Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 41 of 133
Found at i:9026624 original size:5 final size:5
Alignment explanation
Indices: 9026616--9026692 Score: 55
Period size: 5 Copynumber: 14.6 Consensus size: 5
9026606 TTGATATTTA
* * * * *
9026616 AATAT AATAT ATTTAA AATAT AATAT AATAT AATTAA AATAT AATAT ATTTAA
1 AATAT AATAT A-ATAT AATAT AATAT AATAT AA-TAT AATAT AATAT A-ATAT
* *
9026669 AATAT ATGTAA AATAT AATAT AAT
1 AATAT A-ATAT AATAT AATAT AAT
9026693 CATACATACA
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
5 41 0.76
6 13 0.24
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:9026636 original size:16 final size:16
Alignment explanation
Indices: 9026609--9026674 Score: 80
Period size: 16 Copynumber: 3.9 Consensus size: 16
9026599 TTATGATTTG
9026609 ATATTT-AAATATAAT
1 ATATTTAAAATATAAT
9026624 ATATTTAAAATATAATAT
1 ATATTTAAAATAT-A-AT
9026642 AATATAATTAAAATATAAT
1 -ATAT--TTAAAATATAAT
9026661 ATATTTAAAATATA
1 ATATTTAAAATATA
9026675 TGTAAAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.13
16 16 0.36
17 1 0.02
18 6 0.13
19 6 0.13
20 1 0.02
21 9 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTTAAAATATAAT
Found at i:9026640 original size:21 final size:21
Alignment explanation
Indices: 9026616--9026663 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
9026606 TTGATATTTA
*
9026616 AATATAATATATTTAAAATAT
1 AATATAATATAATTAAAATAT
9026637 AATATAATATAATTAAAATAT
1 AATATAATATAATTAAAATAT
9026658 AATATA
1 AATATA
9026664 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATAATATAATTAAAATAT
Found at i:9034614 original size:9 final size:9
Alignment explanation
Indices: 9034595--9034629 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
9034585 TTAAAATTCT
9034595 TATAT-TTA
1 TATATATTA
9034603 TATATATTA
1 TATATATTA
9034612 TATATATTA
1 TATATATTA
9034621 TATATATTA
1 TATATATTA
9034630 AATAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.19
9 21 0.81
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATATATTA
Found at i:9041796 original size:23 final size:23
Alignment explanation
Indices: 9041770--9041813 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9041760 AAAATTTTAC
9041770 TTTGAAAACTAAATGGCCTTTGT
1 TTTGAAAACTAAATGGCCTTTGT
*
9041793 TTTGAAAACTAAATTGCCTTT
1 TTTGAAAACTAAATGGCCTTT
9041814 TAATATGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (23 bp):
TTTGAAAACTAAATGGCCTTTGT
Found at i:9043358 original size:18 final size:19
Alignment explanation
Indices: 9043043--9043359 Score: 173
Period size: 18 Copynumber: 17.3 Consensus size: 19
9043033 AAGGTTCTCC
*
9043043 CAAAAG-TTTAAAGATTCA
1 CAAAAGATTCAAAGATTCA
* *
9043061 GAAATAAATTC-AAGATTTCA
1 CAAA-AGATTCAAAGA-TTCA
9043081 CAAAAG-TTCAAAG-TTCA
1 CAAAAGATTCAAAGATTCA
9043098 CAAAAGATTCAAA-ATTCTA
1 CAAAAGATTCAAAGATTC-A
*
9043117 -AAAAAATTC-AAGATTCA
1 CAAAAGATTCAAAGATTCA
*
9043134 CAAAAGATTC-AAGATTCT
1 CAAAAGATTCAAAGATTCA
*
9043152 CCAAA-ATTC-AAGATTCA
1 CAAAAGATTCAAAGATTCA
* *
9043169 CAAAAGATTCAAAAATTCG
1 CAAAAGATTCAAAGATTCA
* * * **
9043188 TAAAAAATTTAAA-ATTTG
1 CAAAAGATTCAAAGATTCA
*
9043206 C-AAAGATTCAAAGATTCG
1 CAAAAGATTCAAAGATTCA
* * * *
9043224 TAAAAGATT-TAATATT-T
1 CAAAAGATTCAAAGATTCA
** * **
9043241 GTAAAGATGCAAAGATTTG
1 CAAAAGATTCAAAGATTCA
* *
9043260 CAAAACATTTCAAAGATTCG
1 CAAAAGA-TTCAAAGATTCA
* * *
9043280 TAAGAGATTGCAATGATTCA
1 CAAAAGATT-CAAAGATTCA
* *
9043300 TAAAA-ATTCAAAGATTCG
1 CAAAAGATTCAAAGATTCA
* *
9043318 TAAAAG-TTTAAAGATTCA
1 CAAAAGATTCAAAGATTCA
*
9043336 CAAAAGATTCAAAAATTCA
1 CAAAAGATTCAAAGATTCA
9043355 -AAAAG
1 CAAAAG
9043360 TCACAAGTTA
Statistics
Matches: 231, Mismatches: 49, Indels: 38
0.73 0.15 0.12
Matches are distributed among these distances:
17 43 0.19
18 101 0.44
19 52 0.23
20 35 0.15
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (19 bp):
CAAAAGATTCAAAGATTCA
Found at i:9043635 original size:20 final size:21
Alignment explanation
Indices: 9043598--9043640 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
9043588 CAAGTGATTT
9043598 AAGATTCACAATAAATTT-AA
1 AAGATTCACAATAAATTTCAA
9043618 AAGATTCACAA-AACATTTCAA
1 AAGATTCACAATAA-ATTTCAA
9043639 AA
1 AA
9043641 ATTAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.10
20 15 0.71
21 4 0.19
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.26
Consensus pattern (21 bp):
AAGATTCACAATAAATTTCAA
Found at i:9043639 original size:202 final size:202
Alignment explanation
Indices: 9043416--9043779 Score: 525
Period size: 202 Copynumber: 1.8 Consensus size: 202
9043406 TAAGTGATTT
* * * * * *
9043416 AAGATTCGAAAAAAATTTCAAAGATTCATAAGAGATTCAAGTTTTGCTAAAATTCAAAAATTCAC
1 AAGATTCGAAAAAAATTTCAAAAATTAATAAAAGATTCAAGATTTGCAAAAATTCAAAAACTCAC
* *
9043481 AAAAGTTCAAAGATTTACATGTTCCAAGATCCACAAATATTTAAGATTCAAAGATTCATATTTAA
66 AAAAGTTCAAAGATTTACAAGTTCCAAGATCCACAAATATTTAAAATTCAAAGATTCATATTT-A
* *
9043546 AAAATTTTAAAGATTCGCATAAATTT-AAGATTCAAATATTCGCAAGTGATTTAAGATTCACAAT
130 AAAATTTTAAAAATTCGCAAAAATTTAAAGATTCAAATATTCGCAAGTGATTTAAGATTCACAAT
9043610 AAATTTAA
195 AAATTTAA
* * *
9043618 AAGATTC-ACAAAACATTTCAAAAATTAATAAAAGATTTAGGATTTGCAAAAATTCAAAAACTCA
1 AAGATTCGA-AAAAAATTTCAAAAATTAATAAAAGATTCAAGATTTGCAAAAATTCAAAAACTCA
* *** *
9043682 CAGAAGTTCAAAGATTTACAAGTTCCAAGATTTGCAAATATTTAAAATTCAAAGATTCATATTTG
65 CAAAAGTTCAAAGATTTACAAGTTCCAAGATCCACAAATATTTAAAATTCAAAGATTCATATTTA
*
9043747 AAAATTTTAAAAATTCGTAAAAATTTAAAGATT
130 AAAATTTTAAAAATTCGCAAAAATTTAAAGATT
9043780 TGCAAAAGTT
Statistics
Matches: 141, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
201 24 0.17
202 117 0.83
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (202 bp):
AAGATTCGAAAAAAATTTCAAAAATTAATAAAAGATTCAAGATTTGCAAAAATTCAAAAACTCAC
AAAAGTTCAAAGATTTACAAGTTCCAAGATCCACAAATATTTAAAATTCAAAGATTCATATTTAA
AAATTTTAAAAATTCGCAAAAATTTAAAGATTCAAATATTCGCAAGTGATTTAAGATTCACAATA
AATTTAA
Found at i:9043814 original size:18 final size:18
Alignment explanation
Indices: 9043756--9043828 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
9043746 GAAAATTTTA
* *
9043756 AAAATTCGTAAAA-ATTT
1 AAAATTTGTAAAAGATTC
*
9043773 AAAGATTTGCAAAAG-TTC
1 AAA-ATTTGTAAAAGATTC
9043791 -AAATTTCG-AAAAGATTC
1 AAAATTT-GTAAAAGATTC
*
9043808 AAAATTTGTAAGAGATTC
1 AAAATTTGTAAAAGATTC
9043826 AAA
1 AAA
9043829 TATTCACATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
16 9 0.20
17 10 0.22
18 27 0.59
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (18 bp):
AAAATTTGTAAAAGATTC
Found at i:9044027 original size:45 final size:45
Alignment explanation
Indices: 9043937--9044104 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 45
9043927 TTTTCTTATC
** * *
9043937 AGAGGCTCAACAACTTTAAAATATATATATAAAAAAAATTAATCTCACT
1 AGAGGCTCAACAACTTTTGAA-A-ATATAT--AAAAAACTCATCTCACT
9043986 AGAGGCTCAACAACTTTTGAAAATATATAAAAAACTCATCTCGAC-
1 AGAGGCTCAACAACTTTTGAAAATATATAAAAAACTCATCTC-ACT
* * * * *
9044031 AAAGGCTCAATAACTTTT-AAAA-ATATAAAAGACTCATCTAAAT
1 AGAGGCTCAACAACTTTTGAAAATATATAAAAAACTCATCTCACT
* * *
9044074 AGAAGCTCAATAACTTTTGTAAATATA-AAAA
1 AGAGGCTCAACAACTTTTGAAAATATATAAAA
9044105 GCTTCTCTTA
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
42 1 0.01
43 32 0.31
44 11 0.11
45 31 0.30
46 2 0.02
47 6 0.06
48 1 0.01
49 19 0.18
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.27
Consensus pattern (45 bp):
AGAGGCTCAACAACTTTTGAAAATATATAAAAAACTCATCTCACT
Found at i:9044144 original size:44 final size:44
Alignment explanation
Indices: 9043988--9044190 Score: 193
Period size: 43 Copynumber: 4.7 Consensus size: 44
9043978 ATCTCACTAG
* * *
9043988 AGGCTCAACAACTTTTGAAAATATATAAAAAACTCATCTCGACAA
1 AGGCTCAATAACTTTTGAAAA-ATATAAAAAGCTCATCTCAACAA
* *
9044033 AGGCTCAATAACTTTT-AAAAATAT-AAAAGACTCATCTAAATAGA
1 AGGCTCAATAACTTTTGAAAAATATAAAAAG-CTCATCTCAACA-A
* *
9044077 A-GCTCAATAACTTTTG-TAAATATAAAAAGCTTC-TCTTAACAA
1 AGGCTCAATAACTTTTGAAAAATATAAAAAGC-TCATCTCAACAA
* * * **
9044119 CGACTCAATAACTTTTGAAAAATATAAAATGCTTTTCTCAACAA
1 AGGCTCAATAACTTTTGAAAAATATAAAAAGCTCATCTCAACAA
* * *
9044163 AGGCTCAACAAATTTTGAAACATA-AAAA
1 AGGCTCAATAACTTTTGAAAAATATAAAA
9044191 GGGATTCTTA
Statistics
Matches: 131, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
42 5 0.04
43 59 0.45
44 52 0.40
45 15 0.11
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (44 bp):
AGGCTCAATAACTTTTGAAAAATATAAAAAGCTCATCTCAACAA
Found at i:9045633 original size:21 final size:21
Alignment explanation
Indices: 9045607--9045654 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
9045597 TTTTTCTTTT
9045607 TTTTTTTTCACATCTTTCTTA
1 TTTTTTTTCACATCTTTCTTA
** * *
9045628 TTTTTTTTTTCATTTTTTTTA
1 TTTTTTTTCACATCTTTCTTA
9045649 TTTTTT
1 TTTTTT
9045655 GTTTCTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTTTCACATCTTTCTTA
Found at i:9045659 original size:21 final size:20
Alignment explanation
Indices: 9045625--9045663 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9045615 CACATCTTTC
*
9045625 TTATTTTTTTTTTCATTTTTT
1 TTATTTTTTGTTTC-TTTTTT
9045646 TTATTTTTTGTTTCTTTT
1 TTATTTTTTGTTTCTTTT
9045664 CATTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.85
Consensus pattern (20 bp):
TTATTTTTTGTTTCTTTTTT
Found at i:9045984 original size:16 final size:16
Alignment explanation
Indices: 9045963--9045996 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
9045953 TATTTCTTCA
9045963 CATTTTTTT-TCTTTTT
1 CATTTTTTTAT-TTTTT
9045979 CATTTTTTTATTTTTT
1 CATTTTTTTATTTTTT
9045995 CA
1 CA
9045997 CATCCTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
CATTTTTTTATTTTTT
Found at i:9049183 original size:23 final size:23
Alignment explanation
Indices: 9049153--9049199 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
9049143 TGAATGATAG
9049153 AATATTAAAAGCTTAAAAAATAA
1 AATATTAAAAGCTTAAAAAATAA
*
9049176 AATATTAAAAGCTTGAAAAATAA
1 AATATTAAAAGCTTAAAAAATAA
9049199 A
1 A
9049200 TCAAGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (23 bp):
AATATTAAAAGCTTAAAAAATAA
Found at i:9050450 original size:4 final size:4
Alignment explanation
Indices: 9050420--9050501 Score: 78
Period size: 4 Copynumber: 20.5 Consensus size: 4
9050410 AAATATTTAC
* * *
9050420 AAAT AAA- AAAT ATAT AAAT -AAT CAAAT AAAT AAAAT AAAC AAAT AAAC
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT
* * *
9050468 AAAC AAAC AAAT AAAT AAAT AAAT AAAT AGAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
9050502 TTATGATAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
3 6 0.09
4 53 0.80
5 7 0.11
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:9050452 original size:16 final size:16
Alignment explanation
Indices: 9050420--9050501 Score: 94
Period size: 16 Copynumber: 5.1 Consensus size: 16
9050410 AAATATTTAC
*
9050420 AAATAAA-AAATATAT
1 AAATAAACAAATAAAT
*
9050435 AAATAATCAAATAAAT
1 AAATAAACAAATAAAT
*
9050451 AAAATAAACAAATAAAC
1 -AAATAAACAAATAAAT
*
9050468 AAACAAACAAATAAAT
1 AAATAAACAAATAAAT
* *
9050484 AAATAAATAAATAGAT
1 AAATAAACAAATAAAT
9050500 AA
1 AA
9050502 TTATGATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
15 6 0.11
16 36 0.64
17 14 0.25
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.20
Consensus pattern (16 bp):
AAATAAACAAATAAAT
Found at i:9050934 original size:24 final size:24
Alignment explanation
Indices: 9050888--9050935 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9050878 ACAAAAAAAC
*
9050888 TCTTAATTTTTTTGATTCTTTCTT
1 TCTTAATTTTTTTGATTCATTCTT
* * *
9050912 TCTTGATTTTTTTTATTGATTCTT
1 TCTTAATTTTTTTGATTCATTCTT
9050936 AATTGTTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.12, C:0.10, G:0.06, T:0.71
Consensus pattern (24 bp):
TCTTAATTTTTTTGATTCATTCTT
Found at i:9051065 original size:25 final size:25
Alignment explanation
Indices: 9051018--9051065 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
9051008 GTTTTCTTAA
* *
9051018 TTTGAATTTCTTACTCAACTTCAAC
1 TTTGAATTTCTTAATCAAATTCAAC
9051043 TTTGAATTT-TTAATCTAAATTCA
1 TTTGAATTTCTTAATC-AAATTCA
9051066 CCTCTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTGAATTTCTTAATCAAATTCAAC
Found at i:9057515 original size:18 final size:19
Alignment explanation
Indices: 9057477--9057515 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9057467 ATTTTTCCGT
* *
9057477 TTACATTTTTATTGTATTG
1 TTACAATTTTATAGTATTG
9057496 TTACAATTTTATAG-ATTG
1 TTACAATTTTATAGTATTG
9057514 TT
1 TT
9057516 TTTAAGAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (19 bp):
TTACAATTTTATAGTATTG
Found at i:9071564 original size:11 final size:11
Alignment explanation
Indices: 9071533--9071566 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
9071523 ATCTCATAAA
9071533 AGATTTGTTTAG
1 AGATTTG-TTAG
9071545 -GATTTGTTAG
1 AGATTTGTTAG
9071555 AGATTTGTTAG
1 AGATTTGTTAG
9071566 A
1 A
9071567 TGGATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (11 bp):
AGATTTGTTAG
Found at i:9071664 original size:52 final size:52
Alignment explanation
Indices: 9071577--9071732 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 52
9071567 TGGATAAAAA
* * *
9071577 GACTTGCAAAAGAAGAATTT-CAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTTAAAAG-GAAAGAGGATTCTTAATAGGCAAGTTT
9071629 GACTTGCAAGAGAAGAATTATAAAAGGAAAG-GGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATT-TAAAAGGAAAGAGGATTCTTAATAGGCAAGTTT
* * * *
9071681 GACTTACAGGAGAAGAATTCTAAGA-G-AAGAGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATT-TAAAAGGAAAGAGGATTCTTAATAGGCAAGTTT
9071732 G
1 G
9071733 TATGGTTATA
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
50 3 0.03
51 22 0.24
52 59 0.63
53 6 0.06
54 3 0.03
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTTAAAAGGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:9076557 original size:23 final size:23
Alignment explanation
Indices: 9076530--9076575 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9076520 CACCACTTTT
9076530 CATAAATCAAAAGCACTTAAATA
1 CATAAATCAAAAGCACTTAAATA
9076553 CATAAATCAAAAGCACTTAAATA
1 CATAAATCAAAAGCACTTAAATA
9076576 TGACTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.22
Consensus pattern (23 bp):
CATAAATCAAAAGCACTTAAATA
Found at i:9080248 original size:30 final size:30
Alignment explanation
Indices: 9080212--9080270 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9080202 ATTCATTCGT
9080212 TTTTATT-TTTTATTTTTATGTTT-TTATTTA
1 TTTTATTATTTT-TTTTTAT-TTTATTATTTA
9080242 TTTTATTATTTTTTTTTATTTTATTATTT
1 TTTTATTATTTTTTTTTATTTTATTATTT
9080271 TATTAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 3 0.11
30 20 0.74
31 4 0.15
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (30 bp):
TTTTATTATTTTTTTTTATTTTATTATTTA
Found at i:9080264 original size:18 final size:18
Alignment explanation
Indices: 9080217--9080271 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
9080207 TTCGTTTTTA
9080217 TTTTTTA-TTT-TTATGTT
1 TTTTTTATTTTATTAT-TT
9080234 TTTATTTATTTTATTATTT
1 TTT-TTTATTTTATTATTT
9080253 TTTTTTATTTTATTATTT
1 TTTTTTATTTTATTATTT
9080271 T
1 T
9080272 ATTAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.09
18 20 0.57
19 8 0.23
20 4 0.11
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTTTATTTTATTATTT
Found at i:9080268 original size:26 final size:26
Alignment explanation
Indices: 9080213--9080275 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
9080203 TTCATTCGTT
9080213 TTTATTTT-TTATTTTTATGTTTTTA
1 TTTATTTTATTATTTTTATGTTTTTA
* *
9080238 TTTATTTTATTATTTTTTTTTATTTTA
1 TTTATTTTATTATTTTTATGT-TTTTA
9080265 -TTATTTTATTA
1 TTTATTTTATTA
9080276 AATAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 8 0.24
26 21 0.62
27 5 0.15
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTATTTTATTATTTTTATGTTTTTA
Found at i:9080275 original size:8 final size:8
Alignment explanation
Indices: 9080214--9080275 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
9080204 TCATTCGTTT
9080214 TTATTTT-
1 TTATTTTA
9080221 TTATTTTTA
1 TTA-TTTTA
9080230 TGT-TTTTA
1 T-TATTTTA
9080238 TTTATTTTA
1 -TTATTTTA
*
9080247 TTATTTTTTT
1 TTA--TTTTA
9080257 TTATTTTA
1 TTATTTTA
9080265 TTATTTTA
1 TTATTTTA
9080273 TTA
1 TTA
9080276 AATAAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
7 3 0.07
8 28 0.61
9 7 0.15
10 8 0.17
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (8 bp):
TTATTTTA
Found at i:9080510 original size:14 final size:13
Alignment explanation
Indices: 9080493--9080539 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
9080483 TTTTTAAAGC
*
9080493 TTTTGTTTTT-TT
1 TTTTTTTTTTGTT
*
9080505 GTTTTTTTTTGTT
1 TTTTTTTTTTGTT
9080518 TTATTTTTTTTGTT
1 TT-TTTTTTTTGTT
9080532 TTTATTTT
1 TTT-TTTT
9080540 CATTAGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 8 0.28
13 4 0.14
14 17 0.59
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:9080535 original size:15 final size:14
Alignment explanation
Indices: 9080507--9080539 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
9080497 GTTTTTTTGT
9080507 TTTTTTTTGTTTTA
1 TTTTTTTTGTTTTA
9080521 TTTTTTTTGTTTTTA
1 TTTTTTTTG-TTTTA
9080536 TTTT
1 TTTT
9080540 CATTAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTTTTTGTTTTA
Found at i:9081215 original size:22 final size:22
Alignment explanation
Indices: 9081190--9081232 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9081180 TACTTTAATT
9081190 TAATAAAAATTAT-ATTTATATA
1 TAAT-AAAATTATAATTTATATA
* *
9081212 TAATTAAGTTATAATTTATAT
1 TAATAAAATTATAATTTATAT
9081233 TAAAAATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATAAAATTATAATTTATATA
Found at i:9081350 original size:50 final size:50
Alignment explanation
Indices: 9081291--9081389 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
9081281 TGTGACATAA
* *
9081291 AAATTTTATTTCTTTTATTTTTAAAACCTAA-CATAAAATATAAAAAATAC
1 AAATTTTATTTCTTTTATTTCTAAAACATAATCATAAAA-ATAAAAAATAC
**
9081341 AAATTTTATTTCTTTTATTTCTAAAACATAATTTTAAAAATAAAAAATA
1 AAATTTTATTTCTTTTATTTCTAAAACATAATCATAAAAATAAAAAATA
9081390 GTCTAATTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 39 0.89
51 5 0.11
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.43
Consensus pattern (50 bp):
AAATTTTATTTCTTTTATTTCTAAAACATAATCATAAAAATAAAAAATAC
Found at i:9085332 original size:52 final size:51
Alignment explanation
Indices: 9085242--9085388 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 51
9085232 TATAACCATA
* * * * ** *
9085242 CAAATTTGCCCATTAAGAATCCCTCTCCTCTTAAAATTCTTCTCGTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCT-TTCTCTTAGAATTCTTCTCGTACAAAT
* *
9085294 CAAACTTGCCTATTAAGAATCCCTTTCTTTTTAGAATTCTTCTCTTACAAAT
1 CAAACTTGCCTATTAAGAATCCCTTTC-TCTTAGAATTCTTCTCGTACAAAT
* *
9085346 CAAACTTACCTATTAAGAATCCTCTTTCTCTTGGAATTCTTCT
1 CAAACTTGCCTATTAAGAATCC-CTTTCTCTTAGAATTCTTCT
9085389 TTTGCAAGTC
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.02
52 74 0.91
53 5 0.06
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.40
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTCGTACAAAT
Found at i:9085726 original size:25 final size:25
Alignment explanation
Indices: 9085689--9085802 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
9085679 ATGCACTTCC
9085689 CAAACCTTT-AGCTCTTCTCACATCT
1 CAAA-CTTTCAGCTCTTCTCACATCT
9085714 CAAACTTTCAGCTCTT-TCACATCT
1 CAAACTTTCAGCTCTTCTCACATCT
* * *
9085738 CGAACCTTC-GACTCTTTTCACATCT
1 CAAACTTTCAG-CTCTTCTCACATCT
** * *
9085763 TGAA-TCTTCAACTCTTCTCACATTT
1 CAAACT-TTCAGCTCTTCTCACATCT
*
9085788 CAAACCTTCAGCTCT
1 CAAACTTTCAGCTCT
9085803 GATATCACTT
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
23 1 0.01
24 24 0.33
25 47 0.65
ACGTcount: A:0.24, C:0.34, G:0.05, T:0.37
Consensus pattern (25 bp):
CAAACTTTCAGCTCTTCTCACATCT
Found at i:9086048 original size:24 final size:24
Alignment explanation
Indices: 9086008--9086140 Score: 110
Period size: 24 Copynumber: 5.5 Consensus size: 24
9085998 CTTCCCAAAC
*
9086008 CTTT-AGCTCTTCCCACATCTCGAA
1 CTTTCAGCTCTT-TCACATCTCGAA
*
9086032 CTTTCAGCTCTTTCACATCTTGAA
1 CTTTCAGCTCTTTCACATCTCGAA
*
9086056 CTTTCAGCTCTTTAACATCTCGAA
1 CTTTCAGCTCTTTCACATCTCGAA
* * *
9086080 -TCTTCGGCTCTTTTCATATCTTGAA
1 CT-TTCAGCTC-TTTCACATCTCGAA
* * *
9086105 -TCTTCAACTCTTCTCACATTTCAAA
1 CT-TTCAGCTCTT-TCACATCTCGAA
*
9086130 CCTTCAGCTCT
1 CTTTCAGCTCT
9086141 GATACCACTT
Statistics
Matches: 88, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.01
24 45 0.51
25 42 0.48
ACGTcount: A:0.21, C:0.32, G:0.08, T:0.40
Consensus pattern (24 bp):
CTTTCAGCTCTTTCACATCTCGAA
Found at i:9086116 original size:49 final size:48
Alignment explanation
Indices: 9086022--9086140 Score: 125
Period size: 49 Copynumber: 2.4 Consensus size: 48
9086012 AGCTCTTCCC
*
9086022 ACATCTCGAACTTTCAGCTCTTTCACATCTTGAACTTTCAGCTCTTTA
1 ACATCTCGAACTTTCAGCTCTTTCACATCTTGAACTTTCAACTCTTTA
* * *
9086070 ACATCTCGAA-TCTTCGGCTCTTTTCATATCTTGAA-TCTTCAACTCTTCTC
1 ACATCTCGAACT-TTCAGCTC-TTTCACATCTTGAACT-TTCAACTCTT-TA
* * *
9086120 ACATTTCAAACCTTCAGCTCT
1 ACATCTCGAACTTTCAGCTCT
9086141 GATACCACTT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
47 1 0.02
48 18 0.31
49 23 0.40
50 16 0.28
ACGTcount: A:0.23, C:0.30, G:0.08, T:0.39
Consensus pattern (48 bp):
ACATCTCGAACTTTCAGCTCTTTCACATCTTGAACTTTCAACTCTTTA
Found at i:9086757 original size:52 final size:52
Alignment explanation
Indices: 9086671--9086826 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 52
9086661 TATAACCATA
* * *
9086671 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCGTGTAAGT
1 CAAACTTGCCTATTAAGAATCACTCTCCTCTTAGAATTCTTCTCGTGCAAGT
* * * *
9086723 CAAACTTGCCTATTAAGAATCATTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCACTCTCCTCTTAGAATTCTTCTCGTGCAAGT
* * **
9086775 CAAACTTACCTATTAAGAATC-CTCTTTCTCTT-GAAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCACTC-TCCTCTTAG-AATTCTTCTCGTGCAAGT
9086827 TTTCTTGTCC
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCACTCTCCTCTTAGAATTCTTCTCGTGCAAGT
Found at i:9086868 original size:11 final size:11
Alignment explanation
Indices: 9086852--9086904 Score: 79
Period size: 11 Copynumber: 4.8 Consensus size: 11
9086842 GCAATATCTG
9086852 ACAAATCTCAA
1 ACAAATCTCAA
*
9086863 ACAAATCTCTA
1 ACAAATCTCAA
* *
9086874 ATAAATCTCTA
1 ACAAATCTCAA
9086885 ACAAATCTCAA
1 ACAAATCTCAA
9086896 ACAAATCTC
1 ACAAATCTC
9086905 TTATGAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:9088453 original size:10 final size:10
Alignment explanation
Indices: 9088436--9088465 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9088426 ATAATTATTT
9088436 TATATTTAAA
1 TATATTTAAA
*
9088446 TTTATTTAAA
1 TATATTTAAA
9088456 TATATTTAAA
1 TATATTTAAA
9088466 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATATTTAAA
Found at i:9091604 original size:16 final size:16
Alignment explanation
Indices: 9091567--9091605 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9091557 GTAGAAGTAC
*
9091567 AAAAAAATGAAAAAGA
1 AAAAAAATGAAAAAAA
**
9091583 GGAAAAATGAAAAAAA
1 AAAAAAATGAAAAAAA
9091599 AAAAAAA
1 AAAAAAA
9091606 AAAAGGTGAG
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (16 bp):
AAAAAAATGAAAAAAA
Found at i:9092059 original size:26 final size:31
Alignment explanation
Indices: 9091998--9092060 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
9091988 AAATATTACT
9091998 ATATTTTATGTATCTATTATAATATAAATAG
1 ATATTTTATGTATCTATTATAATATAAATAG
* *
9092029 TTATTTTAT-TA-CTTTTAT-ATA-AAATA-
1 ATATTTTATGTATCTATTATAATATAAATAG
9092055 ATATTT
1 ATATTT
9092061 AATTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 5 0.17
27 5 0.17
28 3 0.10
29 6 0.21
30 2 0.07
31 8 0.28
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (31 bp):
ATATTTTATGTATCTATTATAATATAAATAG
Found at i:9092108 original size:31 final size:32
Alignment explanation
Indices: 9092047--9092110 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
9092037 TTACTTTTAT
*
9092047 ATAAAATAATATTTAATTTTTAATAATATCAA
1 ATAAAATAATATTTAATATTTAATAATATCAA
* *
9092079 ATAAAATTAT-TTTTATATTTAA-AACTATCAA
1 ATAAAATAATATTTAATATTTAATAA-TATCAA
9092110 A
1 A
9092111 ATTTAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.07
31 17 0.61
32 9 0.32
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAAAATAATATTTAATATTTAATAATATCAA
Found at i:9096232 original size:24 final size:24
Alignment explanation
Indices: 9096187--9096233 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
9096177 GTTATGTCAC
9096187 AAGCCATTTTTGCCATATAAATAT
1 AAGCCATTTTTGCCATATAAATAT
9096211 AAGCTCATTTTAT-CCATA-AAATA
1 AAGC-CATTTT-TGCCATATAAATA
9096234 GATGTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 11 0.52
26 1 0.05
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (24 bp):
AAGCCATTTTTGCCATATAAATAT
Found at i:9099884 original size:57 final size:57
Alignment explanation
Indices: 9099699--9099967 Score: 398
Period size: 57 Copynumber: 4.6 Consensus size: 57
9099689 TTTTTTGTAG
*
9099699 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT-GAAATTT--ATTTCT-AA
**
9099759 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTG-AAATTTATTTCTAA
*
9099818 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
* * *
9099875 GGAAAATTGATACTTTCAACTTTTCCCCAAAAGTATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
9099932 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
9099968 ATATTTTTTT
Statistics
Matches: 192, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
57 100 0.52
58 8 0.04
59 37 0.19
60 34 0.18
61 13 0.07
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
Found at i:9100028 original size:17 final size:17
Alignment explanation
Indices: 9100001--9100040 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9099991 TTTTTTTATT
*
9100001 TAAAGAAAAATAGAAAAA
1 TAAA-AAAAATAAAAAAA
9100019 TAAAAAAAATAAAAAAA
1 TAAAAAAAATAAAAAAA
*
9100036 GAAAA
1 TAAAA
9100041 GTAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (17 bp):
TAAAAAAAATAAAAAAA
Found at i:9100038 original size:23 final size:25
Alignment explanation
Indices: 9100006--9100058 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
9099996 TTATTTAAAG
*
9100006 AAAAATAGAAAAATAAAA-AAAA-T
1 AAAAAAAGAAAAATAAAACAAAACT
*
9100029 AAAAAAAGAAAAGTAAAACAAAACT
1 AAAAAAAGAAAAATAAAACAAAACT
9100054 AAAAA
1 AAAAA
9100059 TAAAATAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 16 0.62
24 4 0.15
25 6 0.23
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (25 bp):
AAAAAAAGAAAAATAAAACAAAACT
Found at i:9100646 original size:31 final size:30
Alignment explanation
Indices: 9100592--9100651 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
9100582 TGGGCAGGTC
* * *
9100592 GCCGGAAACTTCAAGGTTGGCCGGAGATTTG
1 GCCGAAAAATTCAAGGTTCGCCGGA-ATTTG
*
9100623 GCCGAAAAATTCAAGTTTCGCCGGAATTT
1 GCCGAAAAATTCAAGGTTCGCCGGAATTT
9100652 TCGTCGGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (30 bp):
GCCGAAAAATTCAAGGTTCGCCGGAATTTG
Found at i:9100705 original size:25 final size:25
Alignment explanation
Indices: 9100669--9100716 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
9100659 AATCTGGAAA
9100669 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAGAAATTTCCAGAAAAATT
*
9100694 TTTCGCCA-AAATTTCTAGAAAAA
1 TTTC-CCAGAAATTTCCAGAAAAA
9100717 ATTCTCCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAGAAAAATT
Found at i:9101474 original size:1 final size:1
Alignment explanation
Indices: 9101470--9101561 Score: 121
Period size: 1 Copynumber: 92.0 Consensus size: 1
9101460 TTTAAAAAAA
* * * * * * *
9101470 TTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTTGTTTTTTGTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9101535 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
9101562 GCCGAAGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (1 bp):
T
Found at i:9101488 original size:15 final size:15
Alignment explanation
Indices: 9101470--9101562 Score: 138
Period size: 15 Copynumber: 6.4 Consensus size: 15
9101460 TTTAAAAAAA
9101470 TTTTTGTTTTTTG-T
1 TTTTTGTTTTTTGTT
9101484 TTTTTGTTTTTTGTT
1 TTTTTGTTTTTTGTT
9101499 TTTTTGTTTTTTGTT
1 TTTTTGTTTTTTGTT
9101514 TTTTTGTTTTTT-TT
1 TTTTTGTTTTTTGTT
*
9101528 TTTTT-TTTTTTTTT
1 TTTTTGTTTTTTGTT
* *
9101542 TTTTTTTTTTTTTTT
1 TTTTTGTTTTTTGTT
9101557 TTTTTG
1 TTTTTG
9101563 CCGAAGTTCC
Statistics
Matches: 75, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
13 6 0.08
14 27 0.36
15 42 0.56
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (15 bp):
TTTTTGTTTTTTGTT
Found at i:9101655 original size:41 final size:41
Alignment explanation
Indices: 9101570--9102229 Score: 821
Period size: 41 Copynumber: 15.9 Consensus size: 41
9101560 TTGCCGAAGT
9101570 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGC
* *
9101612 TCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGC
* * * *
9101653 TCCTCTCAACAGAGGTACCACGACTTTGAAAAGTAAACTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGC
9101694 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGC
9101736 TCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAATAAATTGC
9101777 TCCTCTAAACAGAGGCA--ACGAAACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACG--ACTTTGAAAAATAAATTGC
9101818 TCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTG-AAAAATAAATTGC
9101860 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGC
9101902 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGC
* *** *** **
9101944 TCCTTTGGAAA-A-ATAAATTGCTCCTTTGGAAAAATAAATTGC
1 TCCTCT--AAACAGAGGCACCACGACTTT-GAAAAATAAATTGC
* *
9101986 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAATAAATTGC
9102028 TCCTCTAAACAGAGGCACCACGACTTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGAC-TTT-GAAAAATAAATTGC
9102071 TCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAATAAATTGC
*
9102112 TCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAATAAATTGC
*
9102153 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAATAAATTGC
*
9102193 TCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAAT
1 TCCTCTAAACAGAGGCACCACG-ACTTTGAAAAATAAAT
9102230 ACTCCTAGAC
Statistics
Matches: 570, Mismatches: 30, Indels: 38
0.89 0.05 0.06
Matches are distributed among these distances:
40 63 0.11
41 234 0.41
42 229 0.40
43 38 0.07
44 6 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGC
Found at i:9101790 original size:124 final size:120
Alignment explanation
Indices: 9101570--9102229 Score: 807
Period size: 124 Copynumber: 5.3 Consensus size: 120
9101560 TTGCCGAAGT
*
9101570 TCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACG
1 TCCTCTAAACAGAGGCA--ACGAACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACG
* * * *
9101634 ACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGACTTTGAAAAGTAAACTGC
62 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAATAAATTGC
9101694 TCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGA
1 TCCTCTAAACAGAGGCA--ACGAACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAAC-G-
*
9101758 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGG-CAACGAAACTTTGAAAAATAAATTGC
62 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGACCACG--ACTTTGAAAAATAAATTGC
*
9101818 TCCTCTAAACAGAGGCAACGGAACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1 TCCTCTAAACAGAGGCAAC-GAACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGA
9101883 CTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
63 CTTT-GAAAAATAAATTGCTCCTCTAAACAGAGG-ACCACGACTTT-GAAAAATAAATTGC
* ** * ** * *
9101944 TCCTTTGGAAA-A-A-TAAATTGCTCCTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGTACCA
1 TCCTCT--AAACAGAGGCAA-CG-AACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGG--CAA
9102006 CGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAAATAAATTGC
60 CGACTTTG-AAAAATAAATTGCTCCTCTAAACAGAGG-ACCACGAC-TTT-GAAAAATAAATTGC
9102071 TCCTCTAAACAGAGGCAACGGAACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCAACGGAA
1 TCCTCTAAACAGAGGCAAC-GAACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAAC-G-A
* * *
9102135 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATTGC
63 CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAATAAATTGC
*
9102193 TCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAAT
1 TCCTCTAAACAGAGGCAACGAACTTTGGAAAAATAAAT
9102230 ACTCCTAGAC
Statistics
Matches: 480, Mismatches: 29, Indels: 57
0.85 0.05 0.10
Matches are distributed among these distances:
121 17 0.04
122 40 0.08
123 9 0.02
124 170 0.35
125 70 0.15
126 134 0.28
127 33 0.07
128 7 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.23
Consensus pattern (120 bp):
TCCTCTAAACAGAGGCAACGAACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGACTT
TGAAAAATAAATTGCTCCTCTAAACAGAGGACCACGACTTTGAAAAATAAATTGC
Found at i:9101951 original size:21 final size:21
Alignment explanation
Indices: 9101925--9101989 Score: 130
Period size: 21 Copynumber: 3.1 Consensus size: 21
9101915 GGCACCACGA
9101925 CTTTGGAAAAATAAATTGCTC
1 CTTTGGAAAAATAAATTGCTC
9101946 CTTTGGAAAAATAAATTGCTC
1 CTTTGGAAAAATAAATTGCTC
9101967 CTTTGGAAAAATAAATTGCTC
1 CTTTGGAAAAATAAATTGCTC
9101988 CT
1 CT
9101990 CTCAACAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (21 bp):
CTTTGGAAAAATAAATTGCTC
Found at i:9102780 original size:12 final size:12
Alignment explanation
Indices: 9102763--9102796 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9102753 TCAGCGCTAG
9102763 CAAATTTCATAA
1 CAAATTTCATAA
*
9102775 CAAATTTCAAAA
1 CAAATTTCATAA
9102787 CAAATTTCAT
1 CAAATTTCAT
9102797 CCACCATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (12 bp):
CAAATTTCATAA
Found at i:9103493 original size:8 final size:8
Alignment explanation
Indices: 9103480--9103554 Score: 57
Period size: 8 Copynumber: 9.6 Consensus size: 8
9103470 TTTGGATCTC
9103480 TTTTTTCA
1 TTTTTTCA
*
9103488 TTTTTTTA
1 TTTTTTCA
*
9103496 TTTTCTCA
1 TTTTTTCA
*
9103504 TTTTCTCA
1 TTTTTTCA
*
9103512 TTTTTTCCC
1 TTTTTT-CA
9103521 TTTTTT--
1 TTTTTTCA
**
9103527 TTTTTTTT
1 TTTTTTCA
9103535 TTTTTTC-
1 TTTTTTCA
*
9103542 TTTTCTCA
1 TTTTTTCA
9103550 TTTTT
1 TTTTT
9103555 CATCCAGTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
6 6 0.11
7 6 0.11
8 36 0.65
9 7 0.13
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:9107551 original size:57 final size:57
Alignment explanation
Indices: 9107368--9107634 Score: 394
Period size: 57 Copynumber: 4.6 Consensus size: 57
9107358 TTTTGTAGGA
*
9107368 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT-GAAATTT--ATTTCT-AAGG
**
9107428 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTG-AAATTTATTTCTAAGG
*
9107487 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTGAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAGG
* * *
9107544 AAAATTGATACTTTCAACTTTTCCCCAAAAGTATTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAGG
9107601 AAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATAT
9107635 ATATATTTTT
Statistics
Matches: 190, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
57 100 0.53
58 8 0.04
59 37 0.19
60 32 0.17
61 13 0.07
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAAGG
Found at i:9107695 original size:18 final size:18
Alignment explanation
Indices: 9107669--9107736 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
9107659 TTTTTTTATT
* *
9107669 TAAAGAAAAATAGAAAAA
1 TAAAAAAAAATAAAAAAA
9107687 TAAAAAAAAATAAAAAAA
1 TAAAAAAAAATAAAAAAA
* ** * *
9107705 GAAAAGTAAA-ACAAAAC
1 TAAAAAAAAATAAAAAAA
9107722 TAAAAATAAAATAAA
1 TAAAAA-AAAATAAA
9107737 GATAAAAAGA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
17 9 0.24
18 26 0.70
19 2 0.05
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (18 bp):
TAAAAAAAAATAAAAAAA
Found at i:9107707 original size:24 final size:25
Alignment explanation
Indices: 9107674--9107727 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
9107664 TTATTTAAAG
*
9107674 AAAAATAGAAAAATAAAA-AAAAAT
1 AAAAAAAGAAAAATAAAACAAAAAT
* *
9107698 AAAAAAAGAAAAGTAAAACAAAACT
1 AAAAAAAGAAAAATAAAACAAAAAT
9107723 AAAAA
1 AAAAA
9107728 TAAAATAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (25 bp):
AAAAAAAGAAAAATAAAACAAAAAT
Found at i:9107741 original size:11 final size:11
Alignment explanation
Indices: 9107682--9107743 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
9107672 AGAAAAATAG
9107682 AAAAATAAAA-
1 AAAAATAAAAT
9107692 AAAAATAAAA-
1 AAAAATAAAAT
* *
9107702 AAAGA-AAAGT
1 AAAAATAAAAT
*
9107712 AAAACA-AAACT
1 AAAA-ATAAAAT
9107723 AAAAATAAAAT
1 AAAAATAAAAT
*
9107734 AAAGATAAAA
1 AAAAATAAAA
9107744 AGAATATTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
9 3 0.07
10 18 0.42
11 22 0.51
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:9108180 original size:20 final size:20
Alignment explanation
Indices: 9108155--9108201 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9108145 GAACACCGGT
*
9108155 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
9108175 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
*
9108194 ACCGGAAT
1 GCCGGAAT
9108202 TTCGCCGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:9108260 original size:20 final size:20
Alignment explanation
Indices: 9108214--9108251 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9108204 CGCCGGAAGT
9108214 TCGCCGGTTTCTGGGATTAG
1 TCGCCGGTTTCTGGGATTAG
9108234 TCGCCGGTTTCTGGGATT
1 TCGCCGGTTTCTGGGATT
9108252 CTTCTCCGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.21, G:0.34, T:0.37
Consensus pattern (20 bp):
TCGCCGGTTTCTGGGATTAG
Found at i:9108341 original size:31 final size:31
Alignment explanation
Indices: 9108273--9108343 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
9108263 ACTGGGCAGG
* * *
9108273 TCGCCGGAAACTTCAAGGTTGGCCGGAGATT
1 TCGCCGGAAAATTCAAGGTTCGCCGGAAATT
* *
9108304 TGGCCGGAAAATTCAAGTTTCGCC-GAAATTT
1 TCGCCGGAAAATTCAAGGTTCGCCGGAAA-TT
9108335 TCGCCGGAA
1 TCGCCGGAA
9108344 TCTGGAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAGGTTCGCCGGAAATT
Found at i:9110522 original size:52 final size:51
Alignment explanation
Indices: 9110381--9110523 Score: 160
Period size: 52 Copynumber: 2.7 Consensus size: 51
9110371 AAATTTGTCC
* * * * * *
9110381 ATTAAGAATCCTTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTGCTT
1 ATTAAGAAT-CTTTTTCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
* * * *
9110433 ATTAAGAATCTCTTTCCCTTTAAAATTATTCTCTTGCAAGTCAAACTTACCT
1 ATTAAGAATCTTTTTCTC-TTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
*
9110485 ATTAAGAATCATTTTTCTCTTAGAATTCTTCTTTTGCAA
1 ATTAAGAATC-TTTTTCTCTTAGAATTCTTCTCTTGCAA
9110524 CTCTTCTTGT
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
51 5 0.07
52 63 0.85
53 6 0.08
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.43
Consensus pattern (51 bp):
ATTAAGAATCTTTTTCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
Found at i:9110566 original size:11 final size:11
Alignment explanation
Indices: 9110550--9110592 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
9110540 AGCAATATCT
9110550 AACAAATCTCA
1 AACAAATCTCA
* *
9110561 AACAAAACCTCT
1 AAC-AAATCTCA
9110573 AACAAATCTCA
1 AACAAATCTCA
9110584 AACAAATCT
1 AACAAATCT
9110593 TTTATGAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:9111560 original size:2 final size:2
Alignment explanation
Indices: 9111555--9111602 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
9111545 TCTCTCTGTG
9111555 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A 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
9111596 TA TA TA T
1 TA TA TA T
9111603 CTTTTTTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9113916 original size:125 final size:125
Alignment explanation
Indices: 9113694--9113945 Score: 504
Period size: 125 Copynumber: 2.0 Consensus size: 125
9113684 AAGTTGTGTG
9113694 TCCAAGCAAAGAGAAGTGCGTCCAAAGAAGATCCCACCATGAATTTGGTTTAGAGTAATTGCGTG
1 TCCAAGCAAAGAGAAGTGCGTCCAAAGAAGATCCCACCATGAATTTGGTTTAGAGTAATTGCGTG
9113759 CTTCGATCTTGTCCCTTGGGCCATGGCTCTGTTATTCGAATCAGTTGTTGGGTTCATCTT
66 CTTCGATCTTGTCCCTTGGGCCATGGCTCTGTTATTCGAATCAGTTGTTGGGTTCATCTT
9113819 TCCAAGCAAAGAGAAGTGCGTCCAAAGAAGATCCCACCATGAATTTGGTTTAGAGTAATTGCGTG
1 TCCAAGCAAAGAGAAGTGCGTCCAAAGAAGATCCCACCATGAATTTGGTTTAGAGTAATTGCGTG
9113884 CTTCGATCTTGTCCCTTGGGCCATGGCTCTGTTATTCGAATCAGTTGTTGGGTTCATCTT
66 CTTCGATCTTGTCCCTTGGGCCATGGCTCTGTTATTCGAATCAGTTGTTGGGTTCATCTT
9113944 TC
1 TC
9113946 ATCTTAGACA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 127 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (125 bp):
TCCAAGCAAAGAGAAGTGCGTCCAAAGAAGATCCCACCATGAATTTGGTTTAGAGTAATTGCGTG
CTTCGATCTTGTCCCTTGGGCCATGGCTCTGTTATTCGAATCAGTTGTTGGGTTCATCTT
Found at i:9116148 original size:1 final size:1
Alignment explanation
Indices: 9116142--9116170 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
9116132 AGAAAGGGAC
9116142 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9116171 AAGGAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9118593 original size:6 final size:6
Alignment explanation
Indices: 9118582--9118606 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9118572 TCAATCCAAA
9118582 CAAACC CAAACC CAAACC CAAACC C
1 CAAACC CAAACC CAAACC CAAACC C
9118607 TTGTGCACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACC
Found at i:9120022 original size:12 final size:13
Alignment explanation
Indices: 9119994--9120022 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9119984 AGTTATTGTC
9119994 TAAATATTTTTAG
1 TAAATATTTTTAG
9120007 TAAATATTTTTA-
1 TAAATATTTTTAG
9120019 TAAA
1 TAAA
9120023 GTCTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
TAAATATTTTTAG
Found at i:9120064 original size:18 final size:18
Alignment explanation
Indices: 9120041--9120075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9120031 TAAATAAATT
*
9120041 TTTTTATTACTAGACTTC
1 TTTTTATAACTAGACTTC
*
9120059 TTTTTATAATTAGACTT
1 TTTTTATAACTAGACTT
9120076 AAAAAGTGTT
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:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTATAACTAGACTTC
Found at i:9120156 original size:16 final size:16
Alignment explanation
Indices: 9120137--9120167 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9120127 AAATTTTAAT
9120137 TTAAATGACTTTTTTA
1 TTAAATGACTTTTTTA
*
9120153 TTAATTGACTTTTTT
1 TTAAATGACTTTTTT
9120168 TTTATAAGTA
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:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTAAATGACTTTTTTA
Found at i:9125767 original size:6 final size:6
Alignment explanation
Indices: 9125756--9125780 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9125746 TCAATCCAAA
9125756 CAAACC CAAACC CAAACC CAAACC C
1 CAAACC CAAACC CAAACC CAAACC C
9125781 TTGTGCACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACC
Found at i:9126121 original size:55 final size:53
Alignment explanation
Indices: 9126008--9126135 Score: 154
Period size: 55 Copynumber: 2.4 Consensus size: 53
9125998 TATAACCATG
* *
9126008 CAAACTTGCCCATTAAGAAT-CACTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
9126060 CAAACTTGCCTATTAAGAATCCA-T-TCCTTTTAGAATTTTCTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAA---T-TCTTCTCCTGCAAGT
*
9126115 CAAACTTACCTATTAAGAATC
1 CAAACTTGCCTATTAAGAATC
9126136 TTTTTCTCTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
51 10 0.15
52 20 0.30
53 2 0.03
54 1 0.02
55 33 0.50
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.37
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:9127335 original size:16 final size:16
Alignment explanation
Indices: 9127316--9127346 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9127306 AAATTTTAAT
9127316 TTAAATGACTTTTTTA
1 TTAAATGACTTTTTTA
*
9127332 TTAATTGACTTTTTT
1 TTAAATGACTTTTTT
9127347 TTTTATAAGT
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:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTAAATGACTTTTTTA
Found at i:9132941 original size:6 final size:6
Alignment explanation
Indices: 9132930--9132954 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9132920 TCAATCCAAA
9132930 CAAACC CAAACC CAAACC CAAACC C
1 CAAACC CAAACC CAAACC CAAACC C
9132955 TTGTGCACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACC
Found at i:9133268 original size:52 final size:55
Alignment explanation
Indices: 9133182--9133311 Score: 151
Period size: 57 Copynumber: 2.4 Consensus size: 55
9133172 TATAACCATG
* *
9133182 CAAACTTGCCCATTAAGAAT-CACTCTCCTCTTAGAA-T-TCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAATTCTCTTCTCCTGCAAGT
* * *
9133234 CAAACTTGCCTATTAAGAATCCA-TTTCCTTTTAGAATTTTTCTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAA---TTCTCTTCTCCTGCAAGT
*
9133291 CAAACTTACCTATTAAGAATC
1 CAAACTTGCCTATTAAGAATC
9133312 TTTTTTCTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
52 30 0.45
53 2 0.03
56 1 0.02
57 33 0.50
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (55 bp):
CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAATTCTCTTCTCCTGCAAGT
Found at i:9134369 original size:12 final size:13
Alignment explanation
Indices: 9134341--9134369 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9134331 AGTTATTGTC
9134341 TAAATATTTTTAG
1 TAAATATTTTTAG
9134354 TAAATATTTTTA-
1 TAAATATTTTTAG
9134366 TAAA
1 TAAA
9134370 GTCTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
TAAATATTTTTAG
Found at i:9134411 original size:18 final size:18
Alignment explanation
Indices: 9134388--9134422 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9134378 TAAATAAATT
*
9134388 TTTTTATTACTAGACTTC
1 TTTTTATAACTAGACTTC
*
9134406 TTTTTATAATTAGACTT
1 TTTTTATAACTAGACTT
9134423 AAAAAGTGTT
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:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTATAACTAGACTTC
Found at i:9134504 original size:16 final size:16
Alignment explanation
Indices: 9134485--9134515 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9134475 AAATTTTAAT
9134485 TTAAATGACTTTTTTA
1 TTAAATGACTTTTTTA
*
9134501 TTAATTGACTTTTTT
1 TTAAATGACTTTTTT
9134516 TTTTATAAGT
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:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTAAATGACTTTTTTA
Found at i:9137686 original size:1 final size:1
Alignment explanation
Indices: 9137680--9137706 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
9137670 AGAAAGGGAC
9137680 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
9137707 AAGGAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9140126 original size:6 final size:6
Alignment explanation
Indices: 9140115--9140139 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9140105 TCAATCCAAA
9140115 CAAACC CAAACC CAAACC CAAACC C
1 CAAACC CAAACC CAAACC CAAACC C
9140140 TTGTGCACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACC
Found at i:9140453 original size:52 final size:55
Alignment explanation
Indices: 9140367--9140496 Score: 151
Period size: 57 Copynumber: 2.4 Consensus size: 55
9140357 TATAACCATG
* *
9140367 CAAACTTGCCCATTAAGAAT-CACTCTCCTCTTAGAA-T-TCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAATTCTCTTCTCCTGCAAGT
* * *
9140419 CAAACTTGCCTATTAAGAATCCA-TTTCCTTTTAGAATTTTTCTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAA---TTCTCTTCTCCTGCAAGT
*
9140476 CAAACTTACCTATTAAGAATC
1 CAAACTTGCCTATTAAGAATC
9140497 TTTTTTCTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
52 30 0.45
53 2 0.03
56 1 0.02
57 33 0.50
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (55 bp):
CAAACTTGCCTATTAAGAATCCACTCTCCTCTTAGAATTCTCTTCTCCTGCAAGT
Found at i:9141553 original size:12 final size:13
Alignment explanation
Indices: 9141525--9141553 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9141515 AGTTATTGTC
9141525 TAAATATTTTTAG
1 TAAATATTTTTAG
9141538 TAAATATTTTTA-
1 TAAATATTTTTAG
9141550 TAAA
1 TAAA
9141554 GTCTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
TAAATATTTTTAG
Found at i:9141595 original size:18 final size:18
Alignment explanation
Indices: 9141572--9141606 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9141562 TAAATAAATT
*
9141572 TTTTTATTACTAGACTTC
1 TTTTTATAACTAGACTTC
*
9141590 TTTTTATAATTAGACTT
1 TTTTTATAACTAGACTT
9141607 AAAAAGTGTT
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:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTATAACTAGACTTC
Found at i:9141687 original size:16 final size:16
Alignment explanation
Indices: 9141668--9141698 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9141658 AAATTTTAAT
9141668 TTAAATGACTTTTTTA
1 TTAAATGACTTTTTTA
*
9141684 TTAATTGACTTTTTT
1 TTAAATGACTTTTTT
9141699 TTTTATAAGT
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:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTAAATGACTTTTTTA
Found at i:9145436 original size:13 final size:13
Alignment explanation
Indices: 9145418--9145443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9145408 GGATAGGCCC
9145418 ATTTTTATTTTTT
1 ATTTTTATTTTTT
9145431 ATTTTTATTTTTT
1 ATTTTTATTTTTT
9145444 TCTCTAAATT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:9145461 original size:3 final size:3
Alignment explanation
Indices: 9145455--9145604 Score: 58
Period size: 3 Copynumber: 47.7 Consensus size: 3
9145445 CTCTAAATTC
* * *
9145455 TTA TTA TTTA TTA TTA CTA TTA TTA TTTA TTA ATA -TA CATA TATA TTTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA T-TA -TTA
** * *
9145504 TTTA TTTA TTA ACA -TA TTA TATA TT- TT- TTC TTA TTTA TTT TTA TTA
1 -TTA -TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
9145550 CTA TTTA TCTA TTA TTA TTA TTA TTA TTA TTTA TTA -TG TTA TTT TTA
1 TTA -TTA T-TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
9145597 TTT TTA TT
1 TTA TTA TT
9145605 TTTGTTTTTG
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
2 8 0.07
3 72 0.63
4 34 0.30
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9145477 original size:16 final size:16
Alignment explanation
Indices: 9145456--9145592 Score: 60
Period size: 16 Copynumber: 8.7 Consensus size: 16
9145446 TCTAAATTCT
9145456 TATTATTTATTATTAC
1 TATTATTTATTATTAC
*
9145472 TATTA-TTATTTATTAA
1 TATTATTTA-TTATTAC
**
9145488 TA-TACATA-TA-TA-
1 TATTATTTATTATTAC
9145500 T-TTATTTATTTATTAAC
1 TATTATTTA-TTATT-AC
* * *
9145517 ATATTATATATTTTTTC
1 -TATTATTTATTATTAC
9145534 TTATTTATTT-TTATTAC
1 -TA-TTATTTATTATTAC
* *
9145551 TATTTATCTATTATTAT
1 TA-TTATTTATTATTAC
9145568 TATTA-TTATTATT--
1 TATTATTTATTATTAC
9145581 TATTATGTTATT
1 TATTAT-TTATT
9145593 TTTATTTTTA
Statistics
Matches: 93, Mismatches: 14, Indels: 29
0.68 0.10 0.21
Matches are distributed among these distances:
12 5 0.05
13 7 0.08
14 4 0.04
15 18 0.19
16 27 0.29
17 16 0.17
18 10 0.11
19 6 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (16 bp):
TATTATTTATTATTAC
Found at i:9145542 original size:29 final size:28
Alignment explanation
Indices: 9145477--9145529 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
9145467 ATTACTATTA
*
9145477 TTATTTATTAATATACATATATATTTAT
1 TTATTTATTAACATACATATATATTTAT
*
9145505 TTATTTATTAACATA-TTATATATTT
1 TTATTTATTAACATACATATATATTT
9145530 TTTCTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATTTATTAACATACATATATATTTAT
Found at i:9145563 original size:49 final size:50
Alignment explanation
Indices: 9145502--9145598 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 50
9145492 CATATATATT
* * *
9145502 TATTTATTTATTAACA-TATTATATATTTTTTCTTAT-TTATTTTTATTAC
1 TATTTATCTATTAACATTATTAT-TATTATTTATTATGTTATTTTTATTAC
**
9145551 TATTTATCTATTATTATTATTATTATTATTTATTATGTTATTTTTATT
1 TATTTATCTATTAACATTATTATTATTATTTATTATGTTATTTTTATT
9145599 TTTATTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 24 0.59
50 17 0.41
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (50 bp):
TATTTATCTATTAACATTATTATTATTATTTATTATGTTATTTTTATTAC
Found at i:9145605 original size:6 final size:6
Alignment explanation
Indices: 9145537--9145628 Score: 69
Period size: 6 Copynumber: 15.0 Consensus size: 6
9145527 TTTTTTCTTA
** * * *
9145537 TTTATT TTTATT ACTATT TATCTATT ATTATT ATTATT ATTATT TATTA-T
1 TTTATT TTTATT TTTATT T-T-TATT TTTATT TTTATT TTTATT T-TTATT
* * * *
9145587 GTTATT TTTATT TTTATT TTTGTT TTTGTT TTTCTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
9145629 CGGCTGGGAT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
5 3 0.04
6 60 0.85
7 4 0.06
8 4 0.06
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:9146404 original size:3 final size:3
Alignment explanation
Indices: 9146387--9146501 Score: 80
Period size: 3 Copynumber: 39.0 Consensus size: 3
9146377 TGTTTTTTTC
9146387 ATT ATT -TT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* ** * * *
9146434 ATT GATT A-G ATT AGA ATT ATTT AGT ATT TTT ATT -TT ATT TTT ATCT
1 ATT -ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT-T
* *
9146480 -TT ATT TTT ATT TTT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
9146502 TTTTTCTTTA
Statistics
Matches: 86, Mismatches: 16, Indels: 20
0.70 0.13 0.16
Matches are distributed among these distances:
2 10 0.12
3 66 0.77
4 10 0.12
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:9146505 original size:18 final size:18
Alignment explanation
Indices: 9146462--9146504 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
9146452 ATTTAGTATT
9146462 TTTA-TTTTATTTTTATC
1 TTTATTTTTATTTTTATC
9146479 TTTATTTTTATTTTTAT-
1 TTTATTTTTATTTTTATC
9146496 TTTATTTTT
1 TTTATTTTT
9146505 TTCTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTATTTTTATTTTTATC
Found at i:9146511 original size:12 final size:11
Alignment explanation
Indices: 9146391--9146503 Score: 68
Period size: 11 Copynumber: 9.8 Consensus size: 11
9146381 TTTTTCATTA
9146391 TTTTATTTTAT
1 TTTTATTTTAT
*
9146402 TATTATTATTAT
1 TTTTATT-TTAT
*
9146414 TATTATTATTAT
1 TTTTATT-TTAT
*
9146426 TATTA-TTTAT
1 TTTTATTTTAT
* ** *
9146436 TGATTAGATTAG
1 T-TTTATTTTAT
**
9146448 AATTATTTAGTAT
1 TTTTATTT--TAT
9146461 TTTTATTTTAT
1 TTTTATTTTAT
9146472 TTTTATCTTTAT
1 TTTTAT-TTTAT
9146484 TTTTATTTT-T
1 TTTTATTTTAT
9146494 ATTTTATTTT
1 -TTTTATTTT
9146504 TTTCTTTAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
10 6 0.07
11 37 0.43
12 35 0.41
13 8 0.09
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.70
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:9146680 original size:59 final size:58
Alignment explanation
Indices: 9146524--9146683 Score: 259
Period size: 57 Copynumber: 2.8 Consensus size: 58
9146514 TAAAATTCAA
* * *
9146524 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTTTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
*
9146582 AAAAAA-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
*
9146639 AAAAAATATTTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTG
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
9146684 TACGAAAGCA
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
57 53 0.56
58 7 0.07
59 34 0.36
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:9156794 original size:9 final size:8
Alignment explanation
Indices: 9156779--9156829 Score: 57
Period size: 9 Copynumber: 5.9 Consensus size: 8
9156769 ATGTTTGAAA
9156779 AAAAAAAG
1 AAAAAAAG
9156787 AGAAAAAATG
1 A-AAAAAA-G
*
9156797 AAATGAAAG
1 AAA-AAAAG
9156806 AAAAAAATG
1 AAAAAAA-G
9156815 AAAAAAAG
1 AAAAAAAG
9156823 AAAAAAA
1 AAAAAAA
9156830 AAGTGAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 12 0.32
9 20 0.54
10 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:9156803 original size:26 final size:26
Alignment explanation
Indices: 9156774--9156825 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
9156764 GTATTATGTT
9156774 TGAAA-AAAAAAA-GAGAAAAAATGAAA
1 TGAAAGAAAAAAATGA-AAAAAA-GAAA
9156800 TGAAAGAAAAAAATGAAAAAAAGAAA
1 TGAAAGAAAAAAATGAAAAAAAGAAA
9156826 AAAAAAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.38
27 13 0.54
28 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (26 bp):
TGAAAGAAAAAAATGAAAAAAAGAAA
Found at i:9156829 original size:17 final size:17
Alignment explanation
Indices: 9156779--9156829 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
9156769 ATGTTTGAAA
9156779 AAAAAAAGAGAAAAAATG
1 AAAAAAAGA-AAAAAATG
*
9156797 AAATGAAAGAAAAAAATG
1 AAA-AAAAGAAAAAAATG
9156815 AAAAAAAGAAAAAAA
1 AAAAAAAGAAAAAAA
9156830 AAGTGAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 11 0.37
18 14 0.47
19 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAAAAAGAAAAAAATG
Found at i:9158009 original size:51 final size:47
Alignment explanation
Indices: 9157914--9158427 Score: 288
Period size: 44 Copynumber: 11.7 Consensus size: 47
9157904 AAGTTGTTGA
* *
9157914 GCCTCTGCTTAGAGGAGCTTTATTTATTTTT-TCAAAGTCGTTGAGCCC
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCT-AAAATCGTTGAG-CC
*
9157962 TTGCTCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCATTGA---
1 --GC-CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGCC
* *
9158009 GCCTCTATTTAGAGGAGCTTTGTTTATTTTTCTAAAATCGTTGA---
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGCC
* * * * *
9158053 GCCTCTGATTAAAGAAGC-CT-TTTATTTTT-TAAAAGTCGTT-A--A
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAA-TCGTTGAGCC
* * * *
9158095 GCCTTTGTTTATAGGAGCTTTGTTTACTTTTC-AAAAGTCGTTGA---
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAA-TCGTTGAGCC
* * **
9158139 GCCTCTGTTTAGAGGAGC--AATTTATTTTT-T-GAA--GTTGTA-AT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTG-AGCC
* * * *
9158180 GCCTCTGTTTAGAGGAGC--AATCTATTTTT-TGAAGTCGTTGA---
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGCC
* * *
9158221 GCCTCTGTTTAGAGGAGTTTTATTTATTTTTCTGAAATTGTTGA---
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGCC
* * *
9158265 GCCTCTATTTAGAGGAGCTTTATTTAATTTTTC-AAAGTCGTT-A--A
1 GCCTCTGTTTAGAGGAGCTTTATTT-ATTTTTCTAAAATCGTTGAGCC
* *
9158309 GCCTCTGCTTAGAGGAGCTTTATTTATTTTTCTAAAATTGTTGA---
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGCC
* * * ** *
9158353 -CCTCTGTTTAGAAGAGCTTTGTTTATTTTTCTGAAA---TTGCTCA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGCC
* *
9158396 GCCTCTGATTAGAGGAGCTTTGTTTATATTTT
1 GCCTCTGTTTAGAGGAGCTTTATTTAT-TTTT
9158428 TCAAAGTTGT
Statistics
Matches: 390, Mismatches: 47, Indels: 59
0.79 0.09 0.12
Matches are distributed among these distances:
38 4 0.01
39 1 0.00
40 3 0.01
41 54 0.14
42 37 0.09
43 52 0.13
44 184 0.47
45 15 0.04
50 2 0.01
51 37 0.09
52 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.45
Consensus pattern (47 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGCC
Found at i:9158022 original size:44 final size:44
Alignment explanation
Indices: 9157967--9158461 Score: 460
Period size: 44 Copynumber: 11.4 Consensus size: 44
9157957 AGCCCTTGCT
*
9157967 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCATTGAGC
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGC
* *
9158011 CTCTATTTAGAGGAGCTTTGTTTATTTTTCTAAAATCGTTGAGC
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGC
* * * * *
9158055 CTCTGATTAAAGAAGC-CT-TTTATTTTT-TAAAAGTCGTTAAGC
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAA-TCGTTGAGC
* * * *
9158097 CTTTGTTTATAGGAGCTTTGTTTACTTTTC-AAAAGTCGTTGAGC
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAA-TCGTTGAGC
* * * * *
9158141 CTCTGTTTAGAGGAGC--AATTTATTTTT-TGAAGTTG-TAATGC
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGA-GC
* * * *
9158182 CTCTGTTTAGAGGAGC--AATCTATTTTT-TGAAGTCGTTGAGC
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGC
* * *
9158223 CTCTGTTTAGAGGAGTTTTATTTATTTTTCTGAAATTGTTGAGC
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGC
* * *
9158267 CTCTATTTAGAGGAGCTTTATTTAATTTTTC-AAAGTCGTTAAGC
1 CTCTGTTTAGAGGAGCTTTATTT-ATTTTTCTAAAATCGTTGAGC
* *
9158311 CTCTGCTTAGAGGAGCTTTATTTATTTTTCTAAAATTGTTGA-C
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGC
* * * * * *
9158354 CTCTGTTTAGAAGAGCTTTGTTTATTTTTCTGAAATTGCTCAGC
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGC
* * * *
9158398 CTCTGATTAGAGGAGCTTTGTTTATATTTT-TCAAAGTTGTTGAGC
1 CTCTGTTTAGAGGAGCTTTATTTAT-TTTTCT-AAAATCGTTGAGC
* * *
9158443 CTTTGCTTAAAGGAGCTTT
1 CTCTGTTTAGAGGAGCTTT
9158462 GATCAAATTT
Statistics
Matches: 377, Mismatches: 59, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
40 2 0.01
41 59 0.16
42 41 0.11
43 55 0.15
44 184 0.49
45 36 0.10
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.44
Consensus pattern (44 bp):
CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCGTTGAGC
Found at i:9158321 original size:88 final size:87
Alignment explanation
Indices: 9157967--9158462 Score: 492
Period size: 86 Copynumber: 5.7 Consensus size: 87
9157957 AGCCCTTGCT
** *
9157967 CTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAATCATTGAGCCTCTATTTAGAGGAGCTTTGT
1 CTCTGTTTAGAGGAGCTTTATTTATTTTT-TAAAATTGTTGAGCCTCTGTTTAGAGGAGCTTTGT
*
9158032 TTATTTTTCTAAAATCGTTGAGC
65 TTATTTTTCTAAAGTCGTTGAGC
* * * * * * * *
9158055 CTCTGATTAAAGAAGC-CT-TTTATTTTTTAAAAGTCGTTAAGCCTTTGTTTATAGGAGCTTTGT
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTTAAAA-TTGTTGAGCCTCTGTTTAGAGGAGCTTTGT
* *
9158118 TTACTTTTCAAAAGTCGTTGAGC
65 TTATTTTTCTAAAGTCGTTGAGC
* * * * **
9158141 CTCTGTTTAGAGGAGC--AATTTATTTTTTGAAGTTG-TAATGCCTCTGTTTAGAGGAGC--AAT
1 CTCTGTTTAGAGGAGCTTTATTTATTTTTTAAAATTGTTGA-GCCTCTGTTTAGAGGAGCTTTGT
* *
9158201 CTATTTTT-TGAAGTCGTTGAGC
65 TTATTTTTCTAAAGTCGTTGAGC
* * * *
9158223 CTCTGTTTAGAGGAGTTTTATTTATTTTTCTGAAATTGTTGAGCCTCTATTTAGAGGAGCTTTAT
1 CTCTGTTTAGAGGAGCTTTATTTATTTTT-TAAAATTGTTGAGCCTCTGTTTAGAGGAGCTTTGT
*
9158288 TTAATTTTTC-AAAGTCGTTAAGC
65 TT-ATTTTTCTAAAGTCGTTGAGC
* *
9158311 CTCTGCTTAGAGGAGCTTTATTTATTTTTCTAAAATTGTTGA-CCTCTGTTTAGAAGAGCTTTGT
1 CTCTGTTTAGAGGAGCTTTATTTATTTTT-TAAAATTGTTGAGCCTCTGTTTAGAGGAGCTTTGT
* * *
9158375 TTATTTTTCTGAAA-TTGCTCAGC
65 TTATTTTTCT-AAAGTCGTTGAGC
* * * * * *
9158398 CTCTGATTAGAGGAGCTTTGTTTATATTTTTCAAAGTTGTTGAGCCTTTGCTTAAAGGAGCTTTG
1 CTCTGTTTAGAGGAGCTTTATTTAT-TTTTT-AAAATTGTTGAGCCTCTGTTTAGAGGAGCTTTG
9158463 ATCAAATTTT
Statistics
Matches: 340, Mismatches: 52, Indels: 31
0.80 0.12 0.07
Matches are distributed among these distances:
82 27 0.08
83 7 0.02
84 13 0.04
85 47 0.14
86 88 0.26
87 55 0.16
88 86 0.25
89 17 0.05
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.44
Consensus pattern (87 bp):
CTCTGTTTAGAGGAGCTTTATTTATTTTTTAAAATTGTTGAGCCTCTGTTTAGAGGAGCTTTGTT
TATTTTTCTAAAGTCGTTGAGC
Found at i:9158701 original size:22 final size:23
Alignment explanation
Indices: 9158674--9158723 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
9158664 AAAATTTTAT
*
9158674 TATTTATTAATATACA-TATATA
1 TATTTATTAACATACATTATATA
*
9158696 TATTTATTAACATATATTATATA
1 TATTTATTAACATACATTATATA
9158719 TATTT
1 TATTT
9158724 TTCTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTATTAACATACATTATATA
Found at i:9158760 original size:3 final size:3
Alignment explanation
Indices: 9158731--9158803 Score: 67
Period size: 3 Copynumber: 22.7 Consensus size: 3
9158721 TTTTTCTTAT
* *
9158731 TTA TTT TTA TTA CTA TTTA TCTA TTA TTA TTA TTA TTTA TCTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA
9158780 TTA TTA TTTA TCTA TTA -TA TTA TT
1 TTA TTA -TTA T-TA TTA TTA TTA TT
9158804 TTAATTTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
2 2 0.03
3 40 0.68
4 17 0.29
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9158806 original size:17 final size:20
Alignment explanation
Indices: 9158727--9158803 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
9158717 TATATTTTTC
* * *
9158727 TTATTTATTTTTATTACTAT
1 TTATCTATTATTATTATTAT
9158747 TTATCTATTATTATTATTAT
1 TTATCTATTATTATTATTAT
9158767 TTATCTATTATTATTATTAT
1 TTATCTATTATTATTATTAT
9158787 TTATCTATTA-TATTATT
1 TTATCTATTATTATTATT
9158804 TTAATTTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 7 0.13
20 47 0.87
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATCTATTATTATTATTAT
Found at i:9158812 original size:7 final size:6
Alignment explanation
Indices: 9158719--9158824 Score: 50
Period size: 6 Copynumber: 16.2 Consensus size: 6
9158709 ATATTATATA
* ** * *
9158719 TATTTT TCTTATT TATTTT TATTAC TATTTAT CTATTAT TATTAT TATTTAT
1 TATTTT TATT-TT TATTTT TATTTT TATTT-T -TATTTT TATTTT TATTT-T
* * * *
9158771 CTATTAT TATTAT TATTTAT CTATTATAT TATTTT AATTTT TATTTT TCTTTT
1 -TATTTT TATTTT TATTT-T -TATT-T-T TATTTT TATTTT TATTTT TATTTT
9158824 T
1 T
9158825 TCTTCTTATT
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
6 50 0.63
7 10 0.13
8 16 0.20
9 3 0.04
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (6 bp):
TATTTT
Found at i:9158815 original size:20 final size:21
Alignment explanation
Indices: 9158710--9158815 Score: 78
Period size: 20 Copynumber: 4.9 Consensus size: 21
9158700 TATTAACATA
*
9158710 TATTA-TATATATTTTTCTTATT
1 TATTATTAT-TATTTTTATTA-T
* *
9158732 TATTTTTATTACTATTTATCTAT
1 TATTATTATTA-TTTTTAT-TAT
9158755 TATTATTATTA--TTTATCTAT
1 TATTATTATTATTTTTAT-TAT
9158775 TATTATTATTATTTATCTATTA-
1 TATTATTATTATTT-T-TATTAT
9158797 TATTATT-TTAATTTTTATT
1 TATTATTATT-ATTTTTATT
9158816 TTTCTTTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
20 24 0.33
21 3 0.04
22 18 0.25
23 22 0.31
24 5 0.07
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTATTATTATTTTTATTAT
Found at i:9159634 original size:5 final size:5
Alignment explanation
Indices: 9159624--9159678 Score: 58
Period size: 5 Copynumber: 10.4 Consensus size: 5
9159614 TTAGTATTTC
*
9159624 TTATT TTATT TTATT CTATTT TTATCT TTATTT TTATTT TTATT TTA-T
1 TTATT TTATT TTATT TTA-TT TTAT-T TTA-TT TTA-TT TTATT TTATT
9159672 TTATT TT
1 TTATT TT
9159679 CTTTAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 21 0.48
6 18 0.41
7 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:9159657 original size:12 final size:11
Alignment explanation
Indices: 9159618--9159678 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
9159608 AATTATTTAG
9159618 TATTTCTTATTT
1 TATTT-TTATTT
*
9159630 TA-TTTTATTC
1 TATTTTTATTT
9159640 TATTTTTATCTT
1 TATTTTTAT-TT
9159652 TATTTTTATTT
1 TATTTTTATTT
9159663 T-TATTTTA-TT
1 TAT-TTTTATTT
9159673 TATTTT
1 TATTTT
9159679 CTTTAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
10 14 0.33
11 17 0.40
12 12 0.28
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:9159659 original size:6 final size:6
Alignment explanation
Indices: 9159618--9159673 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
9159608 AATTATTTAG
* *
9159618 TATTTCT TA-TTT TA-TTT TA-TTC TATTTT TATCTT TATTTT TATTTT
1 TATTT-T TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
9159664 TA-TTT TATTT
1 TATTTT TATTT
9159674 ATTTTCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
5 17 0.40
6 24 0.56
7 2 0.05
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:9159853 original size:59 final size:58
Alignment explanation
Indices: 9159696--9159975 Score: 362
Period size: 59 Copynumber: 4.8 Consensus size: 58
9159686 TAAAATTTTA
* * * * * * *
9159696 AAAAAATAGTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTACAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTC-T
* * *
9159755 AAAAATATATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGACAATAAGTTTTTCT
1 AAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG-TTTTCT
* * * *
9159815 AAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* *
9159873 AAAAAATATTTTTGAGAACAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* *
9159931 AAAAAATATTTTTTGAAAAAAAATTGAAAGTATCAATTTTTCTTG
1 AAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
9159976 TACAAAAGCA
Statistics
Matches: 195, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
58 68 0.35
59 77 0.39
60 47 0.24
61 3 0.02
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:9159944 original size:117 final size:119
Alignment explanation
Indices: 9159696--9159970 Score: 376
Period size: 117 Copynumber: 2.3 Consensus size: 119
9159686 TAAAATTTTA
* * * *
9159696 AAAAAATAGTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTACAAAAAAAT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTCTACAAAAAAAT
* *
9159761 ATATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGACAATAAGTTTTTCT
66 ATATTTTTAAGAAAAAATTAAAAGTATCAATTTTTCTTGAAAATAAGTTTTTCT
* * * * *
9159815 AAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTAAAAATAAGTTTTC-TAAAAA-
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTCTACAAAAAAAT
* * *
9159878 ATATTTTTGAGAACAAGTTAAAAGTATCAATTTTTCTTGAAAATAAG-TTTTCT
66 ATATTTTTAAGAAAAAATTAAAAGTATCAATTTTTCTTGAAAATAAGTTTTTCT
* *
9159931 AAAAAATATTTTTTGAAAAAAAATTGAAAGTATCAATTTT
1 AAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT
9159971 TCTTGTACAA
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
116 14 0.10
117 69 0.50
118 5 0.04
119 49 0.36
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (119 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTCTACAAAAAAAT
ATATTTTTAAGAAAAAATTAAAAGTATCAATTTTTCTTGAAAATAAGTTTTTCT
Found at i:9163169 original size:17 final size:17
Alignment explanation
Indices: 9163147--9163182 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9163137 TATAAATAAT
*
9163147 TTTTTTTATTACTAGAC
1 TTTTTTTATAACTAGAC
*
9163164 TTTTTTTATAATTAGAC
1 TTTTTTTATAACTAGAC
9163181 TT
1 TT
9163183 AAAAAGTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTTTTATAACTAGAC
Found at i:9164387 original size:12 final size:12
Alignment explanation
Indices: 9164370--9164395 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9164360 TTTTTATATA
9164370 GTAAAAATTTAT
1 GTAAAAATTTAT
9164382 GTAAAAATTTAT
1 GTAAAAATTTAT
9164394 GT
1 GT
9164396 GTAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (12 bp):
GTAAAAATTTAT
Found at i:9166203 original size:25 final size:27
Alignment explanation
Indices: 9166161--9166211 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
9166151 CTATTGTAAA
9166161 TTTAATATTTTAAAAAATATTATTTAT
1 TTTAATATTTTAAAAAATATTATTTAT
* *
9166188 TTTAAT-TTTT-ATAAATTTTATTTA
1 TTTAATATTTTAAAAAATATTATTTA
9166212 GTAAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 4 0.18
27 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTAATATTTTAAAAAATATTATTTAT
Found at i:9166572 original size:18 final size:16
Alignment explanation
Indices: 9166541--9166574 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
9166531 AATATAAAAG
9166541 TTATTATTTTAAATTA
1 TTATTATTTTAAATTA
9166557 TTATTATGTGTTAAATTA
1 TTATTAT-T-TTAAATTA
9166575 CAGGTAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
TTATTATTTTAAATTA
Found at i:9166819 original size:22 final size:22
Alignment explanation
Indices: 9166792--9166864 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
9166782 TAGTAATCAT
* *
9166792 TGATAACTTGTTAGTAAATAAA
1 TGATAATTTATTAGTAAATAAA
* *
9166814 TGATAATTTAATAGTAAATAAT
1 TGATAATTTATTAGTAAATAAA
* * *
9166836 TGGTAATTTTTTAGTAAATTAA
1 TGATAATTTATTAGTAAATAAA
*
9166858 TAATAAT
1 TGATAAT
9166865 ATAATAATAT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.42
Consensus pattern (22 bp):
TGATAATTTATTAGTAAATAAA
Found at i:9166993 original size:22 final size:22
Alignment explanation
Indices: 9166967--9167051 Score: 107
Period size: 22 Copynumber: 3.9 Consensus size: 22
9166957 CAAAAATAAA
*
9166967 TGATAACTTAATAGTTAATTAT
1 TGATAACTTAATAGTAAATTAT
* * * *
9166989 TGATAACTTAGTAATAAATCAA
1 TGATAACTTAATAGTAAATTAT
9167011 TGATAACTTAATAGTAAATTAT
1 TGATAACTTAATAGTAAATTAT
* *
9167033 TAATAATTTAATAGTAAAT
1 TGATAACTTAATAGTAAAT
9167052 CAATTTCAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAT
Found at i:9167018 original size:44 final size:44
Alignment explanation
Indices: 9166960--9167055 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
9166950 AATTTAACAA
* * * *
9166960 AAATAAATGATAACTTAATAGTTAATTATTGATAACTTAGTAAT
1 AAATCAATGATAACTTAATAGTAAATTATTAATAACTTAATAAT
* *
9167004 AAATCAATGATAACTTAATAGTAAATTATTAATAATTTAATAGT
1 AAATCAATGATAACTTAATAGTAAATTATTAATAACTTAATAAT
9167048 AAATCAAT
1 AAATCAAT
9167056 TTCAATTTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (44 bp):
AAATCAATGATAACTTAATAGTAAATTATTAATAACTTAATAAT
Found at i:9167083 original size:22 final size:23
Alignment explanation
Indices: 9167018--9167083 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
9167008 CAATGATAAC
*
9167018 TTAATAGTAAATT-ATTAATAAT
1 TTAATAGTAAATTAATTAACAAT
* *
9167040 TTAATAGTAAATCAATT-TCAAT
1 TTAATAGTAAATTAATTAACAAT
*
9167062 TTAGTAGT-AATTAATTAACAAT
1 TTAATAGTAAATTAATTAACAAT
9167084 AATAAATTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 7 0.19
22 26 0.72
23 3 0.08
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (23 bp):
TTAATAGTAAATTAATTAACAAT
Found at i:9167109 original size:11 final size:11
Alignment explanation
Indices: 9167081--9167134 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
9167071 ATTAATTAAC
9167081 AATAATAAATT
1 AATAATAAATT
*
9167092 ACA-AATAATTT
1 A-ATAATAAATT
*
9167103 AATAATAAATC
1 AATAATAAATT
*
9167114 AGTAATAAATT
1 AATAATAAATT
*
9167125 AGTAATAAAT
1 AATAATAAAT
9167135 AATTTATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 1 0.03
11 34 0.94
12 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (11 bp):
AATAATAAATT
Found at i:9167120 original size:22 final size:22
Alignment explanation
Indices: 9167081--9167266 Score: 78
Period size: 22 Copynumber: 8.5 Consensus size: 22
9167071 ATTAATTAAC
* **
9167081 AATAATAAATTACAAATAATTT
1 AATAATAAATCAGTAATAATTT
*
9167103 AATAATAAATCAGTAATAAATT
1 AATAATAAATCAGTAATAATTT
* * * *
9167125 AGTAATAAATAATTTATAATTT
1 AATAATAAATCAGTAATAATTT
* * * * *
9167147 AGTAATTATTCATTGAA-AATGT
1 AATAATAAATCAGT-AATAATTT
*
9167169 AA-AAGTAAATCAGT-ATAACTT
1 AATAA-TAAATCAGTAATAATTT
* * * * **
9167190 AGTAATACATCATTGATAACAT
1 AATAATAAATCAGTAATAATTT
* * * *
9167212 AA-ATGTTAATCAGTGATAACTT
1 AATA-ATAAATCAGTAATAATTT
9167234 AATAATAAATCA-TACATAATTT
1 AATAATAAATCAGTA-ATAATTT
9167256 AAT-ATAAATCA
1 AATAATAAATCA
9167267 CGAATAACTT
Statistics
Matches: 122, Mismatches: 34, Indels: 17
0.71 0.20 0.10
Matches are distributed among these distances:
20 1 0.01
21 23 0.19
22 96 0.79
23 2 0.02
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.35
Consensus pattern (22 bp):
AATAATAAATCAGTAATAATTT
Done.