismatches: 25, Indels: 24
0.72 0.15 0.14
Matches are distributed among these distances:
43 16 0.13
44 16 0.13
45 21 0.17
46 35 0.28
48 1 0.01
49 15 0.12
50 19 0.15
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (45 bp):
AGAGGCTCAACAATTTTAAAAATTTTAAAAAAAGCTCATCCAAGT
Found at i:2736268 original size:95 final size:91
Alignment explanation
Indices: 2736149--2736421 Score: 275
Period size: 95 Copynumber: 2.9 Consensus size: 91
2736139 AGTTCATCCA
* *
2736149 AGTAGAGGCTCAACAATTTTTAAAAATTTTAAAAAAA-CTTCCTCTAAGTAGAGGCTTAACAACT
1 AGTAGAGGCTCAACAACTTTTAAAAA--TTAAAAAAAGC-TCCTCTAAGTAGAGGCTCAACAACT
2736213 TTAAAAATCTTATCTTGAAAAAACTCATTTC
63 TTAAAAATC--ATCTTGAAAAAACTCATTTC
* *
2736244 AGTAGAGGTTCAACGACTTTTAAAAATTAAAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTA
1 AGTAGAGGCTCAACAACTTTTAAAAATTAAAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTA
* ** *
2736309 AATATCATCTTGAAAAATTTCCTTTC
66 AAAATCATCTTGAAAAAACTCATTTC
* * * ** *
2736335 AGTATAGACTTAACAA-TTTTAAAATCTCATCTTGAAAAAGCTCTTCTCAA-TAGAGGCTCAACA
1 AGTAGAGGCTCAACAACTTTTAAAA----AT-TAAAAAAAGCTCCTCT-AAGTAGAGGCTCAACA
*
2736398 ACTTTAAAATCTCATCTT-AAAAAA
60 ACTTTAAAA-ATCATCTTGAAAAAA
2736422 GCCCCTCTCA
Statistics
Matches: 151, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
90 8 0.05
91 28 0.19
93 41 0.27
94 3 0.02
95 62 0.41
96 9 0.06
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (91 bp):
AGTAGAGGCTCAACAACTTTTAAAAATTAAAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTA
AAAATCATCTTGAAAAAACTCATTTC
Found at i:2736293 original size:139 final size:137
Alignment explanation
Indices: 2736107--2736406 Score: 336
Period size: 139 Copynumber: 2.2 Consensus size: 137
2736097 TCCTCTGGGC
* * *
2736107 AGAGGCTCAACAACTTAAAAAAAAATAAAAAAAGTTCATCCAAGTAGAGGCTCAACAATTTTTAA
1 AGAGGCTCAACAACTT--TAAAAAATAAAAAAAGCTCATCCAAGTAGAGGCTCAACAA-CTTTAA
* * *
2736172 A-A-ATTTTAAAAAAACTTCCTCTAAGTAGAGGCTTAACAACTTTAAAAATCTTATCTTGAAAAA
63 ATACATCTT-AAAAAACTTCCTCTAAGTAGAGACTTAACAA-TTTAAAAATCTCATCTTGAAAAA
*
2736235 ACTCATT-TCAGT
126 ACTC-TTCTCAAT
* * * * *
2736247 AGAGGTTCAACGACTTTTAAAAATTAAAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAT
1 AGAGGCTCAACAAC-TTTAAAAAATAAAAAAAGCTCATCCAAGTAGAGGCTCAACAACTTTAAAT
* * * * * * *
2736312 ATCATCTTGAAAAATTTCCTTTCAGTATAGACTTAACAATTTTAAAATCTCATCTTGAAAAAGCT
65 A-CATCTTAAAAAACTTCCTCTAAGTAGAGACTTAACAATTTAAAAATCTCATCTTGAAAAAACT
2736377 CTTCTCAAT
129 CTTCTCAAT
2736386 AGAGGCTCAACAACTTTAAAA
1 AGAGGCTCAACAACTTTAAAA
2736407 TCTCATCTTA
Statistics
Matches: 134, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
138 15 0.11
139 76 0.57
140 37 0.28
141 6 0.04
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (137 bp):
AGAGGCTCAACAACTTTAAAAAATAAAAAAAGCTCATCCAAGTAGAGGCTCAACAACTTTAAATA
CATCTTAAAAAACTTCCTCTAAGTAGAGACTTAACAATTTAAAAATCTCATCTTGAAAAAACTCT
TCTCAAT
Found at i:2736431 original size:48 final size:48
Alignment explanation
Indices: 2736177--2736452 Score: 201
Period size: 48 Copynumber: 5.8 Consensus size: 48
2736167 TTTAAAAATT
* * *
2736177 TTAAAAAAACTTCCTCT-AAGTAGAGGCTTAACAACTTTAAAAATCTTATC
1 TTAAAAAAGC-TCCTCTCAA-TAGAGGCTCAACAACTTT-AAAATCTCATC
* * * * *
2736227 TTGAAAAAA-CTCATTTCAGTAGAGGTTCAACGACTTTTAAAA----AT-
1 TT-AAAAAAGCTCCTCTCAATAGAGGCTCAACAAC-TTTAAAATCTCATC
* *
2736271 TAAAAAAAGCTCCTCT-AAGTAGAGGCTCAACAACTTT-AAATATCATC
1 TTAAAAAAGCTCCTCTCAA-TAGAGGCTCAACAACTTTAAAATCTCATC
* ** * * * * * *
2736318 TTGAAAAATTTCCTTTCAGTATAGACTTAACAATTTTAAAATCTCATC
1 TTAAAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATCTCATC
* *
2736366 TTGAAAAAGCTCTTCTCAATAGAGGCTCAACAACTTTAAAATCTCATC
1 TTAAAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATCTCATC
* ** * *
2736414 TTAAAAAAGCCCCTCTCAGCAAAGGTTCAACAACTTTAA
1 TTAAAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAA
2736453 CAAAGGCCTA
Statistics
Matches: 175, Mismatches: 39, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.02
43 10 0.06
44 19 0.11
45 2 0.01
46 2 0.01
47 25 0.14
48 81 0.46
49 20 0.11
50 7 0.04
51 6 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (48 bp):
TTAAAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATCTCATC
Found at i:2736490 original size:69 final size:69
Alignment explanation
Indices: 2736394--2736560 Score: 257
Period size: 69 Copynumber: 2.4 Consensus size: 69
2736384 ATAGAGGCTC
* *
2736394 AACAACTTT-AAAATCTCATCTTAAAAAAGCCCCTCTCAGCAAAGGTTCAACAACTTTAACAAAG
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCCCCTCTCAGCAAAGGCTCAACAACTTTAACAAAG
2736458 GCCT
66 GCCT
* ** *
2736462 AACAACTTTAAAAATCTCATCTTGAAAAAACTTCTCTCAGCAAAGGCTCAACAACTTTAACAGAG
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCCCCTCTCAGCAAAGGCTCAACAACTTTAACAAAG
*
2736527 GTCT
66 GCCT
2736531 -ACAACTTTAAAAATCTCATCTTGAAAAAGC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGC
2736561 TCATCTAAGT
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
68 38 0.42
69 52 0.58
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (69 bp):
AACAACTTTAAAAATCTCATCTTGAAAAAGCCCCTCTCAGCAAAGGCTCAACAACTTTAACAAAG
GCCT
Found at i:2736579 original size:68 final size:67
Alignment explanation
Indices: 2736386--2736589 Score: 248
Period size: 68 Copynumber: 3.0 Consensus size: 67
2736376 TCTTCTCAAT
* * * *
2736386 AGAGGCTCAACAACTTT-AAAATCTCATCTTAAAAAAGCCCCTCTCAGCAAAGGTTCAACAACTT
1 AGAGG-TCTACAACTTTAAAAATCTCATCTTGAAAAAG-CTCTCTCAGCAAAGGCTCAACAACTT
2736450 TAAC
64 TAAC
* * *
2736454 AAAGGCCTAACAACTTTAAAAATCTCATCTTGAAAAAACTTCTCTCAGCAAAGGCTCAACAACTT
1 AGAGGTCT-ACAACTTTAAAAATCTCATCTTGAAAAAGC-TCTCTCAGCAAAGGCTCAACAACTT
2736519 TAAC
64 TAAC
* * * * *
2736523 AGAGGTCTACAACTTTAAAAATCTCATCTTGAAAAAGCTCATCTAAGTAGATGCTCAACAATTTT
1 AGAGGTCTACAACTTTAAAAATCTCATCTTGAAAAAGCTC-TCTCAGCAAAGGCTCAACAACTTT
2736588 AA
65 AA
2736590 AATTTCAAGC
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
67 3 0.03
68 63 0.54
69 51 0.44
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (67 bp):
AGAGGTCTACAACTTTAAAAATCTCATCTTGAAAAAGCTCTCTCAGCAAAGGCTCAACAACTTTA
AC
Found at i:2736676 original size:49 final size:48
Alignment explanation
Indices: 2736616--2736724 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
2736606 CAGTAGATGC
*
2736616 TTAAAATTTCATTTTAAAAAAAAAATCCTCTCAATAAAGGCTCAACAACT
1 TTAAAA-TTCATTTT-AAAAAAAAATCCTCTCAACAAAGGCTCAACAACT
* ** * * * *
2736666 TTAAAATTCATTTTGAAAAAAGCTCCTTTTAACATAGGTTCAACAACT
1 TTAAAATTCATTTTAAAAAAAAATCCTCTCAACAAAGGCTCAACAACT
2736714 TTAAAATTCAT
1 TTAAAATTCAT
2736725 CTATTCTCGA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 37 0.73
49 8 0.16
50 6 0.12
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.34
Consensus pattern (48 bp):
TTAAAATTCATTTTAAAAAAAAATCCTCTCAACAAAGGCTCAACAACT
Found at i:2739668 original size:13 final size:13
Alignment explanation
Indices: 2739650--2739674 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2739640 AGTTTATTTT
2739650 TTTATTTTTAAAG
1 TTTATTTTTAAAG
2739663 TTTATTTTTAAA
1 TTTATTTTTAAA
2739675 ATGAACAAAT
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTATTTTTAAAG
Found at i:2739785 original size:23 final size:24
Alignment explanation
Indices: 2739739--2739785 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
2739729 ATAAATATTT
* * *
2739739 TAATATGTATAAATATTAATAAAA
1 TAATATATATAAAAATTAAAAAAA
2739763 TAATATATA-AAAAATTAAAAAAA
1 TAATATATATAAAAATTAAAAAAA
2739786 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
TAATATATATAAAAATTAAAAAAA
Found at i:2740797 original size:14 final size:14
Alignment explanation
Indices: 2740768--2740796 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2740758 TGAACCGAAT
2740768 AAGGAAAGAAGAAA
1 AAGGAAAGAAGAAA
2740782 AAGGAAA-AAGAAA
1 AAGGAAAGAAGAAA
2740795 AA
1 AA
2740797 AAGCAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGGAAAGAAGAAA
Found at i:2740816 original size:18 final size:17
Alignment explanation
Indices: 2740779--2740831 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
2740769 AGGAAAGAAG
*
2740779 AAAAAGGAAAAAGAAAAA
1 AAAAATGAAAAA-AAAAA
*
2740797 AAGCAA-GAAAAAAAATAA
1 AA-AAATGAAAAAAAA-AA
2740815 AAAAATGAAAAAAAAAA
1 AAAAATGAAAAAAAAAA
2740832 GAAGATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 7 0.23
18 21 0.70
19 2 0.07
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.04
Consensus pattern (17 bp):
AAAAATGAAAAAAAAAA
Found at i:2740816 original size:21 final size:20
Alignment explanation
Indices: 2740786--2740834 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
2740776 AAGAAAAAGG
2740786 AAAAAGAAAAAAA-GCAAGAAA
1 AAAAAGAAAAAAATG-AA-AAA
*
2740807 AAAAATAAAAAAATGAAAAA
1 AAAAAGAAAAAAATGAAAAA
2740827 AAAAAGAA
1 AAAAAGAA
2740835 GATAATAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 14 0.56
22 1 0.04
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (20 bp):
AAAAAGAAAAAAATGAAAAA
Found at i:2741872 original size:19 final size:19
Alignment explanation
Indices: 2741837--2741890 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 19
2741827 ACACAAAAAT
2741837 TATTTT-AAAT-TTAACAA
1 TATTTTAAAATATTAACAA
2741854 GTATTTTAAAATATT-ACAA
1 -TATTTTAAAATATTAACAA
*
2741873 -ATGTTAAAATATTGAACA
1 TATTTTAAAATATT-AACA
2741891 GGAATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 12 0.39
18 6 0.19
19 11 0.35
20 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (19 bp):
TATTTTAAAATATTAACAA
Found at i:2741912 original size:2 final size:2
Alignment explanation
Indices: 2741894--2741926 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2741884 TTGAACAGGA
*
2741894 AT AT A- AT AT AG AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2741927 GCAAGAGATT
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:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2773927 original size:24 final size:27
Alignment explanation
Indices: 2773894--2773955 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
2773884 CATGCATATC
*
2773894 ATAATAATTATACAAATA-AATATTT-T
1 ATAAT-ATTATACAAAGATAATATTTAT
*
2773920 -TAATATTATTCAAAGATAATATTTAT
1 ATAATATTATACAAAGATAATATTTAT
2773946 ATAATATTAT
1 ATAATATTAT
2773956 TAATATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 10 0.32
25 11 0.35
26 1 0.03
27 9 0.29
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
ATAATATTATACAAAGATAATATTTAT
Found at i:2774591 original size:30 final size:24
Alignment explanation
Indices: 2774526--2774590 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
2774516 AAACAAAAAA
2774526 TAGGTGATTGAGTTTGATTAAAGG
1 TAGGTGATTGAGTTTGATTAAAGG
2774550 TAGGTGATTGAGTTTGATTAAAGG
1 TAGGTGATTGAGTTTGATTAAAGG
* *
2774574 TAGGTGTTTGAATTTGA
1 TAGGTGATTGAGTTTGA
2774591 GCTGAATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (24 bp):
TAGGTGATTGAGTTTGATTAAAGG
Found at i:2775684 original size:52 final size:52
Alignment explanation
Indices: 2775594--2775705 Score: 138
Period size: 52 Copynumber: 2.2 Consensus size: 52
2775584 AAAGAAGAAG
* * * *
2775594 AAAAAAAACAAGAGTTTCTAAATATACTCAAGTGGTGAAAAATTTAGAAATT
1 AAAAAAAAAAAGAGTTTCTAAATATACTCAAATGGTGAAAAAGTTAGAAATC
*
2775646 AAAAAAAAAAAGAGTTTCTAAATAGGT-C-CAAATTGTGAAAAAGTTAGAAATC
1 AAAAAAAAAAAGAGTTTCTAAATA--TACTCAAATGGTGAAAAAGTTAGAAATC
*
2775698 CAAAAAAA
1 AAAAAAAA
2775706 TAATAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 50 0.96
53 1 0.02
54 1 0.02
ACGTcount: A:0.55, C:0.08, G:0.13, T:0.23
Consensus pattern (52 bp):
AAAAAAAAAAAGAGTTTCTAAATATACTCAAATGGTGAAAAAGTTAGAAATC
Found at i:2783757 original size:5 final size:5
Alignment explanation
Indices: 2783747--2783776 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
2783737 ACAGTATACT
2783747 AAATA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA
2783777 TTATATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:2784218 original size:40 final size:40
Alignment explanation
Indices: 2784172--2784251 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
2784162 AATATTCGAC
* *
2784172 GGATTGATTTAATTAATGTAAATTACAATTAATCATTGGA
1 GGATTGATTTAATCAATGTAAAATACAATTAATCATTGGA
* *
2784212 GGATTGATTTTATCAATGTAAAATATAATTAATCATTGGA
1 GGATTGATTTAATCAATGTAAAATACAATTAATCATTGGA
2784252 TTTTATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (40 bp):
GGATTGATTTAATCAATGTAAAATACAATTAATCATTGGA
Found at i:2788889 original size:10 final size:10
Alignment explanation
Indices: 2788874--2788927 Score: 63
Period size: 10 Copynumber: 5.0 Consensus size: 10
2788864 TTTTTTAAAA
2788874 TTAATTATTT
1 TTAATTATTT
2788884 TTAATTATTT
1 TTAATTATTT
2788894 TTACTATTATTT
1 TTA--ATTATTT
2788906 TTATATTATTT
1 TTA-ATTATTT
*
2788917 TAAATATATTT
1 TTAAT-TATTT
2788928 AAATAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
10 15 0.38
11 15 0.38
12 10 0.25
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTAATTATTT
Found at i:2788906 original size:11 final size:11
Alignment explanation
Indices: 2788877--2788917 Score: 66
Period size: 10 Copynumber: 3.7 Consensus size: 11
2788867 TTTAAAATTA
2788877 ATTATTTTTA-
1 ATTATTTTTAT
2788887 ATTATTTTTACT
1 ATTATTTTTA-T
2788899 ATTATTTTTAT
1 ATTATTTTTAT
2788910 ATTATTTT
1 ATTATTTT
2788918 AAATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTATTTTTAT
Found at i:2788926 original size:22 final size:22
Alignment explanation
Indices: 2788877--2788927 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2788867 TTTAAAATTA
* *
2788877 ATTATTTTTAATTATTTTTACT
1 ATTATTTTTAATTATTTTAAAT
2788899 ATTATTTTTATATTATTTTAAAT
1 ATTATTTTTA-ATTATTTTAAAT
2788922 A-TATTT
1 ATTATTT
2788928 AAATAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTATTTTTAATTATTTTAAAT
Found at i:2797632 original size:231 final size:230
Alignment explanation
Indices: 2797170--2797766 Score: 697
Period size: 230 Copynumber: 2.6 Consensus size: 230
2797160 TCTTTTTTAG
2797170 TATTTAAATTTATCACAAC-TTTACAAAATATTATTAATATCTTTAAT-TTTTTTTATAAATAAT
1 TATTTAAATTTATCACAACTTTTA-AAAATA-TATTAATATCTTTAATATTTTTTTATAAATAAT
* * * *
2797233 CCTTACATTATCTTCAGTTTTTCAATATATTTC-ACA-G----GTGAAAAAAAATATATAAATAT
64 CCTTACATTATCTTCAGTTTTTAAATATATTTCAAAAGGAAATGTGAAAAAATATATATAAATAC
* * * * *
2797292 CAAAACTATTTCAGAAAAGTTTTTCTTATATATCACTTCATCTCAATTTAAAATCAATTTTAAAA
129 CAGAACAACTTCAGAAAAGTTTTTATTACATAT-ACTTCATCTCAATTTAAAATCAATTTTAAAA
** * *
2797357 TAATTTATCTTTTTCAATTTATCTGTAGTTAACATGAG
193 TAATTTATCTTTTTCAATTTATCTACAGTTAACATAAA
2797395 TATTTAAATTTATCACAACTTTTAAAAATATCAGTTAATATCTTTAATATTTTTTTATAAATAAT
1 TATTTAAATTTATCACAACTTTTAAAAATAT-A-TTAATATCTTTAATATTTTTTTATAAATAAT
* ** * ** *
2797460 CATTGTATTATCTTTACCTTTTGAATATATTTCATAAAGGAAATGTGAAAAATATATATATAAAT
64 CCTTACATTATCTTCAGTTTTTAAATATATTTCA-AAAGGAAATGTGAAAAA-ATATATATAAAT
*
2797525 ACCAGAACAACTTCAAGAAAA-TTTTTATGTACAT-TATCTT-ATCTCAATTTAAAATTAA-TTT
127 ACCAGAACAACTTC-AGAAAAGTTTTTAT-TACATATA-CTTCATCTCAATTTAAAATCAATTTT
*
2797586 AAAAGT-ATTT-T-TTTTTGAATTTATCTACAGTTAACATAAA
189 AAAA-TAATTTATCTTTTTCAATTTATCTACAGTTAACATAAA
* * *
2797626 TATTTAAATTCATCACAATTTTTTAAAAACT-TATATAATATTTTTAATA-TTTTTTATAAATAA
1 TATTTAAATTTATCACAA-CTTTTAAAAA-TATAT-TAATATCTTTAATATTTTTTTATAAATAA
* *
2797689 TCCTTACATTATCTTCAGTTTTTAAATATATTTCACAAAGTAAATATGAAAAAATATATATAAAT
63 TCCTTACATTATCTTCAGTTTTTAAATATATTTCA-AAAGGAAATGTGAAAAAATATATATAAAT
2797754 ACCAGAACAACTT
127 ACCAGAACAACTT
2797767 TAAAAAAACC
Statistics
Matches: 319, Mismatches: 34, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
224 1 0.00
225 26 0.08
226 18 0.06
227 42 0.13
229 27 0.08
230 59 0.18
231 55 0.17
232 11 0.03
233 12 0.04
234 27 0.08
235 31 0.10
236 10 0.03
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (230 bp):
TATTTAAATTTATCACAACTTTTAAAAATATATTAATATCTTTAATATTTTTTTATAAATAATCC
TTACATTATCTTCAGTTTTTAAATATATTTCAAAAGGAAATGTGAAAAAATATATATAAATACCA
GAACAACTTCAGAAAAGTTTTTATTACATATACTTCATCTCAATTTAAAATCAATTTTAAAATAA
TTTATCTTTTTCAATTTATCTACAGTTAACATAAA
Found at i:2810154 original size:16 final size:16
Alignment explanation
Indices: 2810124--2810153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2810114 TAGGCAGAAA
2810124 TTTGTTTTTGTTTTTG
1 TTTGTTTTTGTTTTTG
2810140 TTTGTTTTT-TTTTT
1 TTTGTTTTTGTTTTT
2810154 TTTTTCTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTGTTTTTGTTTTTG
Found at i:2812988 original size:21 final size:21
Alignment explanation
Indices: 2812964--2813015 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
2812954 CTCGAAATTA
2812964 ATAAAATATT-TTTTAAAAAAT
1 ATAAAATATTATTTT-AAAAAT
*
2812985 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTAAAAAT
2813006 ATAAATATAT
1 ATAAA-ATAT
2813016 ATATAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAAAATATTATTTTAAAAAT
Found at i:2816670 original size:24 final size:23
Alignment explanation
Indices: 2816646--2816692 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
2816636 TTAAATACCC
2816646 TTCCCCTCCTCTTCTATCCTTCCCTT
1 TTCCCCTCCTC-TCTA-CCTTCCC-T
*
2816672 TTCCCCTCTTCTCTACCTTCC
1 TTCCCCTCCTCTCTACCTTCC
2816693 TAGTATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 6 0.30
25 4 0.20
26 10 0.50
ACGTcount: A:0.04, C:0.51, G:0.00, T:0.45
Consensus pattern (23 bp):
TTCCCCTCCTCTCTACCTTCCCT
Found at i:2820544 original size:5 final size:5
Alignment explanation
Indices: 2820524--2820580 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
2820514 TAATTAATAT
* * *
2820524 ATAAA ATTATA ATAAA ATAAA ATAAA ATAATA TTATAA ATAAA ATTAA
1 ATAAA A-TAAA ATAAA ATAAA ATAAA ATAA-A ATA-AA ATAAA ATAAA
*
2820572 ATTAA ATAA
1 ATAAA ATAA
2820581 TATCATTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 32 0.74
6 10 0.23
7 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (5 bp):
ATAAA
Found at i:2820573 original size:27 final size:26
Alignment explanation
Indices: 2820524--2820583 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
2820514 TAATTAATAT
*
2820524 ATAAAATTATAATAAAATAAAATAAA
1 ATAATATTATAATAAAATAAAATAAA
* *
2820550 ATAATATTATAAATAAAATTAAATTAA
1 ATAATATTAT-AATAAAATAAAATAAA
2820577 ATAATAT
1 ATAATAT
2820584 CATTATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAATATTATAATAAAATAAAATAAA
Found at i:2820670 original size:17 final size:18
Alignment explanation
Indices: 2820650--2820687 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2820640 ATTAAACTTT
*
2820650 TTTAAATT-TTTATATAA
1 TTTAAATTATTAATATAA
2820667 TTTAAATTATTAATATAA
1 TTTAAATTATTAATATAA
2820685 TTT
1 TTT
2820688 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAATTATTAATATAA
Found at i:2820690 original size:20 final size:19
Alignment explanation
Indices: 2820648--2820692 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
2820638 TAATTAAACT
*
2820648 TTTTTAAATTTTTATATAA
1 TTTTTAAATTTTAATATAA
2820667 --TTTAAATTATTAATATAA
1 TTTTTAAATT-TTAATATAA
2820685 TTTTTAAA
1 TTTTTAAA
2820693 AATATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
20 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTAAATTTTAATATAA
Found at i:2821734 original size:12 final size:11
Alignment explanation
Indices: 2821697--2821733 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
2821687 AGCACTAATA
2821697 TTTAAAATTTT
1 TTTAAAATTTT
*
2821708 TTAAAAAGTTTT
1 TTTAAAA-TTTT
2821720 TTTAAAATTTT
1 TTTAAAATTTT
2821731 TTT
1 TTT
2821734 TGTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTAAAATTTT
Found at i:2828292 original size:6 final size:6
Alignment explanation
Indices: 2828270--2828313 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
2828260 ACGTTCTCTT
2828270 TCCTTC TCCTT- T-C-TC TCCTTC TCCTTC TCCTTC TCCTTC TCCTT
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTT
2828314 TCGTTTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 2 0.06
5 2 0.06
6 30 0.86
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCCTTC
Found at i:2828306 original size:18 final size:15
Alignment explanation
Indices: 2828270--2828347 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 15
2828260 ACGTTCTCTT
2828270 TCCTTCTCCTTTCTC
1 TCCTTCTCCTTTCTC
2828285 TCCTTCTCCTTCTCCTTC
1 TCCTTCTCCTT-T-C-TC
2828303 TCCTTCTCCTTTCGTTTC
1 TCCTTCTCCTTTC---TC
* * *
2828321 TCTTTCTCGTCTCTC
1 TCCTTCTCCTTTCTC
*
2828336 TCTTTCTCCTTT
1 TCCTTCTCCTTT
2828348 TTAGCCTGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
15 23 0.43
16 2 0.04
17 2 0.04
18 26 0.49
ACGTcount: A:0.00, C:0.42, G:0.03, T:0.55
Consensus pattern (15 bp):
TCCTTCTCCTTTCTC
Found at i:2828307 original size:33 final size:31
Alignment explanation
Indices: 2828246--2828315 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 31
2828236 TCGTTCCTTA
2828246 CCTTTCTCCCTTTCACGTTCTCTTTCCTTCT
1 CCTTTCTCCCTTTCACGTTCTCTTTCCTTCT
2828277 CCTTTCTCTCCTTCTC-C-TTCTCCTTCTCCTTCT
1 CCTTTCTC-CCTT-TCACGTTCT-CTT-TCCTTCT
2828310 CCTTTC
1 CCTTTC
2828316 GTTTCTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
31 12 0.34
32 8 0.23
33 15 0.43
ACGTcount: A:0.01, C:0.46, G:0.01, T:0.51
Consensus pattern (31 bp):
CCTTTCTCCCTTTCACGTTCTCTTTCCTTCT
Found at i:2829578 original size:28 final size:28
Alignment explanation
Indices: 2829538--2829593 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2829528 CTAGGGGGAA
2829538 GCCAAGAAGGGATTCAATAATGAGAAAG
1 GCCAAGAAGGGATTCAATAATGAGAAAG
2829566 GCCAAGAAGGGATTCAATAATGAGAAAG
1 GCCAAGAAGGGATTCAATAATGAGAAAG
2829594 CACCAAACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.29, T:0.14
Consensus pattern (28 bp):
GCCAAGAAGGGATTCAATAATGAGAAAG
Found at i:2838074 original size:3 final size:3
Alignment explanation
Indices: 2838066--2838098 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2838056 TATATCAGAT
2838066 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2838099 AAAGTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2841165 original size:70 final size:70
Alignment explanation
Indices: 2841017--2841149 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 70
2841007 TAATCACATT
* *
2841017 ATTATTTTGTTTAAATAATTAGAATTTTTTTGTTGCATAATTATTATAAATAATTATTTTTTTAT
1 ATTA-TTTGTTTAAATAATTAGAAATTTTATGTT-CATAATTATTATAAATAATTATTTTTTTAT
2841082 AAACACA
64 AAACACA
* * * * *
2841089 ACTATTTGTTTAAATAGTTATAAATTTTATGTT-ATTATCTATTATAAATAATTGTTTTTTT
1 ATTATTTGTTTAAATAATTAGAAATTTTATGTTCATAAT-TATTATAAATAATTATTTTTTT
2841150 TCAAATATGA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
69 4 0.08
70 21 0.40
71 25 0.47
72 3 0.06
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (70 bp):
ATTATTTGTTTAAATAATTAGAAATTTTATGTTCATAATTATTATAAATAATTATTTTTTTATAA
ACACA
Found at i:2847530 original size:22 final size:21
Alignment explanation
Indices: 2847486--2847540 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
2847476 GATATAAGAT
*
2847486 ATAAAA-TAATTTAAATTTTA
1 ATAAAATTAATATAAATTTTA
2847506 ATACAAATTATATATAAA-TTTA
1 ATA-AAATTA-ATATAAATTTTA
2847528 ATAAAATTAATAT
1 ATAAAATTAATAT
2847541 TTTATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 7 0.23
21 9 0.29
22 9 0.29
23 6 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAAATTAATATAAATTTTA
Found at i:2849684 original size:17 final size:18
Alignment explanation
Indices: 2849662--2849706 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
2849652 GTTAAAAATG
2849662 TATATTATATTAA-TTAA
1 TATATTATATTAATTTAA
2849679 TATATT-TA-TAATTTAA
1 TATATTATATTAATTTAA
2849695 -ATATTATATTAA
1 TATATTATATTAA
2849707 AAATATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTATATTAATTTAA
Found at i:2849698 original size:27 final size:27
Alignment explanation
Indices: 2849668--2849759 Score: 87
Period size: 29 Copynumber: 3.3 Consensus size: 27
2849658 AATGTATATT
2849668 ATATTA-ATTAATATATTTATAATTTAA
1 ATATTACATTAA-ATATTTATAATTTAA
* * *
2849695 ATATTATATTAAAAATATTTAAAAATTAA
1 ATATTACATT--AAATATTTATAATTTAA
**
2849724 ATATTACGGTAAATATTTATAATTTAAGA
1 ATATTACATTAAATATTTATAATTT-A-A
2849753 ATATTAC
1 ATATTAC
2849760 TGATATTAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 19 0.36
28 4 0.08
29 28 0.53
30 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATTACATTAAATATTTATAATTTAA
Found at i:2849723 original size:29 final size:31
Alignment explanation
Indices: 2849663--2849729 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
2849653 TTAAAAATGT
* *
2849663 ATATTATATTAATTAATATATTTATAATTTAA
1 ATATTATATTAA-TAATATATTTAAAAATTAA
2849695 ATATTATATTAA-AA-ATATTTAAAAATTAA
1 ATATTATATTAATAATATATTTAAAAATTAA
2849724 ATATTA
1 ATATTA
2849730 CGGTAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 19 0.58
30 2 0.06
32 12 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
ATATTATATTAATAATATATTTAAAAATTAA
Found at i:2849804 original size:15 final size:16
Alignment explanation
Indices: 2849772--2849806 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2849762 ATATTAACTT
2849772 TTTTATTAACTAATTA
1 TTTTATTAACTAATTA
*
2849788 TTTTATTAA-TTATTA
1 TTTTATTAACTAATTA
2849803 TTTT
1 TTTT
2849807 TTGTTTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTATTAACTAATTA
Found at i:2849807 original size:16 final size:17
Alignment explanation
Indices: 2849771--2849807 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2849761 GATATTAACT
2849771 TTTTTATTAACTAATTA
1 TTTTTATTAACTAATTA
*
2849788 -TTTTATTAA-TTATTA
1 TTTTTATTAACTAATTA
2849803 TTTTT
1 TTTTT
2849808 TGTTTAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATTAACTAATTA
Found at i:2850752 original size:29 final size:29
Alignment explanation
Indices: 2850710--2850767 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2850700 TACCTTGCTT
*
2850710 TCATATATAATTAATAAAATGATATTTAA
1 TCATATATAATTAATAAAATGAAATTTAA
* *
2850739 TCATATATAGTTAATAGAATGAAATTTAA
1 TCATATATAATTAATAAAATGAAATTTAA
2850768 GTATAAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (29 bp):
TCATATATAATTAATAAAATGAAATTTAA
Found at i:2852120 original size:33 final size:33
Alignment explanation
Indices: 2852077--2852140 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2852067 ACGTGGTTTA
* * *
2852077 AAAATTTTAATAATTTGTATATTTGTATTATAT
1 AAAATATTAATAATTTATATATTTATATTATAT
*
2852110 AAAATATTAATTATTTATATATTTATATTAT
1 AAAATATTAATAATTTATATATTTATATTAT
2852141 TTTTTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (33 bp):
AAAATATTAATAATTTATATATTTATATTATAT
Found at i:2852139 original size:21 final size:22
Alignment explanation
Indices: 2852113--2852159 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
2852103 ATTATATAAA
*
2852113 ATATTAATTATTTATATAT-TT
1 ATATTAATTATTTATAAATATT
* *
2852134 ATATTATTTTTTTATAAATATT
1 ATATTAATTATTTATAAATATT
2852156 ATAT
1 ATAT
2852160 AAAAATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATTAATTATTTATAAATATT
Found at i:2852933 original size:10 final size:10
Alignment explanation
Indices: 2852918--2852948 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
2852908 TGGTCGCCTT
2852918 TATCTCTCTC
1 TATCTCTCTC
2852928 TATCTCTCTC
1 TATCTCTCTC
2852938 TATCTCTCTC
1 TATCTCTCTC
2852948 T
1 T
2852949 CTCTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.10, C:0.39, G:0.00, T:0.52
Consensus pattern (10 bp):
TATCTCTCTC
Found at i:2861444 original size:2 final size:2
Alignment explanation
Indices: 2861437--2861468 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2861427 CCTGTATCCC
2861437 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2861469 GATTTGCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2862884 original size:21 final size:22
Alignment explanation
Indices: 2862855--2862902 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2862845 TATATATAAA
*
2862855 TTAAAA-ATAAAATTTATATATT
1 TTAAAATATATAATTTATAT-TT
2862877 TTAAAATATATAATTTATATTT
1 TTAAAATATATAATTTATATTT
2862899 TTAA
1 TTAA
2862903 TTTTTAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAAATATATAATTTATATTT
Found at i:2885890 original size:30 final size:30
Alignment explanation
Indices: 2885854--2885910 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
2885844 TTTCGTAGAT
2885854 AGGATCAATTACATTTAGTAATTTAAAGTA
1 AGGATCAATTACATTTAGTAATTTAAAGTA
2885884 AGGATCAATTACATTTAGTAATTTAAA
1 AGGATCAATTACATTTAGTAATTTAAA
2885911 ATACGATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (30 bp):
AGGATCAATTACATTTAGTAATTTAAAGTA
Found at i:2895849 original size:31 final size:32
Alignment explanation
Indices: 2895758--2895849 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 32
2895748 TTTTTAAAAA
* * * *
2895758 TTTTGAATATCTATTTTTAAAAAGCTTTATAACT
1 TTTTGAAAATTTATTTTTAAAAA--ATTACAACT
2895792 TTTTGAAAATTTATTTTTTAAAAAATTACAACT
1 TTTTGAAAATTTA-TTTTTAAAAAATTACAACT
*
2895825 TTTT-AATAATTTA-TTTTAAGAAATT
1 TTTTGAA-AATTTATTTTTAAAAAATT
2895850 TATATAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
31 11 0.22
32 2 0.04
33 17 0.33
34 11 0.22
35 10 0.20
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.51
Consensus pattern (32 bp):
TTTTGAAAATTTATTTTTAAAAAATTACAACT
Found at i:2896164 original size:2 final size:2
Alignment explanation
Indices: 2896157--2896192 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2896147 AAGTGACGGT
2896157 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2896193 CAGCACTAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2899502 original size:14 final size:14
Alignment explanation
Indices: 2899483--2899534 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
2899473 TGATACAGAA
2899483 TACATCATGATAAC
1 TACATCATGATAAC
** *
2899497 TACATCAAAATACAGAA
1 TACATCATGAT--A-AC
2899514 TACATCATGATAAC
1 TACATCATGATAAC
2899528 TACATCA
1 TACATCA
2899535 AAATACGTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 17 0.59
15 1 0.03
16 1 0.03
17 10 0.34
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.25
Consensus pattern (14 bp):
TACATCATGATAAC
Found at i:2899513 original size:31 final size:31
Alignment explanation
Indices: 2899475--2899540 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
2899465 AACAATTTTG
2899475 ATACAGAATACATCATGATAACTACATCAAA
1 ATACAGAATACATCATGATAACTACATCAAA
2899506 ATACAGAATACATCATGATAACTACATCAAA
1 ATACAGAATACATCATGATAACTACATCAAA
2899537 ATAC
1 ATAC
2899541 GTTGAACTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.23
Consensus pattern (31 bp):
ATACAGAATACATCATGATAACTACATCAAA
Found at i:2902210 original size:18 final size:18
Alignment explanation
Indices: 2902187--2902222 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2902177 AATTTTTTAC
2902187 CTTATATATATATAAATA
1 CTTATATATATATAAATA
2902205 CTTATATATATATAAATA
1 CTTATATATATATAAATA
2902223 GAGATAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
CTTATATATATATAAATA
Found at i:2914542 original size:2 final size:2
Alignment explanation
Indices: 2914535--2914559 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2914525 CGCATCTTGG
2914535 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 A
2914560 GGGGATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2928001 original size:2 final size:2
Alignment explanation
Indices: 2927994--2928020 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2927984 AGCTACAATA
2927994 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 A
2928021 GAATTGAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2932236 original size:2 final size:2
Alignment explanation
Indices: 2932229--2932260 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2932219 AGCAAGAATT
2932229 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2932261 TGTGTGTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2938261 original size:13 final size:13
Alignment explanation
Indices: 2938243--2938284 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2938233 GTAAAAAAGT
*
2938243 AAATTAATAATAA
1 AAATTAAAAATAA
*
2938256 AAATTAAAAATAT
1 AAATTAAAAATAA
*
2938269 ATATTAAAAATAA
1 AAATTAAAAATAA
2938282 AAA
1 AAA
2938285 ATTCGATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAAAAATAA
Done.