Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 220 of 226
Found at i:68737719 original size:7 final size:7
Alignment explanation
Indices: 68737709--68737758 Score: 82
Period size: 7 Copynumber: 7.1 Consensus size: 7
68737699 GTTGGATGTT
68737709 GTTAGTG
1 GTTAGTG
68737716 GTTAGTG
1 GTTAGTG
68737723 GTTAGTG
1 GTTAGTG
68737730 GTTAGTG
1 GTTAGTG
68737737 GTTAGTG
1 GTTAGTG
*
68737744 GTTGGTG
1 GTTAGTG
*
68737751 GTTGGTG
1 GTTAGTG
68737758 G
1 G
68737759 GGGAGTGGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.10, C:0.00, G:0.48, T:0.42
Consensus pattern (7 bp):
GTTAGTG
Found at i:68741334 original size:22 final size:23
Alignment explanation
Indices: 68741288--68741334 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
68741278 AAAAAATAAT
* **
68741288 TTTATTATTTATATTTTTTTGAA
1 TTTATTATTTATAATTTTTAAAA
68741311 TTTA-TATTTATAATTTTTAAAA
1 TTTATTATTTATAATTTTTAAAA
68741333 TT
1 TT
68741335 GGTATAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTATTATTTATAATTTTTAAAA
Found at i:68745707 original size:96 final size:95
Alignment explanation
Indices: 68745605--68745921 Score: 456
Period size: 96 Copynumber: 3.3 Consensus size: 95
68745595 AACAACTAGT
* * * * *
68745605 TTTATTTGATTTTTCCTTAAAAACCCTAAATATTAAACCCCAATCTAATTTTTTTAAAATTTAAA
1 TTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA-TTTTTTAAAATTTATA
*
68745670 ATTAATTTACTCAAGCAACCCTAAACCCTAA
65 ATTAATTTACTCAAGAAACCCTAAACCCTAA
** *
68745701 TTTATTTAATTTTTTATATAAAAACCCTAAACACTAAACCCTAATCTAATTTTTAAAAATTTATA
1 TTTATTTAATTTTTCCT-TAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
* *
68745766 ATTAATTTACTCAAGTAACCCTAAACTCTAA
65 ATTAATTTACTCAAGAAACCCTAAACCCTAA
* *
68745797 TTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAATATTTATA
1 TTTATTTAA-TTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
* * *
68745862 ATTAATTTAATTAAGAAACCCTAAACCCTTA
65 ATTAATTTACTCAAGAAACCCTAAACCCTAA
68745893 TTTATTTAATTTTTCCTT-AAAACCCTAAA
1 TTTATTTAATTTTTCCTTAAAAACCCTAAA
68745922 ATCTAAAAAT
Statistics
Matches: 198, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
94 10 0.05
95 9 0.05
96 145 0.73
97 34 0.17
ACGTcount: A:0.40, C:0.18, G:0.01, T:0.41
Consensus pattern (95 bp):
TTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAA
TTAATTTACTCAAGAAACCCTAAACCCTAA
Found at i:68753270 original size:4 final size:4
Alignment explanation
Indices: 68753261--68753290 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
68753251 TTGATAAAGA
68753261 AAAT AAAT AAAT AAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
68753291 ATAATAACAG
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:68759578 original size:30 final size:31
Alignment explanation
Indices: 68759498--68759562 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
68759488 AACAGCTCAG
*
68759498 TGACTTAAATAAAAACTTTTGAATAGTTCAA
1 TGACTTAAATGAAAACTTTTGAATAGTTCAA
68759529 TGACTTAAATGAAAACTTTTGAATAGTTCAA
1 TGACTTAAATGAAAACTTTTGAATAGTTCAA
68759560 TGA
1 TGA
68759563 TTGAATTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTTGAATAGTTCAA
Found at i:68761337 original size:193 final size:193
Alignment explanation
Indices: 68761002--68761589 Score: 1113
Period size: 193 Copynumber: 3.0 Consensus size: 193
68760992 TGCGTAAATG
* * *
68761002 TTGATGAAATATGTAAATTTTGCAGATTAAGTTTGTTAAATCAAGATCAAATTGATAGAATGTAT
1 TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
*
68761067 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAACTGACATAATATGTAAATGTTGAGATGAA
66 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAATTGACATAATATGTAAATGTTGAGATGAA
* *
68761132 ATTGATAAAATGTTTAAACTTAGAAGGCTAAATTTGATATGTTACCAATAAAAATATGTATAA
131 ATTGACAAAATGTTTAAACTTAGAGGGCTAAATTTGATATGTTACCAATAAAAATATGTATAA
68761195 TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
1 TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
68761260 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAATTGACATAATATGTAAATGTTGAGATGAA
66 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAATTGACATAATATGTAAATGTTGAGATGAA
*
68761325 ATTGACAAAATGTTTAAACTTAGAGGGCTAAATTTGATATTTTACCAATAAAAATATGTATAA
131 ATTGACAAAATGTTTAAACTTAGAGGGCTAAATTTGATATGTTACCAATAAAAATATGTATAA
68761388 TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
1 TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
68761453 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAATTGACATAATATGTAAATGTTGAGATGAA
66 AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAATTGACATAATATGTAAATGTTGAGATGAA
68761518 ATTGACAAAATGTTTAAACTTAGAGGGCTAAATTTGATATGTTACCAATAAAAATATGTATAA
131 ATTGACAAAATGTTTAAACTTAGAGGGCTAAATTTGATATGTTACCAATAAAAATATGTATAA
68761581 TTGATGAAA
1 TTGATGAAA
68761590 AATATTAACA
Statistics
Matches: 387, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
193 387 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.35
Consensus pattern (193 bp):
TTGATGAAATATGTAAATTTTACAGACTAAATTTGTTAAATCAAGATCAAATTGATAGAATGTAT
AAAAGTTGTGGACTAAATTTTTAAATTAGAATAAAATTGACATAATATGTAAATGTTGAGATGAA
ATTGACAAAATGTTTAAACTTAGAGGGCTAAATTTGATATGTTACCAATAAAAATATGTATAA
Found at i:68762402 original size:13 final size:13
Alignment explanation
Indices: 68762384--68762409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68762374 GTATTAACCT
68762384 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
68762397 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
68762410 TGCTTAATTT
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAGA
Found at i:68763408 original size:25 final size:25
Alignment explanation
Indices: 68763362--68763409 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
68763352 AATGAAATTT
* * * *
68763362 TAATTTTTTATAGTTTATATTTTTA
1 TAATTTTTAAAAGATTAAATTTTTA
68763387 TAATTTTTAAAAGATTAAATTTT
1 TAATTTTTAAAAGATTAAATTTT
68763410 GTTTTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TAATTTTTAAAAGATTAAATTTTTA
Found at i:68763811 original size:13 final size:14
Alignment explanation
Indices: 68763793--68763825 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
68763783 ACAAAAATAC
68763793 TAAATTTAAA-AAA
1 TAAATTTAAATAAA
68763806 TAAATTTAAATAAA
1 TAAATTTAAATAAA
*
68763820 AAAATT
1 TAAATT
68763826 AGACTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATTTAAATAAA
Found at i:68764146 original size:18 final size:18
Alignment explanation
Indices: 68764119--68764157 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
68764109 ATTAAAAATT
*
68764119 AATTTATTTAACCCTCCA
1 AATTTATTTAAACCTCCA
* *
68764137 AATTTTTTTAAACCTTCA
1 AATTTATTTAAACCTCCA
68764155 AAT
1 AAT
68764158 AAACATGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTATTTAAACCTCCA
Found at i:68773300 original size:4 final size:4
Alignment explanation
Indices: 68773283--68773330 Score: 78
Period size: 4 Copynumber: 11.8 Consensus size: 4
68773273 TTACAGAAGT
*
68773283 TGTA TGTA GAGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA -TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
68773331 CAGATGAGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
4 38 0.93
5 3 0.07
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
TGTA
Found at i:68774855 original size:7 final size:7
Alignment explanation
Indices: 68774843--68774867 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
68774833 CAAGGTTCTT
68774843 GATTCGG
1 GATTCGG
68774850 GATTCGG
1 GATTCGG
68774857 GATTCGG
1 GATTCGG
68774864 GATT
1 GATT
68774868 TAGAGTTCAA
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:0.16, C:0.12, G:0.40, T:0.32
Consensus pattern (7 bp):
GATTCGG
Found at i:68777162 original size:20 final size:20
Alignment explanation
Indices: 68777125--68777167 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
68777115 AAAGCTGAGC
68777125 TTAGTTTAATTAATTTTTCT
1 TTAGTTTAATTAATTTTTCT
*
68777145 TTAGATTTATTTAATTTTT-T
1 TTAG-TTTAATTAATTTTTCT
68777165 TTA
1 TTA
68777168 TTATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (20 bp):
TTAGTTTAATTAATTTTTCT
Found at i:68777173 original size:21 final size:22
Alignment explanation
Indices: 68777129--68777178 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
68777119 CTGAGCTTAG
*
68777129 TTTAATTAATTTTTCTTTAGA-
1 TTTATTTAATTTTTCTTTAGAT
*
68777150 TTTATTTAATTTTT-TTTATTAT
1 TTTATTTAATTTTTCTTTA-GAT
68777172 TTTATTT
1 TTTATTT
68777179 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.16
21 14 0.56
22 7 0.28
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTATTTAATTTTTCTTTAGAT
Found at i:68782417 original size:15 final size:15
Alignment explanation
Indices: 68782397--68782427 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
68782387 TTTGAAGTAT
68782397 ATCTTTAAGAAAATA
1 ATCTTTAAGAAAATA
68782412 ATCTTTAAGAAAATA
1 ATCTTTAAGAAAATA
68782427 A
1 A
68782428 AATAAGGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (15 bp):
ATCTTTAAGAAAATA
Found at i:68782885 original size:25 final size:27
Alignment explanation
Indices: 68782841--68782896 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
68782831 TCAATTGAAT
* *
68782841 TTAACAAATAAATTGCATAAA-TTTAA
1 TTAAAAAATAAATTACATAAAGTTTAA
*
68782867 TTAAAAAAT-AATTACATAAAGTTTAT
1 TTAAAAAATAAATTACATAAAGTTTAA
68782893 TTAA
1 TTAA
68782897 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (27 bp):
TTAAAAAATAAATTACATAAAGTTTAA
Found at i:68788463 original size:15 final size:14
Alignment explanation
Indices: 68788410--68788465 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
68788400 AAAGTAGAGT
68788410 TTAAAATACAAAGA
1 TTAAAATACAAAGA
68788424 TTAAAATTGATC-AA-A
1 TTAAAA-T-A-CAAAGA
68788439 TTAAAATACAAAGA
1 TTAAAATACAAAGA
68788453 TTAAAACTACAAA
1 TTAAAA-TACAAA
68788466 TTTCATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.03
13 3 0.08
14 14 0.39
15 14 0.39
16 3 0.08
17 1 0.03
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (14 bp):
TTAAAATACAAAGA
Found at i:68792853 original size:30 final size:30
Alignment explanation
Indices: 68792819--68792878 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
68792809 ATTATGGGAG
* * *
68792819 TTCTTTTTTTTTTTAATTTGGTGCTTTTGT
1 TTCTTTTATTTTTGAATTTAGTGCTTTTGT
68792849 TTCTTTTATTTTTGAATTTAGTGCTTTTGT
1 TTCTTTTATTTTTGAATTTAGTGCTTTTGT
68792879 GGTAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (30 bp):
TTCTTTTATTTTTGAATTTAGTGCTTTTGT
Found at i:68801704 original size:21 final size:18
Alignment explanation
Indices: 68801658--68801758 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 18
68801648 GATGAGTATC
68801658 AATATATTAATTATAAATA
1 AATAT-TTAATTATAAATA
*
68801677 AAAATTTAATTAAATAAACTA
1 AATATTTAATT--ATAAA-TA
* *
68801698 AATATTT-AGTATCAAT-
1 AATATTTAATTATAAATA
68801714 -ATA-TTAATTATAAATA
1 AATATTTAATTATAAATA
68801730 AA-ATTTTAATTAAATAAACTA
1 AATA-TTTAATT--ATAAA-TA
68801751 AATATTTA
1 AATATTTA
68801759 GTGTGTCAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 22
0.70 0.07 0.24
Matches are distributed among these distances:
14 2 0.03
15 10 0.16
16 1 0.02
17 2 0.03
18 16 0.25
19 4 0.06
20 12 0.19
21 16 0.25
22 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (18 bp):
AATATTTAATTATAAATA
Found at i:68801719 original size:53 final size:53
Alignment explanation
Indices: 68801652--68801760 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
68801642 TCAATCGATG
68801652 AGTATCAATATATTAATTATAAATAAAAATTTAATTAAATAAACTAAATATTT
1 AGTATCAATATATTAATTATAAATAAAAATTTAATTAAATAAACTAAATATTT
*
68801705 AGTATCAATATATTAATTATAAATAAAATTTTAATTAAATAAACTAAATATTT
1 AGTATCAATATATTAATTATAAATAAAAATTTAATTAAATAAACTAAATATTT
68801758 AGT
1 AGT
68801761 GTGTCAACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (53 bp):
AGTATCAATATATTAATTATAAATAAAAATTTAATTAAATAAACTAAATATTT
Found at i:68802379 original size:22 final size:22
Alignment explanation
Indices: 68802351--68802392 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
68802341 AAATTATCTA
68802351 ATTTAAA-ACAAATTATAAAATT
1 ATTTAAAGACAAATTA-AAAATT
68802373 ATTTAAAGACAAATTAAAAA
1 ATTTAAAGACAAATTAAAAA
68802393 CTTTTAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (22 bp):
ATTTAAAGACAAATTAAAAATT
Found at i:68802700 original size:136 final size:138
Alignment explanation
Indices: 68802413--68802724 Score: 389
Period size: 136 Copynumber: 2.3 Consensus size: 138
68802403 TTTAAACTTG
* *
68802413 TGATACTAATTCAGCTTGATCAATCGAAAAATCAAAG-CAAAAACTATATGATTTAAAAACAAAT
1 TGATACTAATTCAGCTTGATTAATCGAAAAATCAAAGTCAAAAACTATATAATTTAAAAACAAAT
* * * * * * * *
68802477 TATGAAATTATTTGATGACATAAATTAAAATCTTTTACTATTTAATCTTTTCAGTTGGTATCAGA
66 TATAAAATTATTTAAAGACATAAATTAAAAACTTTTAATATTTAAACTTTTCAGTTGATATCAAA
**
68802542 TTAACTTC
131 TTAACTGA
* * *
68802550 TTATA-TCAATTCAGCTTGATTAATCGAAAAATCAAAGTC-AAGACTATCTAATTT-AAAACAAA
1 TGATACT-AATTCAGCTTGATTAATCGAAAAATCAAAGTCAAAAACTATATAATTTAAAAACAAA
* *
68802612 TTATAAAATTATTTAAAGACATAAATTAAAAACTTTTAATTTTTAAACTTTTTAGTTGATATCAA
65 TTATAAAATTATTTAAAGACATAAATTAAAAACTTTTAATATTTAAACTTTTCAGTTGATATCAA
68802677 ATTAACTGA
130 ATTAACTGA
* * **
68802686 TGGTACTAACTCAGCTAAAATTAATCGAAAAATCAAAGT
1 TGATACTAATTCAGCT-TGATTAATCGAAAAATCAAAGT
68802725 AAATTTAAGT
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
136 82 0.55
137 66 0.44
138 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.36
Consensus pattern (138 bp):
TGATACTAATTCAGCTTGATTAATCGAAAAATCAAAGTCAAAAACTATATAATTTAAAAACAAAT
TATAAAATTATTTAAAGACATAAATTAAAAACTTTTAATATTTAAACTTTTCAGTTGATATCAAA
TTAACTGA
Found at i:68806702 original size:6 final size:6
Alignment explanation
Indices: 68806691--68806716 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
68806681 TTAACATGCC
68806691 TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
68806717 CTACAGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:68809008 original size:17 final size:15
Alignment explanation
Indices: 68808985--68809032 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
68808975 TTAAATTGTA
68808985 TATATTTTTATAATT
1 TATATTTTTATAATT
*
68809000 TCAATATTTTAATAATT
1 T--ATATTTTTATAATT
*
68809017 TATATCTTTATAATT
1 TATATTTTTATAATT
68809032 T
1 T
68809033 TTAAAAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.50
17 14 0.50
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTTTTATAATT
Found at i:68815656 original size:14 final size:13
Alignment explanation
Indices: 68815618--68815656 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
68815608 TTCTTTTATA
*
68815618 TTATTTTAATT-T
1 TTATTTTTATTCT
68815630 TTATTTTTATTCT
1 TTATTTTTATTCT
68815643 TTATTTTCTATTCT
1 TTATTTT-TATTCT
68815657 CTTCTGCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.42
13 8 0.33
14 6 0.25
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTTTATTCT
Found at i:68818277 original size:20 final size:20
Alignment explanation
Indices: 68818252--68818322 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 20
68818242 AAAAATTACA
68818252 AAAAAAATCAAAATAATTTT
1 AAAAAAATCAAAATAATTTT
*
68818272 AAAAAATTCAAAAT-ATTTAT
1 AAAAAAATCAAAATAATTT-T
**
68818292 AAAAATTTCAAAATTTATATTTT
1 AAAAAAATCAAAA--TA-ATTTT
68818315 AAAAAAAT
1 AAAAAAAT
68818323 TATAAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.10
20 26 0.62
22 1 0.02
23 7 0.17
24 4 0.10
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAAATCAAAATAATTTT
Found at i:68825181 original size:16 final size:17
Alignment explanation
Indices: 68825150--68825184 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
68825140 AACATAATAT
*
68825150 ATTATTAATTTAATAAA
1 ATTATAAATTTAATAAA
68825167 ATTATAAATTT-ATAAA
1 ATTATAAATTTAATAAA
68825183 AT
1 AT
68825185 CATTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTATAAATTTAATAAA
Found at i:68825891 original size:13 final size:13
Alignment explanation
Indices: 68825873--68825898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68825863 TATATAAATA
68825873 TTAAAAAATTATT
1 TTAAAAAATTATT
68825886 TTAAAAAATTATT
1 TTAAAAAATTATT
68825899 AATTGAATTG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAAAAATTATT
Found at i:68828883 original size:21 final size:21
Alignment explanation
Indices: 68828841--68828892 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
68828831 GTTCAAAATT
*
68828841 AGGCTTAGGGTTTAGGATTGA
1 AGGCTTAGGGTTTAGGACTGA
*
68828862 AGGCTTGAGGG-TTAGGGCTGA
1 AGGCTT-AGGGTTTAGGACTGA
*
68828883 A-GTTTAGGGT
1 AGGCTTAGGGT
68828893 AGATTTAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.15
20 3 0.12
21 15 0.58
22 4 0.15
ACGTcount: A:0.21, C:0.06, G:0.42, T:0.31
Consensus pattern (21 bp):
AGGCTTAGGGTTTAGGACTGA
Found at i:68830075 original size:22 final size:21
Alignment explanation
Indices: 68830050--68830092 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
68830040 ACATTTTTTC
*
68830050 TCAAAATTATTTAAAAATAAAA
1 TCAAAATT-TATAAAAATAAAA
* *
68830072 TCAATATTTATAAAGATAAAA
1 TCAAAATTTATAAAAATAAAA
68830093 AATATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
TCAAAATTTATAAAAATAAAA
Found at i:68830096 original size:19 final size:17
Alignment explanation
Indices: 68830052--68830099 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
68830042 ATTTTTTCTC
*
68830052 AAAATTATTTAAAAATA
1 AAAAATATTTAAAAATA
68830069 AAATCAATATTTATAAAGATA
1 AAA--AATATTTA-AAA-ATA
68830090 AAAAATATTT
1 AAAAATATTT
68830100 TATTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.12
19 14 0.54
20 3 0.12
21 6 0.23
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAAATATTTAAAAATA
Found at i:68832724 original size:20 final size:21
Alignment explanation
Indices: 68832696--68832740 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
68832686 TTTATACTAG
*
68832696 TTTACGTAATTAGAT-AATAT
1 TTTACGTAATTAAATGAATAT
*
68832716 TTTATGTAATTAAATGAATAT
1 TTTACGTAATTAAATGAATAT
68832737 TTTA
1 TTTA
68832741 ATAATTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTACGTAATTAAATGAATAT
Found at i:68832745 original size:20 final size:20
Alignment explanation
Indices: 68832702--68832746 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
68832692 CTAGTTTACG
* *
68832702 TAATTAGATAATATTTTATG
1 TAATTAAATAATATTTTATA
68832722 TAATTAAATGAATATTTTA-A
1 TAATTAAAT-AATATTTTATA
68832742 TAATT
1 TAATT
68832747 TATGTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
TAATTAAATAATATTTTATA
Found at i:68834792 original size:10 final size:10
Alignment explanation
Indices: 68834769--68834800 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
68834759 ATTATTGACC
68834769 AAAAATT-T-
1 AAAAATTATA
68834777 AAAAATTATA
1 AAAAATTATA
68834787 AAAAATTATA
1 AAAAATTATA
68834797 AAAA
1 AAAA
68834801 TCAAGCGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.32
9 1 0.05
10 14 0.64
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:68837842 original size:160 final size:160
Alignment explanation
Indices: 68837558--68837882 Score: 506
Period size: 160 Copynumber: 2.0 Consensus size: 160
68837548 TTGATGTATC
* * *
68837558 AATTGACGATGTTAGAAATGTTAATGAGGAGGGTCGGAGTATTTAAATAAAACAAATATGTTTAA
1 AATTAACGAGGTTAGAAATGTTAATGAGGAGGGTCAGAGTATTTAAATAAAACAAATATGTTTAA
* *
68837623 AGTAAACTCGACCTACTTTTAACAAGGTATTCAAAATTCGGGATGACGGGTTAGATCTAATTTCA
66 AGTAAACTCGACATACTTTTAACAAGGTATTCAAAATTCGGGATGACAGGTTAGATCTAATTTCA
*
68837688 ACAAAATATTTTTAAATTCGGGATTACCTT
131 ACAAAATATTTTTAAATTCGGGATAACCTT
*
68837718 AATTAACGAGGTTAGAAATGTTGATGAGGAGGGTCAGAGTATTTAAATAAAACAAATATGTTTAA
1 AATTAACGAGGTTAGAAATGTTAATGAGGAGGGTCAGAGTATTTAAATAAAACAAATATGTTTAA
** * * ** * *
68837783 AGTAAGTTCGACATACTTTTAATAATGTATTTTAAATTTGGGATGACAGGTTGGATCTAATTTCA
66 AGTAAACTCGACATACTTTTAACAAGGTATTCAAAATTCGGGATGACAGGTTAGATCTAATTTCA
*
68837848 ACAAAATATTTTTAAATTTGGGATAACCTT
131 ACAAAATATTTTTAAATTCGGGATAACCTT
68837878 AATTA
1 AATTA
68837883 CCAAAATTTA
Statistics
Matches: 149, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
160 149 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (160 bp):
AATTAACGAGGTTAGAAATGTTAATGAGGAGGGTCAGAGTATTTAAATAAAACAAATATGTTTAA
AGTAAACTCGACATACTTTTAACAAGGTATTCAAAATTCGGGATGACAGGTTAGATCTAATTTCA
ACAAAATATTTTTAAATTCGGGATAACCTT
Found at i:68846455 original size:2 final size:2
Alignment explanation
Indices: 68846448--68846473 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68846438 TCGATGGGTA
68846448 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
68846474 TTCCTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68847896 original size:24 final size:23
Alignment explanation
Indices: 68847852--68847900 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
68847842 ACAATAAATT
* *
68847852 AAATTAAAACTTCTATTTCATTAA
1 AAATTAAAACTACTATATCA-TAA
68847876 AAATTAAAA-TACATATATCATAA
1 AAATTAAAACTAC-TATATCATAA
68847899 AA
1 AA
68847901 GAATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATTAAAACTACTATATCATAA
Found at i:68850110 original size:23 final size:23
Alignment explanation
Indices: 68850064--68850106 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
68850054 AATTGATCGA
* *
68850064 ACATATATTTGTATTTATTTTAT
1 ACATATAATTATATTTATTTTAT
68850087 ACATATAATTATA-TTATTTT
1 ACATATAATTATATTTATTTT
68850107 TATATCAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
ACATATAATTATATTTATTTTAT
Found at i:68852074 original size:5 final size:5
Alignment explanation
Indices: 68852064--68852089 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
68852054 CTCCACCCCT
68852064 ACCCA ACCCA ACCCA ACCCA ACCCA A
1 ACCCA ACCCA ACCCA ACCCA ACCCA A
68852090 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:68853695 original size:19 final size:21
Alignment explanation
Indices: 68853653--68853694 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
68853643 TTTTTTTTAA
68853653 ATTTTCACCTTCTTTATATAT
1 ATTTTCACCTTCTTTATATAT
68853674 ATTTTCACCTTCTTTATATAT
1 ATTTTCACCTTCTTTATATAT
68853695 TCTTTAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTCACCTTCTTTATATAT
Found at i:68853756 original size:18 final size:19
Alignment explanation
Indices: 68853735--68853771 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
68853725 TTTTTATAAA
68853735 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
68853753 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
68853772 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:68853772 original size:18 final size:19
Alignment explanation
Indices: 68853735--68853785 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
68853725 TTTTTATAAA
*
68853735 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
68853753 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
68853771 TAAAAATTATTTTGA
1 TATAAA-TATTTTGA
68853786 TTATTTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:68856402 original size:31 final size:30
Alignment explanation
Indices: 68856324--68856405 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
68856314 AATGTGCTAC
68856324 TGTATACAT-AAATTTTAATTTGGTAC-AA
1 TGTATACATGAAATTTTAATTTGGTACAAA
* *
68856352 T-TATACACGTGAAACTTTAATTGTGGTTCAAA
1 TGTATACA--TGAAATTTTAATT-TGGTACAAA
*
68856384 TGTATACTTGAAATTTTAATTT
1 TGTATACATGAAATTTTAATTT
68856406 TGATTTAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
27 6 0.14
28 1 0.02
29 1 0.02
30 11 0.25
31 17 0.39
32 3 0.07
33 5 0.11
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (30 bp):
TGTATACATGAAATTTTAATTTGGTACAAA
Found at i:68859149 original size:12 final size:12
Alignment explanation
Indices: 68859134--68859160 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
68859124 CTCTTTTTCC
68859134 TTTTTCTTTTGT
1 TTTTTCTTTTGT
68859146 TTTTTCTTTTGT
1 TTTTTCTTTTGT
68859158 TTT
1 TTT
68859161 CTTTTCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTGT
Found at i:68863150 original size:20 final size:20
Alignment explanation
Indices: 68863127--68863164 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
68863117 GTCTATATTA
*
68863127 AGATTATATTAAATATATAT
1 AGATTATATTAAAAATATAT
68863147 AGATTATATTAAAAATAT
1 AGATTATATTAAAAATAT
68863165 GGACAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AGATTATATTAAAAATATAT
Found at i:68863451 original size:7 final size:7
Alignment explanation
Indices: 68863432--68863465 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
68863422 GAATCGACTC
68863432 GATTATCA
1 GATTAT-A
68863440 GATTATA
1 GATTATA
68863447 GATTATA
1 GATTATA
68863454 GATTATA
1 GATTATA
68863461 GATTA
1 GATTA
68863466 AGGTAGGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (7 bp):
GATTATA
Found at i:68866647 original size:113 final size:113
Alignment explanation
Indices: 68866440--68866737 Score: 294
Period size: 113 Copynumber: 2.6 Consensus size: 113
68866430 TACCTAATTC
* * * * * * ** **
68866440 TTTTTATACAAAATTAGGGATAATTCAACATTTAATCTCTAAACTTGGCAAGTTTTTTCAATCTT
1 TTTTTATACAAAATTAAGAATAAGTCAACATTTAGTCCCTAAACTT-GAAAACTTTCCCAA-CTT
* * * * *
68866505 AATTCCGATGATGACATGACATTCTGAGATTGTGAC-TCATCATCAACTAAT
64 GA-TCCTATGATGACATGACACTATGAGATTATGACAT-ATCATCAACTAAT
* *
68866556 TTTTTATAC-AAGTTAAGAATAAGTCAACATTTAGTTCCTAAACTTGAAAACTTTTCCCAACTTG
1 TTTTTATACAAAATTAAGAATAAGTCAACATTTAGTCCCTAAACTTGAAAAC-TTTCCCAACTTG
* * * *
68866620 GTCCTATGATGGCATGACACTATGAGATTATGACATGTCATCACCTAAT
65 ATCCTATGATGACATGACACTATGAGATTATGACATATCATCAACTAAT
* * * ** *
68866669 TTTTTATACAAAATTAGGGATAAGTCAACATTTAGTCCCTAAATTTGGCAACTTTCTCAACTTGA
1 TTTTTATACAAAATTAAGAATAAGTCAACATTTAGTCCCTAAACTTGAAAACTTTCCCAACTTGA
68866734 TCCT
66 TCCT
68866738 TGAATCTTTT
Statistics
Matches: 149, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
113 63 0.42
114 42 0.28
115 35 0.23
116 9 0.06
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (113 bp):
TTTTTATACAAAATTAAGAATAAGTCAACATTTAGTCCCTAAACTTGAAAACTTTCCCAACTTGA
TCCTATGATGACATGACACTATGAGATTATGACATATCATCAACTAAT
Found at i:68868549 original size:25 final size:25
Alignment explanation
Indices: 68868493--68868552 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
68868483 AATTACCTAT
*
68868493 CAAAACATAACCAAAATTAGACATA
1 CAAAACTTAACCAAAATTAGACATA
68868518 CAAAACTTAACCAAAATTAGACATA
1 CAAAACTTAACCAAAATTAGACATA
*
68868543 CCAAACTTAA
1 CAAAACTTAA
68868553 AATATAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.57, C:0.22, G:0.03, T:0.18
Consensus pattern (25 bp):
CAAAACTTAACCAAAATTAGACATA
Found at i:68870248 original size:24 final size:23
Alignment explanation
Indices: 68870192--68870261 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 23
68870182 TTTAAAGTTT
* *
68870192 ATATT-TAT-CAAATATTTTAATT
1 ATATTCTATACAAAT-TTTAAATA
*
68870214 ATATTCTATACCTAATTTTAAATA
1 ATATTCTATA-CAAATTTTAAATA
68870238 ATATATC-ATACAAATTTTATAATA
1 ATAT-TCTATACAAATTTTA-AATA
68870262 TAAATTTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 5 0.13
23 11 0.28
24 17 0.44
25 6 0.15
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATTCTATACAAATTTTAAATA
Found at i:68870838 original size:2 final size:2
Alignment explanation
Indices: 68870831--68870855 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68870821 AAATTTCTAA
68870831 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
68870856 AAAACCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68875079 original size:19 final size:19
Alignment explanation
Indices: 68875035--68875079 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
68875025 TTGTAAATTT
* * *
68875035 TTAGGTTCTTGTTCTTATT
1 TTAGGTTCTTGTTATCATA
*
68875054 TTGGGTTCTTGTTATCATA
1 TTAGGTTCTTGTTATCATA
68875073 TTAGGTT
1 TTAGGTT
68875080 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.13, C:0.09, G:0.20, T:0.58
Consensus pattern (19 bp):
TTAGGTTCTTGTTATCATA
Found at i:68884581 original size:30 final size:30
Alignment explanation
Indices: 68884545--68884610 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
68884535 TACAAAGTTA
68884545 AAAAATTAGCTCCTCCTACATTTTTTATTT
1 AAAAATTAGCTCCTCCTACATTTTTTATTT
68884575 AAAAATTAGCTCCTCCTACATTTTTTATTT
1 AAAAATTAGCTCCTCCTACATTTTTTATTT
68884605 AAAAAT
1 AAAAAT
68884611 AATAGCCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (30 bp):
AAAAATTAGCTCCTCCTACATTTTTTATTT
Found at i:68885493 original size:19 final size:20
Alignment explanation
Indices: 68885469--68885525 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
68885459 ACTGTATAAT
68885469 AAATTATTTTTAA-AATTAA
1 AAATTATTTTTAACAATTAA
*
68885488 AAATTA--TTAAACATATTAA
1 AAATTATTTTTAACA-ATTAA
*
68885507 AAATATATTTTTAATAATT
1 AAAT-TATTTTTAACAATT
68885526 TTAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 15 0.50
20 2 0.07
21 3 0.10
22 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATTATTTTTAACAATTAA
Found at i:68886549 original size:21 final size:20
Alignment explanation
Indices: 68886517--68886570 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
68886507 AAAAATTACA
* *
68886517 AAAAATTCAAAATTATTTTC
1 AAAAAGTCAAAATAATTTTC
68886537 AAAAAGTCAAAAATAATTTT-
1 AAAAAGTC-AAAATAATTTTC
* *
68886557 TAAAACTCAAAATA
1 AAAAAGTCAAAATA
68886571 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 13 0.45
21 10 0.34
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAAGTCAAAATAATTTTC
Found at i:68886610 original size:18 final size:18
Alignment explanation
Indices: 68886551--68886616 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
68886541 AGTCAAAAAT
* *
68886551 AATTTTTAAAACTCA-AA
1 AATTTTTAAAAATTATAA
* *
68886568 ATATTTATAAAAATTATAT
1 A-ATTTTTAAAAATTATAA
**
68886587 TTTTTTTAAAAATTATAA
1 AATTTTTAAAAATTATAA
*
68886605 AATTTTCAAAAA
1 AATTTTTAAAAA
68886617 AGTTCTAAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTTTAAAAATTATAA
Found at i:68886657 original size:9 final size:9
Alignment explanation
Indices: 68886643--68886676 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
68886633 AAAGAAAGTT
68886643 AAATAATTA
1 AAATAATTA
68886652 AAATAATTA
1 AAATAATTA
*
68886661 AAATAAATA
1 AAATAATTA
68886670 AAATAAT
1 AAATAAT
68886677 AATTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAATAATTA
Found at i:68892802 original size:27 final size:26
Alignment explanation
Indices: 68892772--68892828 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
68892762 TTTCTCCTAT
*
68892772 TTTTCTATTTCACTTTCTTGTTT-TTTC
1 TTTTCTATTTCA-ATT-TTGTTTCTTTC
68892799 TTTTCTATTTCAATTTTGTTTCTTTC
1 TTTTCTATTTCAATTTTGTTTCTTTC
68892825 TTTT
1 TTTT
68892829 ATTCCTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.21
26 10 0.36
27 12 0.43
ACGTcount: A:0.09, C:0.16, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTCTATTTCAATTTTGTTTCTTTC
Found at i:68899197 original size:30 final size:30
Alignment explanation
Indices: 68899161--68899226 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
68899151 TACAAAGTTA
68899161 AAAAATTAGCTCCTCCTACATTTTTTATTT
1 AAAAATTAGCTCCTCCTACATTTTTTATTT
68899191 AAAAATTAGCTCCTCCTACATTTTTTATTT
1 AAAAATTAGCTCCTCCTACATTTTTTATTT
68899221 AAAAAT
1 AAAAAT
68899227 AATAGCCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (30 bp):
AAAAATTAGCTCCTCCTACATTTTTTATTT
Found at i:68901145 original size:21 final size:21
Alignment explanation
Indices: 68901124--68901162 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
68901114 AAAATTACAA
68901124 AAAATTC-AAAAT-AATTTTC
1 AAAATTCAAAAATAAATTTTC
68901143 AAAATTCAAAAATAAATTTT
1 AAAATTCAAAAATAAATTTT
68901163 AAACTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTCAAAAATAAATTTTC
Found at i:68901146 original size:20 final size:20
Alignment explanation
Indices: 68901123--68901228 Score: 57
Period size: 19 Copynumber: 5.2 Consensus size: 20
68901113 AAAAATTACA
68901123 AAAAATTCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
68901143 -AAAATTCAAAAATAAATTTT-
1 AAAAATTC-AAAAT-AATTTTC
*
68901163 --AAACTCAAAAT-ATTTAT-
1 AAAAATTCAAAATAATTT-TC
68901180 AAAAATTCCAAAATTTATATTTTTC
1 AAAAATT-CAAAA--TA-A-TTTTC
*
68901205 AAAAAATT-ATAA-AATTTTC
1 -AAAAATTCAAAATAATTTTC
68901224 AAAAA
1 AAAAA
68901229 GTTTTAAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 28
0.69 0.03 0.28
Matches are distributed among these distances:
16 4 0.06
17 1 0.01
18 10 0.14
19 21 0.30
20 11 0.16
21 7 0.10
22 1 0.01
24 5 0.07
25 3 0.04
26 7 0.10
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:68901148 original size:19 final size:18
Alignment explanation
Indices: 68901124--68901193 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 18
68901114 AAAATTACAA
68901124 AAAATTCAAAATAATTTT
1 AAAATTCAAAATAATTTT
68901142 CAAAATTCAAAAATAAATTTT
1 -AAAATTC-AAAAT-AATTTT
*
68901163 -AAACTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTT-T
68901180 AAAAATTCCAAAAT
1 -AAAATT-CAAAAT
68901194 TTATATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
16 4 0.09
17 1 0.02
18 5 0.12
19 16 0.37
20 11 0.26
21 6 0.14
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTCAAAATAATTTT
Found at i:68901267 original size:5 final size:6
Alignment explanation
Indices: 68901253--68901277 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
68901243 AAAGAAAGTT
68901253 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
68901278 TTTAAAATTT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:68901656 original size:28 final size:28
Alignment explanation
Indices: 68901619--68901672 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
68901609 CGAACTAAAT
* * *
68901619 TTTCAGAAAAAGATCATTTTTTTAAACA
1 TTTCAAAAAAAGACCAATTTTTTAAACA
68901647 TTTCAAAAAAAGACCAATTTTTTAAA
1 TTTCAAAAAAAGACCAATTTTTTAAA
68901673 AAATTTACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (28 bp):
TTTCAAAAAAAGACCAATTTTTTAAACA
Found at i:68901666 original size:29 final size:28
Alignment explanation
Indices: 68901619--68901678 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
68901609 CGAACTAAAT
* * * *
68901619 TTTCAGAAAAAGATCATTTTTTTAAACA
1 TTTCAAAAAAAGACCATTTTTTAAAAAA
68901647 TTTCAAAAAAAGACCAATTTTTTAAAAAA
1 TTTCAAAAAAAGACC-ATTTTTTAAAAAA
68901676 TTT
1 TTT
68901679 ACGAGAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (28 bp):
TTTCAAAAAAAGACCATTTTTTAAAAAA
Found at i:68903761 original size:20 final size:20
Alignment explanation
Indices: 68903736--68903774 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
68903726 AGAATCGTGA
68903736 TAAGCTGGACAATGCATATG
1 TAAGCTGGACAATGCATATG
*
68903756 TAAGCTGGACCATGCATAT
1 TAAGCTGGACAATGCATAT
68903775 ATAGTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (20 bp):
TAAGCTGGACAATGCATATG
Found at i:68904508 original size:122 final size:121
Alignment explanation
Indices: 68904274--68904514 Score: 356
Period size: 122 Copynumber: 2.0 Consensus size: 121
68904264 GTGATTCTTG
* * * *
68904274 TCCTCATATGCACGGTTTGCATATAAACATAGTACAAATCTTTTGAATATGTAAATTCAAATCCA
1 TCCTCATATGCACAGTTTGCATATAAACATAGAACAAATCTTTTGAATATATAAAATCAAATCCA
68904339 ATCCAATGGGATAAAATAGATTACTGTTTTGGCACCTAAAACTGATATAAAACCAA
66 ATCCAATGGGATAAAATAGATTACTGTTTTGGCACCTAAAACTGATATAAAACCAA
* * * * *
68904395 TCCTCATGTGCACATTTTGCATATAAACATAGAACAAATCTTTTGAATATATAAAGATCTACTTC
1 TCCTCATATGCACAGTTTGCATATAAACATAGAACAAATCTTTTGAATATATAAA-ATCAAATCC
* * * *
68904460 AATCGAATGGGATAACATAGATTACTGTTTTGGTACCTAAAATTGATATAAAACC
65 AATCCAATGGGATAAAATAGATTACTGTTTTGGCACCTAAAACTGATATAAAACC
68904515 GACGAAGAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
121 50 0.47
122 56 0.53
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (121 bp):
TCCTCATATGCACAGTTTGCATATAAACATAGAACAAATCTTTTGAATATATAAAATCAAATCCA
ATCCAATGGGATAAAATAGATTACTGTTTTGGCACCTAAAACTGATATAAAACCAA
Found at i:68905481 original size:18 final size:19
Alignment explanation
Indices: 68905442--68905482 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
68905432 GTACGTGAAC
*
68905442 AAATAATTCAAAAATTATA
1 AAATAATTCAAAAAATATA
68905461 AAAT-ATTCAAACAAATA-A
1 AAATAATTCAAA-AAATATA
68905479 AAAT
1 AAAT
68905483 TCTAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (19 bp):
AAATAATTCAAAAAATATA
Found at i:68926190 original size:204 final size:204
Alignment explanation
Indices: 68925932--68926572 Score: 762
Period size: 204 Copynumber: 3.0 Consensus size: 204
68925922 TCCATTTACG
** * *
68925932 TTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
1 TTAACATAAACATCCAAGCTACCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
* * * * * *
68925997 ATATATCCTTTCATTCTCTTTCTCATCTACTATATCCGCCTCCTGCTGATTCATAGTAATAGTGA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
*
68926062 CCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGCCATCCGATTCCACT
131 CCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACAATGCAATTGCCATCCGATTCCACT
**
68926127 ACTGCTCCA
196 ACAACTCCA
* * * * *
68926136 TTAACATAAACATCTAAGCTACCGGAGCCAACCTTAACGCAAATCGCGTTGGCGCCAATGAGAAG
1 TTAACATAAACATCCAAGCTACCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
* *
68926201 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGAGTCATAGTAATTGTAA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
* * * *
68926266 CCGAATCAGGTTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACT
131 CCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACAATGCAATTGCCATCCGATTCCACT
68926331 ACAACTCCA
196 ACAACTCCA
*** * *
68926340 TTAACGGAGTCGTTGCCATCTAGGTTAGCATAAGCATCCGAGCCATCGGAGCCAACGTTAACGCT
1 TTAAC--A----TAAACATCCA----AGC-T----A-CCG-G-------AGCCAACCTTAACGCT
*
68926405 ACTCGTGTTGGCGCCATTGAGAAGATATCTCGTTTCATTCTGTTTCTCAGCTACAATATCCACCT
42 ACTCGTGTTGGCGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCT
68926470 CCTGCTGATTCATAGTAATAGTAACCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACA
107 CCTGCTGATTCATAGTAATAGTAACCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACA
* *
68926535 ATGCAATTGTC-TCCCGGTTCCACTACAACTCCA
172 ATGCAATTGCCAT-CCGATTCCACTACAACTCCA
68926568 TTAAC
1 TTAAC
68926573 GGAGTCGTTC
Statistics
Matches: 375, Mismatches: 37, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
204 187 0.50
206 1 0.00
210 7 0.02
214 3 0.01
215 1 0.00
219 1 0.00
220 3 0.01
221 1 0.00
228 171 0.46
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (204 bp):
TTAACATAAACATCCAAGCTACCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
CCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACAATGCAATTGCCATCCGATTCCACT
ACAACTCCA
Found at i:68926558 original size:228 final size:228
Alignment explanation
Indices: 68926136--68926912 Score: 1113
Period size: 228 Copynumber: 3.5 Consensus size: 228
68926126 TACTGCTCCA
** * * * * *
68926136 TTAACATAAACATCTAAGCTACCGGAGCCAACCTTAACGCAAATCGCGTTGGCGCCAATGAGAAG
1 TTAACATAAACATCCGAGCCACCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
* *
68926201 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGAGTCATAGTAATTGTAA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
* * *
68926266 CCGAATCAGGTTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACT
131 CCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACAATGCAATTGTCTCCCGATTCCACT
*
68926331 ACAACTCCATTAACGGAGTCGTTGCCATCTAGG
196 ACAACTCCATTAACGGAGTCGTTCCCATCTAGG
* * * *
68926364 TTAGCATAAGCATCCGAGCCATCGGAGCCAACGTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
1 TTAACATAAACATCCGAGCCACCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
*
68926429 ATATCTCGTTTCATTCTGTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
*
68926494 CCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACAATGCAATTGTCTCCCGGTTCCACT
131 CCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACAATGCAATTGTCTCCCGATTCCACT
68926559 ACAACTCCATTAACGGAGTCGTTCCCATCTAGG
196 ACAACTCCATTAACGGAGTCGTTCCCATCTAGG
** * *
68926592 TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTGCTCATGTTGGCGCCATTGAGAAG
1 TTAACATAAACATCCGAGCCACCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
68926657 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
*
68926722 CCGAATCAGATTCGG-TTGGCACTTCGTGGTCTTCTTCGACAATGCAATTGCCAT-CCGATTCCA
131 CCGAATCAGATTCGGATT-GCACTTCGTGGTCTTCTTCGACAATGCAATTGTC-TCCCGATTCCA
* * *
68926785 TTACAACTCCATTATCGGAGTCGTT----TCCA--
194 CTACAACTCCATTAACGGAGTCGTTCCCATCTAGG
* *
68926814 TTAACATAAACATCCGAGCTC-CCGGAACCAACCTTAACGCAACTC------GCG---TTGAGAA
1 TTAACATAAACATCCGAGC-CACCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAA
* * *
68926869 GATATTTCTTTTCATTCCCTTTCTCAGCTACAATATCCACCTCC
65 GATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCC
68926913 GCGGCTACAT
Statistics
Matches: 506, Mismatches: 40, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
213 48 0.09
216 3 0.01
222 40 0.08
224 3 0.01
227 2 0.00
228 409 0.81
229 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (228 bp):
TTAACATAAACATCCGAGCCACCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
CCGAATCAGATTCGGATTGCACTTCGTGGTCTTCTTCGACAATGCAATTGTCTCCCGATTCCACT
ACAACTCCATTAACGGAGTCGTTCCCATCTAGG
Found at i:68927770 original size:176 final size:174
Alignment explanation
Indices: 68927441--68927793 Score: 429
Period size: 176 Copynumber: 2.0 Consensus size: 174
68927431 ATTCACTTTG
* * * *
68927441 GTTTCAATTCAGTCATTCAACTTTTAAAAAATAACAAAACAATCACTAATGTTATCAAAAAGTGA
1 GTTTCAATTCAGCCACTCAACTTTCAAAAAATAACAAAACAATCACTAACGTTATCAAAAAGTGA
* * ** * *
68927506 CAAAATAGTCACCCATTAACATTTTCTGTTACAGGCCTAACGGGACAGGTGATGTGGCCAGTTAA
66 CAAAATAGTCACCCATTAACATTTTCTGTTACAGACCTAACGAGACAGGTGACATGACCAGTAAA
* * * * * *
68927571 CTAGCTGACGTGGCCAGTTAACTTGCCACGTTGGATGAGGCTAA
131 CTAGCTAACGTGACCAATTAACTTGCCACGTTAGACGAGGCAAA
* *
68927615 GTTTCAATTCAGCCACTCAACTTTACAAAAAATTAACAAATCAGTCACTAACGTTATCAAAAAGT
1 GTTTCAATTCAGCCACTCAACTTT-CAAAAAA-TAACAAAACAATCACTAACGTTATCAAAAAGT
* * * *
68927680 GACAAATTAGTCACCCATTAACATTTT-TGGTTATAGACCTAACGAGACAGGTGGCATGACTAGT
64 GACAAAATAGTCACCCATTAACATTTTCT-GTTACAGACCTAACGAGACAGGTGACATGACCAGT
* * ** *
68927744 AAATTAGCTAATGTGATTAATTAACTTGCCATGTTAGACGAGGCAAA
128 AAACTAGCTAACGTGACCAATTAACTTGCCACGTTAGACGAGGCAAA
68927791 GTT
1 GTT
68927794 GAGTGACTAT
Statistics
Matches: 149, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
174 22 0.15
175 7 0.05
176 120 0.81
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (174 bp):
GTTTCAATTCAGCCACTCAACTTTCAAAAAATAACAAAACAATCACTAACGTTATCAAAAAGTGA
CAAAATAGTCACCCATTAACATTTTCTGTTACAGACCTAACGAGACAGGTGACATGACCAGTAAA
CTAGCTAACGTGACCAATTAACTTGCCACGTTAGACGAGGCAAA
Found at i:68927865 original size:29 final size:29
Alignment explanation
Indices: 68927827--68927883 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
68927817 TCCTTTTTCA
* *
68927827 TTTTTTCATAAATGTCCCAATATCTTTAC
1 TTTTTGCATAAATGGCCCAATATCTTTAC
*
68927856 TTTTTGCATAAATGGCCCAATATGTTTA
1 TTTTTGCATAAATGGCCCAATATCTTTA
68927884 TACTTCTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.46
Consensus pattern (29 bp):
TTTTTGCATAAATGGCCCAATATCTTTAC
Found at i:68929761 original size:23 final size:21
Alignment explanation
Indices: 68929722--68929770 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
68929712 AGGTTCAAAA
68929722 TTCAA-GTTCGAGGTTTAGGG
1 TTCAAGGTTCGAGGTTTAGGG
68929742 TTCAAGGTTCGAAGGGTTTAGGG
1 TTCAAGGTTCG-A-GGTTTAGGG
68929765 TTCAAG
1 TTCAAG
68929771 TTTGAGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 1 0.04
23 15 0.58
ACGTcount: A:0.22, C:0.10, G:0.35, T:0.33
Consensus pattern (21 bp):
TTCAAGGTTCGAGGTTTAGGG
Found at i:68939399 original size:23 final size:23
Alignment explanation
Indices: 68939364--68939409 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
68939354 CGCTTATCTT
* *
68939364 CATGTTGAGCTGCTGCTAGTCTC
1 CATGCTGAACTGCTGCTAGTCTC
*
68939387 CATGCTGAACTGCTGCTGGTCTC
1 CATGCTGAACTGCTGCTAGTCTC
68939410 TTGTTGCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.28, G:0.26, T:0.33
Consensus pattern (23 bp):
CATGCTGAACTGCTGCTAGTCTC
Found at i:68955744 original size:28 final size:29
Alignment explanation
Indices: 68955700--68955765 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
68955690 AAAAAATTAT
*
68955700 CAAAATGT-TATACATTTTTTTAATTTAC
1 CAAAATATATATACATTTTTTTAATTTAC
*
68955728 CAAAATATATATA-ATTTTTTTTATTTAC
1 CAAAATATATATACATTTTTTTAATTTAC
68955756 CAAAATATAT
1 CAAAATATAT
68955766 CAAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (29 bp):
CAAAATATATATACATTTTTTTAATTTAC
Found at i:68955865 original size:27 final size:27
Alignment explanation
Indices: 68955835--68955902 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
68955825 AAGGGAACAC
68955835 TGTTGGCGGCACCAAACAAGGAAACCT
1 TGTTGGCGGCACCAAACAAGGAAACCT
**
68955862 TGTTGGCGGCACCAAACAAGGATTCCT
1 TGTTGGCGGCACCAAACAAGGAAACCT
68955889 TGTTGGCGGCACCA
1 TGTTGGCGGCACCA
68955903 CCTTAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (27 bp):
TGTTGGCGGCACCAAACAAGGAAACCT
Found at i:68956725 original size:28 final size:27
Alignment explanation
Indices: 68956693--68956759 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 27
68956683 ATAAAAAATT
*
68956693 ACCAAAATATTATAACTTTTTTTTATTG
1 ACCAAAATATTATAA-TTTTTATTATTG
*
68956721 ACCAAAATATATATAATTTTTATTATTT
1 ACCAAAATAT-TATAATTTTTATTATTG
68956749 ACCAAAATATT
1 ACCAAAATATT
68956760 TCAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 30 0.83
29 5 0.14
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.46
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTATTATTG
Found at i:68956783 original size:17 final size:17
Alignment explanation
Indices: 68956761--68956794 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
68956751 CAAAATATTT
68956761 CAAAAAA-AAGTAAAAAA
1 CAAAAAAGAA-TAAAAAA
68956778 CAAAAAAGAATAAAAAA
1 CAAAAAAGAATAAAAAA
68956795 AAGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
CAAAAAAGAATAAAAAA
Found at i:68958999 original size:18 final size:18
Alignment explanation
Indices: 68958973--68959010 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
68958963 ATCCCAATGA
*
68958973 TCGCCACCACCTTCTTCT
1 TCGCAACCACCTTCTTCT
68958991 TCGCAACCACCTTCTTCT
1 TCGCAACCACCTTCTTCT
68959009 TC
1 TC
68959011 ACCACCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.47, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACCTTCTTCT
Found at i:68959017 original size:18 final size:18
Alignment explanation
Indices: 68958976--68959017 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
68958966 CCAATGATCG
*
68958976 CCACCACCTTCTTCTTCG
1 CCACCACCTTCTTCTTCA
*
68958994 CAACCACCTTCTTCTTCA
1 CCACCACCTTCTTCTTCA
68959012 CCACCA
1 CCACCA
68959018 ACCATATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACCTTCTTCTTCA
Found at i:68959743 original size:61 final size:62
Alignment explanation
Indices: 68959632--68959782 Score: 172
Period size: 61 Copynumber: 2.5 Consensus size: 62
68959622 CCACTAATCC
*
68959632 TAATAACTAACACATTAATAATATTAATAATTTTATATACAAAATAATACTAACTAAAATTAT
1 TAATAACTAACACA-TAATAATAATAATAATTTTATATACAAAATAATACTAACTAAAATTAT
* * *
68959695 TAATAACTAACTACA-AA-AATAATACTAATTTT-T-TACTAACAATAATACTAACTAACA-TCT
1 TAATAACTAAC-ACATAATAATAATAATAATTTTATATAC-AA-AATAATACTAACTAAAATTAT
*
68959755 TAATAA-TAATA-ATAATAATAATAATAAT
1 TAATAACTAACACATAATAATAATAATAAT
68959783 AATAATACTA
Statistics
Matches: 77, Mismatches: 6, Indels: 14
0.79 0.06 0.14
Matches are distributed among these distances:
57 1 0.01
58 3 0.04
59 17 0.22
60 11 0.14
61 29 0.38
62 2 0.03
63 11 0.14
64 3 0.04
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (62 bp):
TAATAACTAACACATAATAATAATAATAATTTTATATACAAAATAATACTAACTAAAATTAT
Found at i:68959745 original size:12 final size:12
Alignment explanation
Indices: 68959674--68959792 Score: 68
Period size: 12 Copynumber: 9.8 Consensus size: 12
68959664 TTATATACAA
68959674 AATAATACTAACT
1 AATAATACTAA-T
*
68959687 AA-AATTATTAAT
1 AATAA-TACTAAT
*
68959699 AACTAACTAC-AAA
1 AA-TAA-TACTAAT
68959712 AATAATACTAAT
1 AATAATACTAAT
* ** *
68959724 -TTTTTACTAAC
1 AATAATACTAAT
68959735 AATAATACTAACT
1 AATAATACTAA-T
*
68959748 AA-CAT-CTTAAT
1 AATAATAC-TAAT
*
68959759 AATAATAATAAT
1 AATAATACTAAT
*
68959771 AATAATAATAAT
1 AATAATACTAAT
68959783 AATAATACTA
1 AATAATACTA
68959793 TAAAATTTTT
Statistics
Matches: 80, Mismatches: 17, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
11 14 0.17
12 49 0.61
13 13 0.16
14 4 0.05
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (12 bp):
AATAATACTAAT
Found at i:68959763 original size:3 final size:3
Alignment explanation
Indices: 68959755--68959789 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
68959745 ACTAACATCT
68959755 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
68959790 CTATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:68960178 original size:27 final size:27
Alignment explanation
Indices: 68960074--68960169 Score: 165
Period size: 27 Copynumber: 3.6 Consensus size: 27
68960064 ATAACACGAG
68960074 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
68960101 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
** *
68960128 TGGTGCCGCCAACAGGGTTCCCTTCTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
68960155 TGGTGCCGCCAACAG
1 TGGTGCCGCCAACAG
68960170 TGTTCCCTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGAACCCTTGTT
Found at i:68960286 original size:28 final size:29
Alignment explanation
Indices: 68960255--68960326 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 29
68960245 GGTTTTTTTG
68960255 ATATATTTTGGTAAATAAAAAAAAT-TAT
1 ATATATTTTGGTAAATAAAAAAAATGTAT
68960283 ATATATTTTGGTAAATAAAAAAAATGTAT
1 ATATATTTTGGTAAATAAAAAAAATGTAT
*
68960312 A-ACATTTTGGTAAAT
1 ATATATTTTGGTAAAT
68960327 TTTTTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 38 0.90
29 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAATGTAT
Found at i:68969105 original size:33 final size:33
Alignment explanation
Indices: 68969063--68969139 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
68969053 TCTGAAGAAA
68969063 GAAAAATGTTGCTTGATCAACAAGGAAACAACC
1 GAAAAATGTTGCTTGATCAACAAGGAAACAACC
68969096 GAAAAATGTTGCTTGATCAACAAGGAAACAACC
1 GAAAAATGTTGCTTGATCAACAAGGAAACAACC
68969129 GAAAAATGTTG
1 GAAAAATGTTG
68969140 ATACTTAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (33 bp):
GAAAAATGTTGCTTGATCAACAAGGAAACAACC
Found at i:68971990 original size:228 final size:222
Alignment explanation
Indices: 68971587--68972425 Score: 1221
Period size: 228 Copynumber: 3.7 Consensus size: 222
68971577 AGTAACTTTA
* * * * *
68971587 TGGTCTTCTTCGACAATGCAATTGCCATCTGATTCCACTACAGCTCCATTAACGGAGTCGTTTCC
1 TGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACAACAACTCCATTAACGGAGTCGCTTCC
* * * * * *
68971652 ATTAACATAGACATCTGAGCTGCCGGAGCTAACCTTAACGCAAATCGCGTTGGCGCCAATGAGAA
66 ATTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCGTGTTGGCGCCATTGAGAA
* * * * *
68971717 GATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGAGTCATAGTAATTGTA
131 GATATCTCGTTTCATTCTCTTTCTCAGCTACCATATCCGCCTCCTGCTGATTCATAGTAATAGTG
68971782 ACCGAATCAGATTCGGATTTCACTTCG
196 ACCGAATCAGATTCGGATTTCACTTCG
*
68971809 TGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACAACAACTCCATTAACGGAGTCGCTTCC
1 TGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACAACAACTCCATTAACGGAGTCGCTTCC
* * *
68971874 ATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCGTGTTGGCGCCAT
66 ----A--TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCGTGTTGGCGCCAT
*
68971939 TGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACCATATCCGCCTCCTGCTGATTCATAGTA
125 TGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACCATATCCGCCTCCTGCTGATTCATAGTA
68972004 ATAGTGACCGAATCAGATTCGGATTTCACTTCG
190 ATAGTGACCGAATCAGATTCGGATTTCACTTCG
*
68972037 TGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACAACAACTCCATTAACGGAGTCGCTTCC
1 TGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACAACAACTCCATTAACGGAGTCGCTTCC
* * *
68972102 ATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCGTGTTGGCGCCAT
66 ----A--TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCGTGTTGGCGCCAT
* *
68972167 TGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACCTTATCCGCCTCCTGCTGATTCATAGTA
125 TGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACCATATCCGCCTCCTGCTGATTCATAGTA
68972232 ATAGTGACCGAATCAGATTCGGATTTCACTTCG
190 ATAGTGACCGAATCAGATTCGGATTTCACTTCG
* * * *
68972265 TGGTCTTCTTCGACAATGCAATTGCCATCCGATTCCACTAGAACTCCATTAACGGAGTCGTTTCC
1 TGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACAACAACTCCATTAACGGAGTCGCTTCC
** * *
68972330 ATTAACATCGACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCACT-TTGGCGCTATTGAGA
66 ATTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTC-GTGTTGGCGCCATTGAGA
* *
68972394 AGATATCTCTTTTCATTGTCTTTCTCAGCTAC
130 AGATATCTCGTTTCATTCTCTTTCTCAGCTAC
68972426 AACATCCACG
Statistics
Matches: 573, Mismatches: 37, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
222 142 0.25
223 1 0.00
224 1 0.00
226 1 0.00
228 428 0.75
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (222 bp):
TGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACAACAACTCCATTAACGGAGTCGCTTCC
ATTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCGTGTTGGCGCCATTGAGAA
GATATCTCGTTTCATTCTCTTTCTCAGCTACCATATCCGCCTCCTGCTGATTCATAGTAATAGTG
ACCGAATCAGATTCGGATTTCACTTCG
Found at i:68973227 original size:20 final size:20
Alignment explanation
Indices: 68973202--68973247 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
68973192 AAACCCTAAA
68973202 TTCAAGA-TTAGGATT-CGAGG
1 TTCAAGATTTAGG-TTCCG-GG
68973222 TTCAAGATTTAGGTTCCGGG
1 TTCAAGATTTAGGTTCCGGG
68973242 TTCAAG
1 TTCAAG
68973248 GTTCGAGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (20 bp):
TTCAAGATTTAGGTTCCGGG
Found at i:68973284 original size:29 final size:29
Alignment explanation
Indices: 68973229--68973284 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
68973219 AGGTTCAAGA
*
68973229 TTTAGGTTCCGGGTTCAAGGTTCGAGGGG
1 TTTAGGTTCCGGGTTCAAGATTCGAGGGG
* * * *
68973258 TTTAGGTTCTGTGTTCGAGATTTGAGG
1 TTTAGGTTCCGGGTTCAAGATTCGAGG
68973285 TTAAAGGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.14, C:0.11, G:0.38, T:0.38
Consensus pattern (29 bp):
TTTAGGTTCCGGGTTCAAGATTCGAGGGG
Found at i:68973321 original size:21 final size:21
Alignment explanation
Indices: 68973291--68973343 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
68973281 GAGGTTAAAG
*
68973291 GTTTAGGGTTCAGAATTTGAT
1 GTTTAAGGTTCAGAATTTGAT
* * *
68973312 GTTTATGGTTTAGGATTTGAT
1 GTTTAAGGTTCAGAATTTGAT
68973333 GTTTAAGGTTC
1 GTTTAAGGTTC
68973344 GGGGGTTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.28, T:0.47
Consensus pattern (21 bp):
GTTTAAGGTTCAGAATTTGAT
Found at i:68977222 original size:19 final size:19
Alignment explanation
Indices: 68977178--68977226 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
68977168 TTAATTTTTA
*
68977178 TAATTAAAAATATCATAAT
1 TAATTAAAAATATCATAAC
* *
68977197 TAATTAAAAATATTATTAC
1 TAATTAAAAATATCATAAC
*
68977216 TACTTAAAAAT
1 TAATTAAAAAT
68977227 TAAGTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATTAAAAATATCATAAC
Found at i:68992617 original size:21 final size:21
Alignment explanation
Indices: 68992593--68992632 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
68992583 TAAACATTAA
**
68992593 ATTTTTTAAATTTATTTATGT
1 ATTTTTTAAAAATATTTATGT
68992614 ATTTTTTAAAAATATTTAT
1 ATTTTTTAAAAATATTTAT
68992633 TTAAATCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTTAAAAATATTTATGT
Found at i:68992870 original size:3 final size:3
Alignment explanation
Indices: 68992864--68992897 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
68992854 TAATAAAATT
68992864 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
68992898 AGGAAAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:68999754 original size:2 final size:2
Alignment explanation
Indices: 68999747--68999775 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
68999737 CGTTGGTTAC
68999747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68999776 AAGTTAGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69005221 original size:9 final size:9
Alignment explanation
Indices: 69005209--69005249 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
69005199 ATATACATTA
69005209 TTTTAAATT
1 TTTTAAATT
69005218 TTTT-AATT
1 TTTTAAATT
69005226 TTTTAAATT
1 TTTTAAATT
69005235 TCTTTATAATT
1 T-TTTA-AATT
69005246 TTTT
1 TTTT
69005250 TAGAACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.28
9 9 0.31
10 7 0.24
11 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTAAATT
Found at i:69005251 original size:11 final size:11
Alignment explanation
Indices: 69005216--69005281 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
69005206 TTATTTTAAA
69005216 TTTTT-TAA-T
1 TTTTTATAATT
69005225 TTTTTA-AATT
1 TTTTTATAATT
*
69005235 TCTTTATAATT
1 TTTTTATAATT
*
69005246 TTTTTAGAACTT
1 TTTTTATAA-TT
*
69005258 TTTTT-TAA-A
1 TTTTTATAATT
*
69005267 ATTTTATAATT
1 TTTTTATAATT
69005278 TTTT
1 TTTT
69005282 GAAAAATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
9 11 0.26
10 9 0.21
11 16 0.37
12 7 0.16
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:69005261 original size:12 final size:10
Alignment explanation
Indices: 69005209--69005281 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 10
69005199 ATATACATTA
69005209 TTTTAAA-TT
1 TTTTAAATTT
69005218 TTTT-AA-TT
1 TTTTAAATTT
69005226 TTTTAAATTT
1 TTTTAAATTT
*
69005236 CTTTATAATTT
1 TTTTA-AATTT
69005247 TTTTAGAACTTTT
1 TTTTA-AA--TTT
*
69005260 TTTTAAAATT
1 TTTTAAATTT
*
69005270 TTAT-AATTT
1 TTTTAAATTT
69005279 TTT
1 TTT
69005282 GAAAAATATA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
8 8 0.15
9 12 0.23
10 11 0.21
11 11 0.21
12 2 0.04
13 8 0.15
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:69005318 original size:20 final size:19
Alignment explanation
Indices: 69005293--69005364 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
69005283 AAAAATATAA
69005293 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTA-AAATT
* *
69005313 ATTTTG-AGTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
69005331 ATTTTTGAATTTTTGAAAATT
1 A-TTTTGAATTTTT-AAAATT
69005352 ATTTTGAATTTTT
1 ATTTTGAATTTTT
69005365 TGTAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.07
18 7 0.16
19 6 0.14
20 21 0.48
21 7 0.16
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:69015457 original size:2 final size:2
Alignment explanation
Indices: 69015450--69015488 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
69015440 TAGCTTTAAT
69015450 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
69015489 TTGAATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:69017058 original size:31 final size:31
Alignment explanation
Indices: 69017023--69017083 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
69017013 TCAGCATCTA
69017023 GGCATTTTTTGTATCAATTCTTTTCCAAAAT
1 GGCATTTTTTGTATCAATTCTTTTCCAAAAT
*
69017054 GGCATTTTTTGTATTAATTCTTTTCCAAAA
1 GGCATTTTTTGTATCAATTCTTTTCCAAAA
69017084 AGGTTGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (31 bp):
GGCATTTTTTGTATCAATTCTTTTCCAAAAT
Found at i:69017673 original size:76 final size:76
Alignment explanation
Indices: 69017544--69017697 Score: 256
Period size: 76 Copynumber: 2.0 Consensus size: 76
69017534 GATCCACGAC
* * *
69017544 TATCAATTGTTTTATGGCTTTGAACCATTATCTCTTGTGATAATTTAATGTTCATATCATGG-GC
1 TATCAATTGTTTTATGGCTTTGAACCATTAGCTCTTGTGATAACTTAAAGTTCATATCA-GGAGC
69017608 AAAAATTATCCA
65 AAAAATTATCCA
*
69017620 TATCAATTGTTTTATGGCTTTTAACCATTAGCTCTTGTGATAACTTAAAGTTCATATCAGGAGCA
1 TATCAATTGTTTTATGGCTTTGAACCATTAGCTCTTGTGATAACTTAAAGTTCATATCAGGAGCA
69017685 AAAATTATCCA
66 AAAATTATCCA
69017696 TA
1 TA
69017698 ATGGTCTCTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 2 0.03
76 71 0.97
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (76 bp):
TATCAATTGTTTTATGGCTTTGAACCATTAGCTCTTGTGATAACTTAAAGTTCATATCAGGAGCA
AAAATTATCCA
Found at i:69018932 original size:70 final size:70
Alignment explanation
Indices: 69018819--69018959 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
69018809 TTTTATATTT
69018819 TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCCGTTCAAACTCTTTCCTCTCGATTTTGCT
1 TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCCGTTCAAACTCTTTCCTCTCGATTTTGCT
69018884 TCTGC
66 TCTGC
*
69018889 TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCTGTTCAAACTCTTTCCTCTCGATTTTGCT
1 TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCCGTTCAAACTCTTTCCTCTCGATTTTGCT
69018954 TCTGC
66 TCTGC
69018959 T
1 T
69018960 CTCTTTTGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (70 bp):
TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCCGTTCAAACTCTTTCCTCTCGATTTTGCT
TCTGC
Found at i:69021154 original size:2 final size:2
Alignment explanation
Indices: 69021147--69021193 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
69021137 AATAGTTGTG
*
69021147 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69021189 -T AT AT
1 AT AT AT
69021194 TATTTTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:69028638 original size:51 final size:50
Alignment explanation
Indices: 69028462--69028699 Score: 291
Period size: 50 Copynumber: 4.7 Consensus size: 50
69028452 TATCATTCGA
* * *
69028462 TACATGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* *
69028512 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* * *
69028562 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGG
* * * * * *
69028613 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATTATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGT-TTTA-CGG
*
69028664 TACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
69028700 TTCATCGATA
Statistics
Matches: 163, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 84 0.52
51 72 0.44
52 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
Found at i:69028688 original size:102 final size:101
Alignment explanation
Indices: 69028458--69028699 Score: 310
Period size: 101 Copynumber: 2.4 Consensus size: 101
69028448 CTTTTATCAT
* * * * * *
69028458 TCGATACATGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACAGTACACATAGTA
69028523 GCCTTCACATAGTACTACACACGTGATCAAGTTTTA
66 GCCTTCACATAGTACTACACACGTGATCAAGTTTTA
* * * *
69028559 -CGGTTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACC-AAG-TTCTACAGTACACATAG
* * * *
69028622 TAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTA
64 TAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA
69028660 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
69028700 TTCATCGATA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
100 40 0.33
101 41 0.34
102 40 0.33
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (101 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACAGTACACATAGTA
GCCTTCACATAGTACTACACACGTGATCAAGTTTTA
Found at i:69032695 original size:23 final size:23
Alignment explanation
Indices: 69032669--69032744 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
69032659 ATAAGTGCCA
69032669 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
69032692 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
69032715 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
69032738 CACTGAT
1 CACTGAT
69032745 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:69036626 original size:12 final size:12
Alignment explanation
Indices: 69036609--69036633 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69036599 GAAGAAAACT
69036609 ATTTGGATTTTG
1 ATTTGGATTTTG
69036621 ATTTGGATTTTG
1 ATTTGGATTTTG
69036633 A
1 A
69036634 CCTGTTGATT
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:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (12 bp):
ATTTGGATTTTG
Found at i:69043138 original size:32 final size:32
Alignment explanation
Indices: 69043069--69043138 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 32
69043059 ATTTATTACT
69043069 TATT-TATTAATATTTTTAATTTTAAGTTTAA
1 TATTATATTAATATTTTTAATTTTAAGTTTAA
* * *
69043100 -AGTTATATTAAT-TATTTTATTTTTTATTTTAA
1 TA-TTATATTAATAT-TTTTAATTTTAAGTTTAA
69043132 TATTATA
1 TATTATA
69043139 AATGTATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
30 1 0.03
31 3 0.09
32 27 0.84
33 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (32 bp):
TATTATATTAATATTTTTAATTTTAAGTTTAA
Found at i:69047794 original size:20 final size:21
Alignment explanation
Indices: 69047757--69047796 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
69047747 TTTGACCTAC
69047757 TAAATTAAATAGTATTTATTA
1 TAAATTAAATAGTATTTATTA
*
69047778 TAAATTAATTA-TATTTATT
1 TAAATTAAATAGTATTTATT
69047797 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TAAATTAAATAGTATTTATTA
Found at i:69049256 original size:2 final size:2
Alignment explanation
Indices: 69049249--69049307 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
69049239 TAGCTTTAAT
69049249 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
69049291 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
69049308 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:69051380 original size:10 final size:10
Alignment explanation
Indices: 69051366--69051438 Score: 62
Period size: 10 Copynumber: 7.5 Consensus size: 10
69051356 TTATGTTTTA
*
69051366 AATATATTAA
1 AATATATTAT
69051376 AATATTATT-T
1 AATA-TATTAT
*
69051386 AAT-TA-TAA
1 AATATATTAT
69051394 AATATATTAT
1 AATATATTAT
*
69051404 ATTATATTAT
1 AATATATTAT
*
69051414 ATTATATTAT
1 AATATATTAT
*
69051424 ATTATATTAT
1 AATATATTAT
*
69051434 TATAT
1 AATAT
69051439 TAGGTAAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
7 1 0.02
8 5 0.09
9 2 0.04
10 41 0.77
11 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AATATATTAT
Found at i:69051440 original size:5 final size:5
Alignment explanation
Indices: 69051396--69051433 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
69051386 AATTATAAAA
69051396 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
69051434 TATATTAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:69051558 original size:3 final size:3
Alignment explanation
Indices: 69051552--69051592 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
69051542 TAAGTAAGAC
69051552 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
69051593 AGCAAATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:69052598 original size:45 final size:45
Alignment explanation
Indices: 69052529--69052630 Score: 152
Period size: 45 Copynumber: 2.3 Consensus size: 45
69052519 GCCGACTACT
* *
69052529 GTTACTGTTACTAATTCGATACTTTGTGTGTCGAATATTGTTACC
1 GTTACTGTTACTAATTCAACACTTTGTGTGTCGAATATTGTTACC
* *
69052574 GTTACTGTTAC-AGATTCAACACTTTGTGTGTTGAATATTGTTACT
1 GTTACTGTTACTA-ATTCAACACTTTGTGTGTCGAATATTGTTACC
69052619 GTTACTGTTACT
1 GTTACTGTTACT
69052631 GCTATCGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.02
45 50 0.98
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.45
Consensus pattern (45 bp):
GTTACTGTTACTAATTCAACACTTTGTGTGTCGAATATTGTTACC
Found at i:69056909 original size:22 final size:23
Alignment explanation
Indices: 69056866--69056909 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
69056856 AAATATATGC
* **
69056866 AAAATAATAATAATGATGACAAT
1 AAAATAATAATAATAAAAACAAT
69056889 AAAATAA-AATAATAAAAACAA
1 AAAATAATAATAATAAAAACAA
69056910 AGGCTATGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (23 bp):
AAAATAATAATAATAAAAACAAT
Found at i:69057822 original size:12 final size:12
Alignment explanation
Indices: 69057802--69057836 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
69057792 AATTATATAG
*
69057802 TAATAATAATAT
1 TAATAATAATAC
*
69057814 TAGTAATAATAC
1 TAATAATAATAC
69057826 TAATAATAATA
1 TAATAATAATA
69057837 GCATGGATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:69062460 original size:13 final size:13
Alignment explanation
Indices: 69062442--69062469 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
69062432 CTTTGAAATT
69062442 CTTGAAATTTTTG
1 CTTGAAATTTTTG
69062455 CTTGAAATTTTTG
1 CTTGAAATTTTTG
69062468 CT
1 CT
69062470 ATTTTTAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (13 bp):
CTTGAAATTTTTG
Found at i:69079161 original size:13 final size:13
Alignment explanation
Indices: 69079143--69079206 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
69079133 ACATTCAAAT
69079143 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
69079156 TTTTCAAAAACAC
1 TTTTCAAAAGCAC
** *
69079169 TTTTTTACAGCAC
1 TTTTCAAAAGCAC
69079182 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
69079195 TTTTTAAAAGCA
1 TTTTCAAAAGCA
69079207 ATGAAGAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:69079206 original size:26 final size:26
Alignment explanation
Indices: 69079142--69079206 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
69079132 AACATTCAAA
69079142 TTTTTCAAAAGCACTTTTCAAAAACAC
1 TTTTT-AAAAGCACTTTTCAAAAACAC
* * *
69079169 TTTTTTACAGCACTTTTCAAAAGCAC
1 TTTTTAAAAGCACTTTTCAAAAACAC
69079195 TTTTTAAAAGCA
1 TTTTTAAAAGCA
69079207 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 28 0.85
27 5 0.15
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (26 bp):
TTTTTAAAAGCACTTTTCAAAAACAC
Found at i:69087615 original size:43 final size:43
Alignment explanation
Indices: 69087568--69087652 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
69087558 TGAAAGAATG
*
69087568 TTTTTGATTTTATTTGCTTATATATATTGTTATTTTGTATGTA
1 TTTTTGATTTTATTTGCTTATATATATGGTTATTTTGTATGTA
* * * *
69087611 TTTTTTATTTTATTTGCTTCTATGTGTGGTTATTTTGTATGT
1 TTTTTGATTTTATTTGCTTATATATATGGTTATTTTGTATGT
69087653 CATTGATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.66
Consensus pattern (43 bp):
TTTTTGATTTTATTTGCTTATATATATGGTTATTTTGTATGTA
Found at i:69088027 original size:109 final size:108
Alignment explanation
Indices: 69087747--69088086 Score: 506
Period size: 110 Copynumber: 3.1 Consensus size: 108
69087737 CACGCATACT
* * *
69087747 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAATGTACC
1 AATATCCTTTTAAAAATTTCAAAATAA-GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
69087812 CTAATGTGTTGGGTTTCGATTCTTCTAG-TTGAACCAAATAGCCA
65 CTAATGTGCTGGGTTTCGATTTTTCTCGTTTG-ACCAAATAGCCA
69087856 AATATCCTTTTTAAAAATTTCAAAATAATGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
1 AATATCC-TTTTAAAAATTTCAAAATAA-GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
69087921 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
64 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
* * * *
69087966 AATATCCTTTTAAAAATTTCAACATAAGATAATGTTTTACGTTTGGAAATTTGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAG-CAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
69088031 CTAATGTGCTGGGTTTCGA--TTTCTCGTTCGACCAAATAGCCA
65 CTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
*
69088073 AATATCCTCTTAAA
1 AATATCCTTTTAAA
69088087 TCTTAATCCA
Statistics
Matches: 215, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
107 35 0.16
108 1 0.00
109 78 0.36
110 98 0.46
111 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (108 bp):
AATATCCTTTTAAAAATTTCAAAATAAGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
TAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
Done.