Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 50 of 77
Found at i:9771577 original size:94 final size:89
Alignment explanation
Indices: 9771472--9771647 Score: 223
Period size: 94 Copynumber: 1.9 Consensus size: 89
9771462 AATTTTACTT
* *
9771472 ATAAATAATATTATATTAATAAATAAGTAATTTTA-TATTAATAAATAATATACTATTAATATAA
1 ATAAATAATATTATATTAATAAATAAATAA-TATACTATTAAT--AT-A-ATA-TATTAATA-AA
*
9771536 TA-TATTACA-AAGTGATATTATAATATATTA
59 TATTATTA-ATAAATGATATTATAATATATTA
*
9771566 ATAAATAATATTATATTGATAAATAAATAATATACTATTAATATAATATATTAATAAATATTATT
1 ATAAATAATATTATATTAATAAATAAATAATATACTATTAATATAATATATTAATAAATATTATT
9771631 AATAAATGATATTATAA
66 AATAAATGATATTATAA
9771648 AATAGAATTG
Statistics
Matches: 75, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
88 5 0.07
89 26 0.35
90 3 0.04
91 1 0.01
92 2 0.03
93 3 0.04
94 35 0.47
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (89 bp):
ATAAATAATATTATATTAATAAATAAATAATATACTATTAATATAATATATTAATAAATATTATT
AATAAATGATATTATAATATATTA
Found at i:9771631 original size:76 final size:78
Alignment explanation
Indices: 9771483--9771648 Score: 211
Period size: 76 Copynumber: 2.2 Consensus size: 78
9771473 TAAATAATAT
* * *
9771483 TATATTAATAAATAAGTAATTTTATATTAATAAATAATATACTATTAATATAATATATTACAAAG
1 TATATTAATAAATAAGTAATTATATATAAATAAATAATATACTATTAATATAATATATTACAAAA
9771548 TGATATT-AT-AA
66 TGATATTAATAAA
9771559 TATATTAATAAATAA-T-ATTATATTGATAAATAAATAATATACTATTAATATAATATATTA-AT
1 TATATTAATAAATAAGTAATTATA-T-ATAAATAAATAATATACTATTAATATAATATATTACA-
9771621 AAAT-ATTATTAATAAA
63 AAATGA-TATTAATAAA
9771637 TGATATT-ATAAA
1 T-ATATTAATAAA
9771649 ATAGAATTGA
Statistics
Matches: 80, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
74 5 0.06
75 4 0.05
76 56 0.70
77 2 0.03
78 8 0.10
79 5 0.06
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (78 bp):
TATATTAATAAATAAGTAATTATATATAAATAAATAATATACTATTAATATAATATATTACAAAA
TGATATTAATAAA
Found at i:9772511 original size:21 final size:21
Alignment explanation
Indices: 9772487--9772567 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 21
9772477 ATAATATATA
9772487 TTATATTTTTATTAAATTTAT
1 TTATATTTTTATTAAATTTAT
*
9772508 TTATATATGTTAATTTAAAATTTAAAT
1 TTATAT-T-TTTA-TT-AAATTT--AT
*
9772535 TATATTATTTTTA-TATTATTTAT
1 T-TA-TATTTTTATTA-AATTTAT
9772558 TTATATTTTT
1 TTATATTTTT
9772568 TATATAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
21 13 0.27
22 3 0.06
23 6 0.12
24 3 0.06
25 11 0.23
27 6 0.12
28 3 0.06
29 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (21 bp):
TTATATTTTTATTAAATTTAT
Found at i:9772562 original size:13 final size:13
Alignment explanation
Indices: 9772534--9772570 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9772524 AAAATTTAAA
9772534 TTATATTA-TT-T
1 TTATATTATTTAT
9772545 TTATATTATTTAT
1 TTATATTATTTAT
*
9772558 TTATATTTTTTAT
1 TTATATTATTTAT
9772571 ATAATAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 13 0.57
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATATTATTTAT
Found at i:9785787 original size:2 final size:2
Alignment explanation
Indices: 9785780--9785817 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9785770 AGATGTCTAC
* *
9785780 AT AT AT AT -T AT AT AT AT AT AT AT AT AG AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9785818 GACAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9786990 original size:43 final size:43
Alignment explanation
Indices: 9786904--9786997 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
9786894 TTATTTTTTA
* * *
9786904 TTTTTATTTCTAAATTTTTCACAATTTGGGTCAATTTAGAATT
1 TTTTTATTTCTAAATTTTTCACAATTTAGATCAATTTAAAATT
**
9786947 TTTTTATTTCTAAATTTTTCAC-ATTTAGATTTATTTATAAATT
1 TTTTTATTTCTAAATTTTTCACAATTTAGATCAATTTA-AAATT
*
9786990 TATTTATT
1 TTTTTATT
9786998 GTTTTTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 11 0.25
43 33 0.75
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (43 bp):
TTTTTATTTCTAAATTTTTCACAATTTAGATCAATTTAAAATT
Found at i:9787623 original size:4 final size:4
Alignment explanation
Indices: 9787614--9787643 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
9787604 AAATACTTTA
9787614 AAAT AAAT AAAT AAAT AAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
9787644 AATATCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9788466 original size:8 final size:8
Alignment explanation
Indices: 9788453--9788500 Score: 69
Period size: 8 Copynumber: 6.0 Consensus size: 8
9788443 ACCTGCTAGA
9788453 TTTTTATT
1 TTTTTATT
9788461 TTTTTATT
1 TTTTTATT
9788469 TTTTTATT
1 TTTTTATT
*
9788477 TTTTTGTT
1 TTTTTATT
*
9788485 TTTTCATT
1 TTTTTATT
*
9788493 TTATTATT
1 TTTTTATT
9788501 ATTATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTATT
Found at i:9788758 original size:44 final size:44
Alignment explanation
Indices: 9788708--9789252 Score: 291
Period size: 44 Copynumber: 12.5 Consensus size: 44
9788698 AGATTTCACA
* *
9788708 ACTTTTGAGAAATAAATAAAGCTCTTCTAAGTAGAGGCTCAATG
1 ACTTTTGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAATG
* * * * * *
9788752 ACTTTTG-AAAATAAACTAAGGCTCTTTTAAACAAAGGCTGAAAG
1 ACTTTTGAAAAATAAA-TAAAGCTCTTCTAAATAGAGGCTCAATG
* ** *
9788796 ACTTTTGAAAAATAAACAAAGCTCCTT-TAAGCAGAGGCTCAA-C
1 ACTTTTGAAAAATAAATAAAGCT-CTTCTAAATAGAGGCTCAATG
* * * *
9788839 AGC-TTTAAAAAATAAATAAGGCTCATCTAAATAGAGGTTTC-ATG
1 A-CTTTTGAAAAATAAATAAAGCTCTTCTAAATAGAGG-CTCAATG
* * * *
9788883 AATTTTGAAAAATAGATAAAGCT-TATCTAAATAAAGGCTC-ATA
1 ACTTTTGAAAAATAAATAAAGCTCT-TCTAAATAGAGGCTCAATG
* * * * *
9788926 AC-TTTGGAAAATAAATAAGGCT-TCTCTAAACAGAGACTTAACT-
1 ACTTTTGAAAAATAAATAAAGCTCT-TCTAAATAGAGGCTCAA-TG
* *
9788969 ACTTTTGAAAAATAAAT-AAGACTCCTT-TAAATAAAAGCTC-ATG
1 ACTTTTGAAAAATAAATAAAG-CT-CTTCTAAATAGAGGCTCAATG
* * * ** **
9789012 A-GTTTGGAAAATAAATAAGGCTTCTT-TAAGCAGAGGC-CAACA
1 ACTTTTGAAAAATAAATAAAGC-TCTTCTAAATAGAGGCTCAATG
* * * * * * * **
9789054 ATTTTTGAAAAGTAGATAAGGCTCTTCTAAAAATAGGCTTAACA
1 ACTTTTGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAATG
* *
9789098 ACTTTTGAAAAATAAATAACGCT-TCTCTAAAGAGAGGCTCAACT-
1 ACTTTTGAAAAATAAATAAAGCTCT-TCTAAATAGAGGCTCAA-TG
* * * * * ** * **
9789142 ATTTTTGATAATTGAATAAAGCTTTTCTAAATAGAGATTAAACA
1 ACTTTTGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAATG
* * * * *
9789186 ACTTTTGAAAAATAAATAAGGCTCTTGTAAATAAAGGCTTAACG
1 ACTTTTGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAATG
**
9789230 AC-TTCAAAAAATAAATAAAGCTC
1 ACTTTTGAAAAATAAATAAAGCTC
9789253 CATGATAATC
Statistics
Matches: 379, Mismatches: 96, Indels: 53
0.72 0.18 0.10
Matches are distributed among these distances:
41 1 0.00
42 62 0.16
43 92 0.24
44 210 0.55
45 13 0.03
46 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (44 bp):
ACTTTTGAAAAATAAATAAAGCTCTTCTAAATAGAGGCTCAATG
Found at i:9788975 original size:86 final size:85
Alignment explanation
Indices: 9788708--9789174 Score: 315
Period size: 86 Copynumber: 5.4 Consensus size: 85
9788698 AGATTTCACA
* * * * *
9788708 ACTTTTGAGAAATAAATAAAGCTCTTCTAAGTAGAGGCTCAATGACTTTTGAAAATAAACTAAGG
1 ACTTTTGAAAAATAAATAAAGCT-TTCTAAATAAAGGCTC-ATAACTTTGGAAAATAAA-TAAGG
* * * **
9788773 C-TCTTTTAAACAAAGGCTGAAAG
63 CTTC-TCTAAACAGAGGCTCAACT
* ** * **
9788796 ACTTTTGAAAAATAAACAAAGCTCCTT-TAAGCAGAGGCTCA-ACAGCTTTAAAAAATAAATAAG
1 ACTTTTGAAAAATAAATAAAGCT--TTCTAAATAAAGGCTCATA-A-CTTTGGAAAATAAATAAG
* *
9788859 GC-TCATCTAAATAGAGGTTTC-A-T
62 GCTTC-TCTAAACAGAGG-CTCAACT
* *
9788882 GAATTTTGAAAAATAGATAAAGCTTATCTAAATAAAGGCTCATAACTTTGGAAAATAAATAAGGC
1 -ACTTTTGAAAAATAAATAAAGCTT-TCTAAATAAAGGCTCATAACTTTGGAAAATAAATAAGGC
* *
9788947 TTCTCTAAACAGAGACTTAACT
64 TTCTCTAAACAGAGGCTCAACT
* * *
9788969 ACTTTTGAAAAATAAAT-AAGACTCCTT-TAAATAAAAGCTCATGAGTTTGGAAAATAAATAAGG
1 ACTTTTGAAAAATAAATAAAG-CT--TTCTAAATAAAGGCTCATAACTTTGGAAAATAAATAAGG
* * *
9789032 CTTCTTTAAGCAGAGGC-CAACA
63 CTTCTCTAAACAGAGGCTCAACT
* * * * * * * *
9789054 ATTTTTGAAAAGTAGATAAGGCTCTTCTAAA-AATAGGCTTAACAACTTTTGAAAAATAAATAAC
1 ACTTTTGAAAAATAAATAAAGCT-TTCTAAATAA-AGGC-TCATAAC-TTTGGAAAATAAATAAG
*
9789118 GCTTCTCTAAAGAGAGGCTCAACT
62 GCTTCTCTAAACAGAGGCTCAACT
* * * *
9789142 ATTTTTGATAATTGAATAAAGCTTTTCTAAATA
1 ACTTTTGAAAAATAAATAAAGC-TTTCTAAATA
9789175 GAGATTAAAC
Statistics
Matches: 302, Mismatches: 55, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
84 5 0.02
85 31 0.10
86 99 0.33
87 86 0.28
88 76 0.25
89 5 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (85 bp):
ACTTTTGAAAAATAAATAAAGCTTTCTAAATAAAGGCTCATAACTTTGGAAAATAAATAAGGCTT
CTCTAAACAGAGGCTCAACT
Found at i:9791976 original size:12 final size:12
Alignment explanation
Indices: 9791961--9791985 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9791951 ATATCAAAAT
9791961 AATAAAATATAA
1 AATAAAATATAA
9791973 AATAAAATATAA
1 AATAAAATATAA
9791985 A
1 A
9791986 TTATTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAAATATAA
Found at i:9792000 original size:20 final size:21
Alignment explanation
Indices: 9791972--9792011 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9791962 ATAAAATATA
*
9791972 AAATAAAATATAAATTATTTT
1 AAATAAAATATAAACTATTTT
*
9791993 AAAT-AAATTTAAACTATTT
1 AAATAAAATATAAACTATTT
9792012 ATTTTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAAAATATAAACTATTTT
Found at i:9792292 original size:14 final size:15
Alignment explanation
Indices: 9792275--9792304 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9792265 TATAATTATA
9792275 TAATTATA-ATATTT
1 TAATTATATATATTT
9792289 TAATTATATATATTT
1 TAATTATATATATTT
9792304 T
1 T
9792305 TTCGAGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATTATATATATTT
Found at i:9795912 original size:18 final size:18
Alignment explanation
Indices: 9795891--9795928 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9795881 TTCTTATTTA
*
9795891 TTATTTTATAAAATTTTT
1 TTATTATATAAAATTTTT
*
9795909 TTATTATATTAAATTTTT
1 TTATTATATAAAATTTTT
9795927 TT
1 TT
9795929 TATAAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTATATAAAATTTTT
Found at i:9798108 original size:17 final size:19
Alignment explanation
Indices: 9798082--9798132 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
9798072 AATTTTAAAA
*
9798082 ATTTATTAAAAAAT-AATT
1 ATTTAATAAAAAATCAATT
*
9798100 -TTTAATAAATAATCAATT
1 ATTTAATAAAAAATCAATT
9798118 ATATCTAATAAAAAA
1 AT-T-TAATAAAAAA
9798133 ATTAATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 1 0.04
20 1 0.04
21 9 0.35
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTAATAAAAAATCAATT
Found at i:9800292 original size:2 final size:2
Alignment explanation
Indices: 9800281--9800312 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9800271 CTTGCAAGCT
9800281 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9800313 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9800357 original size:25 final size:26
Alignment explanation
Indices: 9800325--9800376 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
9800315 TTTTAAAAAT
9800325 AAATTTAATAATT-TATA-TTATATA
1 AAATTTAATAATTATATATTTATATA
9800349 AAATATTAATAATTCATATATTTATATA
1 AAAT-TTAATAATT-ATATATTTATATA
9800377 TTTATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.17
25 9 0.38
27 4 0.17
28 7 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATTTAATAATTATATATTTATATA
Found at i:9800417 original size:77 final size:71
Alignment explanation
Indices: 9800281--9800464 Score: 180
Period size: 77 Copynumber: 2.5 Consensus size: 71
9800271 CTTGCAAGCT
* * * * *
9800281 TATAATATATATATATATATATATATATATATTATTTTAAAAATAAATTTAATAATTTATAT-TA
1 TATAATATATATTTATATATTTATAT-TATATT-TTATAAAAATAAATATAATAATTTATATCAA
9800345 TATAAAATA
64 TATAAAA-A
*
9800354 TTAATAATTCATATATTTATATATTTATATTATATTTTATACAAAATTATAA-ATAATAGTTTAT
1 -T-ATAA-T-ATATATTTATATATTTATATTATATTTTATA-AAAA-TA-AATATAATAATTTAT
9800418 ATCAATATAAAAA
59 ATCAATATAAAAA
*
9800431 TATAATATATATTTTTA-ATTT-TATTA-ATTTTATA
1 TATAATATATATTTATATATTTATATTATATTTTATA
9800465 TTTTTATTTA
Statistics
Matches: 96, Mismatches: 7, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
70 8 0.08
71 5 0.05
72 4 0.04
73 10 0.10
74 2 0.02
75 12 0.12
76 12 0.12
77 33 0.34
78 10 0.10
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (71 bp):
TATAATATATATTTATATATTTATATTATATTTTATAAAAATAAATATAATAATTTATATCAATA
TAAAAA
Found at i:9800464 original size:23 final size:21
Alignment explanation
Indices: 9800438--9800486 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 21
9800428 AAATATAATA
9800438 TATATTTTTAATTT-TATTAATTT
1 TATATTTTT-ATTTATA-T-ATTT
9800461 TATATTTTTATTTATATATTT
1 TATATTTTTATTTATATATTT
9800482 TATAT
1 TATAT
9800487 CCTATCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.36
22 5 0.20
23 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TATATTTTTATTTATATATTT
Found at i:9800481 original size:21 final size:23
Alignment explanation
Indices: 9800438--9800486 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 23
9800428 AAATATAATA
9800438 TATATTTTTAATTTTATTAATTT
1 TATATTTTTAATTTTATTAATTT
9800461 TATATTTTT-A-TTTA-TATATTT
1 TATATTTTTAATTTTATTA-ATTT
9800482 TATAT
1 TATAT
9800487 CCTATCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.08
21 13 0.52
22 1 0.04
23 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TATATTTTTAATTTTATTAATTT
Found at i:9808174 original size:221 final size:221
Alignment explanation
Indices: 9807756--9808175 Score: 486
Period size: 221 Copynumber: 1.9 Consensus size: 221
9807746 ATAGTGAAGG
* * * * * *
9807756 ATTTTACAATAGAAGACACCTTTAATAATTCTTAAAATTTTTTGAGAGAAAATATTGAAGGCATC
1 ATTTTACAATAGAAAACACCTTTAATAATGCTCAAAATTTTTAGAGAAAAAATATTGAAGGCATA
* **
9807821 TATTATTAACAAACACATTCAGTAATGGATTACTAAGTGTTAAGGTATATTAAAGGTGTTTTTTT
66 TATTATTAACAAACACATTCAGTAATAGATTACTAAGTGTTAAGGTATATTAAAGGTGCATTTTT
* * * * * * *
9807886 GAATAAACGCCTTCTATAACCATCGTAAAATATTGAATGTGTTTTATAATAAAAGACATCTTTAA
131 GAATAAACACCTTCTATAACAATCATAAAATATTGAAAGCGATTTATAATAAAAGACATCGTTAA
9807951 TAATCCCATTGAGGTATATTGAAGAT
196 TAATCCCATTGAGGTATATTGAAGAT
* ** * *
9807977 ATTTTACAGTAGAAAATGCCTTTAATAATGCTCAAAATTTTTAGAGAAAAAATATTGAAGTCGTA
1 ATTTTACAATAGAAAACACCTTTAATAATGCTCAAAATTTTTAGAGAAAAAATATTGAAGGCATA
* ** * * *
9808042 TGTTATTAACAAATGCTTTCCGTAATAGATTACTAAGT-TTAAGGGTATATTGAAGGTGCATTTT
66 TATTATTAACAAACACATTCAGTAATAGATTACTAAGTGTTAA-GGTATATTAAAGGTGCATTTT
* *** * * *
9808106 TGAATAAATACCTTCTATAACAATCATGGTATATT-AAAGACGATTTACT-GTAGAAGACGTCGT
130 TGAATAAACACCTTCTATAACAATCATAAAATATTGAAAG-CGATTTA-TAATAAAAGACATCGT
9808169 TAATAAT
193 TAATAAT
9808176 TAATAACAGG
Statistics
Matches: 162, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
220 7 0.04
221 154 0.95
222 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (221 bp):
ATTTTACAATAGAAAACACCTTTAATAATGCTCAAAATTTTTAGAGAAAAAATATTGAAGGCATA
TATTATTAACAAACACATTCAGTAATAGATTACTAAGTGTTAAGGTATATTAAAGGTGCATTTTT
GAATAAACACCTTCTATAACAATCATAAAATATTGAAAGCGATTTATAATAAAAGACATCGTTAA
TAATCCCATTGAGGTATATTGAAGAT
Found at i:9812468 original size:26 final size:27
Alignment explanation
Indices: 9812419--9812470 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9812409 GACAAATTTA
*
9812419 AAAAAATTTCTTATTTAGAGATTTCTT
1 AAAAAATTTCTTATTTAGAAATTTCTT
9812446 AAAAAATTTAC-TATTTA-AAATTTCT
1 AAAAAATTT-CTTATTTAGAAATTTCT
9812471 AAGAATCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 15 0.65
28 1 0.04
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (27 bp):
AAAAAATTTCTTATTTAGAAATTTCTT
Found at i:9813093 original size:20 final size:20
Alignment explanation
Indices: 9813068--9813111 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9813058 TTTCCTCAGA
9813068 TCTTCTTCT-TTCCTTTTCTT
1 TCTTCTTCTATT-CTTTTCTT
*
9813088 TCTTCTTCTATTTTTTTCTT
1 TCTTCTTCTATTCTTTTCTT
9813108 TCTT
1 TCTT
9813112 TAAAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (20 bp):
TCTTCTTCTATTCTTTTCTT
Found at i:9813910 original size:131 final size:132
Alignment explanation
Indices: 9813719--9813964 Score: 318
Period size: 131 Copynumber: 1.9 Consensus size: 132
9813709 TATACTTACA
* *
9813719 GAAGAAGAATTCTAAGAGAAAAATAATTCTTAATAGGTAAGTTTGACTTGTAAAAGAAGAATTTT
1 GAAGAAGAATTCTAAAAGAAAAATAATTCTTAATAGGTAAGTTTGACTTGTAAAAGAAGAATTCT
9813784 AAAAGAAAAAAAATT-TTAATAAGCAAGTTTATATGCTTATAAATAGATGGAGTTTCTCTAGGGT
66 AAAAGAAAAAAAATTCTTAATAAGCAAGTTTATATGCTTATAAATAGATGGAGTTTCTCTAGGGT
9813848 TG
131 TG
* * ** * *
9813850 GAAGAATAATTCTAAAAGGAAAATGGTTTTTCATAGGTAAGTTTGA-TT-TACAGAAGAAGAATT
1 GAAGAAGAATTCTAAAAGAAAAATAATTCTTAATAGGTAAGTTTGACTTGTA-A-AAGAAGAATT
* * * ** * *
9813913 CTAAGAGGAAAGACTTTCTTAATAGGTAAGTTTATATGCTTATAAATAGATG
64 CTAAAAGAAAAAAAATTCTTAATAAGCAAGTTTATATGCTTATAAATAGATG
9813965 AAGTCTCTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
129 2 0.02
130 3 0.03
131 60 0.62
132 32 0.33
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.33
Consensus pattern (132 bp):
GAAGAAGAATTCTAAAAGAAAAATAATTCTTAATAGGTAAGTTTGACTTGTAAAAGAAGAATTCT
AAAAGAAAAAAAATTCTTAATAAGCAAGTTTATATGCTTATAAATAGATGGAGTTTCTCTAGGGT
TG
Found at i:9817339 original size:120 final size:120
Alignment explanation
Indices: 9817122--9817339 Score: 289
Period size: 120 Copynumber: 1.8 Consensus size: 120
9817112 TAATACTACT
* * * *
9817122 AATAATAATAGGGAGTAGGCCCGTCGGTGGGCATCATAAGTTCACGCTTTTGAAACTTTGAGAGG
1 AATAATAATAGGGAGTAGGCCCGTAGGTGGGCATCATAAGTTCACGCGTTGGAAACTTTGAGACG
* * *
9817187 CAAAGCAGACAATTATTGGATCGATTTTTTTTTGTTTTTGAGGAAGGATGTCGAC
66 CAAAGCAGACAATTATTGGAGCGAATTATTTTTGTTTTTGAGGAAGGATGTCGAC
* * * *
9817242 AATAATAATGGGGCGTAGGCCCGTAGGT-GGCTATCATAAGTTTCAGGCGTTGGGAACTTTGAGA
1 AATAATAATAGGGAGTAGGCCCGTAGGTGGGC-ATCATAAG-TTCACGCGTTGGAAACTTTGAGA
9817306 CGC-AAGACAGACAATTATTGGAGC-AATTATTTTT
64 CGCAAAG-CAGACAATTATTGGAGCGAATTATTTTT
9817340 TTGGGGGGGC
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
119 3 0.04
120 44 0.52
121 37 0.44
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (120 bp):
AATAATAATAGGGAGTAGGCCCGTAGGTGGGCATCATAAGTTCACGCGTTGGAAACTTTGAGACG
CAAAGCAGACAATTATTGGAGCGAATTATTTTTGTTTTTGAGGAAGGATGTCGAC
Found at i:9818935 original size:21 final size:21
Alignment explanation
Indices: 9818911--9818961 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
9818901 CCTGAAATTA
9818911 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
9818932 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
9818953 AT-AAATATT
1 ATAAAATATT
9818962 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:9818952 original size:14 final size:14
Alignment explanation
Indices: 9818946--9818985 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
9818936 AATATTATTT
9818946 TTTAAATATAAATA
1 TTTAAATATAAATA
9818960 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
9818976 TATAAATATA
1 TTTAAATATA
9818986 TATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:9818967 original size:8 final size:8
Alignment explanation
Indices: 9818951--9818987 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
9818941 TATTTTTTAA
9818951 ATATAAAT
1 ATATAAAT
*
9818959 ATTTAAAT
1 ATATAAAT
*
9818967 ATATAATT
1 ATATAAAT
9818975 ATATAAAT
1 ATATAAAT
9818983 ATATA
1 ATATA
9818988 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:9818994 original size:14 final size:14
Alignment explanation
Indices: 9818948--9818995 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
9818938 TATTATTTTT
* *
9818948 TAAATATAAATATT
1 TAAATATATATATA
9818962 TAAATATATAATTATA
1 TAAATATAT-A-TATA
*
9818978 TAAATATATATAAA
1 TAAATATATATATA
9818992 TAAA
1 TAAA
9818996 AAATATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 15 0.52
15 2 0.07
16 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:9819903 original size:28 final size:29
Alignment explanation
Indices: 9819863--9819927 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
9819853 TTTAAGATAA
* *
9819863 TAAAATATCAATTTAAATCA-TAA-TTTT
1 TAAAAAATCAATTTAAATAATTAACTTTT
*
9819890 TAAAAAATCTAATTTAATTAATTAACTTTT
1 TAAAAAATC-AATTTAAATAATTAACTTTT
9819920 TAAAAAAT
1 TAAAAAAT
9819928 TTGATCTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 8 0.25
28 9 0.28
29 3 0.09
30 12 0.38
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (29 bp):
TAAAAAATCAATTTAAATAATTAACTTTT
Found at i:9821540 original size:8 final size:8
Alignment explanation
Indices: 9821520--9821587 Score: 54
Period size: 8 Copynumber: 8.8 Consensus size: 8
9821510 TTTTTTGAAA
9821520 AAAAATTT
1 AAAAATTT
*
9821528 GAAAATTT
1 AAAAATTT
9821536 AAAAA---
1 AAAAATTT
*
9821541 AAAAATAT
1 AAAAATTT
9821549 AAAATTATTT
1 AAAA--ATTT
*
9821559 AAAAAATT
1 AAAAATTT
9821567 AAAAA-TT
1 AAAAATTT
9821574 AAAAATTT
1 AAAAATTT
*
9821582 GAAAAT
1 AAAAAT
9821588 AAAACAAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
5 5 0.10
7 7 0.14
8 30 0.61
10 7 0.14
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (8 bp):
AAAAATTT
Found at i:9822253 original size:2 final size:2
Alignment explanation
Indices: 9822241--9822275 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9822231 ACAGATAAAC
*
9822241 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9822276 GGCATGATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9825746 original size:134 final size:134
Alignment explanation
Indices: 9825575--9825844 Score: 540
Period size: 134 Copynumber: 2.0 Consensus size: 134
9825565 TGCTTGGAAA
9825575 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGCC
1 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGCC
9825640 ATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAATT
66 ATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAATT
9825705 TGAT
131 TGAT
9825709 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGCC
1 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGCC
9825774 ATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAATT
66 ATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAATT
9825839 TGAT
131 TGAT
9825843 AA
1 AA
9825845 CATCATGGTG
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 136 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.41
Consensus pattern (134 bp):
AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGCC
ATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAATT
TGAT
Found at i:9825998 original size:167 final size:165
Alignment explanation
Indices: 9825709--9826186 Score: 748
Period size: 162 Copynumber: 2.9 Consensus size: 165
9825699 TTAATTTGAT
9825709 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGCC
1 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGCC
9825774 ATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAATT
66 ATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAATT
9825839 TGATAACATCATGGTGTGGTGTAGAATGCTTGGAAA
131 TGATAACATCAT-GTGTGGTGTAGAATGCTTGGAAA
9825875 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGGC
1 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGAT-GGGC
9825940 CATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAAT
65 CATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAAT
9826005 TTGATAACATCA----TGGTGTAGAATGCTTGGAAA
130 TTGATAACATCATGTGTGGTGTAGAATGCTTGGAAA
* * * * * * * * *
9826037 AAACAATAAATTAAATTTGAATGTAAATCATTGAAATTTTTTAAATTCAGTAATAAAAGCTGGAC
1 AAACAATAAATTAAATTTGAATGCAAATCTTTGAAA-TTTCTAAATTTAATAATGAAGGATGGGC
* ** * * * *
9826102 TATCTCCATTTTTTCTTTTTCTCTAGTCAAACATTAGTAGTTAAACATTAACTTTAGTAATTAAT
65 CATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAAT
9826167 TTGATAACATCATGATGTGG
130 TTGATAACATCATG-TGTGG
9826187 CCAGGAGAGC
Statistics
Matches: 289, Mismatches: 16, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
162 127 0.44
163 18 0.06
166 60 0.21
167 84 0.29
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (165 bp):
AAACAATAAATTAAATTTGAATGCAAATCTTTGAAATTTCTAAATTTAATAATGAAGGATGGGCC
ATCTTTATCTTTTCTTTTTCTCTAGTCAAACATCAGTAGTTAAACATTAATTTTACTAATTAATT
TGATAACATCATGTGTGGTGTAGAATGCTTGGAAA
Found at i:9834152 original size:18 final size:18
Alignment explanation
Indices: 9834129--9834172 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
9834119 GTGCTAGCTT
9834129 CTGCTCCAGCTTCTAGCA
1 CTGCTCCAGCTTCTAGCA
*
9834147 CTGCTCCAGCTTCTAGCG
1 CTGCTCCAGCTTCTAGCA
9834165 CTGCTCCA
1 CTGCTCCA
9834173 ACTTTATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.41, G:0.18, T:0.27
Consensus pattern (18 bp):
CTGCTCCAGCTTCTAGCA
Found at i:9840507 original size:2 final size:2
Alignment explanation
Indices: 9840500--9840543 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
9840490 AGTATTTCAT
*
9840500 AC AC AC AC AC AA AC AC AC A- AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9840541 AC A
1 AC A
9840544 TATATATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9840577 original size:10 final size:10
Alignment explanation
Indices: 9840549--9840582 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9840539 ACACATATAT
9840549 ATATATAT-A
1 ATATATATGA
9840558 TATATATATGA
1 -ATATATATGA
9840569 ATATATATGA
1 ATATATATGA
9840579 ATAT
1 ATAT
9840583 TTCTATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 22 0.96
11 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (10 bp):
ATATATATGA
Found at i:9840591 original size:2 final size:2
Alignment explanation
Indices: 9840543--9840576 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
9840533 ACACACACAC
9840543 AT AT AT AT AT AT AT AT AT AT AT AT GA- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
9840577 GAATATTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 28 0.93
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9844159 original size:22 final size:22
Alignment explanation
Indices: 9844134--9844202 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
9844124 ATTTAACCGT
9844134 CAGTATAAATAAACTTTTTTTA
1 CAGTATAAATAAACTTTTTTTA
* * ***
9844156 CAGTAT--AT-GACTATCCGT-
1 CAGTATAAATAAACTTTTTTTA
9844174 CAGTATAAATAAACTTTTTTTA
1 CAGTATAAATAAACTTTTTTTA
9844196 CAGTATA
1 CAGTATA
9844203 TGACTATCCG
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
18 6 0.18
19 5 0.15
20 4 0.12
21 5 0.15
22 13 0.39
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (22 bp):
CAGTATAAATAAACTTTTTTTA
Found at i:9844185 original size:40 final size:40
Alignment explanation
Indices: 9844130--9844221 Score: 184
Period size: 40 Copynumber: 2.3 Consensus size: 40
9844120 CTTTATTTAA
9844130 CCGTCAGTATAAATAAACTTTTTTTACAGTATATGACTAT
1 CCGTCAGTATAAATAAACTTTTTTTACAGTATATGACTAT
9844170 CCGTCAGTATAAATAAACTTTTTTTACAGTATATGACTAT
1 CCGTCAGTATAAATAAACTTTTTTTACAGTATATGACTAT
9844210 CCGTCAGTATAA
1 CCGTCAGTATAA
9844222 CTATGTTATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (40 bp):
CCGTCAGTATAAATAAACTTTTTTTACAGTATATGACTAT
Found at i:9845216 original size:282 final size:284
Alignment explanation
Indices: 9844717--9845266 Score: 804
Period size: 282 Copynumber: 1.9 Consensus size: 284
9844707 ATAATCTTTT
* * * * * *
9844717 ACAAAAAATTGAATAGGATTATTCAAAGCATTTTTTTGGCCAAAAATGCCTTGAATAATCCGTTA
1 ACAAAAAATTAAATAAGATTATTCAAAGCATTTTTTTGACCAAAAATACATTGAATAATCCATTA
* * * * *
9844782 ATAAAAGTATTTAAATAACTTAGTCGATTAGAGCATATAGCTATTAACCATAAGATTGTAGGTTC
66 ACAAAAATATTTAAATAACTCAGTCAATTAGAGCATATAGCTATCAACCATAAGATTGTAGGTTC
* * *
9844847 AATCCTTTCCTCTAGCATTTTGAAGGTTTTTCAAAGGATTATTAAATGTGTTTTTAGCCAAAAAT
131 AATCCTTCCCTCTAGCATTTTGAAGGTTTTTCAAAGGATTATTAAATGTGGTTTTAGCAAAAAAT
* *
9844912 ATCTTGAATAATTTCCTACAAAAAATTGAATAGGATAATTCAAGACA-TTTTT-T-AAAATGCCT
196 ATCTTAAATAATCTCCTAC-AAAAATTGAATAGGATAATTCAAGACATTTTTTATAAAAATGCCT
9844974 TGAATAATTCATTGAATAATCCCTC
260 TGAATAATTCATTGAATAATCCCTC
* *
9844999 ACAAAAAATTAAATAAGATTATTCAAAGTATTTTTTTGATCAAAAATACATTGAATAATCCATTA
1 ACAAAAAATTAAATAAGATTATTCAAAGCATTTTTTTGACCAAAAATACATTGAATAATCCATTA
* *
9845064 ACAAAAATATTTGAATAGCTCAGTCAATTAGAGCATATAGCTATCAACCATAA-AGTTGTAGGTT
66 ACAAAAATATTTAAATAACTCAGTCAATTAGAGCATATAGCTATCAACCATAAGA-TTGTAGGTT
* * *
9845128 CAAT-CTCTCCCTCTAGCATTTTGAGGGTTTTTCAAGGGATTATTGAATGTGGTTTTAGCAAAAA
130 CAATCCT-TCCCTCTAGCATTTTGAAGGTTTTTCAAAGGATTATTAAATGTGGTTTTAGCAAAAA
* *
9845192 ATGTCTTAAATAATCTCTTACAAAAATTGAATAGGATAATTCAAGACATTTTTTATCAAAAATGC
194 ATATCTTAAATAATCTCCTACAAAAATTGAATAGGATAATTCAAGACATTTTTTAT-AAAAATGC
9845257 CTTGAATAAT
258 CTTGAATAAT
9845267 CCTTTAAAAA
Statistics
Matches: 237, Mismatches: 25, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
281 30 0.13
282 189 0.80
283 1 0.00
285 17 0.07
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (284 bp):
ACAAAAAATTAAATAAGATTATTCAAAGCATTTTTTTGACCAAAAATACATTGAATAATCCATTA
ACAAAAATATTTAAATAACTCAGTCAATTAGAGCATATAGCTATCAACCATAAGATTGTAGGTTC
AATCCTTCCCTCTAGCATTTTGAAGGTTTTTCAAAGGATTATTAAATGTGGTTTTAGCAAAAAAT
ATCTTAAATAATCTCCTACAAAAATTGAATAGGATAATTCAAGACATTTTTTATAAAAATGCCTT
GAATAATTCATTGAATAATCCCTC
Found at i:9845651 original size:121 final size:121
Alignment explanation
Indices: 9845437--9845756 Score: 328
Period size: 121 Copynumber: 2.7 Consensus size: 121
9845427 AACTGTCTTG
* *
9845437 AATAATCTTATTTAATTTTTTGTAAGAGATTATTCAAAGCATTTTTGATCAAAAACGCCTTGAAT
1 AATAATCTTATTTAATTTTATGTAAGAGATTATTCAAAGCATTTTTGACCAAAAACGCCTTGAAT
9845502 AATCCCTAAAAAAAGGCAGGAGATTATTCAAGGTATTTTTAGCCGAAAATACCTTA
66 AATCCCTAAAAAAAGGCAGGAGATTATTCAAGGTATTTTTAGCCGAAAATACCTTA
* * *
9845558 AATAATCTTATTTAATCTTTATG-AAGGGATTATTCAAAGCATTTTT-AGCCAAAAATGCCTTTA
1 AATAATCTTATTTAAT-TTTATGTAAGAGATTATTCAAAGCATTTTTGA-CCAAAAACGCCTTGA
* * ** * * *
9845621 ATAATCCTTAAAAAAAGGCAATG-GATTATTCAAGGCGTATTTAG-CGAGAAATGCCTTG
64 ATAATCCCTAAAAAAAGGC-AGGAGATTATTCAAGGTATTTTTAGCCGA-AAATACCTTA
* ** * * * ** * ** *
9845679 AATAACCCCATTAAATTTTTTGTAA-ATGATTATTCAAGGTGTTTCTGATAAAAAATGCCTTGAA
1 AATAATCTTATTTAATTTTATGTAAGA-GATTATTCAAAGCATTTTTGACCAAAAACGCCTTGAA
*
9845743 TAATCTC-AAAAAAA
65 TAATCCCTAAAAAAA
9845757 TGGCGGGCTT
Statistics
Matches: 165, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
120 16 0.10
121 141 0.85
122 8 0.05
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (121 bp):
AATAATCTTATTTAATTTTATGTAAGAGATTATTCAAAGCATTTTTGACCAAAAACGCCTTGAAT
AATCCCTAAAAAAAGGCAGGAGATTATTCAAGGTATTTTTAGCCGAAAATACCTTA
Found at i:9849807 original size:60 final size:60
Alignment explanation
Indices: 9849714--9849836 Score: 210
Period size: 60 Copynumber: 2.0 Consensus size: 60
9849704 TCAGCAGCTT
*
9849714 CTTTACTTTGACTGCTGGTTTCCTGTTCTAGTTTTCCTTTGTCTTGAATTGGCGACGACG
1 CTTTACTTTGACTACTGGTTTCCTGTTCTAGTTTTCCTTTGTCTTGAATTGGCGACGACG
* * *
9849774 CTTTACTTTGACTACTGGTTTCTTGTTTTAGTTTTCCTTTGTCTTGAATTGGCGACGGCG
1 CTTTACTTTGACTACTGGTTTCCTGTTCTAGTTTTCCTTTGTCTTGAATTGGCGACGACG
9849834 CTT
1 CTT
9849837 GTTGCGCCGG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.47
Consensus pattern (60 bp):
CTTTACTTTGACTACTGGTTTCCTGTTCTAGTTTTCCTTTGTCTTGAATTGGCGACGACG
Found at i:9853365 original size:18 final size:18
Alignment explanation
Indices: 9853331--9853373 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9853321 TAAAAATTTG
*
9853331 ATATATATTTTATTTTTA
1 ATATATTTTTTATTTTTA
9853349 AT-TATTTTTTAATTTTTA
1 ATATATTTTTT-ATTTTTA
9853367 ATATATT
1 ATATATT
9853374 GGGCATGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATATTTTTTATTTTTA
Found at i:9858883 original size:17 final size:18
Alignment explanation
Indices: 9858836--9858883 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
9858826 ATAAATTTCT
9858836 ATTTTTT-A-CAA-TTTA
1 ATTTTTTAATCAAGTTTA
* *
9858851 ATTTTTTACTCGAGTTTA
1 ATTTTTTAATCAAGTTTA
9858869 ATTTTTTAAT-AAGTT
1 ATTTTTTAATCAAGTT
9858884 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 7 0.27
17 6 0.23
18 13 0.50
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTTTTAATCAAGTTTA
Found at i:9859086 original size:14 final size:13
Alignment explanation
Indices: 9859058--9859101 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
9859048 TCATTTATAA
9859058 ATATTAAATAAAT
1 ATATTAAATAAAT
*
9859071 ATATTTAAT-AAT
1 ATATTAAATAAAT
9859083 ATATATAAATAAAT
1 ATAT-TAAATAAAT
9859097 ATATT
1 ATATT
9859102 CACGAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 7 0.26
13 13 0.48
14 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:9859097 original size:26 final size:23
Alignment explanation
Indices: 9859037--9859125 Score: 81
Period size: 23 Copynumber: 3.7 Consensus size: 23
9859027 ATTCGATTGA
*
9859037 ATTAAATGAAT-TCATTTATAAAT
1 ATTAAATAAATAT-ATTTATAAAT
9859060 ATTAAATAAATATATTTAATAATAT
1 ATTAAATAAATATATTT-ATAA-AT
* **
9859085 ATATAAATAAATATATTCACGAAT
1 AT-TAAATAAATATATTTATAAAT
*
9859109 AATAAATAAATTATATT
1 ATTAAATAAA-TATATT
9859126 AAAATAAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
23 22 0.39
24 14 0.25
25 6 0.11
26 14 0.25
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTAAATAAATATATTTATAAAT
Found at i:9859659 original size:22 final size:22
Alignment explanation
Indices: 9859627--9859677 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
9859617 TTATTTATAA
*
9859627 ATTA-AAAAAAATCATTAACATT
1 ATTATAAAAAAATCA-TAAAATT
9859649 A-TATAAAAAAATCATAAAATT
1 ATTATAAAAAAATCATAAAATT
9859670 ATTATAAA
1 ATTATAAA
9859678 TTTAAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (22 bp):
ATTATAAAAAAATCATAAAATT
Found at i:9860046 original size:20 final size:20
Alignment explanation
Indices: 9860015--9860052 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9860005 TTTCTCGCAC
9860015 CATAATAAAAGTTCAATTTTT
1 CATAATAAAAGTT-AATTTTT
9860036 CATAA-AAAAGTTAATTT
1 CATAATAAAAGTTAATTT
9860053 GAAACATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
CATAATAAAAGTTAATTTTT
Found at i:9866658 original size:22 final size:23
Alignment explanation
Indices: 9866632--9866682 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
9866622 TATATAGTTA
9866632 TATTATAAA-TAAA-TAATTTATT
1 TATTATAAATTAAATTAA-TTATT
9866654 TATTA-AAATTAAATTAATTATT
1 TATTATAAATTAAATTAATTATT
9866676 TAATTAT
1 T-ATTAT
9866683 CACATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 3 0.12
22 15 0.60
23 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTATAAATTAAATTAATTATT
Found at i:9869513 original size:7 final size:7
Alignment explanation
Indices: 9869501--9869525 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9869491 TGGGATAGTT
9869501 TTATTTA
1 TTATTTA
9869508 TTATTTA
1 TTATTTA
9869515 TTATTTA
1 TTATTTA
9869522 TTAT
1 TTAT
9869526 ATTTAGGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:9876427 original size:12 final size:12
Alignment explanation
Indices: 9876410--9876434 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9876400 TACTTAAGTG
9876410 CCTAATTACATT
1 CCTAATTACATT
9876422 CCTAATTACATT
1 CCTAATTACATT
9876434 C
1 C
9876435 TTAGGGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (12 bp):
CCTAATTACATT
Found at i:9878249 original size:2 final size:2
Alignment explanation
Indices: 9878244--9878275 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9878234 CACGCGTGTC
9878244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9878276 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9881977 original size:2 final size:2
Alignment explanation
Indices: 9881972--9882020 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
9881962 TCTCTCTCTG
9881972 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9882014 TA TA TA T
1 TA TA TA T
9882021 TTTTTTTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9901699 original size:119 final size:117
Alignment explanation
Indices: 9901576--9901789 Score: 288
Period size: 119 Copynumber: 1.8 Consensus size: 117
9901566 TTATAATTCA
* *
9901576 AATTTAATAG-TAAAAATTATATTAATATTTTTACT-AAAATATCTATCTAAAAATATATATAAA
1 AATTT-ATAGATAAAAATTATATCAATATTTTTACTAAAAATATCTATCTAAAAATATACATAAA
* *
9901639 CTTTTTTATCAAAAATTTTTAAATTTTACACACTGATCTATGTAATTCGATTTTTT
65 -TTTATTA--AAAAATTTTTAAATTGTACACACTGATCTATGTAATTCGATTTTTT
* * * * * *
9901695 AATTTATTGATTAAAATTTTGTCAATATTTTTACTAAAAATATTTATTTAAAAATATACATAAAT
1 AATTTATAGATAAAAATTATATCAATATTTTTACTAAAAATATCTATCTAAAAATATACATAAAT
9901760 TTATTAAAAAATTTTTAAATTGTACACACT
66 TTATTAAAAAATTTTTAAATTGTACACACT
9901790 TAATTTATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
117 23 0.28
118 3 0.04
119 32 0.39
120 25 0.30
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (117 bp):
AATTTATAGATAAAAATTATATCAATATTTTTACTAAAAATATCTATCTAAAAATATACATAAAT
TTATTAAAAAATTTTTAAATTGTACACACTGATCTATGTAATTCGATTTTTT
Found at i:9914340 original size:18 final size:18
Alignment explanation
Indices: 9914310--9914367 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
9914300 CTTCTGGCTT
*
9914310 TTCTCTTCTTTCTCCTCT
1 TTCTCTTCTTTCTCCTCC
* *
9914328 TTGTC-TCTCTTCTTCTCC
1 TTCTCTTCT-TTCTCCTCC
9914346 TTCTCTTCTTTCTCCTCC
1 TTCTCTTCTTTCTCCTCC
9914364 TTCT
1 TTCT
9914368 TCCTCTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 3 0.09
18 27 0.82
19 3 0.09
ACGTcount: A:0.00, C:0.40, G:0.02, T:0.59
Consensus pattern (18 bp):
TTCTCTTCTTTCTCCTCC
Found at i:9914475 original size:27 final size:27
Alignment explanation
Indices: 9914436--9914499 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
9914426 CTTCTCTTTC
*
9914436 TTCTTCTTCTCCTTCTCATCCTTATCT
1 TTCTTTTTCTCCTTCTCATCCTTATCT
* *
9914463 TTCTTTTTGTCCTTCTCATCCTTGTCT
1 TTCTTTTTCTCCTTCTCATCCTTATCT
9914490 TTCTTTTTCT
1 TTCTTTTTCT
9914500 TCTCTTCACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.05, C:0.31, G:0.03, T:0.61
Consensus pattern (27 bp):
TTCTTTTTCTCCTTCTCATCCTTATCT
Found at i:9914579 original size:18 final size:17
Alignment explanation
Indices: 9914552--9914594 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9914542 TCTTCTTGTC
*
9914552 CTTCTCCTCTTTGTCTTT
1 CTTCTTCTCTTT-TCTTT
*
9914570 CTTCTTCTCTTTTTTTT
1 CTTCTTCTCTTTTCTTT
*
9914587 CTCCTTCT
1 CTTCTTCT
9914595 TCATCGTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (17 bp):
CTTCTTCTCTTTTCTTT
Found at i:9914635 original size:81 final size:81
Alignment explanation
Indices: 9914543--9914756 Score: 241
Period size: 90 Copynumber: 2.5 Consensus size: 81
9914533 TTTTTTCTTT
* * *
9914543 CTTCTTGTCCTTCTCCTCTTTGTCTTTCTTCTTCTCTTTTTTTTCTCCTTCTTCATCGTCTTCTA
1 CTTCTTCTCCTTCTCCTCTTTGTCTTTCTTCTTCTCTTTTTTTTCTCCATCTTCATCGTCTTCAA
*
9914608 CCTCGTTCTCTTTATC
66 CATCGTTCTCTTTATC
*
9914624 CTTCTTCTCCTTCACCTCTTTGTCTTTCTTCTCTTTCTTTTTCTCTTCTTTTTCTCCATCTTCAT
1 CTTCTTCTCCTTCTCCTCTTTGTCTTTC-T-TC-TTC----TCT-TT-TTTTTCTCCATCTTCAT
*
9914689 CTTCTTCAACATCGTTCTCTTTATC
57 CGTCTTCAACATCGTTCTCTTTATC
*
9914714 CTTCTTCTTTTCCTT-TGCCTCGTTGTCTTTCTTCTTCTCTTTT
1 CTTCTTC---TCCTTCT-CCTCTTTGTCTTTCTTCTTCTCTTTT
9914757 CCCTTGTATT
Statistics
Matches: 112, Mismatches: 8, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
81 26 0.23
82 1 0.01
83 2 0.02
84 4 0.04
85 2 0.02
86 3 0.03
88 3 0.03
89 2 0.02
90 48 0.43
91 2 0.02
92 1 0.01
93 18 0.16
ACGTcount: A:0.05, C:0.33, G:0.04, T:0.58
Consensus pattern (81 bp):
CTTCTTCTCCTTCTCCTCTTTGTCTTTCTTCTTCTCTTTTTTTTCTCCATCTTCATCGTCTTCAA
CATCGTTCTCTTTATC
Found at i:9914659 original size:90 final size:91
Alignment explanation
Indices: 9914565--9914748 Score: 262
Period size: 90 Copynumber: 2.0 Consensus size: 91
9914555 CTCCTCTTTG
* * * *
9914565 TCTTTCTTCTTCTCTTTTTTTTCTCCTTCTTCATCGTCTTCTACCTCGTTCTCTTTATCCTTCTT
1 TCTTTCTTCTTCTCTTCTTTTTCTCCATCTTCATCGTCTTCAACATCGTTCTCTTTATCCTTCTT
*
9914630 C-TCCTTCACCTCTTTGTCTTTCTTC
66 CTTCCTTCACCTCGTTGTCTTTCTTC
* *
9914655 TCTTTCTTTTTCTCTTCTTTTTCTCCATCTTCATCTTCTTCAACATCGTTCTCTTTATCCTTCTT
1 TCTTTCTTCTTCTCTTCTTTTTCTCCATCTTCATCGTCTTCAACATCGTTCTCTTTATCCTTCTT
**
9914720 CTTTTCCTTTGCCTCGTTGTCTTTCTTC
66 C--TTCCTTCACCTCGTTGTCTTTCTTC
9914748 T
1 T
9914749 TCTCTTTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
90 60 0.73
93 22 0.27
ACGTcount: A:0.05, C:0.33, G:0.04, T:0.58
Consensus pattern (91 bp):
TCTTTCTTCTTCTCTTCTTTTTCTCCATCTTCATCGTCTTCAACATCGTTCTCTTTATCCTTCTT
CTTCCTTCACCTCGTTGTCTTTCTTC
Found at i:9914674 original size:11 final size:12
Alignment explanation
Indices: 9914646--9914679 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
9914636 CACCTCTTTG
9914646 TCTTTCTTCTCTT
1 TCTTT-TTCTCTT
9914659 TCTTTTTCTC-T
1 TCTTTTTCTCTT
9914670 TCTTTTTCTC
1 TCTTTTTCTC
9914680 CATCTTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 5 0.24
13 5 0.24
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TCTTTTTCTCTT
Found at i:9921721 original size:16 final size:16
Alignment explanation
Indices: 9921700--9921731 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9921690 TTATTTGTTT
9921700 TGTAGAATTAATTGGA
1 TGTAGAATTAATTGGA
9921716 TGTAGAATTAATTGGA
1 TGTAGAATTAATTGGA
9921732 AGGGTATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (16 bp):
TGTAGAATTAATTGGA
Found at i:9929980 original size:15 final size:16
Alignment explanation
Indices: 9929948--9929981 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9929938 TCAAAATTCC
*
9929948 AAACAAAGTCACATTA
1 AAACAAAGTCAAATTA
9929964 AAACAAA-TCAAATTA
1 AAACAAAGTCAAATTA
9929979 AAA
1 AAA
9929982 TAAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.18
Consensus pattern (16 bp):
AAACAAAGTCAAATTA
Found at i:9931767 original size:15 final size:15
Alignment explanation
Indices: 9931749--9931780 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9931739 TTTCATCGAT
9931749 AAAATCCATAAGTAA
1 AAAATCCATAAGTAA
*
9931764 AAAATTCATAAGTAA
1 AAAATCCATAAGTAA
9931779 AA
1 AA
9931781 TCTATCAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (15 bp):
AAAATCCATAAGTAA
Found at i:9931772 original size:28 final size:27
Alignment explanation
Indices: 9931740--9931805 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
9931730 AAGCTAAATT
9931740 TTCATCGATAAAATCCATAAGTAAAAAA
1 TTCATCGATAAAATCCATAAGT-AAAAA
* * *
9931768 TTCAT-AAGTAAAATCTATCAGTAAAAA
1 TTCATCGA-TAAAATCCATAAGTAAAAA
*
9931795 TTTATCGATAA
1 TTCATCGATAA
9931806 TCTGTCAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (27 bp):
TTCATCGATAAAATCCATAAGTAAAAA
Found at i:9931911 original size:20 final size:19
Alignment explanation
Indices: 9931884--9931947 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 19
9931874 TTAATTTCAT
9931884 TTAT-AATTATTTAAGAAAC
1 TTATAAATTATTTAA-AAAC
9931903 TTATAAATTAAATTT-AAAAC
1 TTATAAATT--ATTTAAAAAC
*
9931923 ATATGAAATTATTTAAAAAGC
1 TTAT-AAATTATTTAAAAA-C
9931944 TTAT
1 TTAT
9931948 TATTTCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 8 0.22
20 15 0.41
21 10 0.27
22 4 0.11
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
TTATAAATTATTTAAAAAC
Found at i:9932095 original size:21 final size:21
Alignment explanation
Indices: 9932071--9932110 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9932061 AATATAATAC
9932071 TAAAAAAAT-TCATAACATCTA
1 TAAAAAAATCT-ATAACATCTA
*
9932092 TAAAAATATCTATAACATC
1 TAAAAAAATCTATAACATC
9932111 CACGAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAAAAATCTATAACATCTA
Found at i:9935901 original size:9 final size:8
Alignment explanation
Indices: 9935891--9935955 Score: 50
Period size: 9 Copynumber: 8.5 Consensus size: 8
9935881 TTTCATTTTC
9935891 TTATATTT
1 TTATATTT
9935899 CTTATATTT
1 -TTATATTT
9935908 TTATTATTT
1 TTA-TATTT
*
9935917 TTATATTA
1 TTATATTT
**
9935925 TTAT-TAG
1 TTATATTT
9935932 TT-TATTT
1 TTATATTT
9935939 TT-TA-TT
1 TTATATTT
9935945 TTAT-TTT
1 TTATATTT
9935952 TTAT
1 TTAT
9935956 TTTAAAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
6 5 0.11
7 15 0.32
8 11 0.23
9 16 0.34
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:9935920 original size:17 final size:17
Alignment explanation
Indices: 9935894--9935958 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
9935884 CATTTTCTTA
9935894 TATTTCTTATATTTTTAT
1 TATTT-TTATATTTTTAT
*
9935912 TATTTTTATATTATTAT
1 TATTTTTATATTTTTAT
*
9935929 TA-GTTTAT-TTTTTATTT
1 TATTTTTATATTTTTA--T
9935946 TATTTTT-TATTTT
1 TATTTTTATATTTT
9935959 AAAAATTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 5 0.13
16 5 0.13
17 17 0.44
18 12 0.31
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (17 bp):
TATTTTTATATTTTTAT
Found at i:9935949 original size:12 final size:12
Alignment explanation
Indices: 9935914--9935959 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
9935904 ATTTTTATTA
*
9935914 TTTTTATATTA-
1 TTTTTATTTTAT
* *
9935925 TTATTAGTTTAT
1 TTTTTATTTTAT
9935937 TTTTTATTTTAT
1 TTTTTATTTTAT
9935949 TTTTTATTTTA
1 TTTTTATTTTA
9935960 AAAATTAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 8 0.28
12 21 0.72
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:9937087 original size:9 final size:9
Alignment explanation
Indices: 9937074--9937127 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
9937064 AAGAATAAGA
9937074 AAAAAGAAAT
1 AAAAA-AAAT
9937084 AAAAAAAAT
1 AAAAAAAAT
9937093 AAAAAATTAAT
1 AAAAAA--AAT
* **
9937104 AATAATGAT
1 AAAAAAAAT
9937113 AAAAAAAAT
1 AAAAAAAAT
9937122 AAAAAA
1 AAAAAA
9937128 TGGTGTTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
9 24 0.67
10 5 0.14
11 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.17
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:9937354 original size:49 final size:51
Alignment explanation
Indices: 9937301--9937462 Score: 163
Period size: 49 Copynumber: 3.3 Consensus size: 51
9937291 GCAGAAACTC
*
9937301 AACAACTTTAAAAAA-AAT-TTAAAAAAAAAGCTCCTCTAAACAGAGGCTT
1 AACAACTTTAAAAAATAATCTTAAAAAAAAAGCTCATCTAAACAGAGGCTT
* ** * *
9937350 AACAACTTTAAAAAATCATCTTTGAAAAAAAGCTCATCTTAATAGAGGCTT
1 AACAACTTTAAAAAATAATCTTAAAAAAAAAGCTCATCTAAACAGAGGCTT
*** * * * *
9937401 AACAACTTTAAATTTTCATCTT--GAAAAAGGCTCATCTCAGA-AGAGGCTT
1 AACAACTTTAAAAAATAATCTTAAAAAAAAAGCTCATCT-AAACAGAGGCTT
9937450 AACAACTTTAAAA
1 AACAACTTTAAAA
9937463 TTCATCTTGA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
49 48 0.50
50 3 0.03
51 45 0.47
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (51 bp):
AACAACTTTAAAAAATAATCTTAAAAAAAAAGCTCATCTAAACAGAGGCTT
Found at i:9937521 original size:97 final size:98
Alignment explanation
Indices: 9937325--9937567 Score: 278
Period size: 97 Copynumber: 2.5 Consensus size: 98
9937315 AAATTTAAAA
* *
9937325 AAAAAGCTCCTCTAA-ACAGAGGCTTAACAACTTTAAAAAATCATCTTTGAAAAAAAGCTCATCT
1 AAAAAGCTCATCTAAGA-AGAGGCTTAACAACTTTAAAAATTCATC-TTGAAAAAAAGCTCATCT
* * * * *
9937389 TAATAGAGGCTTAACAACTTTAAATTTTCATCTTG
64 CAACAGAGGATTAACAACTTTAAAATCTCATCTTG
* * *
9937424 AAAAAGGCTCATCTCAGAAGAGGCTTAACAACTTT-AAAATTCATCTTG-AAAAATGCTCCTCTC
1 AAAAA-GCTCATCTAAGAAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAAAGCTCATCTC
*
9937487 AGCAGA-GATTCAACAACTTTAAAATCTCATCTTG
65 AACAGAGGATT-AACAACTTTAAAATCTCATCTTG
* * * *
9937521 AAAAAGCTCTTCTAAGTAGAGACTAAACAACTTTAAAAATCTCATCT
1 AAAAAGCTCATCTAAGAAGAGGCTTAACAACTTTAAAAAT-TCATCT
9937568 GCTCTTGAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
96 27 0.22
97 47 0.38
98 9 0.07
99 14 0.11
100 25 0.20
101 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (98 bp):
AAAAAGCTCATCTAAGAAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAAAGCTCATCTCA
ACAGAGGATTAACAACTTTAAAATCTCATCTTG
Found at i:9937560 original size:49 final size:48
Alignment explanation
Indices: 9937325--9937567 Score: 249
Period size: 48 Copynumber: 5.0 Consensus size: 48
9937315 AAATTTAAAA
* * **
9937325 AAAAAGCTCCTCTAAACAGAGGCTTAACAACTTTAAAAAATCATCTTTG
1 AAAAAGCTCATCTAAGCAGAGGCTTAACAACTTTAAAATCTCATC-TTG
* * *
9937374 AAAAAAAGCTCATCTTAA-TAGAGGCTTAACAACTTTAAATTTTCATCTTG
1 --AAAAAGCTCATC-TAAGCAGAGGCTTAACAACTTTAAAATCTCATCTTG
* *
9937424 AAAAAGGCTCATCTCAGAAGAGGCTTAACAACTTTAAAAT-TCATCTTG
1 AAAAA-GCTCATCTAAGCAGAGGCTTAACAACTTTAAAATCTCATCTTG
* * *
9937472 AAAAATGCTCCTCTCAGCAGA-GATTCAACAACTTTAAAATCTCATCTTG
1 AAAAA-GCTCATCTAAGCAGAGGCTT-AACAACTTTAAAATCTCATCTTG
* * * *
9937521 AAAAAGCTCTTCTAAGTAGAGACTAAACAACTTTAAAAATCTCATCT
1 AAAAAGCTCATCTAAGCAGAGGCTTAACAACTTT-AAAATCTCATCT
9937568 GCTCTTGAAA
Statistics
Matches: 167, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
47 3 0.02
48 68 0.41
49 54 0.32
50 3 0.02
51 36 0.22
52 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (48 bp):
AAAAAGCTCATCTAAGCAGAGGCTTAACAACTTTAAAATCTCATCTTG
Found at i:9949887 original size:22 final size:22
Alignment explanation
Indices: 9949843--9949889 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9949833 TAAATATTTT
* * * *
9949843 AATATGTATAAATATTAATAAA
1 AATATATATAAAAAATAAAAAA
9949865 AATATATATAAAAAATAAAAAA
1 AATATATATAAAAAATAAAAAA
9949887 AAT
1 AAT
9949890 TTTACCTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATATATATAAAAAATAAAAAA
Found at i:9950853 original size:9 final size:8
Alignment explanation
Indices: 9950822--9950874 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
9950812 AAAAAGAAAC
9950822 AAAA-AAT
1 AAAATAAT
9950829 AAAATAAT
1 AAAATAAT
9950837 AAAATAAT
1 AAAATAAT
9950845 AATAATAAT
1 AA-AATAAT
*
9950854 AATGATAA-
1 AA-AATAAT
*
9950862 AAAATAAA
1 AAAATAAT
9950870 AAAAT
1 AAAAT
9950875 TATATTTACA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
7 8 0.20
8 20 0.49
9 13 0.32
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:9959400 original size:11 final size:11
Alignment explanation
Indices: 9959382--9959423 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
9959372 AATCCCATAA
9959382 GAGATTTGTTT
1 GAGATTTGTTT
* *
9959393 GGGATTTGTTA
1 GAGATTTGTTT
9959404 GAGATTTGTTT
1 GAGATTTGTTT
9959415 GAGATTTGT
1 GAGATTTGT
9959424 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:9959409 original size:22 final size:22
Alignment explanation
Indices: 9959381--9959423 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9959371 AAATCCCATA
*
9959381 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
9959403 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
9959424 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:9959551 original size:52 final size:52
Alignment explanation
Indices: 9959467--9959603 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 52
9959457 AGAAGAATTC
** *
9959467 AAAGAGAAAGAGGATTCTTAATAGGTAAGTTTGACTTGTAAGAGAAAAATTTTA
1 AAAG-GAAAG-GGATTCTTAATAGGTAAGTTTGACTTACAAGAGAAAAATTCTA
* * *
9959521 GAAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAGGAGAAGAATTCTA
1 AAAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAAGAGAAAAATTCTA
* * * *
9959573 AAAGAAAAGAGATTCTTAATGGGCAAGTTTG
1 AAAGGAAAGGGATTCTTAATAGGTAAGTTTG
9959604 TATGGTTATA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 64 0.89
53 5 0.07
54 3 0.04
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (52 bp):
AAAGGAAAGGGATTCTTAATAGGTAAGTTTGACTTACAAGAGAAAAATTCTA
Found at i:9959805 original size:31 final size:32
Alignment explanation
Indices: 9959743--9959808 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 32
9959733 TTGTGAGTGG
*
9959743 ACTAGAGAAGACTGAGAGGGTCCACCACATAGGT
1 ACTAGAGAAGACTGAAAGGGT-C-CCACATAGGT
*
9959777 ACTAGAGGAGACTGAAAGGGT-CCACATAGGT
1 ACTAGAGAAGACTGAAAGGGTCCCACATAGGT
9959808 A
1 A
9959809 TGATGTATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 11 0.37
34 19 0.63
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.15
Consensus pattern (32 bp):
ACTAGAGAAGACTGAAAGGGTCCCACATAGGT
Found at i:9963519 original size:16 final size:16
Alignment explanation
Indices: 9963494--9963532 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9963484 TACATATTTA
9963494 AAATTATTTAGTAAAT
1 AAATTATTTAGTAAAT
* *
9963510 AAATTTTTTATTAAAT
1 AAATTATTTAGTAAAT
9963526 AATATTA
1 AA-ATTA
9963533 ATTATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AAATTATTTAGTAAAT
Found at i:9963549 original size:27 final size:28
Alignment explanation
Indices: 9963519--9963609 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 28
9963509 TAAATTTTTT
*
9963519 ATTAAATA-ATATTAAT-TATTTTTTTAA
1 ATTAAATAGA-ATTAATATATTTTTATAA
*
9963546 ATTAACTAGAATTAATATATTTTTATAA
1 ATTAAATAGAATTAATATATTTTTATAA
** *
9963574 AAAAAAT-GTATATTAATATATATTTATAA
1 ATTAAATAG-A-ATTAATATATTTTTATAA
*
9963603 ATAAAAT
1 ATTAAAT
9963610 TGTCTAAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.26
28 16 0.30
29 23 0.43
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (28 bp):
ATTAAATAGAATTAATATATTTTTATAA
Found at i:9964616 original size:16 final size:16
Alignment explanation
Indices: 9964597--9964627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9964587 ATCATATTAT
9964597 ATATAACAAAGTAAAC
1 ATATAACAAAGTAAAC
*
9964613 ATATAAGAAAGTAAA
1 ATATAACAAAGTAAA
9964628 GTATACTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (16 bp):
ATATAACAAAGTAAAC
Found at i:9967429 original size:27 final size:27
Alignment explanation
Indices: 9967391--9967445 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9967381 TTACTATCTG
9967391 TAAGGTTTTGGAGCCTTCTGGCTTATT
1 TAAGGTTTTGGAGCCTTCTGGCTTATT
9967418 TAAGGTTTTGGAGCCTTCTGGCTTATT
1 TAAGGTTTTGGAGCCTTCTGGCTTATT
9967445 T
1 T
9967446 CCTTTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.45
Consensus pattern (27 bp):
TAAGGTTTTGGAGCCTTCTGGCTTATT
Found at i:9971291 original size:20 final size:22
Alignment explanation
Indices: 9971266--9971305 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
9971256 AAAAAATTAT
9971266 TTTTTAATTA-AT-TATTTAAA
1 TTTTTAATTATATATATTTAAA
*
9971286 TTTTTATTTATATATATTTA
1 TTTTTAATTATATATATTTA
9971306 TATAATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTAATTATATATATTTAAA
Found at i:9971349 original size:21 final size:22
Alignment explanation
Indices: 9971321--9971372 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
9971311 TGATATTTTA
9971321 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
9971341 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
9971363 AATATTTTAT
1 AATATTTTAT
9971373 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:9976436 original size:22 final size:22
Alignment explanation
Indices: 9976411--9976457 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
9976401 TGTTGATAAA
9976411 AAATATAATATAT-ATTTTTATT
1 AAAT-TAATATATAATTTTTATT
* *
9976433 AAATTTATATATAATTTTTGTT
1 AAATTAATATATAATTTTTATT
9976455 AAA
1 AAA
9976458 ATTTTAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
AAATTAATATATAATTTTTATT
Found at i:9980043 original size:37 final size:38
Alignment explanation
Indices: 9979974--9980046 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
9979964 CCTGATTTCA
9979974 TAAAATAATATATATTTGAATATGATTTGATTTGATAT
1 TAAAATAATATATATTTGAATATGATTTGATTTGATAT
* *
9980012 TAAAATAATAT-T-TTTTATATTTGATTTGATTTGAT
1 TAAAATAATATATATTTGA-ATATGATTTGATTTGAT
9980047 TCGAATATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 17 0.53
38 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (38 bp):
TAAAATAATATATATTTGAATATGATTTGATTTGATAT
Found at i:9980185 original size:28 final size:27
Alignment explanation
Indices: 9980137--9980190 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
9980127 AATATTCTTT
9980137 AATATAAATTATGTTTTAATTATATATA
1 AATATAAATTATGTTTTAATTA-ATATA
9980165 AATATAATATT-T-TTTTAAATTAATAT
1 AATATAA-ATTATGTTTT-AATTAATAT
9980191 TTTAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 8 0.33
28 13 0.54
29 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
AATATAAATTATGTTTTAATTAATATA
Found at i:9980204 original size:15 final size:13
Alignment explanation
Indices: 9980177--9980210 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9980167 TATAATATTT
9980177 TTTTAAATTAATA
1 TTTTAAATTAATA
*
9980190 TTTTAAATTAAAA
1 TTTTAAATTAATA
*
9980203 TATTAAAT
1 TTTTAAAT
9980211 ACTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAATTAATA
Found at i:9991454 original size:18 final size:18
Alignment explanation
Indices: 9991413--9991448 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9991403 AAATTTAAAC
*
9991413 ATAATAAAATAATATGAT
1 ATAAAAAAATAATATGAT
9991431 ATAAAAAAATAATATGAT
1 ATAAAAAAATAATATGAT
9991449 TGAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
ATAAAAAAATAATATGAT
Found at i:10000414 original size:16 final size:16
Alignment explanation
Indices: 10000395--10000473 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
10000385 TAATTCGAAC
10000395 TAATTTAAATTTAAAA
1 TAATTTAAATTTAAAA
* *
10000411 TAATTTTGATTTTAAAAA
1 TAA-TTTAAATTT-AAAA
*
10000429 TAAATTATTTAAATTTAATA
1 T--A--ATTTAAATTTAAAA
* *
10000449 TAATTTGAACTTAAAA
1 TAATTTAAATTTAAAA
10000465 TAATTTAAA
1 TAATTTAAA
10000474 AATTTTAATC
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
16 22 0.46
17 7 0.15
18 6 0.12
20 5 0.10
21 7 0.15
22 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.46
Consensus pattern (16 bp):
TAATTTAAATTTAAAA
Found at i:10006635 original size:24 final size:25
Alignment explanation
Indices: 10006608--10006659 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
10006598 TTAAGTTTAT
* * *
10006608 ATTTAATGTATTGTTAGT-ATATAA
1 ATTTAATATATGGTTAGTAATAGAA
*
10006632 ATTTCATATATGGTTAGTAATAGAA
1 ATTTAATATATGGTTAGTAATAGAA
10006657 ATT
1 ATT
10006660 AGATTATGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.46
Consensus pattern (25 bp):
ATTTAATATATGGTTAGTAATAGAA
Found at i:10008855 original size:27 final size:27
Alignment explanation
Indices: 10008825--10008876 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10008815 TTTAATTTTG
*
10008825 ATGAGATTAAAAATAATAATAATAATA
1 ATGAAATTAAAAATAATAATAATAATA
** *
10008852 ATGAAATTAATTATTATAATAATAA
1 ATGAAATTAAAAATAATAATAATAA
10008877 AATTAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (27 bp):
ATGAAATTAAAAATAATAATAATAATA
Found at i:10008894 original size:21 final size:22
Alignment explanation
Indices: 10008832--10008894 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
10008822 TTGATGAGAT
*
10008832 TAAAAATAATAA-TAATAATAA
1 TAAAATTAATAATTAATAATAA
* *
10008853 TGAAATTAATTATT-ATAATAA
1 TAAAATTAATAATTAATAATAA
*
10008874 TAAAATTAA-AATTAATGATAA
1 TAAAATTAATAATTAATAATAA
10008895 AAATATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.09
21 30 0.88
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (22 bp):
TAAAATTAATAATTAATAATAA
Found at i:10008899 original size:27 final size:27
Alignment explanation
Indices: 10008837--10008899 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
10008827 GAGATTAAAA
* *
10008837 ATAATAATAATAATAATGAAATTAATT
1 ATAATAATAATAATAATAAAATTAATG
*
10008864 ATTATAATAATAA-AATTAAAATTAATG
1 ATAATAATAATAATAA-TAAAATTAATG
*
10008891 ATAAAAATA
1 ATAATAATA
10008900 TATATTTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (27 bp):
ATAATAATAATAATAATAAAATTAATG
Found at i:10009038 original size:18 final size:17
Alignment explanation
Indices: 10008977--10009065 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
10008967 AGATATTAAT
* *
10008977 TTAAAGATTATATATAA
1 TTAAAAATTATAAATAA
* *
10008994 -TAAAAATTTTAAATTA
1 TTAAAAATTATAAATAA
10009010 TTGATAAAATTAATAAATAA
1 TT-A-AAAATT-ATAAATAA
10009030 TTAAAAATTAATAAA-AA
1 TTAAAAATT-ATAAATAA
*
10009047 -TAATAATATATCAAATAA
1 TTAAAAAT-TAT-AAATAA
10009065 T
1 T
10009066 ATTCTTTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
16 20 0.35
17 7 0.12
18 15 0.26
19 7 0.12
20 8 0.14
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAAATTATAAATAA
Found at i:10009621 original size:17 final size:17
Alignment explanation
Indices: 10009595--10009636 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
10009585 TTTCACTTGT
* *
10009595 GCTACGGTGCTGCCGTC
1 GCTACAGTGCTGCCGCC
10009612 GCTACAGTGCTGCCGCC
1 GCTACAGTGCTGCCGCC
*
10009629 ACTACAGT
1 GCTACAGT
10009637 ATAGCCGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.14, C:0.36, G:0.29, T:0.21
Consensus pattern (17 bp):
GCTACAGTGCTGCCGCC
Found at i:10017030 original size:28 final size:28
Alignment explanation
Indices: 10016986--10017059 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
10016976 AGAATAGTTC
10016986 TTTGAAATCTTATAAGTGCAAAAGATTA
1 TTTGAAATCTTATAAGTGCAAAAGATTA
* *
10017014 TTTGAAATCTTACAAGTGCAAAAGATTG
1 TTTGAAATCTTATAAGTGCAAAAGATTA
10017042 TTTGAAATCTTATAAGTG
1 TTTGAAATCTTATAAGTG
10017060 ATGATTTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.36
Consensus pattern (28 bp):
TTTGAAATCTTATAAGTGCAAAAGATTA
Found at i:10031088 original size:7 final size:7
Alignment explanation
Indices: 10031078--10031108 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
10031068 ATTACAATCA
10031078 ACAGATT
1 ACAGATT
10031085 ACAGATT
1 ACAGATT
10031092 ACAGATT
1 ACAGATT
10031099 ACAGATT
1 ACAGATT
10031106 ACA
1 ACA
10031109 ACCGCTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (7 bp):
ACAGATT
Found at i:10031092 original size:21 final size:21
Alignment explanation
Indices: 10031063--10031108 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10031053 TACAGATATA
*
10031063 TACATATTACA-ATCAACAGAT
1 TACAGATTACAGAT-AACAGAT
*
10031084 TACAGATTACAGATTACAGAT
1 TACAGATTACAGATAACAGAT
10031105 TACA
1 TACA
10031109 ACCGCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (21 bp):
TACAGATTACAGATAACAGAT
Found at i:10031609 original size:28 final size:28
Alignment explanation
Indices: 10031569--10031649 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
10031559 TTTGGTTAAG
10031569 AATGATTGTTTGAAATCTTACAAGTGCA
1 AATGATTGTTTGAAATCTTACAAGTGCA
* *
10031597 AATGATTGTTTG-AATTTTACAAGGGCA
1 AATGATTGTTTGAAATCTTACAAGTGCA
* * *
10031624 AAAGTTTGGTTGAAATCTTACAAGTG
1 AATGATTGTTTGAAATCTTACAAGTG
10031650 ATGATTTTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 22 0.49
28 23 0.51
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.36
Consensus pattern (28 bp):
AATGATTGTTTGAAATCTTACAAGTGCA
Found at i:10031624 original size:27 final size:28
Alignment explanation
Indices: 10031569--10031647 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 28
10031559 TTTGGTTAAG
*
10031569 AATGATTGTTTGAAATCTTACAAGTGCA
1 AATGATTGTTTGAAATCTTACAAGGGCA
*
10031597 AATGATTGTTTG-AATTTTACAAGGGCA
1 AATGATTGTTTGAAATCTTACAAGGGCA
* * *
10031624 AAAGTTTGGTTGAAATCTTACAAG
1 AATGATTGTTTGAAATCTTACAAG
10031648 TGATGATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 22 0.50
28 22 0.50
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (28 bp):
AATGATTGTTTGAAATCTTACAAGGGCA
Found at i:10034757 original size:16 final size:16
Alignment explanation
Indices: 10034732--10034765 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10034722 ACAAATGGTA
*
10034732 ATGATAATTTATGATG
1 ATGATAATTTATAATG
*
10034748 ATGATGATTTATAATG
1 ATGATAATTTATAATG
10034764 AT
1 AT
10034766 TTTAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (16 bp):
ATGATAATTTATAATG
Found at i:10034855 original size:25 final size:24
Alignment explanation
Indices: 10034810--10034861 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
10034800 TATTTGACCG
*
10034810 TGATTTATGATTTGGCAAATGTTT
1 TGATTTATGATTTGACAAATGTTT
**
10034834 TGATATTATGATTTGATGAATGTTT
1 TGAT-TTATGATTTGACAAATGTTT
10034859 TGA
1 TGA
10034862 ATGATCTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (24 bp):
TGATTTATGATTTGACAAATGTTT
Found at i:10042993 original size:23 final size:23
Alignment explanation
Indices: 10042913--10042987 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
10042903 AATGTTCTTT
10042913 TTTTTTACAAAAAAAAAGGTTCC
1 TTTTTTACAAAAAAAAAGGTTCC
10042936 TTTTTTACAAAAAAAAAGGTTCC
1 TTTTTTACAAAAAAAAAGGTTCC
10042959 TTTTTTAC-AAAAAAAAGGTTCC
1 TTTTTTACAAAAAAAAAGGTTCC
10042981 TTTTTTA
1 TTTTTTA
10042988 TGAAAACTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 21 0.40
23 31 0.60
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (23 bp):
TTTTTTACAAAAAAAAAGGTTCC
Found at i:10043546 original size:19 final size:19
Alignment explanation
Indices: 10043501--10043545 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10043491 CCATCCTCGA
* *
10043501 TTTTTTCTGTTTTTTGTTC
1 TTTTTTTTGTATTTTGTTC
10043520 TTTTTTTTGTATTTTGTT-
1 TTTTTTTTGTATTTTGTTC
10043538 TTTTTTTT
1 TTTTTTTT
10043546 TTTGGTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.84
Consensus pattern (19 bp):
TTTTTTTTGTATTTTGTTC
Found at i:10044138 original size:175 final size:173
Alignment explanation
Indices: 10043930--10044272 Score: 501
Period size: 175 Copynumber: 2.0 Consensus size: 173
10043920 TTAAACCATG
* *
10043930 AATCAAAGAATAAACAGACTGGGATTAAACCACGAATTAAAAAATGACGTTAGCTTGGATTGAAT
1 AATCAAAGAATAAACAGACTGGGATTAAACCACGAATCAAAAAATGACGTTAACTTGGATTGAAT
* * * *
10043995 CACAAGTCAAAAAAATAAGAAGATCAAGAATAAATCATTAGTC-AGAGGTTAACAACAACAATCG
66 CACAAGTC-AAAAAATAAGAAGACCAAGAATAAACCATGAGTCAAG-GGTCAACAA-AACAATCG
10044059 AGATTAAACTA-TGATTTTAAATTAAAGAGATCAAGATTGAACTGTA
128 AGATTAAA-TAGTGATTTTAAATTAAAGAGATCAAGATTGAACTGTA
* * * *
10044105 AATCGAAGAATAAAGAGACTGGGATTGAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAAT
1 AATCAAAGAATAAACAGACTGGGATTAAACCACGAATCAAAAAATGACGTTAACTTGGATTGAAT
* * *
10044170 CACAAGTCAAAAAATAAGAAGACCGAGAATAAACCATGAGTCAAGGGTCAACAAGACAATTGAGA
66 CACAAGTCAAAAAATAAGAAGACCAAGAATAAACCATGAGTCAAGGGTCAACAAAACAATCGAGA
**
10044235 TTAAATAGTGATTTTAAATTAAAGAGATCGGGATTGAA
131 TTAAATAGTGATTTTAAATTAAAGAGATCAAGATTGAA
10044273 TCACGAATTG
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
172 2 0.01
173 42 0.28
174 38 0.25
175 69 0.46
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (173 bp):
AATCAAAGAATAAACAGACTGGGATTAAACCACGAATCAAAAAATGACGTTAACTTGGATTGAAT
CACAAGTCAAAAAATAAGAAGACCAAGAATAAACCATGAGTCAAGGGTCAACAAAACAATCGAGA
TTAAATAGTGATTTTAAATTAAAGAGATCAAGATTGAACTGTA
Found at i:10044311 original size:173 final size:174
Alignment explanation
Indices: 10043930--10044316 Score: 507
Period size: 173 Copynumber: 2.2 Consensus size: 174
10043920 TTAAACCATG
* * * * *
10043930 AATCAAAGAATAAACAGACTGGGATTAAACCACGAATTAAAAAATGACGTTAGCTTGGATTGAAT
1 AATCGAAGAATAAAAAGACTGGGATTAAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAAT
* * * *
10043995 CACAAGTCAAAAAAATAAGAAGATCAAGAATAAATCATTAGTCAGAGGTTAACAACAACAATCGA
66 CACAAGTCAAAAAAATAAGAAGACCAAGAATAAACCATGAGTCAGAGGTCAACAACAACAATCGA
*
10044060 GATTAAACTATGATTTTAAATTAAAGAGATCAAGATTGAACTGTA
131 GATTAAACTATGATTTTAAATTAAAGAGATCAAGATTGAACCG-A
* *
10044105 AATCGAAGAATAAAGAGACTGGGATTGAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAAT
1 AATCGAAGAATAAAAAGACTGGGATTAAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAAT
* * *
10044170 CACAAGTC-AAAAAATAAGAAGACCGAGAATAAACCATGAGTCA-AGGGTCAACAA-GACAATTG
66 CACAAGTCAAAAAAATAAGAAGACCAAGAATAAACCATGAGTCAGA-GGTCAACAACAACAATCG
**
10044232 AGATTAAA-TAGTGATTTTAAATTAAAGAGATCGGGATTGAATCACG-
130 AGATTAAACTA-TGATTTTAAATTAAAGAGATCAAGATTGAA-C-CGA
* *
10044278 AATTGGAGAATAAAAAGA-TCGGGATTAAACCACGAGTCA
1 AATCGAAGAATAAAAAGACT-GGGATTAAACCACGAGTCA
10044317 GAAGATAATA
Statistics
Matches: 187, Mismatches: 20, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
172 3 0.02
173 76 0.41
174 40 0.21
175 68 0.36
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (174 bp):
AATCGAAGAATAAAAAGACTGGGATTAAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAAT
CACAAGTCAAAAAAATAAGAAGACCAAGAATAAACCATGAGTCAGAGGTCAACAACAACAATCGA
GATTAAACTATGATTTTAAATTAAAGAGATCAAGATTGAACCGA
Found at i:10044585 original size:206 final size:208
Alignment explanation
Indices: 10044161--10044585 Score: 445
Period size: 206 Copynumber: 2.0 Consensus size: 208
10044151 ACGTTAACTT
* * * * *
10044161 GGATTGAATCACAAGTCAAAAAATAAGAAGACCGAGAATAAACCATGAGTCAAGGGTCAACAAGA
1 GGATTGAACCACAAGTCAAAAAATAAAAAGACCGAGAATAAACCAGGAGTCAAAGATCAACAAGA
* * * *
10044226 CAATTGAGATTAAATAGTGATTTTAAATTAAAGAGATCGGGATTGAATCACGAATTGGAGAATAA
66 CAATCGAGATTAAATAGTGATTTTAAATTAAAGAGATCGAGATTGAATCACGAATCGAAGAATAA
* * * ***
10044291 AAAGATCGGGATTAAACCACGAGTCAGAAGATAATAATAACAATCGAGATTAAACTACGATTTTA
131 AAAGATCAGGATTAAACCACGAGTCAGAAGAT-ATAATAACAATCGAGATGAAACTAAGATCAAA
* * *
10044356 AATTAAAGAGATTG
195 AAATAAAGAGACTA
* * * *
10044370 GGATTGAACCATAA-TCAAAAAATAAAAAGATCGAGATTAAACTAGGAGTCAGAAGAT-AAC-A-
1 GGATTGAACCACAAGTCAAAAAATAAAAAGACCGAGAATAAACCAGGAGTCA-AAGATCAACAAG
***
10044431 ACAATCGAGATTAAACTA-TGATTTTAAATTAAAGAGATCGAGATTGAATTGTGAATCGAAGAAT
65 ACAATCGAGATTAAA-TAGTGATTTTAAATTAAAGAGATCGAGATTGAATCACGAATCGAAGAAT
* * * *
10044495 AAAAAGATCAGGATTAAACCACGAGTCA-AAGAT-TAA-AGATAATTGGGACTGAACCGTAAG-T
129 AAAAAGATCAGGATTAAACCACGAGTCAGAAGATATAATA-ACAATCGAGA-TGAAAC-TAAGAT
*
10044556 CAAAGAAATAAGGACGACTA
191 CAAA-AAATAAAGA-GACTA
10044576 GGATTGAACC
1 GGATTGAACC
10044586 GTAAGTCGAG
Statistics
Matches: 179, Mismatches: 30, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
202 1 0.01
203 10 0.06
204 6 0.03
205 15 0.08
206 94 0.53
207 3 0.02
208 35 0.20
209 15 0.08
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (208 bp):
GGATTGAACCACAAGTCAAAAAATAAAAAGACCGAGAATAAACCAGGAGTCAAAGATCAACAAGA
CAATCGAGATTAAATAGTGATTTTAAATTAAAGAGATCGAGATTGAATCACGAATCGAAGAATAA
AAAGATCAGGATTAAACCACGAGTCAGAAGATATAATAACAATCGAGATGAAACTAAGATCAAAA
AATAAAGAGACTA
Found at i:10044695 original size:108 final size:109
Alignment explanation
Indices: 10044493--10045006 Score: 644
Period size: 108 Copynumber: 4.7 Consensus size: 109
10044483 GAATCGAAGA
* *
10044493 ATAAAAA-GATC-AGGATTAAACCACGAGTCAAAGATTAAAGATAATTGGGACTGAACCGTAAGT
1 ATAAAAATGATCGA-GATTAAACCACAAGTCAAAGATTAAAGATAACTGGGACTGAACCGTAAGT
** * *
10044556 CAAAGAAATAAGGACGACTAGGATTGAACCGTAAGTCGAGAAGCT
65 CAAAGAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
* * * * * * * *
10044601 ACAAGAATGATCGGGATTAAACCACGAGTCAAATATT-AAGATAACTGAGACTGAACCATAAGTT
1 ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAACTGGGACTGAACCGTAAGTC
10044665 AAAGAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
66 AAAGAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
* *
10044709 ATAAAAATGATCGAGATTAATCCAC-AGTCAAAGATTAAAGATAACTGGGACTGAACCGCAAGTC
1 ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAACTGGGACTGAACCGTAAGTC
*
10044773 AAA-AAATAAAAAAAAATGACTAGGATTAAACCGTAAGTCTAGAAGCT
66 AAAGAAAT----AAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
* * * * *
10044820 ATAAAAATGATCGAGATTAAACCACAAGTTAAAAATTAAAGATAATTGGGACTGAATCGCAAGTC
1 ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAACTGGGACTGAACCGTAAGTC
* *
10044885 AAAAAAATAAAAATGACTACGATTAAACCGTAAGTCGAGAAGCT
66 AAAGAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
* * * * * * *
10044929 ATAAGAATGATCGAGATTAAATCACAAATCAAATATTAACGATGA-TCGGACTGAACCGTAAGTC
1 ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAACTGGGACTGAACCGTAAGTC
* *
10044993 AAGGGAATAAAAAT
66 AAAGAAATAAAAAT
10045007 AACCATAACT
Statistics
Matches: 355, Mismatches: 42, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
107 14 0.04
108 142 0.40
109 98 0.28
111 59 0.17
112 38 0.11
113 4 0.01
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (109 bp):
ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAACTGGGACTGAACCGTAAGTC
AAAGAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
Found at i:10044713 original size:38 final size:37
Alignment explanation
Indices: 10044666--10044938 Score: 123
Period size: 38 Copynumber: 7.4 Consensus size: 37
10044656 CCATAAGTTA
*
10044666 AAGAAATAAAAATGACTAGGATTAAACCGTAAGTCGAG
1 AAGATATAAAAATGACTAGGATTAAACCGTAAGTC-AG
* * *
10044704 AAGCTATAAAAATGA-TCGAGATTAATCC--ACAGTCA-
1 AAGATATAAAAATGACTAG-GATTAAACCGTA-AGTCAG
* * * * * * *
10044739 AAGAT-TAAAGATAACTGGGACTGAACCGCAAGTCAA
1 AAGATATAAAAATGACTAGGATTAAACCGTAAGTCAG
* *
10044775 AAAATAAAAAAAAATGACTAGGATTAAACCGTAAGTCTAG
1 AAGAT--ATAAAAATGACTAGGATTAAACCGTAAGTC-AG
* * ** *
10044815 AAGCTATAAAAATGA-TCGAGATTAAACCACAAGTTA-
1 AAGATATAAAAATGACTAG-GATTAAACCGTAAGTCAG
* * * * * * * * *
10044851 AAAAT-TAAAGATAATTGGGACTGAATCGCAAGTCA-
1 AAGATATAAAAATGACTAGGATTAAACCGTAAGTCAG
* * *
10044886 AAAAAATAAAAATGACTACGATTAAACCGTAAGTCGAG
1 AAGATATAAAAATGACTAGGATTAAACCGTAAGTC-AG
* *
10044924 AAGCTATAAGAATGA
1 AAGATATAAAAATGA
10044939 TCGAGATTAA
Statistics
Matches: 169, Mismatches: 51, Indels: 30
0.68 0.20 0.12
Matches are distributed among these distances:
34 13 0.08
35 34 0.20
36 32 0.19
37 10 0.06
38 54 0.32
39 22 0.13
40 4 0.02
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (37 bp):
AAGATATAAAAATGACTAGGATTAAACCGTAAGTCAG
Found at i:10044923 original size:220 final size:216
Alignment explanation
Indices: 10044493--10045005 Score: 640
Period size: 220 Copynumber: 2.4 Consensus size: 216
10044483 GAATCGAAGA
* *
10044493 ATAAAAA-GATC-AGGATTAAACCACGAGTCAAAGATTAAAGATAATTGGGACTGAACCGTAAGT
1 ATAAAAATGATCGA-GATTAATCCACAAGTCAAAGATTAAAGATAA-TGGGACTGAACCGTAAGT
** * * *
10044556 CAAAGAAATAAGGACGACTAGGATTGAACCGTAAGTCGAGAAGCTACAAGAATGATCGGGATTAA
64 CAAAGAAATAAAAACGACTAGGATTAAACCGTAAGTCGAGAAGCTACAAAAATGATCGAGATTAA
* * * * * *
10044621 ACCACGAGTCAAATATTAAGATAACTGAGACTGAACCATAAGTTAAAGAAATAAAAATGACTAGG
129 ACCACAAGTCAAAAATTAAGATAACTGAGACTGAACCACAAGTCAAAAAAATAAAAATGACTACG
10044686 ATTAAACCGTAAGTCGAGAAGCT
194 ATTAAACCGTAAGTCGAGAAGCT
*
10044709 ATAAAAATGATCGAGATTAATCCAC-AGTCAAAGATTAAAGATAACTGGGACTGAACCGCAAGTC
1 ATAAAAATGATCGAGATTAATCCACAAGTCAAAGATTAAAGATAA-TGGGACTGAACCGTAAGTC
* * *
10044773 AAA-AAATAAAAAAAAATGACTAGGATTAAACCGTAAGTCTAGAAGCTATAAAAATGATCGAGAT
65 AAAGAAAT----AAAAACGACTAGGATTAAACCGTAAGTCGAGAAGCTACAAAAATGATCGAGAT
* * * * *
10044837 TAAACCACAAGTTAAAAATTAAAGATAATTGGGACTGAATCGCAAGTCAAAAAAATAAAAATGAC
126 TAAACCACAAGTCAAAAATT-AAGATAACTGAGACTGAACCACAAGTCAAAAAAATAAAAATGAC
10044902 TACGATTAAACCGTAAGTCGAGAAGCT
190 TACGATTAAACCGTAAGTCGAGAAGCT
* * * * * *
10044929 ATAAGAATGATCGAGATTAAAT-CACAAATCAAATATTAACGATGATCGGACTGAACCGTAAGTC
1 ATAAAAATGATCGAGATT-AATCCACAAGTCAAAGATTAAAGATAATGGGACTGAACCGTAAGTC
* *
10044993 AAGGGAATAAAAA
65 AAAGAAATAAAAA
10045006 TAACCATAAC
Statistics
Matches: 256, Mismatches: 31, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
215 4 0.02
216 47 0.18
217 19 0.07
218 1 0.00
219 62 0.24
220 102 0.40
221 21 0.08
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (216 bp):
ATAAAAATGATCGAGATTAATCCACAAGTCAAAGATTAAAGATAATGGGACTGAACCGTAAGTCA
AAGAAATAAAAACGACTAGGATTAAACCGTAAGTCGAGAAGCTACAAAAATGATCGAGATTAAAC
CACAAGTCAAAAATTAAGATAACTGAGACTGAACCACAAGTCAAAAAAATAAAAATGACTACGAT
TAAACCGTAAGTCGAGAAGCT
Found at i:10047493 original size:24 final size:21
Alignment explanation
Indices: 10047465--10047508 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
10047455 ACTGTTTTAA
10047465 TTTTAATAATAATAATAATAATAT
1 TTTTAATAA-AA-AATAA-AATAT
10047489 TTTTAATAAAAAATAAAATA
1 TTTTAATAAAAAATAAAATA
10047509 AAATAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 2 0.10
24 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTAATAAAAAATAAAATAT
Found at i:10047521 original size:27 final size:28
Alignment explanation
Indices: 10047472--10047535 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
10047462 TAATTTTAAT
*
10047472 AATAATAATAATAATATTTTTAATAAA-A
1 AATAA-AATAATAATATTATTAATAAACA
10047500 AATAAAATAA-AATAATTATTAATAAACA
1 AATAAAATAATAAT-ATTATTAATAAACA
*
10047528 AAAAAAAT
1 AATAAAAT
10047536 GTAAACAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 3 0.09
27 16 0.50
28 13 0.41
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
AATAAAATAATAATATTATTAATAAACA
Found at i:10049036 original size:14 final size:14
Alignment explanation
Indices: 10048988--10049028 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
10048978 CCAAAATCTC
10048988 TAAAATCCAAACCCT
1 TAAAA-CCAAACCCT
10049003 TAAAACCAAACCCT
1 TAAAACCAAACCCT
10049017 TAAAACCAAACC
1 TAAAACCAAACC
10049029 TTCAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAAACCAAACCCT
Found at i:10055467 original size:15 final size:15
Alignment explanation
Indices: 10055447--10055476 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10055437 ATGATGAATA
10055447 ATGTACCTTGAAAAT
1 ATGTACCTTGAAAAT
10055462 ATGTACCTTGAAAAT
1 ATGTACCTTGAAAAT
10055477 GAGAATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
ATGTACCTTGAAAAT
Found at i:10056789 original size:40 final size:40
Alignment explanation
Indices: 10056743--10056819 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
10056733 AAAGTCTCTG
**
10056743 TTTAAGAAGAACCGTTTTAAATCAAGATTTCAAAGCCCTA
1 TTTAAGAAGAACCAATTTAAATCAAGATTTCAAAGCCCTA
* * * *
10056783 TTTAAGAGGAATCAATTTCAATCAAGATTTGAAAGCC
1 TTTAAGAAGAACCAATTTAAATCAAGATTTCAAAGCC
10056820 TTTGTTTAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (40 bp):
TTTAAGAAGAACCAATTTAAATCAAGATTTCAAAGCCCTA
Found at i:10057113 original size:22 final size:22
Alignment explanation
Indices: 10057082--10057125 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10057072 AAGATTTTAA
*
10057082 GATTTGTAAGACCTCCGGGCAT
1 GATTTCTAAGACCTCCGGGCAT
*
10057104 GATTTCTAAGACCTCTGGGCAT
1 GATTTCTAAGACCTCCGGGCAT
10057126 AAATTCGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (22 bp):
GATTTCTAAGACCTCCGGGCAT
Found at i:10057337 original size:109 final size:109
Alignment explanation
Indices: 10057086--10057454 Score: 558
Period size: 109 Copynumber: 3.4 Consensus size: 109
10057076 TTTTAAGATT
* * *
10057086 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATTCGATTCACGGTGTTATCCCA
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCCCG
** *
10057151 ATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAGTCGATTC
66 ATCGATTCTTTAT-TTTTGACTTACGGTGTTATCTCAGTCAATTC
* *
10057196 TGTAAGACCTCTGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCCCG
* * *
10057261 ATCGATTCTTTATTTATGACTTACGGTGTTATCCCAATCAATTC
66 ATCGATTCTTTATTTTTGACTTACGGTGTTATCTCAGTCAATTC
* * *
10057305 TATAAGACCTCTGGGCATGATTTTTAAGACCTCCGGACATAAATTCGATTCACGGTGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCCCG
* *
10057370 ATCGATTCTTTATTTTTGACTTACAGTGTTATCTCAGTCAATTT
66 ATCGATTCTTTATTTTTGACTTACGGTGTTATCTCAGTCAATTC
**
10057414 TGTAAGACCTCCGGGCATGATTCCGTAAGACCTCCGGGCAT
1 TGTAAGACCTCCGGGCATGATT-TTTAAGACCTCCGGGCAT
10057455 GATTTCTAAG
Statistics
Matches: 234, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
109 146 0.62
110 88 0.38
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (109 bp):
TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCCCG
ATCGATTCTTTATTTTTGACTTACGGTGTTATCTCAGTCAATTC
Done.