Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 25 of 402
Found at i:5680332 original size:109 final size:108
Alignment explanation
Indices: 5680138--5680356 Score: 395
Period size: 109 Copynumber: 2.0 Consensus size: 108
5680128 ACGAACGTGA
5680138 TTGCAGTCGTTACACAAAACAAAAATCTGGGCTGCCTTGTTTACCTTGATATACAAAAACAATAA
1 TTGCAGTCGTTACACAAAACAAAAATCTGGGCTGCCTTGTTTACCTTGATATACAAAAACAATAA
5680203 GTTAATCATTGTTGGTTAATCT-AAACCAAACCCCCTTGATTT
66 GTTAATCATTGTTGGTTAATCTAAAACCAAACCCCCTTGATTT
* *
5680245 TTGCTGTCGTTACACAAAACAAAAAAATCTGGGCTGCCTTGTTTACTTTGATATACAAAAACAAT
1 TTGCAGTCGTTACACAAAAC--AAAAATCTGGGCTGCCTTGTTTACCTTGATATACAAAAACAAT
5680310 AAGTTAATCATTGTTGGTTAATCTAAAACCAAACCCCCTTGATTT
64 AAGTTAATCATTGTTGGTTAATCTAAAACCAAACCCCCTTGATTT
5680355 TT
1 TT
5680357 ACAATTCCAT
Statistics
Matches: 107, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
107 19 0.18
109 66 0.62
110 22 0.21
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (108 bp):
TTGCAGTCGTTACACAAAACAAAAATCTGGGCTGCCTTGTTTACCTTGATATACAAAAACAATAA
GTTAATCATTGTTGGTTAATCTAAAACCAAACCCCCTTGATTT
Found at i:5681744 original size:22 final size:23
Alignment explanation
Indices: 5681719--5681769 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
5681709 TGTATTTGTG
*
5681719 TTTATTTGATAGTTA-AA-TTTTT
1 TTTATTTAATA-TTATAAGTTTTT
5681741 TTTATTTAATATTATAAGTTTTT
1 TTTATTTAATATTATAAGTTTTT
5681764 TGTTAT
1 T-TTAT
5681770 ATTTGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 3 0.12
22 12 0.48
23 6 0.24
24 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (23 bp):
TTTATTTAATATTATAAGTTTTT
Found at i:5682005 original size:20 final size:21
Alignment explanation
Indices: 5681980--5682024 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
5681970 ATCCATATCC
*
5681980 TTATATAT-AATAA-ATAGATT
1 TTATAT-TGAATAATATAAATT
5682000 TTATATTGAATAATATAAATT
1 TTATATTGAATAATATAAATT
5682021 TTAT
1 TTAT
5682025 TTTAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
TTATATTGAATAATATAAATT
Found at i:5685601 original size:20 final size:20
Alignment explanation
Indices: 5685578--5685622 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5685568 ATATTTTAAA
* *
5685578 TATTTTATTATTTATTTATT
1 TATTTTAATATTTATATATT
* *
5685598 TATTGTAATGTTTATATATT
1 TATTTTAATATTTATATATT
5685618 TATTT
1 TATTT
5685623 AACTAATTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTAATATTTATATATT
Found at i:5688592 original size:32 final size:31
Alignment explanation
Indices: 5688534--5688615 Score: 112
Period size: 32 Copynumber: 2.5 Consensus size: 31
5688524 TGTTATGTTT
5688534 TATTTTTTTTATATATTTTGTTTTGTATTTTG
1 TATTTTTTTTATAT-TTTTGTTTTGTATTTTG
5688566 TATTATTTTTTATATTTTT-TTATTGTATTTTG
1 TATT-TTTTTTATATTTTTGTT-TTGTATTTTG
5688598 TATTTTGTATTTATATTT
1 TATTTT-T-TTTATATTT
5688616 CGTATTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
31 4 0.09
32 23 0.50
33 19 0.41
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.74
Consensus pattern (31 bp):
TATTTTTTTTATATTTTTGTTTTGTATTTTG
Found at i:5688596 original size:12 final size:11
Alignment explanation
Indices: 5688538--5688588 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
5688528 ATGTTTTATT
5688538 TTTTTTATATA
1 TTTTTTATATA
* *
5688549 TTTTGTTTTGTA
1 TTTT-TTATATA
*
5688561 TTTTGTAT-TA
1 TTTTTTATATA
5688571 TTTTTTATAT-
1 TTTTTTATATA
5688581 TTTTTTAT
1 TTTTTTAT
5688589 TGTATTTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 17 0.52
11 7 0.21
12 9 0.27
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:5688614 original size:20 final size:20
Alignment explanation
Indices: 5688554--5688629 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
5688544 ATATATTTTG
*
5688554 TTTTGTATTTTGTA-TTATT
1 TTTTGTATTTTGTATTTATA
* * *
5688573 TTTTATATTTT-TTTATTGTA
1 TTTTGTATTTTGTAT-TTATA
5688593 TTTTGTATTTTGTATTTATA
1 TTTTGTATTTTGTATTTATA
* *
5688613 TTTCGTATTTTATATTT
1 TTTTGTATTTTGTATTT
5688630 CTGGACAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
18 1 0.02
19 10 0.22
20 32 0.71
21 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTGTATTTTGTATTTATA
Found at i:5688621 original size:7 final size:7
Alignment explanation
Indices: 5688554--5688629 Score: 63
Period size: 7 Copynumber: 11.4 Consensus size: 7
5688544 ATATATTTTG
5688554 TTTTGTA
1 TTTTGTA
5688561 TTTTGTA
1 TTTTGTA
*
5688568 TTAT-T-
1 TTTTGTA
*
5688573 TTTTATA
1 TTTTGTA
5688580 TTTT-T-
1 TTTTGTA
5688585 TTATTGTA
1 TT-TTGTA
5688593 TTTTGTA
1 TTTTGTA
5688600 TTTTGTA
1 TTTTGTA
*
5688607 -TTTATA
1 TTTTGTA
*
5688613 TTTCGTA
1 TTTTGTA
*
5688620 TTTTATA
1 TTTTGTA
5688627 TTT
1 TTT
5688630 CTGGACAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
5 5 0.09
6 10 0.18
7 39 0.70
8 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.08, T:0.72
Consensus pattern (7 bp):
TTTTGTA
Found at i:5688997 original size:48 final size:48
Alignment explanation
Indices: 5688810--5689307 Score: 543
Period size: 48 Copynumber: 10.4 Consensus size: 48
5688800 TCCTCTCACG
* *
5688810 ACTTTAAAATCTC-TTTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACA
1 ACTTTAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* * *
5688857 ACTTT-AAA----ATCTTGAAAAATGTTTCTCTCAGCAGAGGCTCAACG
1 ACTTTAAAATCTCATCTTGAAAAA-GCTCCTCTCAGCAGAGGCTCAACA
** *
5688901 ACTTTAAAATCTCATCTTGGAAATTGCTCCTCTCAGTAGAGGCTCAACA
1 ACTTTAAAATCTCATCTT-GAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* *
5688950 ACTTTAAAAATCTCAT-TTGAAAAAGCTCATCTCAACAGAGGCTCAACA
1 ACTTT-AAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* * *
5688998 ACTTTAAAATC-CATTTTGAAAAAGGCTCATCTCAGCAAAGGCTCAACA
1 ACTTTAAAATCTCATCTTGAAAAA-GCTCCTCTCAGCAGAGGCTCAACA
* * * **
5689046 ACTTTAAAA-ATCATCTTGAAAAGGACTCCTTTCAATAGAGGCTCAACA
1 ACTTTAAAATCTCATCTTGAAAAAG-CTCCTCTCAGCAGAGGCTCAACA
* * **
5689094 ATTTTAAAATC-CATCTTG-AAAAGCTCATCTCAATAGAGGCTCAACA
1 ACTTTAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
*
5689140 ACTTTAAAATCTCATCTTGGAAAAGGGCTCCTCTCAGCAGAGGCTCAACA
1 ACTTTAAAATCTCATCTT-GAAAA-AGCTCCTCTCAGCAGAGGCTCAACA
* * *
5689190 ACTTCAAAATCTCAT-TTGAAAAAGCTCATCTCAGCAGAGGCTTAACA
1 ACTTTAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* * *
5689237 ACTTTTGAAAATCTCATCTTGGAAAAGGACTCCTCTCAACAAAGGCTCAACA
1 AC-TTT-AAAATCTCATCTT-GAAAAAG-CTCCTCTCAGCAGAGGCTCAACA
5689289 ACTTTAAAAATCTCATCTT
1 ACTTT-AAAATCTCATCTT
5689308 TTCTCAAACT
Statistics
Matches: 381, Mismatches: 47, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
43 8 0.02
44 26 0.07
45 3 0.01
46 37 0.10
47 54 0.14
48 112 0.29
49 47 0.12
50 51 0.13
51 22 0.06
52 21 0.06
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (48 bp):
ACTTTAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
Found at i:5690063 original size:18 final size:18
Alignment explanation
Indices: 5690036--5690070 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5690026 AGTCATTATT
5690036 TTTTCATTTTTTACTTTG
1 TTTTCATTTTTTACTTTG
* *
5690054 TTTTCTTTTTTTTCTTT
1 TTTTCATTTTTTACTTT
5690071 CAAGCAAAAT
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:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTCATTTTTTACTTTG
Found at i:5690475 original size:17 final size:17
Alignment explanation
Indices: 5690453--5690488 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5690443 TGAGTCATTA
5690453 TTTTTTCATTTTTTACTT
1 TTTTTTC-TTTTTTACTT
*
5690471 TTTTTTCTTTTTTTCTT
1 TTTTTTCTTTTTTACTT
5690488 T
1 T
5690489 CAAGTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTCTTTTTTACTT
Found at i:5690613 original size:418 final size:421
Alignment explanation
Indices: 5689825--5690653 Score: 1448
Period size: 418 Copynumber: 2.0 Consensus size: 421
5689815 ATGGCAAAGT
* *
5689825 ATTTGAGTTGAAACAAATGTGCCCAAATGATGATCATAAGATAATCATGAATAAAATATTCTCAT
1 ATTTGAGTTGAAACAAATGTGCCCAAATGATGATCATAAGATAATCATGAACAAAATATTCTCAA
* *
5689890 ATTCTTTTTCTAAAACTAAATTAGATGACTTCTTTGATCCTTTAGAGTTCATCAAACTACACTTG
66 ATTCTTTTTCTAAAACTAAATTAGATGACTTCTTTGATCCTTCAGAGTTCATCAAACTACACTTA
*
5689955 CTCCTATATTGTGGAATGATGTTTCTTTTTCGCATCTAAGCCACCTTTTTTTAGGTTTTCAGCTT
131 CTCCTATATTGTGGAATGATGCTTCTTTTTCGCATCTAAGCCACCTTTTTTTAGGTTTTCAGCTT
5690020 TAGATGAGTCATTATTTTTTCATTTTTTACTTTGTTTTCTTTTTTTTCTTTCAAGCAAAATATTT
196 TAGATGAGTCATTATTTTTTCATTTTTTACTTTGTTTTCTTTTTTTTCTTTCAAGCAAAATATTT
* * * *
5690085 CTTCACAGCATCTGAGTTTATCAGAGTAGGTAAATTATTTTCGTCCATCTTTGCCAAAATCAATG
261 CTTCACAGCATCTGAGTTTATCAGAATAGGTAAATCATTTTCATCCATCTCTGCCAAAATCAATG
* *
5690150 CCTCACCAGAAAATGTCTTTTTCACCACATACGAGCCTTTCCAATTTGGTGTCCATTTTCCTTAA
326 CCCCACCAGAAAAGGTCTTTTTCACCACATACGAGCCTTTCCAATTTGGTGTCCATTTTCCTTAA
5690215 TTA-CATGTTGATTTGAAAGGTGCCCAAATG
391 TTATCATGTTGATTTGAAAGGTGCCCAAATG
5690245 ATTTGAGTTGAAACAAATGTGCCCAAATGATGATCATAAGATAATCATGAACAAAATATTCTCAA
1 ATTTGAGTTGAAACAAATGTGCCCAAATGATGATCATAAGATAATCATGAACAAAATATTCTCAA
*
5690310 ATTCTTTTTCTAAAACTAAATTAGATGACTTCTTTGATTCTTCAGAGTTCATCAAACTACACTTA
66 ATTCTTTTTCTAAAACTAAATTAGATGACTTCTTTGATCCTTCAGAGTTCATCAAACTACACTTA
* *
5690375 C-CCTGTATTGTGGAATGATGCTTCTTTTTCGCATCTAAGCCATCTTTTTTTAGGTTTTCAGCTT
131 CTCCTATATTGTGGAATGATGCTTCTTTTTCGCATCTAAGCCACCTTTTTTTAGGTTTTCAGCTT
* *
5690439 TAGATGAGTCATTATTTTTTCATTTTTTACTTTTTTTTC-TTTTTTTCTTTCAAGTAAAATATTT
196 TAGATGAGTCATTATTTTTTCATTTTTTACTTTGTTTTCTTTTTTTTCTTTCAAGCAAAATATTT
*
5690503 TTTCACAGCATCTGAGTTTATCAGAATAGGTAAATCATTTTCATCCATCTCTGCCAAAATCAATG
261 CTTCACAGCATCTGAGTTTATCAGAATAGGTAAATCATTTTCATCCATCTCTGCCAAAATCAATG
* * *
5690568 CCCCACCAGAAAAGGTCTTTTTCACCACATACGAGCCTTTCCAATTTGGTGTCTATTTTCTTTGA
326 CCCCACCAGAAAAGGTCTTTTTCACCACATACGAGCCTTTCCAATTTGGTGTCCATTTTCCTTAA
*
5690633 TTATCATGTTGATTTGGAAGG
391 TTATCATGTTGATTTGAAAGG
5690654 ATCTTTTTTA
Statistics
Matches: 387, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
418 147 0.38
419 114 0.29
420 126 0.33
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (421 bp):
ATTTGAGTTGAAACAAATGTGCCCAAATGATGATCATAAGATAATCATGAACAAAATATTCTCAA
ATTCTTTTTCTAAAACTAAATTAGATGACTTCTTTGATCCTTCAGAGTTCATCAAACTACACTTA
CTCCTATATTGTGGAATGATGCTTCTTTTTCGCATCTAAGCCACCTTTTTTTAGGTTTTCAGCTT
TAGATGAGTCATTATTTTTTCATTTTTTACTTTGTTTTCTTTTTTTTCTTTCAAGCAAAATATTT
CTTCACAGCATCTGAGTTTATCAGAATAGGTAAATCATTTTCATCCATCTCTGCCAAAATCAATG
CCCCACCAGAAAAGGTCTTTTTCACCACATACGAGCCTTTCCAATTTGGTGTCCATTTTCCTTAA
TTATCATGTTGATTTGAAAGGTGCCCAAATG
Found at i:5700784 original size:23 final size:23
Alignment explanation
Indices: 5700758--5700825 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 23
5700748 TGTGTGAATT
5700758 TTTTGCTTTTTATTTTTTATTTA
1 TTTTGCTTTTTATTTTTTATTTA
*
5700781 TTTTG-TTTTGT-TTTTTT-TTTT
1 TTTTGCTTTT-TATTTTTTATTTA
*
5700802 TTTTGCCCTTTTACCTTTTTTATT
1 TTTTG-CTTTTTA--TTTTTTATT
5700826 GAAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
21 8 0.22
22 11 0.31
23 9 0.25
25 6 0.17
26 2 0.06
ACGTcount: A:0.07, C:0.09, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTGCTTTTTATTTTTTATTTA
Found at i:5700789 original size:21 final size:21
Alignment explanation
Indices: 5700765--5700806 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5700755 ATTTTTTGCT
5700765 TTTTATTTTTTATTTATTTTG
1 TTTTATTTTTTATTTATTTTG
* * *
5700786 TTTTGTTTTTTTTTTTTTTTG
1 TTTTATTTTTTATTTATTTTG
5700807 CCCTTTTACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (21 bp):
TTTTATTTTTTATTTATTTTG
Found at i:5703199 original size:21 final size:21
Alignment explanation
Indices: 5703164--5703217 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
5703154 TATTTTTGGT
*
5703164 ATATTTTTTTA-TTATATTTC
1 ATATTTTTGTATTTATATTTC
5703184 ATATTTTTGTATTTATATTTC
1 ATATTTTTGTATTTATATTTC
*
5703205 GTA-TTTTGTATTT
1 ATATTTTTGTATTT
5703218 CTGGACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (21 bp):
ATATTTTTGTATTTATATTTC
Found at i:5703673 original size:5 final size:5
Alignment explanation
Indices: 5703663--5703696 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
5703653 GGGTTCATTT
5703663 TTTAA TTTAA TTTAA TTTAA TTTTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA --TTTAA TTTAA TT
5703697 ATTTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 22 0.81
7 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TTTAA
Found at i:5703712 original size:3 final size:3
Alignment explanation
Indices: 5703694--5703727 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
5703684 TTTTAATTTA
*
5703694 ATT ATT TTT CATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
5703728 TATCTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.93
4 2 0.07
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:5703746 original size:44 final size:45
Alignment explanation
Indices: 5703689--5703784 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
5703679 TTAATTTTTA
*
5703689 ATTTA-ATTATTTTTCA-TTAT-T-ATTATTATTATTATTATTTATCT
1 ATTTATATTATTTTT-ATTTATCTAATTATT-TTATT-TTAGTTATCT
*
5703733 ATTTATATT-TTTTTATTTATCTAATTATTTTCTTTTAGTTATCT
1 ATTTATATTATTTTTATTTATCTAATTATTTTATTTTAGTTATCT
*
5703777 ATTAATAT
1 ATTTATAT
5703785 ATCTATCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
43 1 0.02
44 30 0.67
45 8 0.18
46 6 0.13
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (45 bp):
ATTTATATTATTTTTATTTATCTAATTATTTTATTTTAGTTATCT
Found at i:5704657 original size:8 final size:7
Alignment explanation
Indices: 5704647--5704695 Score: 53
Period size: 8 Copynumber: 6.4 Consensus size: 7
5704637 TTTTTTCATT
5704647 TTATTTA
1 TTATTTA
5704654 TTTATTTA
1 -TTATTTA
*
5704662 TTAATTA
1 TTATTTA
5704669 TTATATTA
1 TTAT-TTA
5704677 TTATTTA
1 TTATTTA
5704684 TTGATTATA
1 TT-ATT-TA
5704693 TTA
1 TTA
5704696 GAATTATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 14 0.39
8 18 0.50
9 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (7 bp):
TTATTTA
Found at i:5704677 original size:19 final size:19
Alignment explanation
Indices: 5704659--5704695 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5704649 ATTTATTTAT
5704659 TTATTAATT-ATTATATTA
1 TTATTAATTGATTATATTA
*
5704677 TTATTTATTGATTATATTA
1 TTATTAATTGATTATATTA
5704696 GAATTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATTAATTGATTATATTA
Found at i:5704680 original size:22 final size:22
Alignment explanation
Indices: 5704647--5704691 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
5704637 TTTTTTCATT
5704647 TTATTTATTTATTTATTAATTA
1 TTATTTATTTATTTATTAATTA
*
5704669 TTATATTA-TTATTTATTGATTA
1 TTAT-TTATTTATTTATTAATTA
5704691 T
1 T
5704692 ATTAGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTATTTATTTATTAATTA
Found at i:5704881 original size:62 final size:63
Alignment explanation
Indices: 5704745--5704886 Score: 198
Period size: 62 Copynumber: 2.3 Consensus size: 63
5704735 TTTTTAATGA
* **
5704745 TTTTCTTAAAATAAAAATTCTAAAAAAATATATATTTTTGAGAAAAAGTTGAAAGTATCAATT
1 TTTTTTTAAAATAAAAATTCTAAAAAAATATATATTTTCAAGAAAAAGTTGAAAGTATCAATT
** * *
5704808 TTCCTTAAAAATAAAAATT-TAAAAAAATATATATTTTCAAGGAAAAGTTG-AAGTATCAATTT
1 TTTTTTTAAAATAAAAATTCTAAAAAAATATATATTTTCAAGAAAAAGTTGAAAGTATCAA-TT
5704870 TTTTTTTAAAATAAAAA
1 TTTTTTTAAAATAAAAA
5704887 CTTCCATGTT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
61 9 0.13
62 44 0.65
63 15 0.22
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (63 bp):
TTTTTTTAAAATAAAAATTCTAAAAAAATATATATTTTCAAGAAAAAGTTGAAAGTATCAATT
Found at i:5705801 original size:22 final size:23
Alignment explanation
Indices: 5705776--5705837 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
5705766 ATTATGATTA
5705776 TTATTTATCTATTTATATTT-TT
1 TTATTTATCTATTTATATTTCTT
*
5705798 TTATTTATCTAATTAT-TTTCTT
1 TTATTTATCTATTTATATTTCTT
* *
5705820 TTAGTTATCTATTAATAT
1 TTATTTATCTATTTATAT
5705838 ATCTATCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.09
22 30 0.88
23 1 0.03
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (23 bp):
TTATTTATCTATTTATATTTCTT
Found at i:5706862 original size:61 final size:61
Alignment explanation
Indices: 5706796--5706912 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
5706786 AAATATATAT
* *
5706796 ATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAA-TTCCAAAAAA
1 ATATATCTTCGAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAAACTTCCAAAAAA
* * *
5706857 ATATATCTTCGGGGAAAAGTTGAAAGTATTAATTTTTCTTAAAATAAAAACTTCCA
1 ATATATCTTCGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAACTTCCA
5706913 TTTTTTTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 10 0.20
61 40 0.80
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (61 bp):
ATATATCTTCGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAACTTCCAAAAAA
Found at i:5712919 original size:3 final size:3
Alignment explanation
Indices: 5712911--5712970 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
5712901 TGTAAACACC
5712911 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5712959 ATT ATT ATT ATT
1 ATT ATT ATT ATT
5712971 TACTTAATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5713065 original size:24 final size:24
Alignment explanation
Indices: 5713000--5713066 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 24
5712990 TTTTTTGTAT
*
5713000 TTTTTC-TTCTTC-TCTT-TTTTC
1 TTTTTCTTTCTTCTTCTTCCTTTC
* *
5713021 -TTTTCTTTTTTCTTTTCTCCTTTC
1 TTTTTCTTTCTTCTTCT-TCCTTTC
5713045 TTTTTCTTTCTTCTTCTTCCTT
1 TTTTTCTTTCTTCTTCTTCCTT
5713067 ATCTGATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 2 0.06
23 1 0.03
24 9 0.25
25 14 0.39
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTCTTTCTTCTTCTTCCTTTC
Found at i:5714039 original size:18 final size:16
Alignment explanation
Indices: 5713998--5714040 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
5713988 GTAAAAAAAA
5713998 TTTTTT-TTTTTTAAT
1 TTTTTTATTTTTTAAT
5714013 TTTTCTTATTTTTTATAT
1 TTTT-TTATTTTTTA-AT
5714031 TTATTTTATT
1 TT-TTTTATT
5714041 ATAATTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
16 2 0.08
17 7 0.29
18 9 0.38
19 2 0.08
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTATTTTTTAAT
Found at i:5715300 original size:23 final size:22
Alignment explanation
Indices: 5715268--5715311 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
5715258 TTTTTAGTAA
5715268 AAAAAAAAAAAACAAAACAAATC
1 AAAAAAAAAAAACAAAA-AAATC
* *
5715291 AAAAATAAAAAGCAAAAAAAT
1 AAAAAAAAAAAACAAAAAAAT
5715312 TCACACACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.82, C:0.09, G:0.02, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAAACAAAAAAATC
Found at i:5718185 original size:15 final size:15
Alignment explanation
Indices: 5718165--5718198 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
5718155 TGCACCATTT
5718165 TTTTTAAAAAAAAAA
1 TTTTTAAAAAAAAAA
*
5718180 TTTTTAAAATAAAAA
1 TTTTTAAAAAAAAAA
5718195 TTTT
1 TTTT
5718199 GACACATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTTTAAAAAAAAAA
Found at i:5726418 original size:49 final size:49
Alignment explanation
Indices: 5726358--5726841 Score: 570
Period size: 49 Copynumber: 9.8 Consensus size: 49
5726348 AAAAATATAT
*
5726358 GAGATTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCTTTTTCAAGATA
1 GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATA
* * * * *
5726407 AAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCCTTTCCAAGAT-
1 GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATA
* * *
5726456 GAGATTTTAAAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGATA
1 GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATA
* *
5726505 -AGAATTTTAAAATTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATA
1 GAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATA
* * *
5726554 -AGAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCCTTTCCAAGAT-
1 GAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATA
* *
5726603 GAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATA
1 GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATA
* * * *
5726652 -AGAATTTTAAAGTTGTTGAGCCTTTGCTGATAGAGG-CCCTTTCCAAGAT-
1 GAG-ATTTTAAAGTTGTTGAGCCTCTGCTG--AGAGGAGCTTTTTCAAGATA
* * * *
5726701 GAGATTTTAAAGTTGTTGAGTCTCTACTGAGAAGAGTCATTTTCAAGAT-
1 GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATA
* *
5726750 GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGTCATTTTCATGATA
1 GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATA
* *
5726800 TGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAACTTTT
1 -GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
5726842 ACACTAAAAA
Statistics
Matches: 377, Mismatches: 44, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
47 4 0.01
48 25 0.07
49 270 0.72
50 39 0.10
51 39 0.10
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (49 bp):
GAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATA
Found at i:5726634 original size:147 final size:147
Alignment explanation
Indices: 5726361--5726841 Score: 687
Period size: 147 Copynumber: 3.3 Consensus size: 147
5726351 AATATATGAG
* *
5726361 ATTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCTTTTTCAAGATAAAAATTTTAAAGTTGTTGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAGAATTTTAAAGTTGTTGA
* * *
5726426 GCCTCTGCTGAGAAGAGCCCTTTCCAAGATGAGATTTTAAAGTTGTTAAGCCTCTACTGAGATGA
66 GCCTCTGCTGAGAAGAGCCCTTTCCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
5726491 GCTTTTTCAAGATAAGA
131 GCTTTTTCAAGATAAGA
* *
5726508 ATTTTAAAATTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAGAATTTTAAAGTTGTTGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAGAATTTTAAAGTTGTTGA
* *
5726573 GCCTCTGCTGAGATGAGCCCTTTCCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGA
66 GCCTCTGCTGAGAAGAGCCCTTTCCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
*
5726638 GCTTTTCCAAGATAAGA
131 GCTTTTTCAAGATAAGA
* * * * *
5726655 ATTTTAAAGTTGTTGAGCCTTTGCTGATAGAGG-CCCTTTCCAAGATGAG-ATTTTAAAGTTGTT
1 ATTTTAAAGTTGTTGAGCCTCTGCTG--AGAGGAGCTTTTTCAAGATAAGAATTTTAAAGTTGTT
* * * * *
5726718 GAGTCTCTACTGAGAAGAGTCATTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
64 GAGCCTCTGCTGAGAAGAGCCCTTTCCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
* * *
5726783 GAGTCATTTTCATGATATGA
129 GAG-CTTTTTCAAGATAAGA
* *
5726803 GATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAACTTTT
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
5726842 ACACTAAAAA
Statistics
Matches: 297, Mismatches: 32, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
147 240 0.81
148 28 0.09
149 29 0.10
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (147 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAGAATTTTAAAGTTGTTGA
GCCTCTGCTGAGAAGAGCCCTTTCCAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
GCTTTTTCAAGATAAGA
Found at i:5727150 original size:26 final size:27
Alignment explanation
Indices: 5727112--5727171 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
5727102 TTTACGTTTT
* *
5727112 TTTCTTCTTCTCATTT-TTCTTTTCTTC
1 TTTCTTCTCCTCATTTCTT-TTTCCTTC
5727139 TTTCTT-TCCTCATTTCTTTTTCCTTC
1 TTTCTTCTCCTCATTTCTTTTTCCTTC
5727165 -TTCTTCT
1 TTTCTTCT
5727172 TCCTTATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 5 0.17
26 16 0.55
27 8 0.28
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTCTTCTCCTCATTTCTTTTTCCTTC
Found at i:5729158 original size:2 final size:2
Alignment explanation
Indices: 5729151--5729180 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
5729141 TGATGCATAC
5729151 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
5729181 AAATTGCCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5731059 original size:11 final size:11
Alignment explanation
Indices: 5731043--5731077 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5731033 AATATTTAAC
5731043 AAAACAAACAA
1 AAAACAAACAA
5731054 AAAACAAA-AA
1 AAAACAAACAA
5731064 ATAAACAAACAA
1 A-AAACAAACAA
5731076 AA
1 AA
5731078 GAAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAACAAACAA
Found at i:5731882 original size:20 final size:19
Alignment explanation
Indices: 5731838--5731882 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
5731828 CCGCGCGTCA
*
5731838 ACCCGCGACCCGACCCGGG
1 ACCCGCGACCCGACCCGCG
**
5731857 GTCCGCGCACCCGACCCGCG
1 ACCCGCG-ACCCGACCCGCG
5731877 ACCCGC
1 ACCCGC
5731883 TGCCTTTATC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.13, C:0.56, G:0.29, T:0.02
Consensus pattern (19 bp):
ACCCGCGACCCGACCCGCG
Found at i:5731958 original size:32 final size:32
Alignment explanation
Indices: 5731913--5732004 Score: 148
Period size: 32 Copynumber: 2.9 Consensus size: 32
5731903 GGTCTGACTG
*
5731913 GACCGAACCGAACCGCCGGACCAAACCAACCA
1 GACCGAACCGAACCGCCGGACCGAACCAACCA
* *
5731945 GATCGAACTGAACCGCCGGACCGAACCAACCA
1 GACCGAACCGAACCGCCGGACCGAACCAACCA
*
5731977 GACCGAACCGAACCGCCGAACCGAACCA
1 GACCGAACCGAACCGCCGGACCGAACCA
5732005 GGAGTTGACC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.36, C:0.41, G:0.21, T:0.02
Consensus pattern (32 bp):
GACCGAACCGAACCGCCGGACCGAACCAACCA
Found at i:5731997 original size:13 final size:15
Alignment explanation
Indices: 5731963--5732005 Score: 65
Period size: 13 Copynumber: 3.1 Consensus size: 15
5731953 TGAACCGCCG
5731963 GACCGAACC-AACCA
1 GACCGAACCGAACCA
5731977 GACCGAACCGAACC-
1 GACCGAACCGAACCA
5731991 G-CCGAACCGAACCA
1 GACCGAACCGAACCA
5732005 G
1 G
5732006 GAGTTGACCG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.44
14 11 0.41
15 4 0.15
ACGTcount: A:0.37, C:0.42, G:0.21, T:0.00
Consensus pattern (15 bp):
GACCGAACCGAACCA
Found at i:5732454 original size:19 final size:18
Alignment explanation
Indices: 5732414--5732457 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5732404 TTAAAAAAAA
* *
5732414 TAATAAATAAAAATTGAT
1 TAATAAATAAAAATTAAC
*
5732432 TAATAAATTAAAATATAAC
1 TAATAAATAAAAAT-TAAC
5732451 TAATAAA
1 TAATAAA
5732458 AAATAAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATAAATAAAAATTAAC
Found at i:5732648 original size:20 final size:19
Alignment explanation
Indices: 5732616--5732673 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 19
5732606 TTTCTTTTTT
5732616 TTAAGAATAATAAATAAAAA
1 TTAAGAATAAT-AATAAAAA
5732636 TTAATGAAT-ATAATAAAAAA
1 TTAA-GAATAATAAT-AAAAA
*
5732656 TATAAGTAATAAAAATAA
1 T-TAAG-AATAATAATAA
5732674 GAAGAAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 12 0.38
22 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
TTAAGAATAATAATAAAAA
Found at i:5732666 original size:21 final size:17
Alignment explanation
Indices: 5732621--5732671 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
5732611 TTTTTTTAAG
5732621 AATAATAAATAAAAATT
1 AATAATAAATAAAAATT
*
5732638 AATGAATATAATAAAAAAT
1 AAT-AATA-AATAAAAATT
5732657 -ATAAGT-AATAAAAAT
1 AATAA-TAAATAAAAAT
5732672 AAGAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 8 0.28
17 5 0.17
18 7 0.24
19 9 0.31
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (17 bp):
AATAATAAATAAAAATT
Found at i:5732748 original size:211 final size:210
Alignment explanation
Indices: 5732241--5732808 Score: 770
Period size: 213 Copynumber: 2.7 Consensus size: 210
5732231 TAAAGTAGTA
* * * *
5732241 AAAAAATGAA-AGAAAAAGGAAATTTTTATCCGACGATGAGATTCAAAGGTATTCCGAGTAGTGA
1 AAAAAAT-AAGAGAAGAA-GAAATTTTAATCCAATGATGAGATTCAAAGGTATTCCGAGTAGTGA
5732305 TGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTAT
64 TGCCTACGAAATCTCTAGGTGAGAAGA-TTTTTTTAAAATACTACCAGCGTATTGGAGTATTTAT
* *
5732370 AAAAAAATTTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAAATAATAAATAAAAATTGATTAA
128 --AAAAATTTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAAATAATAAATAAAAATTAATGAA
*
5732435 TAAATTAAAATATAACTAAT
191 TAAATAAAAATATAACTAAT
* * *
5732455 AAAAAATAAGAGAAGAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATG
1 AAAAAATAAGAGAAGAAGAAATTTTAATCCAATGATGAGATTCAAAGGTATTCCGAGTAGTGATG
*
5732520 CCTACGAAATCTCTAGGTGAGAAGATTTTTTT-AAGTACTACCAGCGTATTGGAGTATTTATAAA
66 CCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAA
* ** *
5732584 AATTTTTCAATACAGTAAAGGTTTTCTTTTTT-TTAAGAATAATAAATAAAAATTAATGAATATA
131 AA-TTTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAAATAATAAATAAAAATTAATGAATA-A
*
5732648 ATAAAAAATATAAGTAAT
194 AT-AAAAATATAACTAAT
* *
5732666 -AAAAATAAGAAGAA-AAGAAA-TTTAATCCAATGATGAGATTCTAAAAGTATTCCGAGTAGAGA
1 AAAAAATAAG-AGAAGAAGAAATTTTAATCCAATGATGAGATTC-AAAGGTATTCCGAGTAGTGA
* * * *
5732728 TGCTTTAAGAAATCTCTAGGTGAGAAGATTTTTTGTAAAATATTACCAGCGTATTGGAATATTTA
64 TGC-CTACGAAATCTCTAGGTGAGAAGATTTTTT-TAAAATACTACCAGCGTATTGGAGTATTTA
*
5732793 TAGAAAATCTTCAATA
127 TA-AAAATTTTCAATA
5732809 TGATTAAATT
Statistics
Matches: 321, Mismatches: 23, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
209 49 0.15
210 66 0.21
211 73 0.23
212 8 0.02
213 109 0.34
214 16 0.05
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (210 bp):
AAAAAATAAGAGAAGAAGAAATTTTAATCCAATGATGAGATTCAAAGGTATTCCGAGTAGTGATG
CCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAA
AATTTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAAATAATAAATAAAAATTAATGAATAAAT
AAAAATATAACTAAT
Found at i:5732856 original size:21 final size:23
Alignment explanation
Indices: 5732831--5732880 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
5732821 TTTTTTCTTC
*
5732831 AAAATTTTAAT-TAA-AATTAAT
1 AAAATTTTAATAAAATAATTAAT
5732852 AAAA--TTAATAAAATAATTAAT
1 AAAATTTTAATAAAATAATTAAT
5732873 AAAATTTT
1 AAAATTTT
5732881 TGAATGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 15 0.62
23 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTTTAATAAAATAATTAAT
Found at i:5743859 original size:9 final size:9
Alignment explanation
Indices: 5743845--5743869 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5743835 ATTTTGCTTA
5743845 AAAAAAAAG
1 AAAAAAAAG
5743854 AAAAAAAAG
1 AAAAAAAAG
5743863 AAAAAAA
1 AAAAAAA
5743870 TGATGACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:5744701 original size:47 final size:47
Alignment explanation
Indices: 5744640--5746125 Score: 2105
Period size: 47 Copynumber: 30.9 Consensus size: 47
5744630 TTGAAAACAG
5744640 AAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
5744688 AAGATGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTT-C
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
5744734 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-GCTTTTCC
5744782 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCC
*
5744831 -AGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCA
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
5744877 AAGAAG-ATTTTAGAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAATTTTA-AAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
5744924 AAGATGAATTTTAAAGTTGTTGAGCCTCTTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTC-TGCTGAGAGGAGCTTTTCC
*
5744972 AAGATGAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGTAGACTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-AG-CTTTTCC
* *
5745022 CAGATGAGATTTAAAAGTTGTTGAGCC-CTTGCTGAGAGGAGCTTTTCCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTC-TGCTGAGAGGAGCTTTT-CC
* * *
5745071 AAGATGAATTTTAAAAGTTGTTGAGCCTTCTGAGTAAGAGGAGCTTTTTC
1 AAGATGAATTTT-AAAGTTGTTGAGCC-TCTG-CTGAGAGGAGCTTTTCC
* * *
5745121 AGGATGGAGACTTTTTAAGTTGTTGAGCCTCGTGCTGAGAGGAGCTTTTTC
1 AAGAT-GA-A-TTTTAAAGTTGTTGAGCCTC-TGCTGAGAGGAGCTTTTCC
* *
5745172 -AGATGAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
5745219 AAGATGAGATTTTAAAGTTGTTGGAGCCTCCTGCTGA-AGAGAGCTTTTCC
1 AAGATGA-ATTTTAAAGTTGTT-GAGCCT-CTGCTGAGAG-GAGCTTTTCC
5745269 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-C
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
5745315 -AGATGAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
5745362 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-C
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
5745408 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
5745456 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
5745503 -AGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-C
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
5745548 AAGAAGAGATTTTAAAGTTGTTGAGCCTCTGCTTGAGAGGAGCTTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGC-TGAGAGGAGC-TTTTCC
*
5745598 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
5745645 -AGATGAAATTTTAAAGTTGTTGTGAGCCTCTGCTGAGAGGAGCTTTTTCC
1 AAGATG-AATTTTAAAGTTG-T-TGAGCCTCTGCTGAGAGGAGC-TTTTCC
5745695 AAGATGAATTTTTAAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCC
1 AAGATGAA-TTTT-AAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCC
*
5745745 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
5745792 -A-ATGAGATTTTAAAGTTGTTTTGAGCCTTCTGCTGAGGAGGAGCTTTTTTCAC
1 AAGATGA-ATTTTAAAGTTG--TTGAGCC-TCTGCTGA-GAGGAGC--TTTTC-C
5745845 AAGATGAGATTTT-AAGTTGTTGAGCTGACTCTGCTGAGAGGAGCTTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGC---CTCTGCTGAGAGGAGC-TTTTCC
*
5745896 AAGA-GATTTTTAAAGTTGTTGAGGCCCTCTGCTGAGAGGAGC-TTTCC
1 AAGATGAATTTTAAAGTTGTTGA-G-CCTCTGCTGAGAGGAGCTTTTCC
5745943 AAGATTGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGA-TGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
5745991 AAAGATG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 -AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
5746038 -AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAGCTTTTTCC
1 AAGATGA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCC
*
5746086 AAGATGAA-TTTAAAGTTGTTGAACCTCTGCTGAGAGGAGC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
5746126 CCTTTCAAAA
Statistics
Matches: 1325, Mismatches: 41, Indels: 145
0.88 0.03 0.10
Matches are distributed among these distances:
45 15 0.01
46 190 0.14
47 407 0.31
48 227 0.17
49 218 0.16
50 141 0.11
51 49 0.04
52 40 0.03
53 12 0.01
54 15 0.01
55 11 0.01
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (47 bp):
AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
Found at i:5753425 original size:18 final size:17
Alignment explanation
Indices: 5753402--5753437 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
5753392 TAAGATTTTG
5753402 AATAATCATAGATATAAA
1 AATAATCATAGATA-AAA
5753420 AATAATCATAGATAAAA
1 AATAATCATAGATAAAA
5753437 A
1 A
5753438 TCATTTAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (17 bp):
AATAATCATAGATAAAA
Found at i:5753487 original size:47 final size:44
Alignment explanation
Indices: 5753413--5753508 Score: 122
Period size: 47 Copynumber: 2.1 Consensus size: 44
5753403 ATAATCATAG
* *
5753413 ATAT-AAAAATAATCATAGATAAAAATCATTTAGCAAATACTTT
1 ATATAAAAAAAAATCATAGATAAAAATCATTTAGCAAATACCTT
*
5753456 ATATAAAAAAAAATCATTTAGATGAATAATCATTTAGCAAATACCTT
1 ATATAAAAAAAAATCA--TAGAT-AAAAATCATTTAGCAAATACCTT
*
5753503 AAATAA
1 ATATAA
5753509 TCATATTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 4 0.09
44 10 0.22
46 5 0.11
47 26 0.58
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.31
Consensus pattern (44 bp):
ATATAAAAAAAAATCATAGATAAAAATCATTTAGCAAATACCTT
Found at i:5754216 original size:2 final size:2
Alignment explanation
Indices: 5754209--5754246 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
5754199 GGCCTATTTC
*
5754209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5754247 TATTATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5755135 original size:12 final size:12
Alignment explanation
Indices: 5755099--5755144 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
5755089 TGGGATGATT
*
5755099 TTATATTTATCTT
1 TTATATTTAT-TA
* *
5755112 TTTTATTAATTA
1 TTATATTTATTA
5755124 TTATATTTATTA
1 TTATATTTATTA
5755136 TTATATTTA
1 TTATATTTA
5755145 AAAAATTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATATTTATTA
Found at i:5756066 original size:17 final size:16
Alignment explanation
Indices: 5756040--5756099 Score: 65
Period size: 17 Copynumber: 3.9 Consensus size: 16
5756030 TTAAATGATT
5756040 ATTG-TATTTTATTGA
1 ATTGATATTTTATTGA
*
5756055 ATTGTATATTTTATT-T
1 ATTG-ATATTTTATTGA
5756071 A-TG-TATTTTATTGA
1 ATTGATATTTTATTGA
5756085 ATTGCATATTTTATT
1 ATTG-ATATTTTATT
5756100 ATATATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
15 8 0.22
16 1 0.03
17 18 0.49
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.62
Consensus pattern (16 bp):
ATTGATATTTTATTGA
Found at i:5756076 original size:30 final size:30
Alignment explanation
Indices: 5756042--5756099 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
5756032 AAATGATTAT
*
5756042 TGTATTTTATTGAATTGTATATTTTATTTA
1 TGTATTTTATTGAATTGCATATTTTATTTA
5756072 TGTATTTTATTGAATTGCATATTTTATT
1 TGTATTTTATTGAATTGCATATTTTATT
5756100 ATATATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.62
Consensus pattern (30 bp):
TGTATTTTATTGAATTGCATATTTTATTTA
Found at i:5759099 original size:132 final size:131
Alignment explanation
Indices: 5758855--5759109 Score: 338
Period size: 132 Copynumber: 1.9 Consensus size: 131
5758845 AATTTCTCCA
* * * *
5758855 AAAAATTTTCAAAATATCATTTTTATTATTTGATAAGAAATTGAAGCTGACTAAATTGATTATTA
1 AAAAATTTTCAAAATATCATTTTCATTATTTGATAAGAAATTAAAGCTAACAAAATTGATTATTA
*
5758920 AGTATTCATATAATAATTACAAAAATATTTATTCTTTTATAATTTATTTATTATAATACATTACC
66 AGTATTCATATAATAATTACAAAAATATATATTCTTTTATAATTTATTTATTATAATACATTACC
5758985 T
131 T
5758986 AAAAATTTATCAAAATATCATTTTCATTATTTGATAAGAAATTAATATG-TAACAAAATTGATTA
1 AAAAATTT-TCAAAATATCATTTTCATTATTTGATAAGAAATTAA-A-GCTAACAAAATTGATTA
** * * * *
5759050 TT-CTTCTCTCATATTATAATTATGAAAAA-ATATATTTTTTTATAA-TTATTTATTATAATA
63 TTAAGTAT-TCATATAATAATTA-CAAAAATATATATTCTTTTATAATTTATTTATTATAATA
5759110 TTCTTAAACA
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
131 8 0.07
132 51 0.47
133 43 0.40
134 6 0.06
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (131 bp):
AAAAATTTTCAAAATATCATTTTCATTATTTGATAAGAAATTAAAGCTAACAAAATTGATTATTA
AGTATTCATATAATAATTACAAAAATATATATTCTTTTATAATTTATTTATTATAATACATTACC
T
Found at i:5759791 original size:10 final size:10
Alignment explanation
Indices: 5759767--5759796 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5759757 TATTTTATCA
5759767 ATTAAAATA-
1 ATTAAAATAT
5759776 ATTAAAATAT
1 ATTAAAATAT
5759786 ATTAAAATAT
1 ATTAAAATAT
5759796 A
1 A
5759797 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:5759808 original size:19 final size:20
Alignment explanation
Indices: 5759766--5759808 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
5759756 ATATTTTATC
*
5759766 AATTAAAATAATTAAAATAT
1 AATTAAAATAATAAAAATAT
*
5759786 -ATTAAAAT-ATAAAAATTT
1 AATTAAAATAATAAAAATAT
5759804 AATTA
1 AATTA
5759809 GGCTCACGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTAAAATAATAAAAATAT
Found at i:5760776 original size:61 final size:60
Alignment explanation
Indices: 5760710--5760906 Score: 173
Period size: 61 Copynumber: 3.2 Consensus size: 60
5760700 TAATGCAATC
*
5760710 ATATCATAATTATAGAAATGCCTTTCCCACTATAATTGGCCAAAATTACTATAATATTTTT
1 ATATCATAATTATAGAAATGCCCTTCCCAC-ATAATTGGCCAAAATTACTATAATATTTTT
* * * * * * * *** *
5760771 TTATCATAATTACAAAAATGCTCCCTCCTAGCATAATTAGTCAAAATTACTATAATACGCCTC
1 ATATCATAATTATAGAAATGC-CCTTCCCA-CATAATTGGCCAAAATTACTATAATA-TTTTT
* * * *
5760834 ATACCATACTTAT-GAAAATGCCCTT-CCACCATAATTGACCAAAATTACTATAATGTCTTTT
1 ATATCATAATTATAG-AAATGCCCTTCCCA-CATAATTGGCCAAAATTACTATAATAT-TTTT
5760895 ATATCATAATTA
1 ATATCATAATTA
5760907 CATAAATATT
Statistics
Matches: 101, Mismatches: 30, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
61 53 0.52
62 31 0.31
63 17 0.17
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (60 bp):
ATATCATAATTATAGAAATGCCCTTCCCACATAATTGGCCAAAATTACTATAATATTTTT
Found at i:5760868 original size:123 final size:124
Alignment explanation
Indices: 5760679--5760913 Score: 325
Period size: 123 Copynumber: 1.9 Consensus size: 124
5760669 CTTCATTTTT
* * * *
5760679 CATAATTAGTCAAAATTATTATAATGCAATCATATCATAATTATAGAAATGCCTTTCCCACTATA
1 CATAATTAGTCAAAATTACTATAATGCAATCATACCATAATTATAGAAATGCCCTTCCCACCATA
* *
5760744 ATTGGCCAAAATTACTATAATAT-TTTTTTATCATAATTACAAAAATGCTCCCTCCTAG
66 ATTGACCAAAATTACTATAATATCTTTTATATCATAATTACAAAAATGCTCCCTCCTAG
* *
5760802 CATAATTAGTCAAAATTACTATAATACGC-CTCATACCATACTTAT-GAAAATGCCCTT-CCACC
1 CATAATTAGTCAAAATTACTATAAT--GCAATCATACCATAATTATAG-AAATGCCCTTCCCACC
* *
5760864 ATAATTGACCAAAATTACTATAATGTCTTTTATATCATAATTACATAAAT
63 ATAATTGACCAAAATTACTATAATATCTTTTATATCATAATTACAAAAAT
5760914 ATTCTTATAA
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
123 53 0.54
124 43 0.44
125 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (124 bp):
CATAATTAGTCAAAATTACTATAATGCAATCATACCATAATTATAGAAATGCCCTTCCCACCATA
ATTGACCAAAATTACTATAATATCTTTTATATCATAATTACAAAAATGCTCCCTCCTAG
Found at i:5762915 original size:24 final size:25
Alignment explanation
Indices: 5762860--5762917 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
5762850 GTGATTTTGT
* *
5762860 TTTTAATTTTTTTGAATTTTTTTAAA
1 TTTT-ATTATTTTGAATTATTTTAAA
5762886 --TTATTATTTTG-ATTATTTTAAA
1 TTTTATTATTTTGAATTATTTTAAA
5762908 TTTTATTATT
1 TTTTATTATT
5762918 AATATTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 10 0.36
23 8 0.29
24 10 0.36
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTTATTATTTTGAATTATTTTAAA
Found at i:5764722 original size:113 final size:113
Alignment explanation
Indices: 5764524--5764749 Score: 407
Period size: 113 Copynumber: 2.0 Consensus size: 113
5764514 GTGAGGATCA
5764524 GGATACCTTATTAGTCTAGCAGATAACAGTAAAGAACAATTTGAGAACCTTTAGACGGATGTTAA
1 GGATACCTTATTAGTCTAGCAGATAACAGTAAAGAACAATTTGAGAACCTTTAGACGGATGTTAA
* *
5764589 CCTAAACCCAAGCATATAATAAGCCTAGGAAGATAACCTTAGGCAGAG
66 CCTAAACCCAAGCATATAATAAACCTAGAAAGATAACCTTAGGCAGAG
* *
5764637 GGATACCTTATTAGTCTAGCAGATGACAGTAAGGAACAATTTGAGAACCTTTAGACGGATGTTAA
1 GGATACCTTATTAGTCTAGCAGATAACAGTAAAGAACAATTTGAGAACCTTTAGACGGATGTTAA
*
5764702 CCTAAACCCAAGCATGTAATAAACCTAGAAAGATAACCTTAGGCAGAG
66 CCTAAACCCAAGCATATAATAAACCTAGAAAGATAACCTTAGGCAGAG
5764750 CCTTGCCCAC
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 108 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (113 bp):
GGATACCTTATTAGTCTAGCAGATAACAGTAAAGAACAATTTGAGAACCTTTAGACGGATGTTAA
CCTAAACCCAAGCATATAATAAACCTAGAAAGATAACCTTAGGCAGAG
Found at i:5764863 original size:5 final size:5
Alignment explanation
Indices: 5764853--5764881 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
5764843 ACTAACTCAA
5764853 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
5764882 TACATAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:5767372 original size:16 final size:13
Alignment explanation
Indices: 5767341--5767365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5767331 ATGATCAATA
5767341 TGAAAAAAAAAAT
1 TGAAAAAAAAAAT
5767354 TGAAAAAAAAAA
1 TGAAAAAAAAAA
5767366 CTTTTGAGTT
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
TGAAAAAAAAAAT
Found at i:5768475 original size:13 final size:13
Alignment explanation
Indices: 5768457--5768482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5768447 TGAAATCATC
5768457 AAAAACAAAAAAA
1 AAAAACAAAAAAA
5768470 AAAAACAAAAAAA
1 AAAAACAAAAAAA
5768483 GGTAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAA
Found at i:5769436 original size:46 final size:46
Alignment explanation
Indices: 5769369--5769471 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
5769359 AAGAGATATT
* * *
5769369 TGCATTTCATGTGCATCATTTTAAGAAAAAACATTTGTATTTCATC
1 TGCATCTCATGTGCATAATTTTAAGAAAAAACATTTGCATTTCATC
* *
5769415 TGCATCTCATGTGCATAATTTTAAGAAAAGACATTTGCATTTCATT
1 TGCATCTCATGTGCATAATTTTAAGAAAAAACATTTGCATTTCATC
5769461 TGCATCATCAT
1 TGCATC-TCAT
5769472 TTTAAGAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 47 0.92
47 4 0.08
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (46 bp):
TGCATCTCATGTGCATAATTTTAAGAAAAAACATTTGCATTTCATC
Found at i:5769454 original size:35 final size:37
Alignment explanation
Indices: 5769415--5769493 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 37
5769405 GTATTTCATC
*
5769415 TGCATCTCATGTGCAT-A-ATTTTAAGA-AAAGACATT
1 TGCATCTCATGTGCATCACATTTTAAGAGAAA-ACACT
* *
5769450 TGCATTTCATTTGCATCATCATTTTAAGAGAAAACACT
1 TGCATCTCATGTGCATCA-CATTTTAAGAGAAAACACT
5769488 TGCATC
1 TGCATC
5769494 ATAATGGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 14 0.39
36 1 0.03
38 18 0.50
39 3 0.08
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (37 bp):
TGCATCTCATGTGCATCACATTTTAAGAGAAAACACT
Found at i:5769957 original size:42 final size:43
Alignment explanation
Indices: 5769911--5770024 Score: 115
Period size: 48 Copynumber: 2.6 Consensus size: 43
5769901 TCTAAAGTCT
5769911 TTTGCATATTCTCGATGGTGATATCCGAGT-TTAAAATTTGAA
1 TTTGCATATTCTCGATGGTGATATCCGAGTATTAAAATTTGAA
* *
5769953 TTTGCATTTGCATTCTTTCGACGGTGATATCCGAGTATTAAAGTTTGAA
1 TTTGCA--T--ATTC--TCGATGGTGATATCCGAGTATTAAAATTTGAA
* * *
5770002 -TTACATTTTCTCGGTGGTGATAT
1 TTTGCATATTCTCGATGGTGATAT
5770025 TCAAGTTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
42 17 0.29
44 4 0.07
46 5 0.08
48 22 0.37
49 11 0.19
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (43 bp):
TTTGCATATTCTCGATGGTGATATCCGAGTATTAAAATTTGAA
Found at i:5770060 original size:24 final size:24
Alignment explanation
Indices: 5770014--5770060 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5770004 ACATTTTCTC
* *
5770014 GGTGGTGATATTCAAGTTTTTTTA
1 GGTGGTGATATTAAAGTTCTTTTA
5770038 GGTGGTGATATCTAAAG-TCTTTT
1 GGTGGTGATAT-TAAAGTTCTTTT
5770061 GCATCTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (24 bp):
GGTGGTGATATTAAAGTTCTTTTA
Found at i:5770081 original size:147 final size:145
Alignment explanation
Indices: 5769810--5770320 Score: 613
Period size: 147 Copynumber: 3.5 Consensus size: 145
5769800 TTAAAAAAGT
* * * * *
5769810 CATTTACATTCTCTCAATGGGGATATCTGAGTATTAAAGCTTGAATTACATTTTTTCAATGGTGA
1 CATTT-CATTCTTTCGATGGTGATATCCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGA
* * *
5769875 TATTCGAGTTTCCTTCGGTGGTAATATCTAAAGTCTTTTGCATATTCTCGATGGTGATATCCGAG
65 TATTCGAGTTT-CTTTGGTGGTGATATCTAAAGTCTTTTGCATATTCTCGATGGTGATATCTGAG
*
5769940 TTTAAAATTTGAATTTG
129 TTTAAAGTTTGAATTTG
* * * *
5769957 CATTTGCATTCTTTCGACGGTGATATCCGAGTATTAAAGTTTGAATTACATTTTCTCGGTGGTGA
1 CATTT-CATTCTTTCGATGGTGATATCCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGA
* * * *
5770022 TATTCAAGTTTTTTTAGGTGGTGATATCTAAAGTCTTTTGCATCTTCTC-AGTGGAGATATCTGA
65 TATTCGAGTTTCTTT-GGTGGTGATATCTAAAGTCTTTTGCATATTCTCGA-TGGTGATATCTGA
*
5770086 GTGTTAAGGTTTGAA-TTG
128 GT-TTAAAGTTTGAATTTG
* * ** * * *
5770104 CA--TC-TTC-TT-AATGATGATATTTGAATATTAAAGCTTGAATTACATTTTTTTGATAGTGAT
1 CATTTCATTCTTTCGATGGTGATATCCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGAT
* * *
5770164 ATTCGAGTTTCCTTTGGTGGCGATATCTAAAATCTTTTGCATATTCTCGATGGTGATATCTAAGT
66 ATTCGAGTTT-CTTTGGTGGTGATATCTAAAGTCTTTTGCATATTCTCGATGGTGATATCTGAGT
*
5770229 TTAAAGTTTAAATTTG
130 TTAAAGTTTGAATTTG
* * *
5770245 TATTTACATTTTTTCGATGGTGATATCCGAGTATTAAAGCTTGAATTGCATTTTTTCGATGGTGA
1 CATTT-CATTCTTTCGATGGTGATATCCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGA
5770310 TATTCGAGTTT
65 TATTCGAGTTT
5770321 AAAGTTTAAA
Statistics
Matches: 303, Mismatches: 49, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
140 10 0.03
141 96 0.32
142 6 0.02
143 4 0.01
144 2 0.01
145 3 0.01
146 5 0.02
147 167 0.55
148 10 0.03
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (145 bp):
CATTTCATTCTTTCGATGGTGATATCCGAGTATTAAAGCTTGAATTACATTTTTTCGATGGTGAT
ATTCGAGTTTCTTTGGTGGTGATATCTAAAGTCTTTTGCATATTCTCGATGGTGATATCTGAGTT
TAAAGTTTGAATTTG
Found at i:5770298 original size:42 final size:42
Alignment explanation
Indices: 5770251--5770404 Score: 184
Period size: 42 Copynumber: 3.5 Consensus size: 42
5770241 TTTGTATTTA
*
5770251 CATTTTTTCGATGGTGATATCCGAGTATTAAAGCTTGAATTG
1 CATTTTTTCGATGGTGATATTCGAGTATTAAAGCTTGAATTG
* *
5770293 CATTTTTTCGATGGTGATATTCGAGT-TTAAAGTTTAAATTTG
1 CATTTTTTCGATGGTGATATTCGAGTATTAAAGCTTGAA-TTG
* *
5770335 CATTTGCATTCTCTCGACGGTGATATTCGAGTATTAAAGCTTGAATTA
1 CA-TT---TT-T-TCGATGGTGATATTCGAGTATTAAAGCTTGAATTG
*
5770383 CATTTTCTCGATGGTGATATTC
1 CATTTTTTCGATGGTGATATTC
5770405 AAGTTTCCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
41 10 0.11
42 44 0.46
43 2 0.02
44 2 0.02
46 2 0.02
47 3 0.03
48 22 0.23
49 10 0.11
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (42 bp):
CATTTTTTCGATGGTGATATTCGAGTATTAAAGCTTGAATTG
Found at i:5770342 original size:48 final size:47
Alignment explanation
Indices: 5770199--5770410 Score: 171
Period size: 48 Copynumber: 4.7 Consensus size: 47
5770189 TCTAAAATCT
* *
5770199 TTTGCATATTCTCGATGGTGATA-TCTAAGTTTAAAGTTTAAATTTGTA
1 TTTGCATTTTCTCGATGGTGATATTC-GAGTTTAAAGTTTAAATTTG-A
* * * *
5770247 TTTACATTTTTTCGATGGTGATATCCGAG--T--A--TTAAAGCTTGA
1 TTTGCATTTTCTCGATGGTGATATTCGAGTTTAAAGTTTAAA-TTTGA
* *
5770289 ATTGCATTTTTTCGATGGTGATATTCGAGTTTAAAGTTTAAATTTGCA
1 TTTGCATTTTCTCGATGGTGATATTCGAGTTTAAAGTTTAAATTTG-A
* * * *
5770337 TTTGCATTCTCTCGACGGTGATATTCGAGTATTAAAGCTTGAA-TT-A
1 TTTGCATTTTCTCGATGGTGATATTCGAGT-TTAAAGTTTAAATTTGA
*
5770383 ----CATTTTCTCGATGGTGATATTCAAGTTT
1 TTTGCATTTTCTCGATGGTGATATTCGAGTTT
5770411 CCTTCAGTGG
Statistics
Matches: 135, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
41 2 0.01
42 55 0.41
43 3 0.02
44 2 0.01
46 3 0.02
47 3 0.02
48 56 0.41
49 11 0.08
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.44
Consensus pattern (47 bp):
TTTGCATTTTCTCGATGGTGATATTCGAGTTTAAAGTTTAAATTTGA
Found at i:5770357 original size:90 final size:90
Alignment explanation
Indices: 5770200--5770410 Score: 316
Period size: 90 Copynumber: 2.3 Consensus size: 90
5770190 CTAAAATCTT
* * * * *
5770200 TTGCATATTCTCGATGGTGATA-TCTAAGTTTAAAGTTTAAATTTGTATTTACATTTTTTCGATG
1 TTGCATTTTCTCGATGGTGATATTC-AAGTTTAAAGTTTAAATTTGCATTTACATTCTCTCGACG
5770264 GTGATATCCGAGTATTAAAGCTTGAA
65 GTGATATCCGAGTATTAAAGCTTGAA
* * *
5770290 TTGCATTTTTTCGATGGTGATATTCGAGTTTAAAGTTTAAATTTGCATTTGCATTCTCTCGACGG
1 TTGCATTTTCTCGATGGTGATATTCAAGTTTAAAGTTTAAATTTGCATTTACATTCTCTCGACGG
*
5770355 TGATATTCGAGTATTAAAGCTTGAA
66 TGATATCCGAGTATTAAAGCTTGAA
*
5770380 TTACATTTTCTCGATGGTGATATTCAAGTTT
1 TTGCATTTTCTCGATGGTGATATTCAAGTTT
5770411 CCTTCAGTGG
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
90 106 0.98
91 2 0.02
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (90 bp):
TTGCATTTTCTCGATGGTGATATTCAAGTTTAAAGTTTAAATTTGCATTTACATTCTCTCGACGG
TGATATCCGAGTATTAAAGCTTGAA
Found at i:5770383 original size:237 final size:237
Alignment explanation
Indices: 5770118--5770549 Score: 625
Period size: 237 Copynumber: 1.8 Consensus size: 237
5770108 TTCTTAATGA
* * * * **
5770118 TGATATTTGAATATTAAAGCTTGAATTACATTTTTTTGATAGTGATATTCGAGTTTCCTTTGGTG
1 TGATATTCGAATATTAAAGCTTGAATTACATTTTCTCGATAGTGATATTCAAGTTTCCTTCAGTG
* * * * * **
5770183 GCGATATCTAAAATCTTTTGCATATTCTCGATGGTGATATCTAAGTTTAAAGTTTAAATTTGTAT
66 GCAATATCTAAAATATTTTACATATTCTCGACGGTGATATCCAAGTTTAAAGTTTAAATTTACAT
* *
5770248 TTACATTTT-TTCGATGGTG-ATATCCGAGTATTAAAGCTTGAATTGCATTTTTTCGATGGTGAT
131 TTACATTTTCTT-GATGG-GAATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGAT
5770311 ATTCGAGTTTAAAGTTTAAATTTGCATTTGCATTCTCTCGACGG
194 ATTCGAGTTTAAAGTTTAAATTTGCATTTGCATTCTCTCGACGG
* *
5770355 TGATATTCGAGTATTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCAAGTTTCCTTCAGTG
1 TGATATTCGAATATTAAAGCTTGAATTACATTTTCTCGATAGTGATATTCAAGTTTCCTTCAGTG
* * * *
5770420 GCAATATCTGAAGTATTTTACATATTCTCGACGGTGATATCCGAGTTTAAAGTTTGAATTTACAT
66 GCAATATCTAAAATATTTTACATATTCTCGACGGTGATATCCAAGTTTAAAGTTTAAATTTACAT
* *
5770485 TTGCATTTTCTTGGTGGGAATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATAT
131 TTACATTTTCTTGATGGGAATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATAT
5770550 GATAGTTTTC
Statistics
Matches: 170, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
236 1 0.01
237 167 0.98
238 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.43
Consensus pattern (237 bp):
TGATATTCGAATATTAAAGCTTGAATTACATTTTCTCGATAGTGATATTCAAGTTTCCTTCAGTG
GCAATATCTAAAATATTTTACATATTCTCGACGGTGATATCCAAGTTTAAAGTTTAAATTTACAT
TTACATTTTCTTGATGGGAATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATAT
TCGAGTTTAAAGTTTAAATTTGCATTTGCATTCTCTCGACGG
Found at i:5770573 original size:147 final size:147
Alignment explanation
Indices: 5770304--5771351 Score: 1217
Period size: 147 Copynumber: 7.1 Consensus size: 147
5770294 ATTTTTTCGA
* * * *
5770304 TGGTGATATTCGAGTTTAAAGTTTAAATTTGCATTTGCATTCTCTCGACGGTGATATTCGAGTAT
1 TGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCGACGGTGATATCCGAGTAT
* * * *
5770369 TAAAGCTTGAATTACATTTTCTCGATGGTGATATTCA-AGTTTCCTTCAGTGGCAATATCTGAAG
66 TAAAGCTTGAATTGCATTTTCTCGATGGTGATATT-AGAGTTTCCTTCGGTGGCGATATCCGAAG
*
5770433 TATTTTACATATTCTCGA
130 TATTTTACATATTCTCGG
* * * ** *
5770451 CGGTGATATCCGAGTTTAAAGTTTGAATTTACATTTGCATTTTCTTGGTGG-GAATATCCAAGTA
1 TGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCGACGGTG-ATATCCGAGTA
* * * **
5770515 TTAAAGCTTGAATTGCATTTTCTCGATGGTGATATGATAGTTTTCTTCGGTGGTAATATCCGAAG
65 TTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTTCGGTGGCGATATCCGAAG
* * *
5770580 TCTTTTGCATATTTTCGG
130 TATTTTACATATTCTCGG
* * * **
5770598 TGGTGATATTCGAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCGACGGTGATATGTGAGTAT
1 TGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCGACGGTGATATCCGAGTAT
* * * * * *
5770663 TAAAGCTTGAATTGTATTTTCTCTATGGTGATATTCGAATTTCCTTCGATGGCGATATCTGAAGT
66 TAAAGCTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTTCGGTGGCGATATCCGAAGT
*
5770728 CTTTTACATATTCTCGG
131 ATTTTACATATTCTCGG
* * * * * * *
5770745 TGGTGATGTCTGAGTATAAAGTTTGAATTTGCATTTGTATTTTCTCAACGATGATATCTGAGTAT
1 TGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCGACGGTGATATCCGAGTAT
* * * **
5770810 TAAAGCTTGAATTACATTTTTTCGATGGTGATATTCGAGTTTTTTTCGGTGGCGATATCCGAAGT
66 TAAAGCTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTTCGGTGGCGATATCCGAAGT
* *
5770875 CTTTTACATATTCTCGA
131 ATTTTACATATTCTCGG
* * * * * * *
5770892 TGATAATATCCAAGTTTAAAGTTTGAATTTACATTTGTATTTTCTCGAAGGTGATATCCAAGTAT
1 TGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCGACGGTGATATCCGAGTAT
* *
5770957 TAAAACTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTTCGGTAGCGATATCCGAAGT
66 TAAAGCTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTTCGGTGGCGATATCCGAAGT
5771022 CATTTGT--ATATTCTCGG
131 -ATTT-TACATATTCTCGG
* * * ** *
5771039 TAGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTACATTCTCTCGATAGTGATATTTTATCCA
1 TGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCGACGGTG--A---TATCCG
* * * * *
5771104 AGTATTAAAGCTTGAATTACATTTTCTTGATGGTGATATTCGAGTTTCTTTCGGTGGTGATATCC
61 AGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTTCGGTGGCGATATCC
* * *
5771169 AAAATATTTTGCATATTCTCGG
126 GAAGTATTTTACATATTCTCGG
* * * *
5771191 TGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTGCATTTCCTC-AGTGGTGATATTCGAGTA
1 TGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCGA-CGGTGATATCCGAGTA
* * *
5771255 TTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTTGAGTTTCCTTCGGTGACGATATCTGAAG
65 TTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTTCGGTGGCGATATCCGAAG
* * *
5771320 T-TATTTGCATCTTCTTGG
130 TAT-TTTACATATTCTCGG
5771338 TGGTGATATCCGAG
1 TGGTGATATCCGAG
5771352 ATTATTTATC
Statistics
Matches: 765, Mismatches: 122, Indels: 28
0.84 0.13 0.03
Matches are distributed among these distances:
146 3 0.00
147 627 0.82
148 4 0.01
149 2 0.00
150 2 0.00
151 5 0.01
152 122 0.16
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (147 bp):
TGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCGACGGTGATATCCGAGTAT
TAAAGCTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTTCGGTGGCGATATCCGAAGT
ATTTTACATATTCTCGG
Found at i:5770693 original size:384 final size:378
Alignment explanation
Indices: 5769912--5770700 Score: 933
Period size: 384 Copynumber: 2.1 Consensus size: 378
5769902 CTAAAGTCTT
* * * *
5769912 TTGCATATTCTCGATGGTGATATCCGAGTTTAAAATTTGAATTTGCATTTGCATTCTTTCGACGG
1 TTGCATTTTCTCGATGGTGATATTCGAGTTTAAAATTTAAATTTGCATTTGCATTCTCTCGACGG
* * * *
5769977 TGATATCCGAGTATTAAAGTTTGAATTACATTTTCTCGGTGGTGATATTCAAGTTTTTTTAGGTG
66 TGATATCCGAGTATTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCAAGTTTCTTCAGGTG
** * * * * * *
5770042 GTGATATCTAAAGTCTTTTGCATCTTCTCAGTGGAGATATCTGAGTGTTAAGGTTTGAATTGCAT
131 GCAATATCTAAAGTATTTTACATATTCTCAGCGGAGATATCCGAGTGTTAAAGTTTGAATTGCAT
* ** * * **
5770107 CTTCTTAATGATGATATTTGAATATTAAAGCTTGAATTACATTTTTTTGATAGTGATATTCGAGT
196 CTTCTTAATGAGGATATTCCAATATTAAAGCTTGAATTACATTTTCTCGATAGTGATATGAGAGT
* * *
5770172 TTCCTTTGGTGGCGATATCTAAAATCTTTTGCATATTCTCGATGGTGATATCTAAGTTTAAAGTT
261 TTCCTTCGGTGGCAATATCCAAAATCTTTTGCATATTCTCGATGGTGATATCTAAGTTTAAAGTT
** * * *
5770237 TAAATTTGTATTTACATTTTTTCGATGGTGATATCCGAGTATTAAAGCTTGAA
326 TAAATTTACATTTACATTCTCTCGACGGTGATATCCGAGTATTAAAGCTTGAA
* *
5770290 TTGCATTTTTTCGATGGTGATATTCGAGTTTAAAGTTTAAATTTGCATTTGCATTCTCTCGACGG
1 TTGCATTTTCTCGATGGTGATATTCGAGTTTAAAATTTAAATTTGCATTTGCATTCTCTCGACGG
*
5770355 TGATATTCGAGTATTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCAAGTTTCCTTCA-GT
66 TGATATCCGAGTATTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCAAGTTT-CTTCAGGT
* *
5770419 GGCAATATCTGAAGTATTTTACATATTCTC-GACGGTGATATCCGAGT-TTAAAGTTTGAATTTA
130 GGCAATATCTAAAGTATTTTACATATTCTCAG-CGGAGATATCCGAGTGTTAAAGTTTG-----A
* ** * *
5770482 CATTTGCATTTTCTTGGTG-GGA-ATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATGGT
189 -A-TTGCATCTTCTTAATGAGGATAT-TCCAA-TATTAAAGCTTGAATTACATTTTCTCGATAGT
* * * * * * *
5770545 GATATGATAGTTTTCTTCGGTGGTAATATCCGAAGTCTTTTGCATATTTTCGGTGGTGATAT-TC
250 GATATGAGAGTTTCCTTCGGTGGCAATATCCAAAATCTTTTGCATATTCTCGATGGTGATATCT-
* * * **
5770609 GAGTTTAAAGTTTGAATTTACATTTGCATTCTCTCGACGGTGATATGTGAGTATTAAAGCTTGAA
314 AAGTTTAAAGTTTAAATTTACATTTACATTCTCTCGACGGTGATATCCGAGTATTAAAGCTTGAA
* *
5770674 TTGTATTTTCTCTATGGTGATATTCGA
1 TTGCATTTTCTCGATGGTGATATTCGA
5770701 ATTTCCTTCG
Statistics
Matches: 343, Mismatches: 56, Indels: 18
0.82 0.13 0.04
Matches are distributed among these distances:
377 10 0.03
378 150 0.44
379 3 0.01
382 3 0.01
383 7 0.02
384 170 0.50
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (378 bp):
TTGCATTTTCTCGATGGTGATATTCGAGTTTAAAATTTAAATTTGCATTTGCATTCTCTCGACGG
TGATATCCGAGTATTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCAAGTTTCTTCAGGTG
GCAATATCTAAAGTATTTTACATATTCTCAGCGGAGATATCCGAGTGTTAAAGTTTGAATTGCAT
CTTCTTAATGAGGATATTCCAATATTAAAGCTTGAATTACATTTTCTCGATAGTGATATGAGAGT
TTCCTTCGGTGGCAATATCCAAAATCTTTTGCATATTCTCGATGGTGATATCTAAGTTTAAAGTT
TAAATTTACATTTACATTCTCTCGACGGTGATATCCGAGTATTAAAGCTTGAA
Found at i:5770879 original size:25 final size:24
Alignment explanation
Indices: 5770827--5770879 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
5770817 TGAATTACAT
* * *
5770827 TTTTTCGATGGTGATATTCGAGTT
1 TTTTTCGATGGCGATATCCGAGTC
*
5770851 TTTTTCGGTGGCGATATCCGAAGTC
1 TTTTTCGATGGCGATATCCG-AGTC
5770876 TTTT
1 TTTT
5770880 ACATATTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.15, C:0.13, G:0.25, T:0.47
Consensus pattern (24 bp):
TTTTTCGATGGCGATATCCGAGTC
Found at i:5770981 original size:441 final size:443
Alignment explanation
Indices: 5770304--5771325 Score: 1408
Period size: 441 Copynumber: 2.3 Consensus size: 443
5770294 ATTTTTTCGA
* * *
5770304 TGGTGATAT-TCGAGTTTAAAGTTTAAATTTGCATTTGCATTCTCTCGACGGTGATATTCGAGTA
1 TGGTGATATCT-GAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCAACGGTGATATTCGAGTA
* * *
5770368 TTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCAAGTTTCCTTCAGTGGCAATATCTGAAG
65 TTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGCGATATCTGAAG
* * * *
5770433 TATTTTACATATTCTCGACGGTGATATCCGAGTTTAAAGTTTGAATTTACATTTGCATTTTCTTG
130 TATTTTACATATTCTCGACGATAATATCCAAGTTTAAAGTTTGAATTTACATTTGCATTTTCTCG
** * * *
5770498 GTGGGAATATCCAAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATATGATAGTTTTCTTC
195 AAGGGAATATCCAAGTATTAAAACTTGAATTGCATTTTCTCGATGGTGATATGAGAGTTTCCTTC
* * * * * *
5770563 GGTGGTAATATCCGAAGTCTTTTGCATATTTTCGGTGGTGATATTCGAGTTTAAAGTTTGAATTT
260 GGTAGCAATATCCGAAGTCATTTGCATATTCTCGGTAGTGATATCCGAGTTTAAAGTTTGAATTT
* * * * **
5770628 ACATTTGCATTCTCTCGACGGTGATA-TGT-GAGTATTAAAGCTTGAATTGTATTTTCTCT-ATG
325 ACATTTACATTCTCTCGACAGTGATATTATCAAGTATTAAAGCTTGAATTACATTTTCT-TGATG
** * *
5770690 GTGATATTCGAATTTCCTTCGATGGCGATATCTGAAGTCTTTTACATATTCTCGG
389 GTGATATTCGAATTTCCTTCGATGGCGATATCCAAAATATTTTACATATTCTCGG
* * * *
5770745 TGGTGATGTCTGAGTATAAAGTTTGAATTTGCATTTGTATTTTCTCAACGATGATA-TCTGAGTA
1 TGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCAACGGTGATATTC-GAGTA
* ** *
5770809 TTAAAGCTTGAATTACATTTTTTCGATGGTGATATTCGAGTTTTTTTCGGTGGCGATATCCGAAG
65 TTAAAGCTTGAATTACATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGCGATATCTGAAG
* * *
5770874 TCTTTTACATATTCTCGATGATAATATCCAAGTTTAAAGTTTGAATTTACATTTGTATTTTCTCG
130 TATTTTACATATTCTCGACGATAATATCCAAGTTTAAAGTTTGAATTTACATTTGCATTTTCTCG
*
5770939 AAGGTG-ATATCCAAGTATTAAAACTTGAATTGCATTTTCTCGATGGTGATATTAGAGTTTCCTT
195 AAGG-GAATATCCAAGTATTAAAACTTGAATTGCATTTTCTCGATGGTGATATGAGAGTTTCCTT
* *
5771003 CGGTAGCGATATCCGAAGTCATTTGTATATTCTCGGTAGTGATATCCGAGTTTAAAGTTTGAATT
259 CGGTAGCAATATCCGAAGTCATTTGCATATTCTCGGTAGTGATATCCGAGTTTAAAGTTTGAATT
* *
5771068 TGCATTTACATTCTCTCGATAGTGATATTTTATCCAAGTATTAAAGCTTGAATTACATTTTCTTG
324 TACATTTACATTCTCTCGACAGTGATA--TTAT-CAAGTATTAAAGCTTGAATTACATTTTCTTG
* * * * *
5771133 ATGGTGATATTCGAGTTTCTTTCGGTGGTGATATCCAAAATATTTTGCATATTCTCGG
386 ATGGTGATATTCGAATTTCCTTCGATGGCGATATCCAAAATATTTTACATATTCTCGG
* **
5771191 TGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTGCATTTCCTCAGTGGTGATATTCGAGTAT
1 TGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCAACGGTGATATTCGAGTAT
* * *
5771256 TAAAGCTTGAATTGCATTTTCTCGATGGTGATATTTGAGTTTCCTTCGGTGACGATATCTGAAGT
66 TAAAGCTTGAATTACATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGCGATATCTGAAG-
5771321 TATTT
130 TATTT
5771326 GCATCTTCTT
Statistics
Matches: 503, Mismatches: 67, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
440 2 0.00
441 304 0.60
442 2 0.00
444 2 0.00
445 1 0.00
446 186 0.37
447 6 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (443 bp):
TGGTGATATCTGAGTTTAAAGTTTGAATTTGCATTTGCATTTTCTCAACGGTGATATTCGAGTAT
TAAAGCTTGAATTACATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGCGATATCTGAAGT
ATTTTACATATTCTCGACGATAATATCCAAGTTTAAAGTTTGAATTTACATTTGCATTTTCTCGA
AGGGAATATCCAAGTATTAAAACTTGAATTGCATTTTCTCGATGGTGATATGAGAGTTTCCTTCG
GTAGCAATATCCGAAGTCATTTGCATATTCTCGGTAGTGATATCCGAGTTTAAAGTTTGAATTTA
CATTTACATTCTCTCGACAGTGATATTATCAAGTATTAAAGCTTGAATTACATTTTCTTGATGGT
GATATTCGAATTTCCTTCGATGGCGATATCCAAAATATTTTACATATTCTCGG
Found at i:5771222 original size:42 final size:41
Alignment explanation
Indices: 5771176--5771297 Score: 111
Period size: 48 Copynumber: 2.8 Consensus size: 41
5771166 TCCAAAATAT
*
5771176 TTTGCATATTCTCGGTGGTGATATCTGAGTTTAAAGTTTGAA
1 TTTGCATATTCTCGGTGGTGATAT-TGAGTTTAAAGCTTGAA
*
5771218 TTTGCATTTGCATTTCCTCAGTGGTGATATTCGAGTATTAAAGCTTGAA
1 TTTGCA--T--A-TT-CTCGGTGGTGATATT-GAGT-TTAAAGCTTGAA
* *
5771267 -TTGCATTTTCTCGATGGTGATATTTGAGTTT
1 TTTGCATATTCTCGGTGGTGATA-TTGAGTTT
5771298 CCTTCGGTGA
Statistics
Matches: 66, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
41 2 0.03
42 21 0.32
43 4 0.06
44 1 0.02
46 2 0.03
47 3 0.05
48 22 0.33
49 11 0.17
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (41 bp):
TTTGCATATTCTCGGTGGTGATATTGAGTTTAAAGCTTGAA
Found at i:5771247 original size:48 final size:48
Alignment explanation
Indices: 5771176--5771274 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
5771166 TCCAAAATAT
* *
5771176 TTTGCATATTCTCGGTGGTGATA-TCTGAGT-TTAAAGTTTGAATTTGCA
1 TTTGCATATTCTCAGTGGTGATATTC-GAGTATTAAAGCTTGAA-TTGCA
5771224 TTTGCAT-TTCCTCAGTGGTGATATTCGAGTATTAAAGCTTGAATTGCA
1 TTTGCATATT-CTCAGTGGTGATATTCGAGTATTAAAGCTTGAATTGCA
5771272 TTT
1 TTT
5771275 TCTCGATGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
47 2 0.04
48 31 0.67
49 13 0.28
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.43
Consensus pattern (48 bp):
TTTGCATATTCTCAGTGGTGATATTCGAGTATTAAAGCTTGAATTGCA
Found at i:5771628 original size:100 final size:95
Alignment explanation
Indices: 5771397--5771861 Score: 395
Period size: 100 Copynumber: 4.8 Consensus size: 95
5771387 TTTTTAATGG
* * * * * * * * *
5771397 ATTTTTAAAGTTGTTAACCCTCTACTAAGGGGAGCCTTTTTCAAGATGAGAATTTTAAAGTCATT
1 ATTTTTAAAGTCGTTGAGCCTTTGCTAAGAGGAG-CTTTTT-AAAATGA-ATTTTTAAAGTTATT
* * * * * *
5771462 AAGCTTTTGCTGAGATGAGCTTTTTTACA-ATAA
63 GAGCCTCTGCTGAGAGGAGCCTTTTTA-AGATGA
*
5771495 ATTTTTAAAGTCGTTGAG-CTTCTGTTGAA-AGGAGCTTTTTAAAATGAATTTTTAAAGTTATTG
1 ATTTTTAAAGTCGTTGAGCCTT-TGCT-AAGAGGAGCTTTTTAAAATGAATTTTTAAAGTTATTG
* *
5771558 AGCATCTGCTGAGGGGAGCCTTTTTCAAGATGA
64 AGCCTCTGCTGAGAGGAGCCTTTTT-AAGATGA
* * *
5771591 GACTTTTTTTAAAGTCGTTGAGCCTCTGCTAAGAGGAGCTTTTTAGAATAAATTTTTAAAGTTAT
1 -A---TTTTTAAAGTCGTTGAGCCTTTGCTAAGAGGAGCTTTTTAAAATGAATTTTTAAAGTTAT
* *
5771656 TGAGCCTCTGCTGATAGGAGCC-TTTTAAAATGA
62 TGAGCCTCTGCTGAGAGGAGCCTTTTTAAGATGA
* * * * * *
5771689 ATTTTTAAAGTTGTTGAACCTTTGCTGAGGGGAGCTTTTTTCAAGATGAGACTTTCTTTAAAGTC
1 ATTTTTAAAGTCGTTGAGCCTTTGCTAAGAGGAGC-TTTTT-AAAATGA-A--TT-TTTAAAGTT
*
5771754 ATTGAGCCTCTACTGAGAGGAG-CTTTTT-AGAATGA
60 ATTGAGCCTCTGCTGAGAGGAGCCTTTTTAAG-ATGA
* * * * *
5771789 ATTTTTAAAGTCATTGAGCCTTTGCTGAA-ATGAGCTTTTTAAAATTAATTTTTAAAGTTGTTAA
1 ATTTTTAAAGTCGTTGAGCCTTTGCT-AAGAGGAGCTTTTTAAAATGAATTTTTAAAGTTATTGA
5771853 GCCTCTGCT
65 GCCTCTGCT
5771862 AAGATGGGCC
Statistics
Matches: 299, Mismatches: 49, Indels: 42
0.77 0.13 0.11
Matches are distributed among these distances:
94 48 0.16
95 41 0.14
96 14 0.05
97 12 0.04
98 32 0.11
99 17 0.06
100 132 0.44
101 3 0.01
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (95 bp):
ATTTTTAAAGTCGTTGAGCCTTTGCTAAGAGGAGCTTTTTAAAATGAATTTTTAAAGTTATTGAG
CCTCTGCTGAGAGGAGCCTTTTTAAGATGA
Found at i:5771682 original size:147 final size:147
Alignment explanation
Indices: 5771392--5771950 Score: 651
Period size: 147 Copynumber: 3.8 Consensus size: 147
5771382 GTTATTTTTT
* * * *
5771392 AATGGATTTTTAAAGTTGTTAACCCTCTACTAAGGGGAGCCTTTTTCAAGATGAGA--AT-TTTA
1 AATGAATTTTTAAAGTTGTTAAGCCTCTGCTAAGGGGAGCCTTTTTCAAGATGAGACTTTCTTTA
* * * * * * *
5771454 AAGTCATTAAGCTTTTGCTGAGATGAGCTTTTTTACAATAAATTTTTAAAGTCGTTGAGCTTCTG
66 AAGTCATTGAGCCTCTGCTGAGAGGAGC-TTTTTAGAATAAATTTTTAAAGTCATTGAGCCTCTG
*
5771519 TTGAAAGGAGCTTTTTAA
130 CTGAAAGGAGCTTTTTAA
* * * * *
5771537 AATGAATTTTTAAAGTTATTGAGCATCTGCTGAGGGGAGCCTTTTTCAAGATGAGACTTTTTTTA
1 AATGAATTTTTAAAGTTGTTAAGCCTCTGCTAAGGGGAGCCTTTTTCAAGATGAGACTTTCTTTA
* * *
5771602 AAGTCGTTGAGCCTCTGCTAAGAGGAGCTTTTTAGAATAAATTTTTAAAGTTATTGAGCCTCTGC
66 AAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAGAATAAATTTTTAAAGTCATTGAGCCTCTGC
* *
5771667 TGATAGGAGCCTTTTAA
131 TGAAAGGAGCTTTTTAA
* * *
5771684 AATGAATTTTTAAAGTTGTTGAA-CCTTTGCTGAGGGGAGCTTTTTTCAAGATGAGACTTTCTTT
1 AATGAATTTTTAAAGTTGTT-AAGCCTCTGCTAAGGGGAGCCTTTTTCAAGATGAGACTTTCTTT
* * *
5771748 AAAGTCATTGAGCCTCTACTGAGAGGAGCTTTTTAGAATGAATTTTTAAAGTCATTGAGCCTTTG
65 AAAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAGAATAAATTTTTAAAGTCATTGAGCCTCTG
*
5771813 CTGAAATGAGCTTTTTAA
130 CTGAAAGGAGCTTTTTAA
* * * * *
5771831 AATTAATTTTTAAAGTTGTTAAGCCTCTGCTAAGATGG-GCCTTCTTCAATATGAAACTTTCTTT
1 AATGAATTTTTAAAGTTGTTAAGCCTCTGCTAAG-GGGAGCCTTTTTCAAGATGAGACTTTCTTT
* * * * ** *
5771895 AAAATTAATGAGCCTTTGCTGAGAAAAGCTTTGTTTAAAATGAGAATTTTTAAAGT
65 AAAGTCATTGAGCCTCTGCTGAGAGGAGC-TT-TTTAGAAT-A-AATTTTTAAAGT
5771951 TGCTAAGCCT
Statistics
Matches: 351, Mismatches: 53, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
145 49 0.14
146 2 0.01
147 250 0.71
148 31 0.09
149 7 0.02
151 12 0.03
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (147 bp):
AATGAATTTTTAAAGTTGTTAAGCCTCTGCTAAGGGGAGCCTTTTTCAAGATGAGACTTTCTTTA
AAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAGAATAAATTTTTAAAGTCATTGAGCCTCTGC
TGAAAGGAGCTTTTTAA
Found at i:5771856 original size:47 final size:47
Alignment explanation
Indices: 5771449--5771861 Score: 385
Period size: 47 Copynumber: 8.5 Consensus size: 47
5771439 AAGATGAGAA
* * * * * *
5771449 TTTTAAAGTCATTAAGCTTTTGCTGAGATGAGCTTTTTTACAATAAAT
1 TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGC-TTTTTAAAATGAAT
* * * *
5771497 TTTTAAAGTCGTTGAGCTTCTGTTGAAAGGAGCTTTTTAAAATGAAT
1 TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAAAATGAAT
* * * *
5771544 TTTTAAAGTTATTGAGCATCTGCTGAGGGGAGCCTTTTTCAAGATGAGACTTT
1 TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAG-CTTTTT-AAAATGA-A---T
* * * *
5771597 TTTTAAAGTCGTTGAGCCTCTGCTAAGAGGAGCTTTTTAGAATAAAT
1 TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAAAATGAAT
* * *
5771644 TTTTAAAGTTATTGAGCCTCTGCTGATAGGAGCCTTTTAAAATGAAT
1 TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAAAATGAAT
** * * * *
5771691 TTTTAAAGTTGTTGAACCTTTGCTGAGGGGAGCTTTTTTCAAGATGAGACTT
1 TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGC-TTTTT-AAAATGA-A--T
* *
5771743 TCTTTAAAGTCATTGAGCCTCTACTGAGAGGAGCTTTTTAGAATGAAT
1 T-TTTAAAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAAAATGAAT
* * * *
5771791 TTTTAAAGTCATTGAGCCTTTGCTGAAATGAGCTTTTTAAAATTAAT
1 TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAAAATGAAT
** *
5771838 TTTTAAAGTTGTTAAGCCTCTGCT
1 TTTTAAAGTCATTGAGCCTCTGCT
5771862 AAGATGGGCC
Statistics
Matches: 298, Mismatches: 55, Indels: 25
0.79 0.15 0.07
Matches are distributed among these distances:
47 167 0.56
48 39 0.13
49 12 0.04
50 4 0.01
51 9 0.03
52 13 0.04
53 54 0.18
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (47 bp):
TTTTAAAGTCATTGAGCCTCTGCTGAGAGGAGCTTTTTAAAATGAAT
Found at i:5772608 original size:12 final size:12
Alignment explanation
Indices: 5772583--5772646 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 12
5772573 AAATAAAAAA
5772583 AACAAAAAAA--
1 AACAAAAAAATC
*
5772593 AACAACAAAATC
1 AACAAAAAAATC
5772605 AACAAAAAAAT-
1 AACAAAAAAATC
**
5772616 -TGAAAAAAA--
1 AACAAAAAAATC
*
5772625 AACAATAAAATC
1 AACAAAAAAATC
5772637 AACAAAAAAA
1 AACAAAAAAA
5772647 CACAGTCATC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
10 22 0.54
12 19 0.46
ACGTcount: A:0.78, C:0.12, G:0.02, T:0.08
Consensus pattern (12 bp):
AACAAAAAAATC
Found at i:5772622 original size:32 final size:32
Alignment explanation
Indices: 5772586--5772646 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
5772576 TAAAAAAAAC
5772586 AAAAAAAAACAACAAAATCAACAAAAAAATTG
1 AAAAAAAAACAACAAAATCAACAAAAAAATTG
*
5772618 AAAAAAAAACAATAAAATCAACAAAAAAA
1 AAAAAAAAACAACAAAATCAACAAAAAAA
5772647 CACAGTCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.79, C:0.11, G:0.02, T:0.08
Consensus pattern (32 bp):
AAAAAAAAACAACAAAATCAACAAAAAAATTG
Found at i:5772646 original size:20 final size:20
Alignment explanation
Indices: 5772578--5772648 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
5772568 AGCAAAAATA
*
5772578 AAAAAAACAAAAAAAAACAAC
1 AAAAAAAC-AAAAAAATCAAC
* *
5772599 AAAATCAACAAAAAAATTGAA-
1 AAAA-AAACAAAAAAA-TCAAC
*
5772620 AAAAAAACAATAAAATCAAC
1 AAAAAAACAAAAAAATCAAC
5772640 AAAAAAACA
1 AAAAAAACA
5772649 CAGTCATCGT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.07
20 18 0.44
21 15 0.37
22 5 0.12
ACGTcount: A:0.79, C:0.13, G:0.01, T:0.07
Consensus pattern (20 bp):
AAAAAAACAAAAAAATCAAC
Found at i:5774329 original size:10 final size:10
Alignment explanation
Indices: 5774314--5774350 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
5774304 AAAATTATCT
5774314 TTTTAATTAA
1 TTTTAATTAA
5774324 TTTTAATTAA
1 TTTTAATTAA
5774334 TTTTAA--AA
1 TTTTAATTAA
5774342 TTTT-ATTAA
1 TTTTAATTAA
5774351 AAGGATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 1 0.04
8 6 0.24
9 2 0.08
10 16 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTAATTAA
Found at i:5783523 original size:879 final size:873
Alignment explanation
Indices: 5781581--5783850 Score: 2658
Period size: 878 Copynumber: 2.6 Consensus size: 873
5781571 GGGCTAACCC
* * * *
5781581 TGTTAAATATTGACTCAAATTTTAATTGAAAATTAGTTTG-ATTTTCAGTAAAATTTTATTAGTT
1 TGTTAGATATTGACTCAAATTCTAATTGAGAATCAGTTTGAATTTT-AGTAAAATTTTATTAGTT
* *
5781645 AAAGAATTACTTTGATAATTAAGTTTATTTAAGCATAAATATTCTTAATAGGTAAGAG---TTAG
65 AAAGAATTA-TTTGATAATTAAGTTTATTTAAGGATAAATATTCTTAATGGGTAAGAGTTCTTAG
* * * * *
5781707 TAATAGGAATTCTTTGTGATAAAGCAATGGAGCTTTATAAACATAGAGTAAGTATTAACTTTTAG
129 TAATAGGAATTCTTGGTGATAAAGTAATTGAGCTTTATAAATATAGAGTAAGTATTAACTTTTAA
* * * *
5781772 ACTTATAAGAAAAAGTTATGAGATCTT-TATATGAAAGAT-GGTTTGTTGGGATGTGAAAAAAAG
194 AATTATGAGAAAAAGTTATGAGAT-TTCTATATGAAAGATAGGTTTGTAGGGATGTGAAAAAAAA
* * * * * **
5781835 TTTGTTTGAGAAAACACCAATTGTATAGGATCAAGGATATTTTATAGGTTATACACT-AGAGAGT
258 TTTGTTTG-GAAAACATCAGTTGTATGGGATAAAAGATATTCCATAGGTTATACACTAAG-GAGT
* * * * *
5781899 ATGGAAACTAAAATTGTTTCAGAGGCTCGAGATTAGTGCTTATGTATAGTATTTTGTACTTTTTA
321 ATGGAAACTAAGATTGTTTCAGAGGTTTGAGATTAGTGCTTGTTTATAGTATTTTGTACTTTTTA
* * * * * * *
5781964 TAATCTCCACATTTATAATAAATTTTCTCT-TTCATTCGTGGATGTAGGCAATTTGGTTGAATCA
386 TAATCTCTACATTTATAGTAGATTTTCTCTCTT-ATTCGTGGATGAAGACAATTAGGTTGAACCA
* * * *
5782028 CATTAAATATTGTCTTTTGCATGTGATTTATTTTGTGTTGATCTTAGTGTGGAATTTGTTTCTAC
450 CATTAAATATTGTCTTTTGCGTGTGATTTATTTTGTGTTGATCTTATTGTGAAATTTGTTTCT-G
*** * * * *
5782093 TTTAAAAAAATTTCAACAAGCGGTATCAGAGCTAGGTCGTTAACATCTCTTCATGAACCAGGTAT
514 TTTAAAAAAAACCCAACAAGCGGTATCAGACCTAGGTCGCTAACATCTCCTCATGAACCAGATAT
* * *
5782158 AAAAGCTTTCCTTATTGCCCGATATATGAAAGGGAGAGATTATTGAAGTTATCCTACATTGATTG
579 AAAAGCTTTCCTTATGGCCCAATATATGAAAGGGAGAGATTATTGAAGTTATCCTACATTAATTG
* ** * * ** * * *
5782223 TAAAAGGGGATTTTTTGTTGTAAATTGTATTCGTGAGATCAAAGACATGTAAGAAAAGATATTGC
644 GAAAA-GGGATTTGCTATTATAAATTGTATTCGTGAGATCAAAGACATACAAGAAAAAATACTAC
* * ** *
5782288 AAGAAGGTGTTAGTTGCAGGTGAAATCAATTGGATGAAGTTGATTTTGCTACACATGAGTATTAA
708 AACAAAGCATTAGTTGCAGGTGAAATCAATTGGATGAAGTTGATTTGGCTACACATGAGTATTAA
* * * **
5782353 CCATTTATGTGAATCAGGTAGAGTCAGTACTGATTCAACTATGTGTAGTCAAGATTTCTTGAAGG
773 CCACTTATGTAAATCAAGTAGAGTCAACACTGATTCAAC-ATGTGTAGTCAAGATTTCTTGAAGG
* ** * *
5782418 TTAATGTGATGGTAAAATTTGTGTCAAAGTGAAAATT
837 TCAACATGATGGTAAAATTTATGTCAAAGTAAAAATT
* * * ** *
5782455 TATTAGATATTAACTTAAATTCTAATTG-GAAATCTA-TTTGAATTCCAGTAAAATTCTATTAGT
1 TGTTAGATATTGACTCAAATTCTAATTGAG-AATC-AGTTTGAATTTTAGTAAAATTTTATTAGT
* * * *
5782518 TAAATAATTATTTGACAATTAAGTTTATTTAAAGATAAATATTCTTAATGAGTAAGAGTTCTTAG
64 TAAAGAATTATTTGATAATTAAGTTTATTTAAGGATAAATATTCTTAATGGGTAAGAGTTCTTAG
* * * *
5782583 TAAATAAGAATTCTTGGTAATCAAGTAA-TGAAGCGTTATAAATATAGAGTAAGTATTAACTTTT
129 T-AATAGGAATTCTTGGTGATAAAGTAATTG-AGCTTTATAAATATAGAGTAAGTATTAACTTTT
* * *
5782647 AAAATTGTGAGAAAGAGTTATGAGATTTCTATATGAAAGATAGGTTTGTAAGGATGTGAAAAAAA
192 AAAATTATGAGAAAAAGTTATGAGATTTCTATATGAAAGATAGGTTTGTAGGGATGTGAAAAAAA
*
5782712 ATTTATTTAGGAAAACATCAGTTGTATGGGATAAAAGATATTCCATAGGTTATACACTAAGGAGT
257 ATTTGTTT-GGAAAACATCAGTTGTATGGGATAAAAGATATTCCATAGGTTATACACTAAGGAGT
*
5782777 ATGGAAACTAAGATTGTTTCAGAGGTTTGAGATTAGTACTTGTTTAT-GATATTTTGTACTTTTT
321 ATGGAAACTAAGATTGTTTCAGAGGTTTGAGATTAGTGCTTGTTTATAG-TATTTTGTACTTTTT
* * * ** * *
5782841 ATAATCTCTACATTTATAGTAGATTTTTTCTCTTATCCATGGATGAAGTTAATTAAGCTGAACCA
385 ATAATCTCTACATTTATAGTAGATTTTCTCTCTTATTCGTGGATGAAGACAATTAGGTTGAACCA
* * * * * * *
5782906 CGTTAAATATTGTCTCTTACGTGTAATTTATTTTGTTTTGATTTTATTGTGAAATTTATTTCTGT
450 CATTAAATATTGTCTTTTGCGTGTGATTTATTTTGTGTTGATCTTATTGTGAAATTTGTTTCTGT
* * * * *
5782971 TTAAAAAAAAAAACCCAATAAGTGGTATCA-ACCCTAGGTTGCTAACATCTCCTCATGAGCCATA
515 TT---AAAAAAAACCCAACAAGCGGTATCAGA-CCTAGGTCGCTAACATCTCCTCATGAACCAGA
* ** * * * *
5783035 TATAGAAGCTTTCTCTTATGGCTTAATGTGTGAAAGGGATAGATTATTGAGGTTAT-CTCACATT
576 TATAAAAGCTTTC-CTTATGGCCCAATATATGAAAGGGAGAGATTATTGAAGTTATCCT-ACATT
* * * * ** *
5783099 AATTATGGAAAA-GGATTTGCTATTATAGATTTTGTTTGTGAGATTGAAGAGATACAA-AAGAAA
639 AA-T-TGGAAAAGGGATTTGCTATTATAAATTGTATTCGTGAGATCAAAGACATACAAGAA-AAA
* * * * *
5783162 ATGCTACAACAAAGCATTAGTTGTAGGTGAAGTCAATTGGATGAAGTTGATTTGGCTGCACATGG
701 ATACTACAACAAAGCATTAGTTGCAGGTGAAATCAATTGGATGAAGTTGATTTGGCTACACATGA
* ** *
5783227 GTATTAACCACTTATGTAAATCAAGTGGAGTCAACACTGATTCAAC-TGTGTAGTCGGGGTTTCT
766 GTATTAACCACTTATGTAAATCAAGTAGAGTCAACACTGATTCAACATGTGTAGTCAAGATTTCT
*
5783291 TGAAGGTCAACATGATGGTAGAATTTATGTC-AAGATAAAAATT
831 TGAAGGTCAACATGATGGTAAAATTTATGTCAAAG-TAAAAATT
*
5783334 TGTTAGATATTGACTCAAATTCTAATTGAGAATCAGTTTGAATTTTAGTGAAATTTTATTAGTTA
1 TGTTAGATATTGACTCAAATTCTAATTGAGAATCAGTTTGAATTTTAGTAAAATTTTATTAGTTA
*
5783399 AAGAATTAGTT-AGTAATTAAGTTTATTTAAGGATAAAATATTCTTAATGGGTAAGAGTTCTTAG
66 AAGAATTATTTGA-TAATTAAGTTTATTTAAGGAT-AAATATTCTTAATGGGTAAGAGTTCTTAG
* * *
5783463 TAATAGGAATTCTTGGTGATAAAATAATTGAGTTTTATAAATATAGAGTAGGTATTAACTTTTAA
129 TAATAGGAATTCTTGGTGATAAAGTAATTGAGCTTTATAAATATAGAGTAAGTATTAACTTTTAA
* * ** *
5783528 AATTATGA-AAGAAAGTTATGAGATCTCTATATGAAAAATAGGTTTGTAGGGATGTGAAAAGGAC
194 AATTATGAGAA-AAAGTTATGAGATTTCTATATGAAAGATAGGTTTGTAGGGATGTGAAAAAAAA
* * **
5783592 TTTGTTTGGGAAACATC-GATTGTATGGGATAAAAGATATTCCATAGGTTATACACTAGGGAACA
258 TTTGTTTGGAAAACATCAG-TTGTATGGGATAAAAGATATTCCATAGGTTATACACTAAGGAGTA
* * * * * * *
5783656 TGAAAACTAAGATTATTTCAGGGGTTTGAGATTAGTGTTTGTTTATAGTGTTTTGTACTATTTGT
322 TGGAAACTAAGATTGTTTCAGAGGTTTGAGATTAGTGCTTGTTTATAGTATTTTGTACTTTTTAT
* * *
5783721 AATCTCTACATTTATAGTAGATTTTCTCTCTCATTTGTAGATGTAA-ACAATTAGGTTGAACCAC
387 AATCTCTACATTTATAGTAGATTTTCTCTCTTATTCGTGGATG-AAGACAATTAGGTTGAACCAC
* * *
5783785 ATTAAATATTGTCTTTTGTGTGTGATTTATTTTGTGTTGATCTCATTGTGAAATTTGTTTATGTT
451 ATTAAATATTGTCTTTTGCGTGTGATTTATTTTGTGTTGATCTTATTGTGAAATTTGTTTCTGTT
5783850 T
516 T
5783851 TTAAAAAATT
Statistics
Matches: 1169, Mismatches: 194, Indels: 62
0.82 0.14 0.04
Matches are distributed among these distances:
873 43 0.04
874 55 0.05
875 4 0.00
876 8 0.01
877 90 0.08
878 450 0.38
879 252 0.22
880 93 0.08
881 167 0.14
882 1 0.00
883 6 0.01
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (873 bp):
TGTTAGATATTGACTCAAATTCTAATTGAGAATCAGTTTGAATTTTAGTAAAATTTTATTAGTTA
AAGAATTATTTGATAATTAAGTTTATTTAAGGATAAATATTCTTAATGGGTAAGAGTTCTTAGTA
ATAGGAATTCTTGGTGATAAAGTAATTGAGCTTTATAAATATAGAGTAAGTATTAACTTTTAAAA
TTATGAGAAAAAGTTATGAGATTTCTATATGAAAGATAGGTTTGTAGGGATGTGAAAAAAAATTT
GTTTGGAAAACATCAGTTGTATGGGATAAAAGATATTCCATAGGTTATACACTAAGGAGTATGGA
AACTAAGATTGTTTCAGAGGTTTGAGATTAGTGCTTGTTTATAGTATTTTGTACTTTTTATAATC
TCTACATTTATAGTAGATTTTCTCTCTTATTCGTGGATGAAGACAATTAGGTTGAACCACATTAA
ATATTGTCTTTTGCGTGTGATTTATTTTGTGTTGATCTTATTGTGAAATTTGTTTCTGTTTAAAA
AAAACCCAACAAGCGGTATCAGACCTAGGTCGCTAACATCTCCTCATGAACCAGATATAAAAGCT
TTCCTTATGGCCCAATATATGAAAGGGAGAGATTATTGAAGTTATCCTACATTAATTGGAAAAGG
GATTTGCTATTATAAATTGTATTCGTGAGATCAAAGACATACAAGAAAAAATACTACAACAAAGC
ATTAGTTGCAGGTGAAATCAATTGGATGAAGTTGATTTGGCTACACATGAGTATTAACCACTTAT
GTAAATCAAGTAGAGTCAACACTGATTCAACATGTGTAGTCAAGATTTCTTGAAGGTCAACATGA
TGGTAAAATTTATGTCAAAGTAAAAATT
Found at i:5795356 original size:25 final size:24
Alignment explanation
Indices: 5795310--5795356 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
5795300 AATTTTTATA
*
5795310 ATTTTTATTCTTAATTTTTAATAT
1 ATTTTTATTCTTAATTTCTAATAT
* *
5795334 ATTTTTATTATTTTATTTCTAAT
1 ATTTTTATT-CTTAATTTCTAAT
5795357 TTTTGTGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTTTATTCTTAATTTCTAATAT
Found at i:5795357 original size:32 final size:33
Alignment explanation
Indices: 5795301--5795381 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 33
5795291 TCTTTCATAA
*
5795301 ATTTTTATAATTTTTATTCTTAATTTTTAAT-AT
1 ATTTTTATTATTTTTATTCTTAATTTTT-ATGAT
*
5795334 ATTTTTATTA-TTTTATT-TCTAATTTTTGTGAT
1 ATTTTTATTATTTTTATTCT-TAATTTTTATGAT
5795366 ATTTTTATTTATTTTT
1 ATTTTTA-TTATTTTT
5795382 GCATGAACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 2 0.05
32 24 0.57
33 12 0.29
34 4 0.10
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (33 bp):
ATTTTTATTATTTTTATTCTTAATTTTTATGAT
Found at i:5795592 original size:21 final size:19
Alignment explanation
Indices: 5795550--5795600 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 19
5795540 AAAATGAAAA
*
5795550 AATAAAAATAAAATTTATG
1 AATAAAAATAAAATTGATG
5795569 AATAAAAAGTAAACATTGATG
1 AATAAAAA-TAAA-ATTGATG
5795590 AATAAAAATAA
1 AATAAAAATAA
5795601 CAATAAGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 8 0.28
20 7 0.24
21 14 0.48
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (19 bp):
AATAAAAATAAAATTGATG
Found at i:5798853 original size:21 final size:21
Alignment explanation
Indices: 5798824--5798865 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
5798814 TTCAATGCCA
5798824 AATGATCACTTGAACAACTTT
1 AATGATCACTTGAACAACTTT
*
5798845 AATGCTCACTTGAACAACTTT
1 AATGATCACTTGAACAACTTT
5798866 GTTTTGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (21 bp):
AATGATCACTTGAACAACTTT
Found at i:5801890 original size:21 final size:22
Alignment explanation
Indices: 5801864--5801905 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5801854 CTTATAGCAG
*
5801864 TTGATAT-ATGAGCATAAACAT
1 TTGATATAAAGAGCATAAACAT
5801885 TTGATATAAAGAGCATAAACA
1 TTGATATAAAGAGCATAAACA
5801906 AAAAAGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (22 bp):
TTGATATAAAGAGCATAAACAT
Found at i:5810582 original size:57 final size:57
Alignment explanation
Indices: 5810439--5810582 Score: 171
Period size: 57 Copynumber: 2.5 Consensus size: 57
5810429 TTCTCTATAA
* * *
5810439 TGATATTCAAGTTCCCTTTGGTGGTAATATCCGAAAACATTTGCATCATTTCGGTGG
1 TGATATTCAAGTTTCCTTTGGTAGTGATATCCGAAAACATTTGCATCATTTCGGTGG
* * * * * * * * *
5810496 TGATATCCGAGTTTTCTTTTGTAGCGATATCCGAAATCATTTGCTTCTTTTTGGTGG
1 TGATATTCAAGTTTCCTTTGGTAGTGATATCCGAAAACATTTGCATCATTTCGGTGG
*
5810553 TGATATTCAAATTTCCTTTGGTAGTGATAT
1 TGATATTCAAGTTTCCTTTGGTAGTGATAT
5810583 TTGGATTATC
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (57 bp):
TGATATTCAAGTTTCCTTTGGTAGTGATATCCGAAAACATTTGCATCATTTCGGTGG
Found at i:5811488 original size:11 final size:11
Alignment explanation
Indices: 5811472--5811496 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5811462 AAAATCTTAT
5811472 TTTATTATTTA
1 TTTATTATTTA
5811483 TTTATTATTTA
1 TTTATTATTTA
5811494 TTT
1 TTT
5811497 TTTAGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:5811795 original size:18 final size:18
Alignment explanation
Indices: 5811764--5811802 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5811754 ATTTTTAAGG
* *
5811764 TTTCATTTAGGGTTTTGA
1 TTTCACTTAAGGTTTTGA
5811782 TTTCACTTAAGGTTTTGA
1 TTTCACTTAAGGTTTTGA
5811800 TTT
1 TTT
5811803 TAAGAGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.56
Consensus pattern (18 bp):
TTTCACTTAAGGTTTTGA
Found at i:5811802 original size:45 final size:46
Alignment explanation
Indices: 5811722--5811829 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 46
5811712 TCGGGTTAGG
*
5811722 ATTTAGGGTTTCAGGTTTCACTTAAAGTTTGGATTTTTAAG-GTTTC
1 ATTTAGGGTTTCAGATTTCACTTAAAGTTTGGA-TTTTAAGAGTTTC
* * *
5811768 ATTTAGGGTTT-TGATTTCACTTAAGGTTTTGATTTTAAGAGTTTC
1 ATTTAGGGTTTCAGATTTCACTTAAAGTTTGGATTTTAAGAGTTTC
*
5811813 ATTTAAGGTTTCA-ATTT
1 ATTTAGGGTTTCAGATTT
5811830 ATCGAGTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
44 7 0.13
45 36 0.67
46 11 0.20
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.50
Consensus pattern (46 bp):
ATTTAGGGTTTCAGATTTCACTTAAAGTTTGGATTTTAAGAGTTTC
Found at i:5811850 original size:14 final size:15
Alignment explanation
Indices: 5811820--5811854 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
5811810 TTCATTTAAG
*
5811820 GTTTCAATTTATCGA
1 GTTTCGATTTATCGA
5811835 GTTTCGATTT-TCGA
1 GTTTCGATTTATCGA
5811849 GTTTCG
1 GTTTCG
5811855 GTTGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.17, C:0.14, G:0.20, T:0.49
Consensus pattern (15 bp):
GTTTCGATTTATCGA
Found at i:5814461 original size:85 final size:84
Alignment explanation
Indices: 5814277--5814511 Score: 251
Period size: 85 Copynumber: 2.8 Consensus size: 84
5814267 AGCTCACTCT
* * * * ** * * *
5814277 AAAAATTCGAATCTACAAAATGCTTTCATAAAAGCTTAATTGGACAAAACAGCTCGGCTTAAGAG
1 AAAAACTCGAATTTACAAAATACTTTCATAAAGGCTTAATTTAACAAAATAGCTCGACGTAAGAG
* *
5814342 CTCAGACTCAACTCGACCA
66 CTCAGACCCAACTCAACCA
* *
5814361 AAAGAGCTC-AGATTTACAAAATACTTTCATAAAGGCTTAATTTAACAAAATAACTCGACGTAAG
1 AAA-AACTCGA-ATTTACAAAATACTTTCATAAAGGCTTAATTTAACAAAATAGCTCGACGTAAG
* *
5814425 AGCTC-GAACCCAGCTCAATCGA
64 AGCTCAG-ACCCAACTCAA-CCA
* *
5814447 AAAAACTCGAATTTACAAAATAACTTT-GTAAAGGCTTAACTTAACAAAATAGCTCGACGTAAGA
1 AAAAACTCGAATTTACAAAAT-ACTTTCATAAAGGCTTAATTTAACAAAATAGCTCGACGTAAGA
5814511 G
65 G
5814512 TTTTATCAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
84 5 0.04
85 110 0.87
86 11 0.09
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (84 bp):
AAAAACTCGAATTTACAAAATACTTTCATAAAGGCTTAATTTAACAAAATAGCTCGACGTAAGAG
CTCAGACCCAACTCAACCA
Found at i:5814847 original size:31 final size:31
Alignment explanation
Indices: 5814786--5814848 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
5814776 CAGATTCATC
* *
5814786 AAATTCACCTCAATAAAAATTATTTCGGCAT
1 AAATTCACCTCAATAAAAATCACTTCGGCAT
**
5814817 AAATTCATTTCAATAAAAATCACCTT-GGCAT
1 AAATTCACCTCAATAAAAATCA-CTTCGGCAT
5814848 A
1 A
5814849 TTTTTTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (31 bp):
AAATTCACCTCAATAAAAATCACTTCGGCAT
Found at i:5816570 original size:2 final size:2
Alignment explanation
Indices: 5816563--5816600 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5816553 CTTTAATCTC
5816563 AT AT AT AT AT AT AT AT 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 AT AT
5816601 GGTAAATAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5820025 original size:54 final size:55
Alignment explanation
Indices: 5819959--5820095 Score: 152
Period size: 58 Copynumber: 2.5 Consensus size: 55
5819949 ACCCACAACT
* **
5819959 AAACCAAGAAATTTTTGTTTGATTTCAAAATCCAAAATTTTTTCCCTACT-ATTG
1 AAACCAAGAAATTTTTGTTTGATTTCAAAAACCAAAATCCTTTCCCTACTGATTG
* * *
5820013 AAACCAAAAAATTTTTGTTTGTTTGATTTCAAAAACCTAAATCCTTTCCCTACTGTTTG
1 AAACCAAGAAA---TT-TTTGTTTGATTTCAAAAACCAAAATCCTTTCCCTACTGATTG
* *
5820072 -AATCAAGAATTTTTTGTTTGATTT
1 AAACCAAGAAATTTTTGTTTGATTT
5820096 TGAAAACCCA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
54 22 0.32
55 2 0.03
57 2 0.03
58 40 0.58
59 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (55 bp):
AAACCAAGAAATTTTTGTTTGATTTCAAAAACCAAAATCCTTTCCCTACTGATTG
Found at i:5820657 original size:31 final size:31
Alignment explanation
Indices: 5820619--5820681 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
5820609 TTTTTTTGAG
*
5820619 TTTTGGGTATAAATCAATGTCAGTTTAAAAC
1 TTTTGGGTATAAATCAATGTCAGTATAAAAC
* *
5820650 TTTTGGGTATAAATCAGTGTTAGTATAAAAC
1 TTTTGGGTATAAATCAATGTCAGTATAAAAC
5820681 T
1 T
5820682 AAACCATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (31 bp):
TTTTGGGTATAAATCAATGTCAGTATAAAAC
Found at i:5822424 original size:33 final size:33
Alignment explanation
Indices: 5822370--5822450 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
5822360 GGGCGAGTTT
**
5822370 TTGGCTGGGGTTGACGCGGCAATGGGTACAGTC
1 TTGGCTGGGGTTGGTGCGGCAATGGGTACAGTC
* * ***
5822403 TTGGCTGGGGTTGGTGTGGCAATTGGTGGGGTC
1 TTGGCTGGGGTTGGTGCGGCAATGGGTACAGTC
5822436 TTGGCT-GGGTTGGTG
1 TTGGCTGGGGTTGGTG
5822451 GCTTGGGTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 9 0.22
33 32 0.78
ACGTcount: A:0.09, C:0.12, G:0.48, T:0.31
Consensus pattern (33 bp):
TTGGCTGGGGTTGGTGCGGCAATGGGTACAGTC
Found at i:5822733 original size:131 final size:131
Alignment explanation
Indices: 5822499--5822755 Score: 311
Period size: 131 Copynumber: 2.0 Consensus size: 131
5822489 CTTGGTGAGG
* * * *
5822499 GCTGGGTGCTGGTAGGTATGCAGCTCTCTGGTTTTGGGGACTCGTTCGGCTAGCCGGGGTCTAGG
1 GCTGGGTGCTAGTAGGGATGCAGCTCTCTGGTTATGGGGACTCGTTCGGCTAGCCGGGGTCCAGG
* * * *
5822564 GGCTATGACCGGGGGTTGTGCTGAGAGGCGCGGGGCTTGGTGCGTGCAGCGAGGCATGGGGATTG
66 GGCTATGACCGGAGGTTGTGCTGAGAGGCGCGGAGCTTGCTGCATGCAGCGAGGCATGGGGATTG
5822629 A
131 A
* * * * * *
5822630 GCTGGGTTCTAGTAGGGATGCGGCTCTCTGGTTATGGGGACT-GATTTGGTTGGTCGGGGTCCAG
1 GCTGGGTGCTAGTAGGGATGCAGCTCTCTGGTTATGGGGACTCG-TTCGGCTAGCCGGGGTCCAG
* * * * *
5822694 GGGCTGTGACTGGAGGTTGTGCTG-GAAGGCGTGGAGCTTGCTGCATGCAGGGAGGCGTGGGG
65 GGGCTATGACCGGAGGTTGTGCTGAG-AGGCGCGGAGCTTGCTGCATGCAGCGAGGCATGGGG
5822756 CGTGGTGTGT
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
130 2 0.02
131 103 0.98
ACGTcount: A:0.12, C:0.17, G:0.46, T:0.25
Consensus pattern (131 bp):
GCTGGGTGCTAGTAGGGATGCAGCTCTCTGGTTATGGGGACTCGTTCGGCTAGCCGGGGTCCAGG
GGCTATGACCGGAGGTTGTGCTGAGAGGCGCGGAGCTTGCTGCATGCAGCGAGGCATGGGGATTG
A
Found at i:5822845 original size:23 final size:23
Alignment explanation
Indices: 5822819--5822874 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
5822809 TGGTGCTAAC
*
5822819 AGGGGCTGTGTATGTGTGCGTAT
1 AGGGGCTGTGTACGTGTGCGTAT
*
5822842 AGGGGCTGTGTACGTGTGCGTGT
1 AGGGGCTGTGTACGTGTGCGTAT
*
5822865 AGGGACTGTG
1 AGGGGCTGTG
5822875 ATAGTGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.12, C:0.11, G:0.46, T:0.30
Consensus pattern (23 bp):
AGGGGCTGTGTACGTGTGCGTAT
Found at i:5823380 original size:24 final size:25
Alignment explanation
Indices: 5823327--5823380 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
5823317 TTTGAAAATG
5823327 ATTAATTTGAAATAAACTTAAATAA
1 ATTAATTTGAAATAAACTTAAATAA
* * *
5823352 TTTAATTT-AATTAAA-TCTAATTAA
1 ATTAATTTGAAATAAACT-TAAATAA
5823376 ATTAA
1 ATTAA
5823381 CATAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 1 0.04
24 16 0.67
25 7 0.29
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTAATTTGAAATAAACTTAAATAA
Found at i:5826755 original size:18 final size:18
Alignment explanation
Indices: 5826700--5826807 Score: 100
Period size: 18 Copynumber: 6.0 Consensus size: 18
5826690 TGCAAGAGTG
5826700 TCATGCAAATATATTAATTA
1 TCATGCAAATATA-TAA-TA
5826720 TCATGC-AATA-AT-ATA
1 TCATGCAAATATATAATA
*
5826735 TCATGTAAATATATAATA
1 TCATGCAAATATATAATA
*
5826753 TCACGCAAATATAT--TA
1 TCATGCAAATATATAATA
*
5826769 TCATGCAATAATATAAAATA
1 TCATGC-A-AATATATAATA
*
5826789 CCATGCAAATATATTAATA
1 TCATGCAAATATA-TAATA
5826808 ACCATTTATG
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
15 7 0.10
16 12 0.16
17 4 0.05
18 28 0.38
19 9 0.12
20 13 0.18
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (18 bp):
TCATGCAAATATATAATA
Found at i:5826782 original size:16 final size:17
Alignment explanation
Indices: 5826700--5826782 Score: 75
Period size: 16 Copynumber: 4.9 Consensus size: 17
5826690 TGCAAGAGTG
5826700 TCATGCAAATATATTAATTA
1 TCATGC-AATATA-T-ATTA
5826720 TCATGCAATA-ATA-TA
1 TCATGCAATATATATTA
* *
5826735 TCATGTAAATATATAATA
1 TCATG-CAATATATATTA
*
5826753 TCACGCAA-ATATATTA
1 TCATGCAATATATATTA
5826769 TCATGCAATA-ATAT
1 TCATGCAATATATAT
5826783 AAAATACCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
15 7 0.13
16 23 0.43
17 7 0.13
18 7 0.13
19 4 0.07
20 6 0.11
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TCATGCAATATATATTA
Found at i:5826812 original size:20 final size:19
Alignment explanation
Indices: 5826700--5826807 Score: 90
Period size: 20 Copynumber: 6.0 Consensus size: 19
5826690 TGCAAGAGTG
5826700 TCATGCAAATATATTAATTA
1 TCATGCAAATATATTAA-TA
5826720 TCATGC-AATA-A-T-ATA
1 TCATGCAAATATATTAATA
*
5826735 TCATGTAAATATA-TAATA
1 TCATGCAAATATATTAATA
*
5826753 TCACGCAAATATA-T--TA
1 TCATGCAAATATATTAATA
*
5826769 TCATGC-AATAATATAAAATA
1 TCATGCAAAT-ATAT-TAATA
*
5826789 CCATGCAAATATATTAATA
1 TCATGCAAATATATTAATA
5826808 ACCATTTATG
Statistics
Matches: 72, Mismatches: 7, Indels: 19
0.73 0.07 0.19
Matches are distributed among these distances:
15 10 0.14
16 15 0.21
17 3 0.04
18 16 0.22
19 8 0.11
20 17 0.24
21 3 0.04
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (19 bp):
TCATGCAAATATATTAATA
Found at i:5827128 original size:53 final size:53
Alignment explanation
Indices: 5827063--5827256 Score: 180
Period size: 53 Copynumber: 3.9 Consensus size: 53
5827053 ATAAATTAAT
* * * * * *
5827063 AATCATGCAAATAGACATGCAATTAAGTATAAAATCATGCAATTAACAATGTA
1 AATCATGCAAATAAACATGCAATTAAATATAAAATCATACAAATAAAAATATA
* * *
5827116 AATCATGTAAATAAACAAGCAATTAAATATATAATCATACAAATAAAAATATA
1 AATCATGCAAATAAACATGCAATTAAATATAAAATCATACAAATAAAAATATA
* *
5827169 AATAATGCAAATAAACAT---A-T-AAT-T---A--A-ACAAATAATAATATA
1 AATCATGCAAATAAACATGCAATTAAATATAAAATCATACAAATAAAAATATA
* *
5827210 AATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAA-AAAA
1 AATCATGCAAATAAACATGCAATTAAATATAAAATCATACAAATAAAA
5827257 TACAATTAAA
Statistics
Matches: 113, Mismatches: 16, Indels: 25
0.73 0.10 0.16
Matches are distributed among these distances:
41 31 0.27
42 1 0.01
44 2 0.02
45 1 0.01
46 3 0.03
47 2 0.02
48 3 0.03
49 1 0.01
50 2 0.02
52 4 0.04
53 63 0.56
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (53 bp):
AATCATGCAAATAAACATGCAATTAAATATAAAATCATACAAATAAAAATATA
Found at i:5827181 original size:21 final size:21
Alignment explanation
Indices: 5827140--5827224 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
5827130 ACAAGCAATT
*
5827140 AAATATATAATCATACAAATAA
1 AAATATA-AATAATACAAATAA
*
5827162 AAATATAAATAATGCAAATAA
1 AAATATAAATAATACAAATAA
* *
5827183 ACATATAATTAA-ACAAATAA
1 AAATATAAATAATACAAATAA
* * *
5827203 TAATATAAATCATGCAAATAA
1 AAATATAAATAATACAAATAA
5827224 A
1 A
5827225 CATGCAATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 15 0.29
21 29 0.57
22 7 0.14
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (21 bp):
AAATATAAATAATACAAATAA
Found at i:5827191 original size:41 final size:41
Alignment explanation
Indices: 5827126--5827227 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
5827116 AATCATGTAA
* * * *
5827126 ATAAACAA-GCAATTAAATATATAATCATACAAATAAAAAT
1 ATAAATAATGCAAATAAACATATAATCAAACAAATAAAAAT
* *
5827166 ATAAATAATGCAAATAAACATATAATTAAACAAATAATAAT
1 ATAAATAATGCAAATAAACATATAATCAAACAAATAAAAAT
*
5827207 ATAAATCATGCAAATAAACAT
1 ATAAATAATGCAAATAAACAT
5827228 GCAATTAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 7 0.13
41 47 0.87
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (41 bp):
ATAAATAATGCAAATAAACATATAATCAAACAAATAAAAAT
Found at i:5827244 original size:41 final size:41
Alignment explanation
Indices: 5827154--5827236 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
5827144 ATATAATCAT
* *
5827154 ACAAATAAAAATATAAATAATGCAAATAAACATATAATTAA
1 ACAAATAATAATATAAATAATGCAAATAAACATACAATTAA
* *
5827195 ACAAATAATAATATAAATCATGCAAATAAACATGCAATTAA
1 ACAAATAATAATATAAATAATGCAAATAAACATACAATTAA
5827236 A
1 A
5827237 TATATAATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.24
Consensus pattern (41 bp):
ACAAATAATAATATAAATAATGCAAATAAACATACAATTAA
Found at i:5827257 original size:20 final size:20
Alignment explanation
Indices: 5827220--5827258 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5827210 AATCATGCAA
**
5827220 ATAAACATGCAATTAAATAT
1 ATAAACATGCAAAAAAATAT
*
5827240 ATAATCATGCAAAAAAATA
1 ATAAACATGCAAAAAAATA
5827259 CAATTAAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAAACATGCAAAAAAATAT
Found at i:5827264 original size:30 final size:30
Alignment explanation
Indices: 5827204--5827318 Score: 160
Period size: 30 Copynumber: 3.8 Consensus size: 30
5827194 AACAAATAAT
*
5827204 AATATA-AATCATGCAAATAAACATGCAATTA
1 AATATATAATCATGCAAA-AAA-ATACAATTA
5827235 AATATATAATCATGCAAAAAAATACAATTA
1 AATATATAATCATGCAAAAAAATACAATTA
*
5827265 AATATATAATCATGCAAAAAAATGCAATTA
1 AATATATAATCATGCAAAAAAATACAATTA
* * *
5827295 CATATATAATTATGCAAATAAATA
1 AATATATAATCATGCAAAAAAATA
5827319 GATTAATAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
30 57 0.74
31 9 0.12
32 11 0.14
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (30 bp):
AATATATAATCATGCAAAAAAATACAATTA
Found at i:5827300 original size:60 final size:61
Alignment explanation
Indices: 5827204--5827318 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 61
5827194 AACAAATAAT
5827204 AATATAAATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAAAAAATACAATTA
1 AATATAAATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAAAAAATACAATTA
* * *
5827265 AATATATAATCATGCAAA-AAA-ATGCAATTACATATATAATTATGCAAATAAATA
1 AATATA-AATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAAAAAATA
5827319 GATTAATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
60 30 0.60
61 9 0.18
62 11 0.22
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (61 bp):
AATATAAATCATGCAAATAAACATGCAATTAAATATATAATCATGCAAAAAAATACAATTA
Found at i:5827394 original size:23 final size:22
Alignment explanation
Indices: 5827337--5827394 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
5827327 ATGAAGCAAT
* *
5827337 TAAATATATTAATTATCATACAA
1 TAAATATAAT-ATAATCATACAA
5827360 TCAAAT-TAAATATAATCATACAAA
1 T-AAATAT-AATATAATCATAC-AA
5827384 TAAATATAATA
1 TAAATATAATA
5827395 ATGATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAATATAATATAATCATACAA
Found at i:5827438 original size:21 final size:21
Alignment explanation
Indices: 5827372--5827440 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
5827362 AAATTAAATA
* *
5827372 TAATCATACAAATAAATATAA
1 TAATCATAAAAATAAATATAT
* * *
5827393 TAATGATAATAATGCAAATACAT
1 TAATCATAAAAAT--AAATATAT
*
5827416 TAATCACAAAAATAAATATAT
1 TAATCATAAAAATAAATATAT
5827437 TAAT
1 TAAT
5827441 AAAATATATT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
21 21 0.57
23 16 0.43
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (21 bp):
TAATCATAAAAATAAATATAT
Found at i:5827990 original size:18 final size:19
Alignment explanation
Indices: 5827952--5827992 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
5827942 ACCATTAAAG
*
5827952 TTAAAATTTGAGATAGAAT
1 TTAAAAGTTGAGATAGAAT
*
5827971 TTAAAAGTTG-GATTGAAT
1 TTAAAAGTTGAGATAGAAT
5827989 TTAA
1 TTAA
5827993 GATTTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (19 bp):
TTAAAAGTTGAGATAGAAT
Found at i:5828456 original size:43 final size:43
Alignment explanation
Indices: 5828410--5828730 Score: 414
Period size: 43 Copynumber: 7.5 Consensus size: 43
5828400 GAAGTTTTAG
* *
5828410 AACTTTTGAAAAATAAAATACTCCCCCACAATTGAGGCTTTGG
1 AACTTTTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGA
*
5828453 AACTTTTGAAAATAATAAAATGCTCCCTCACAATTGAGGCTTTGA
1 AACTTTTG-AAA-AATAAAATGCTCCCCCACAATTGAGGCTTTGA
* * *
5828498 AACTTTT-AAAAATAAAATACTCCCCCACAACTAAGGCTTTGA
1 AACTTTTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGA
* * *
5828540 AACTTTTGAAAAATCAAATGCTTCCCCACAACTGAGGCTTTGA
1 AACTTTTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGA
** * *
5828583 AACTTTT-AGAAAATAAAATGCTTTCCCACAACTGAAGCTTTGA
1 AACTTTTGA-AAAATAAAATGCTCCCCCACAATTGAGGCTTTGA
* * *
5828626 AACTTTTG-AAAATAAAATACTTCCCTACAATTGAGGCTTTGA
1 AACTTTTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGA
* ** *
5828668 AACTTTTGAAAAATAAAATGTTCCCTTACAATTGAGGCTTTAA
1 AACTTTTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGA
5828711 AACTTTTGAAAAATAAAATG
1 AACTTTTGAAAAATAAAATG
5828731 AGATCATTCT
Statistics
Matches: 248, Mismatches: 24, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
42 73 0.29
43 136 0.55
44 3 0.01
45 36 0.15
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (43 bp):
AACTTTTGAAAAATAAAATGCTCCCCCACAATTGAGGCTTTGA
Found at i:5828638 original size:85 final size:86
Alignment explanation
Indices: 5828393--5828730 Score: 400
Period size: 85 Copynumber: 3.9 Consensus size: 86
5828383 AATGTACCAT
* * * * *
5828393 CACAACTGAAG-TTTTAGAACTTTTGAAAAATAAAATACTCCCCCACAATTGAGGCTTTGGAACT
1 CACAACTGAGGCTTTGA-AACTTTTGAAAAATAAAATACTCCCCCACAACTGAAGCTTTGAAACT
5828457 TTTGAAAATAATAAAATGC-TCCC
65 TTTG-AAA-AATAAAATGCTTCCC
*
5828480 TCACAATTGAGGCTTTGAAACTTTT-AAAAATAAAATACTCCCCCACAACT-AAGGCTTTGAAAC
1 -CACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCCACAACTGAA-GCTTTGAAAC
*
5828543 TTTTGAAAAATCAAATGCTTCCC
64 TTTTGAAAAATAAAATGCTTCCC
* **
5828566 CACAACTGAGGCTTTGAAACTTTT-AGAAAATAAAATGCTTTCCCACAACTGAAGCTTTGAAACT
1 CACAACTGAGGCTTTGAAACTTTTGA-AAAATAAAATACTCCCCCACAACTGAAGCTTTGAAACT
*
5828630 TTTG-AAAATAAAATACTTCCC
65 TTTGAAAAATAAAATGCTTCCC
* * ** ** * * *
5828651 TACAATTGAGGCTTTGAAACTTTTGAAAAATAAAATGTTCCCTTACAATTGAGGCTTTAAAACTT
1 CACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCCACAACTGAAGCTTTGAAACTT
5828716 TTGAAAAATAAAATG
66 TTGAAAAATAAAATG
5828731 AGATCATTCT
Statistics
Matches: 219, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
85 104 0.47
86 55 0.25
87 40 0.18
88 16 0.07
89 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (86 bp):
CACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCCCCACAACTGAAGCTTTGAAACTT
TTGAAAAATAAAATGCTTCCC
Found at i:5828663 original size:128 final size:128
Alignment explanation
Indices: 5828410--5828730 Score: 432
Period size: 128 Copynumber: 2.5 Consensus size: 128
5828400 GAAGTTTTAG
* * * *
5828410 AACTTTTGAAAAATAAAATACTCCCCCACAATTGAGGCTTTGGAACTTTTGAAAATAATAAAATG
1 AACTTTTGAAAAATAAAATGCTTCCCCACAATTGAGGCTTTGAAACTTTT-AGAA-AATAAAATG
* *
5828475 CTCCCTCACAATTGAGGCTTTGAAACTTTTAAAAATAAAATACTCCCCCACAACTAAGGCTTTGA
64 CTCCCTCACAACTGAAGCTTTGAAACTTTTAAAAATAAAATACTCCCCCACAACTAAGGCTTTGA
* *
5828540 AACTTTTGAAAAATCAAATGCTTCCCCACAACTGAGGCTTTGAAACTTTTAGAAAATAAAATGCT
1 AACTTTTGAAAAATAAAATGCTTCCCCACAATTGAGGCTTTGAAACTTTTAGAAAATAAAATGC-
* * * * * *
5828605 TTCC-CACAACTGAAGCTTTGAAACTTTTGAAAATAAAATACTTCCCTACAATTGAGGCTTTGA
65 TCCCTCACAACTGAAGCTTTGAAACTTTTAAAAATAAAATACTCCCCCACAACTAAGGCTTTGA
* *
5828668 AACTTTTGAAAAATAAAATG-TTCCCTTACAATTGAGGCTTTAAAACTTTT-GAAAAATAAAATG
1 AACTTTTGAAAAATAAAATGCTTCCC-CACAATTGAGGCTTTGAAACTTTTAG-AAAATAAAATG
5828731 AGATCATTCT
Statistics
Matches: 170, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
127 6 0.04
128 113 0.66
129 6 0.04
130 45 0.26
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (128 bp):
AACTTTTGAAAAATAAAATGCTTCCCCACAATTGAGGCTTTGAAACTTTTAGAAAATAAAATGCT
CCCTCACAACTGAAGCTTTGAAACTTTTAAAAATAAAATACTCCCCCACAACTAAGGCTTTGA
Found at i:5830255 original size:41 final size:41
Alignment explanation
Indices: 5830173--5830255 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
5830163 GTTTAAGTTT
*
5830173 TCATGCAAATAAACATACAATTAAACATATAGTAATATAAA
1 TCATGCAAATAAACATACAATTAAACATATAATAATATAAA
* * * * *
5830214 TCATGCAAATAAATATGCAATTAAATATATAATCATGTAAA
1 TCATGCAAATAAACATACAATTAAACATATAATAATATAAA
5830255 T
1 T
5830256 AATAATATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (41 bp):
TCATGCAAATAAACATACAATTAAACATATAATAATATAAA
Found at i:5830298 original size:56 final size:55
Alignment explanation
Indices: 5830207--5830313 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 55
5830197 ACATATAGTA
* * * *
5830207 ATATAAATCATGCAAATAAATATGCAATTAAATATATAATCATGTAAATAATAAT
1 ATATAAAGCATGCAAAAAAACATGCAATTAAATATATAATCATGCAAATAATAAT
*
5830262 ATATAAAGCATGCAAAAAAAACATGCAATTAAATATATAATTATGCAAATAA
1 ATATAAAGCATGC-AAAAAAACATGCAATTAAATATATAATCATGCAAATAA
5830314 ATATATTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 12 0.26
56 34 0.74
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.29
Consensus pattern (55 bp):
ATATAAAGCATGCAAAAAAACATGCAATTAAATATATAATCATGCAAATAATAAT
Done.