Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 25 of 131
Found at i:6016645 original size:1 final size:1
Alignment explanation
Indices: 6016579--6016637 Score: 64
Period size: 1 Copynumber: 59.0 Consensus size: 1
6016569 AAGCTTTGGT
* * * * * *
6016579 AAAAAACAAAAAAAAAACAAAAAAAAAACAAAAAAACAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6016638 CCAAAAAATG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6019294 original size:15 final size:14
Alignment explanation
Indices: 6019272--6019310 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 14
6019262 AATGCTTTGA
6019272 AAAAAAAAAAAGAGGG
1 AAAAAAAAAAAGA--G
6019288 AAGAAAAAAAAAGAG
1 AA-AAAAAAAAAGAG
6019303 AAAAAAAA
1 AAAAAAAA
6019311 GTTTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 3 0.14
16 2 0.09
17 11 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAG
Found at i:6021299 original size:24 final size:24
Alignment explanation
Indices: 6021240--6021291 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
6021230 TATTTGAGCA
6021240 TTTTGTACAAAATACTAAGATCAT
1 TTTTGTACAAAATACTAAGATCAT
*
6021264 TTTTTTACAAAATACTAAGATCAT
1 TTTTGTACAAAATACTAAGATCAT
6021288 TTTT
1 TTTT
6021292 AGTGAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (24 bp):
TTTTGTACAAAATACTAAGATCAT
Found at i:6035977 original size:37 final size:37
Alignment explanation
Indices: 6035926--6036005 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
6035916 CTTAAAATAA
* *
6035926 ATTTTATATGTAATAATAATAAGTAAATGTATTTTAT
1 ATTTTATATATAATAATAATAAGTAAATATATTTTAT
* * *
6035963 ATTTTGTATATAATAATATTAAGTATATATATTTTAT
1 ATTTTATATATAATAATAATAAGTAAATATATTTTAT
*
6036000 GTTTTA
1 ATTTTA
6036006 GTTTAATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (37 bp):
ATTTTATATATAATAATAATAAGTAAATATATTTTAT
Found at i:6036370 original size:10 final size:10
Alignment explanation
Indices: 6036344--6036380 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
6036334 AAAACTTATC
6036344 TTAA-TAAAA
1 TTAATTAAAA
6036353 TT--TTAAAA
1 TTAATTAAAA
6036361 TTAATTAAAA
1 TTAATTAAAA
6036371 TTAATTAAAA
1 TTAATTAAAA
6036381 AAATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.28
9 2 0.08
10 16 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAATTAAAA
Found at i:6037588 original size:19 final size:20
Alignment explanation
Indices: 6037543--6037593 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
6037533 AAAAAATATT
*
6037543 ATAATAATTCTTTTAGATACAA
1 ATAAT-ATT-TTTTAGATAAAA
*
6037565 GTAATATTTTTTAG-TAAAA
1 ATAATATTTTTTAGATAAAA
*
6037584 ATAATCTTTT
1 ATAATATTTT
6037594 ACATCTCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 12 0.48
20 6 0.24
21 3 0.12
22 4 0.16
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (20 bp):
ATAATATTTTTTAGATAAAA
Found at i:6038139 original size:20 final size:20
Alignment explanation
Indices: 6038114--6038151 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6038104 CTTTGAAAAA
* *
6038114 AAAAAATTCATATCTCCTTC
1 AAAAAACTCAAATCTCCTTC
6038134 AAAAAACTCAAATCTCCT
1 AAAAAACTCAAATCTCCT
6038152 CCCCAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAACTCAAATCTCCTTC
Found at i:6040180 original size:70 final size:70
Alignment explanation
Indices: 6040065--6040375 Score: 310
Period size: 70 Copynumber: 4.4 Consensus size: 70
6040055 AAGTGATTAT
* * * * * * *
6040065 TTTTATCATTTATTAT-TTTTTGTTTTAAAATATGATCTTTGTTAAAATTTTATAATTTCAAAAA
1 TTTTAACATTTACTATATTTTTATTTTAAAATGTGATTTTTGTTAAAATTTTAAAATTTTAAAAA
6040129 TATAA
66 TATAA
* **
6040134 TTTTAACATTTACTATATTTTTATCTTAAATATGTGATTTTT-TTAAAATTTTAAAATTTTGTAA
1 TTTTAACATTTACTATATTTTTATTTTAAA-ATGTGATTTTTGTTAAAATTTTAAAATTTTAAAA
*
6040198 ATATAC
65 ATATAA
* * * *
6040204 TTTTAACATCTA-T-TTTTTTTATCTTAAAAAT-TTAGTTTTTGTTAAAATTTT-AAATTTTAAA
1 TTTTAACATTTACTATATTTTTAT-TTTAAAATGTGA-TTTTTGTTAAAATTTTAAAATTTTAAA
*
6040265 AATAAAA
64 AATATAA
* * * * * *
6040272 TTTTAACATCTATTATGTTTTTTATTTTAAAATTGTAATTTTTGTTAAAACTCTAAAATTTTAAA
1 TTTTAACATTTACTAT-ATTTTTATTTTAAAA-TGTGATTTTTGTTAAAATTTTAAAATTTTAAA
6040337 AATATAA
64 AATATAA
* *
6040344 TTTTAACAATCACTATATTTTTTATTTTAAAA
1 TTTTAACATTTACTATA-TTTTTATTTTAAAA
6040376 ATATAGTAAT
Statistics
Matches: 200, Mismatches: 30, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
67 2 0.01
68 40 0.20
69 30 0.15
70 52 0.26
71 32 0.16
72 44 0.22
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (70 bp):
TTTTAACATTTACTATATTTTTATTTTAAAATGTGATTTTTGTTAAAATTTTAAAATTTTAAAAA
TATAA
Found at i:6040223 original size:139 final size:140
Alignment explanation
Indices: 6040078--6040377 Score: 349
Period size: 139 Copynumber: 2.1 Consensus size: 140
6040068 TATCATTTAT
* * *
6040078 TATTTTTTGT-TTTAAAATATGA-TCTTTGTTAAAATTTTATAATTTCAAAAATATAATTTTAAC
1 TATTTTTTATCTTAAAAAT-TGAGTCTTTGTTAAAATTTTA-AATTTCAAAAATAAAATTTTAAC
* * * * **
6040141 ATTTACTAT-ATTTTTATCTT-AAATATGTGATTTTT-TTAAAATTTTAAAATTTTGTAAATATA
64 ATCTACTATGATTTTTATCTTAAAAT-TGTAATTTTTGTTAAAACTCTAAAATTTTAAAAATATA
*
6040203 CTTTTAACATCTA
128 ATTTTAACATCTA
* * * *
6040216 TTTTTTTTATCTTAAAAATTTAGTTTTTGTTAAAATTTTAAATTTTAAAAATAAAATTTTAACAT
1 TATTTTTTATCTTAAAAATTGAGTCTTTGTTAAAATTTTAAATTTCAAAAATAAAATTTTAACAT
* * *
6040281 CTATTATGTTTTTTATTTTAAAATTGTAATTTTTGTTAAAACTCTAAAATTTTAAAAATATAATT
66 CTACTATGATTTTTATCTTAAAATTGTAATTTTTGTTAAAACTCTAAAATTTTAAAAATATAATT
6040346 TTAACAATCACTA
131 TTAAC-AT--CTA
*
6040359 TATTTTTTATTTTAAAAAT
1 TATTTTTTATCTTAAAAAT
6040378 ATAGTAATTG
Statistics
Matches: 135, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
138 38 0.28
139 41 0.30
140 34 0.25
141 2 0.01
143 20 0.15
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (140 bp):
TATTTTTTATCTTAAAAATTGAGTCTTTGTTAAAATTTTAAATTTCAAAAATAAAATTTTAACAT
CTACTATGATTTTTATCTTAAAATTGTAATTTTTGTTAAAACTCTAAAATTTTAAAAATATAATT
TTAACATCTA
Found at i:6044277 original size:2 final size:2
Alignment explanation
Indices: 6044270--6044315 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
6044260 TGCAATTTTC
* * *
6044270 AT AT AT AT AT AT AT AT AA AT AT AT AT AT GT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6044312 AT AT
1 AT AT
6044316 TCTCTGACAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6047113 original size:42 final size:41
Alignment explanation
Indices: 6047005--6047115 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 41
6046995 ATAATATTTT
* * * *
6047005 ATTTCAATAACCTTTAATAAAATGTTGGTAACTTTCAATACA
1 ATTTTAATAA-CTTTAATAAAATTTTGATAACTGTCAATACA
* * * * * *
6047047 ATTTTAGTCACGTATGATATAATTTTGATAACTGTCGATACA
1 ATTTTAATAAC-TTTAATAAAATTTTGATAACTGTCAATACA
6047089 ATTTTAATAATCTTTAATAAAATTTTG
1 ATTTTAATAA-CTTTAATAAAATTTTG
6047116 GTTACCTTTT
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
41 1 0.02
42 50 0.96
43 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (41 bp):
ATTTTAATAACTTTAATAAAATTTTGATAACTGTCAATACA
Found at i:6048066 original size:25 final size:26
Alignment explanation
Indices: 6048010--6048066 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
6048000 CTTTCCAAAA
6048010 ACTTTTCATATTTTCTTTATTTTTTC
1 ACTTTTCATATTTTCTTTATTTTTTC
* *
6048036 AATTTTCA-ATTTTCTTTATTTTTTT
1 ACTTTTCATATTTTCTTTATTTTTTC
6048061 ACTTTT
1 ACTTTT
6048067 TGACTTTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (26 bp):
ACTTTTCATATTTTCTTTATTTTTTC
Found at i:6048306 original size:15 final size:15
Alignment explanation
Indices: 6048286--6048315 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6048276 TGATTGTGTA
6048286 TATGGGTTTCTTGAT
1 TATGGGTTTCTTGAT
6048301 TATGGGTTTCTTGAT
1 TATGGGTTTCTTGAT
6048316 CTAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.27, T:0.53
Consensus pattern (15 bp):
TATGGGTTTCTTGAT
Found at i:6048384 original size:15 final size:15
Alignment explanation
Indices: 6048364--6048393 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6048354 TTTATATTTC
6048364 AAAAATATTAAAAAT
1 AAAAATATTAAAAAT
*
6048379 AAAAATTTTAAAAAT
1 AAAAATATTAAAAAT
6048394 GAAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATATTAAAAAT
Found at i:6049393 original size:22 final size:22
Alignment explanation
Indices: 6049280--6049523 Score: 108
Period size: 22 Copynumber: 11.1 Consensus size: 22
6049270 GTTATCATAA
* *
6049280 ATTTACTATTATGTTAT-AAGTG
1 ATTTACTACTAAGTTATGAA-TG
* ** *
6049302 ATTAACTACTAAACTATCAATG
1 ATTTACTACTAAGTTATGAATG
* * * *
6049324 ATATACTACTAAATTATCAAAG
1 ATTTACTACTAAGTTATGAATG
* * ** *
6049346 ATTTACTAGTAAATTAACATTG
1 ATTTACTACTAAGTTATGAATG
*
6049368 ATTTACTACTAATTTATGAATG
1 ATTTACTACTAAGTTATGAATG
* * * *
6049390 ATTTATTATTAAGTTATTATTG
1 ATTTACTACTAAGTTATGAATG
* * *
6049412 ATTTACTATTAAATTGTTG-ATG
1 ATTTACTACTAAGTT-ATGAATG
6049434 A-TTACTACTAAGTTATTG-AT-
1 ATTTACTACTAAGTTA-TGAATG
*
6049454 AGTTTATTA-TAAAGTTAT-AACTG
1 A-TTTACTACT-AAGTTATGAA-TG
* * *
6049477 ATTTACTATTAATTTATTGAA-A
1 ATTTACTACTAAGTTA-TGAATG
* *
6049499 ATTTACAACAAAGTTATGAATG
1 ATTTACTACTAAGTTATGAATG
6049521 ATT
1 ATT
6049524 AACGAATTTA
Statistics
Matches: 168, Mismatches: 41, Indels: 26
0.71 0.17 0.11
Matches are distributed among these distances:
20 1 0.01
21 22 0.13
22 137 0.82
23 6 0.04
24 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTTACTACTAAGTTATGAATG
Found at i:6049393 original size:44 final size:44
Alignment explanation
Indices: 6049322--6049426 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
6049312 AAACTATCAA
*
6049322 TGATATACTACTAAATTATCAAAGATTTACTAGTAAATTAACAT
1 TGATTTACTACTAAATTATCAAAGATTTACTAGTAAATTAACAT
* * * * * * **
6049366 TGATTTACTACTAATTTATGAATGATTTATTATTAAGTTATTAT
1 TGATTTACTACTAAATTATCAAAGATTTACTAGTAAATTAACAT
*
6049410 TGATTTACTATTAAATT
1 TGATTTACTACTAAATT
6049427 GTTGATGATT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (44 bp):
TGATTTACTACTAAATTATCAAAGATTTACTAGTAAATTAACAT
Found at i:6049554 original size:22 final size:22
Alignment explanation
Indices: 6049529--6049621 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 22
6049519 TGATTAACGA
* * *
6049529 ATTTATTACAAAATTATTATTG
1 ATTTACTACTAAATTATTAGTG
* *
6049551 ATTTACAACTAATTTATTAGTG
1 ATTTACTACTAAATTATTAGTG
* * *
6049573 ATTTACTACTAAATTATCAATA
1 ATTTACTACTAAATTATTAGTG
* *
6049595 ATTTACTATTATATTATTA-TG
1 ATTTACTACTAAATTATTAGTG
6049616 CATTTA
1 -ATTTA
6049622 ATGTTTTGTT
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
21 1 0.02
22 55 0.98
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTACTACTAAATTATTAGTG
Found at i:6049757 original size:22 final size:21
Alignment explanation
Indices: 6049732--6049851 Score: 80
Period size: 22 Copynumber: 5.5 Consensus size: 21
6049722 CACTAAGTTA
6049732 TATTAAATTATTCATTATTTAC
1 TATTAAATTA-TCATTATTTAC
* *
6049754 TATTAAGTTATCATTGATTAAC
1 TATTAAATTATCATT-ATTTAC
*
6049776 TATTAAGTTAT-ATTTATTTAC
1 TATTAAATTATCA-TTATTTAC
* * * * *
6049797 TTTTAAATTTTTAATGATTAAC
1 TATTAAA-TTATCATTATTTAC
** * *
6049819 TACCACAGTATCATTGATTTAC
1 TATTAAATTATCATT-ATTTAC
6049841 TATTAAATTAT
1 TATTAAATTAT
6049852 TTGTGATTTA
Statistics
Matches: 72, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
21 20 0.28
22 51 0.71
23 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (21 bp):
TATTAAATTATCATTATTTAC
Found at i:6049793 original size:43 final size:44
Alignment explanation
Indices: 6049746--6049851 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 44
6049736 AAATTATTCA
* * **
6049746 TTATTTACTATTAAGTTATCATTGATTAACTATTA-AGTTAT-AT
1 TTATTTACTATTAAATTATCAATGATTAACTACCACAG-TATCAT
* * *
6049789 TTATTTACTTTTAAATTTTTAATGATTAACTACCACAGTATCAT
1 TTATTTACTATTAAATTATCAATGATTAACTACCACAGTATCAT
*
6049833 TGATTTACTATTAAATTAT
1 TTATTTACTATTAAATTAT
6049852 TTGTGATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
43 31 0.61
44 20 0.39
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (44 bp):
TTATTTACTATTAAATTATCAATGATTAACTACCACAGTATCAT
Found at i:6049859 original size:44 final size:42
Alignment explanation
Indices: 6049743--6049892 Score: 108
Period size: 43 Copynumber: 3.4 Consensus size: 42
6049733 ATTAAATTAT
* * **
6049743 TCATTATTTACTATTAAGTTATCATTGATTAACTATTAAGTTA
1 TCATTATTTACTATTAAATTAT-TTTGATTAACTACCAAGTTA
*
6049786 T-ATTTATTTACTTTTAAATT-TTTAATGATTAACTACCACAG-TA
1 TCA-TTATTTACTATTAAATTATTT--TGATTAACTACCA-AGTTA
* * *
6049829 TCATTGATTTACTATTAAATTATTTGTGATTTACTACTATGTTTA
1 TCATT-ATTTACTATTAAATTATTT-TGATTAACTACCAAG-TTA
* *
6049874 TCAATTAATTATTATTAAA
1 TC-ATTATTTACTATTAAA
6049893 CTGAAATTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 33 0.39
44 28 0.33
45 18 0.21
46 3 0.04
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (42 bp):
TCATTATTTACTATTAAATTATTTTGATTAACTACCAAGTTA
Found at i:6050321 original size:21 final size:22
Alignment explanation
Indices: 6050265--6050539 Score: 89
Period size: 22 Copynumber: 12.2 Consensus size: 22
6050255 ATAAGTTATC
* *
6050265 TACTACTAAGTTATAAATAATT
1 TACTATTAAGTTATGAATAATT
*
6050287 TACTATTAATTTATGAATAA-T
1 TACTATTAAGTTATGAATAATT
6050308 T-CTCATTAAGTTATGAATAATT
1 TACT-ATTAAGTTATGAATAATT
* * *
6050330 TAAC-ATTAAATTGTTG-GTAATT
1 T-ACTATTAAGTT-ATGAATAATT
** * *
6050352 TAAAACTAAGTTATTAATAATT
1 TACTATTAAGTTATGAATAATT
* * * *
6050374 TATTATAAAGCTGT-AACTAATT
1 TACTATTAAGTTATGAA-TAATT
* *
6050396 TACTACTAATTTATCG-ATAATT
1 TACTATTAAGTTAT-GAATAATT
** *
6050418 TACTAAAAAATATTAATGATTAATTAATT
1 TACT-ATTAA-GTT-ATG---AA-TAATT
* * *
6050447 TACTATTAAATTATCATTAATT
1 TACTATTAAGTTATGAATAATT
* * *
6050469 TA-TAACTAAGTTATTAGTAATT
1 TACT-ATTAAGTTATGAATAATT
* * * *
6050491 TACTATTACGTTATTAGTGATT
1 TACTATTAAGTTATGAATAATT
* *
6050513 TACTACTTAA-TTATCAATTATT
1 TACTA-TTAAGTTATGAATAATT
6050535 TACTA
1 TACTA
6050540 CTATTTTTTA
Statistics
Matches: 189, Mismatches: 43, Indels: 42
0.69 0.16 0.15
Matches are distributed among these distances:
20 2 0.01
21 22 0.12
22 130 0.69
23 11 0.06
24 4 0.02
25 2 0.01
26 2 0.01
27 3 0.02
28 4 0.02
29 9 0.05
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (22 bp):
TACTATTAAGTTATGAATAATT
Found at i:6050465 original size:22 final size:22
Alignment explanation
Indices: 6050440--6050722 Score: 84
Period size: 22 Copynumber: 13.0 Consensus size: 22
6050430 TTAATGATTA
6050440 ATTAATTTACTATTAAATTATC
1 ATTAATTTACTATTAAATTATC
* * *
6050462 ATTAATTTA-TAACTAAGTTATT
1 ATTAATTTACT-ATTAAATTATC
* ** *
6050484 AGTAATTTACTATTACGTTATT
1 ATTAATTTACTATTAAATTATC
* *
6050506 AGTGATTTACTACTT-AATTATC
1 ATTAATTTACTA-TTAAATTATC
* * * *
6050528 AATT-ATTTACTACT-ATTTTTT
1 -ATTAATTTACTATTAAATTATC
* *
6050549 A-TATATTTAATATT-ATTTAATC
1 ATTA-ATTTACTATTAAATT-ATC
* *
6050571 ATTAATTTACTATTTAATTTTC
1 ATTAATTTACTATTAAATTATC
* * ** *
6050593 AATT-ACTTATTACAAAATTATT
1 -ATTAATTTACTATTAAATTATC
* *
6050615 ACTGATTTACTATTAAATTATC
1 ATTAATTTACTATTAAATTATC
* * * * *
6050637 -TATGAGTCATTATTAAA-TATT
1 AT-TAATTTACTATTAAATTATC
* *
6050658 ACTAATTT-TTATTAAATTAT-
1 ATTAATTTACTATTAAATTATC
* * * *
6050678 GTATGATTTACTATTAAGTTATT
1 AT-TAATTTACTATTAAATTATC
* *
6050701 ATTAATTAACTATTATATTATC
1 ATTAATTTACTATTAAATTATC
6050723 TGTAGACACC
Statistics
Matches: 189, Mismatches: 55, Indels: 34
0.68 0.20 0.12
Matches are distributed among these distances:
19 1 0.01
20 9 0.05
21 34 0.18
22 131 0.69
23 14 0.07
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (22 bp):
ATTAATTTACTATTAAATTATC
Found at i:6050693 original size:42 final size:43
Alignment explanation
Indices: 6050611--6050723 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 43
6050601 ATTACAAAAT
* *
6050611 TATTACTGATTTACTATTAAATTATCTATGAGTCATTATTAAA
1 TATTACTAATTTACTATTAAATTATCTATGAGTCACTATTAAA
* * * * *
6050654 TATTACTAATTT-TTATTAAATTATGTATGATTTACTATTAAGT
1 TATTACTAATTTACTATTAAATTATCTATGAGTCACTATTAA-A
* * *
6050697 TATTATTAATTAACTATTATATTATCT
1 TATTACTAATTTACTATTAAATTATCT
6050724 GTAGACACCA
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 24 0.43
43 21 0.38
44 11 0.20
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.51
Consensus pattern (43 bp):
TATTACTAATTTACTATTAAATTATCTATGAGTCACTATTAAA
Found at i:6051171 original size:13 final size:13
Alignment explanation
Indices: 6051153--6051186 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6051143 AGCGCTCTTG
6051153 TTTATTTTTTTAC
1 TTTATTTTTTTAC
* *
6051166 TTTATTTATTTAT
1 TTTATTTTTTTAC
6051179 TTTATTTT
1 TTTATTTT
6051187 ATTTGAGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTTTAC
Found at i:6055797 original size:15 final size:15
Alignment explanation
Indices: 6055750--6055797 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
6055740 AAAAATAGAA
6055750 AAAGAATGAAAAAATG
1 AAAGAATG-AAAAATG
*
6055766 -AAGAATGAAGAATG
1 AAAGAATGAAAAATG
6055780 AAAGAA-GATAAAATG
1 AAAGAATGA-AAAATG
6055795 AAA
1 AAA
6055798 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 8 0.29
15 20 0.71
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (15 bp):
AAAGAATGAAAAATG
Found at i:6055809 original size:9 final size:9
Alignment explanation
Indices: 6055797--6055852 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
6055787 ATAAAATGAA
6055797 AAAAAAATT
1 AAAAAAATT
6055806 -AAAAAATT
1 AAAAAAATT
6055814 AAAAAAATT
1 AAAAAAATT
6055823 ---AAAATT
1 AAAAAAATT
6055829 AAAAAAA-T
1 AAAAAAATT
* *
6055837 AAAAAGATG
1 AAAAAAATT
6055846 AAAAAAA
1 AAAAAAA
6055853 GAGAAAAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
6 6 0.15
8 15 0.38
9 18 0.46
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (9 bp):
AAAAAAATT
Found at i:6055817 original size:17 final size:17
Alignment explanation
Indices: 6055797--6055852 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
6055787 ATAAAATGAA
6055797 AAAAAAATTAAAAAATT
1 AAAAAAATTAAAAAATT
6055814 AAAAAAATT--AAAATT
1 AAAAAAATTAAAAAATT
*
6055829 AAAAAAA-TAAAAAGATG
1 AAAAAAATTAAAAA-ATT
6055846 AAAAAAA
1 AAAAAAA
6055853 GAGAAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 1 0.03
15 13 0.37
16 3 0.09
17 18 0.51
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAAAAATTAAAAAATT
Found at i:6055841 original size:15 final size:15
Alignment explanation
Indices: 6055797--6055841 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
6055787 ATAAAATGAA
6055797 AAAAAAATTAAAAAATT
1 AAAAAAA-T-AAAAATT
*
6055814 AAAAAAATTAAAATT
1 AAAAAAATAAAAATT
6055829 AAAAAAATAAAAA
1 AAAAAAATAAAAA
6055842 GATGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 18 0.69
16 1 0.04
17 7 0.27
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAAAATAAAAATT
Found at i:6055849 original size:23 final size:23
Alignment explanation
Indices: 6055800--6055849 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
6055790 AAATGAAAAA
* *
6055800 AAAATTAAAAAATTAAAAAAATT
1 AAAATTAAAAAAATAAAAAAATG
*
6055823 AAAATTAAAAAAATAAAAAGATG
1 AAAATTAAAAAAATAAAAAAATG
6055846 AAAA
1 AAAA
6055850 AAAGAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAATTAAAAAAATAAAAAAATG
Found at i:6057008 original size:21 final size:21
Alignment explanation
Indices: 6056982--6057058 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
6056972 TTGAGTTTTC
*
6056982 AATCTTTGAGTCTTAAATGAG
1 AATCTTTGAGTTTTAAATGAG
*
6057003 AATCTTTAAGACATTTTCAAATGAG
1 AATCTTT--GA-GTTTT-AAATGAG
*
6057028 AATCTTGGAGTTTTAAATGAG
1 AATCTTTGAGTTTTAAATGAG
*
6057049 AATTTTTGAG
1 AATCTTTGAG
6057059 GTGTGAAACC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 22 0.48
22 4 0.09
23 4 0.09
24 3 0.07
25 13 0.28
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (21 bp):
AATCTTTGAGTTTTAAATGAG
Found at i:6057126 original size:25 final size:23
Alignment explanation
Indices: 6057098--6057180 Score: 84
Period size: 20 Copynumber: 3.7 Consensus size: 23
6057088 ATCTTCGAAC
6057098 TCAAATGAGAATCTTTAAGAAATCT
1 TCAAATGAGAATCTTT--GAAATCT
* **
6057123 TCAAATAAGAATCTTTGAGTTCT
1 TCAAATGAGAATCTTTGAAATCT
6057146 T-AAATGAGAATCTTTG-AA-CT
1 TCAAATGAGAATCTTTGAAATCT
*
6057166 T-AATTGAGAATCTTT
1 TCAAATGAGAATCTTT
6057181 CAGGTGTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 16 0.31
22 14 0.27
23 6 0.12
25 15 0.29
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (23 bp):
TCAAATGAGAATCTTTGAAATCT
Found at i:6057173 original size:20 final size:21
Alignment explanation
Indices: 6057081--6057180 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 21
6057071 AAATTTATCG
* * *
6057081 AATGTGAATCTTCGA-ACTCA
1 AATGAGAATCTTTGAGACTTA
*
6057101 AATGAGAATCTTTAAGAAATCTTCA
1 AATGAGAATCTTT--GAGA-CTT-A
* *
6057126 AATAAGAATCTTTGAGTTCTTA
1 AATGAGAATCTTTGAG-ACTTA
6057148 AATGAGAATCTTTGA-ACTTA
1 AATGAGAATCTTTGAGACTTA
*
6057168 ATTGAGAATCTTT
1 AATGAGAATCTTT
6057181 CAGGTGTGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
20 27 0.42
22 17 0.26
23 6 0.09
24 2 0.03
25 13 0.20
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGAGAATCTTTGAGACTTA
Found at i:6057517 original size:19 final size:19
Alignment explanation
Indices: 6057493--6057546 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
6057483 TTTTAGTAAA
6057493 TTCTTGTGAAGCTGAAAGG
1 TTCTTGTGAAGCTGAAAGG
6057512 TTCTTGTGAAGCTGAAAGG
1 TTCTTGTGAAGCTGAAAGG
* *
6057531 TTCTTATGAATCTGAA
1 TTCTTGTGAAGCTGAA
6057547 CCTTTGGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (19 bp):
TTCTTGTGAAGCTGAAAGG
Found at i:6057715 original size:42 final size:41
Alignment explanation
Indices: 6057645--6057867 Score: 248
Period size: 41 Copynumber: 5.4 Consensus size: 41
6057635 CAAAGAGCCT
* * * *
6057645 TTTATTTTTTCAAAGTTGTGTTACCTCTGTTTAGATGAGCAA
1 TTTA-TTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAA
* * *
6057687 TTTATTTTTTCAAAGTTATGGTGTCTCTGTTTAGAGAAGCAT
1 TTTA-TTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAA
* * *
6057729 TTTAGTTTTTCAAAGTTGTGGTGCCTTTGTTTAAAGGAGCAA
1 TTTA-TTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAA
* * *
6057771 TTTACTTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAT
1 TTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAA
* * * * *
6057812 TTTACTTTTCAAAGTTATGGTGCCTCTGCTTAAAGGAACAT
1 TTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAA
*
6057853 TTTATTTCTCAAAGT
1 TTTATTTTTCAAAGT
6057868 CATTGAGCCT
Statistics
Matches: 155, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 81 0.52
42 74 0.48
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAA
Found at i:6057879 original size:41 final size:42
Alignment explanation
Indices: 6057639--6057867 Score: 212
Period size: 42 Copynumber: 5.5 Consensus size: 42
6057629 GATTGTCAAA
* * * * * * * * *
6057639 GAGCCTTTTATTTTTTCAAAGTTGTGTTACCTCTGTTTAGAT
1 GAGCATTTTACTTTCTCAAAGTTATGGTGCCTCTGCTTAAAG
* * * * * *
6057681 GAGCAATTTATTTTTTCAAAGTTATGGTGTCTCTGTTTAGAG
1 GAGCATTTTACTTTCTCAAAGTTATGGTGCCTCTGCTTAAAG
* * * * * *
6057723 AAGCATTTTAGTTTTTCAAAGTTGTGGTGCCTTTGTTTAAAG
1 GAGCATTTTACTTTCTCAAAGTTATGGTGCCTCTGCTTAAAG
* * *
6057765 GAGCAATTTACTTTC-CAAAGTTATGGTGCCTCTGTTTAGAG
1 GAGCATTTTACTTTCTCAAAGTTATGGTGCCTCTGCTTAAAG
6057806 GAGCATTTTACTTT-TCAAAGTTATGGTGCCTCTGCTTAAAG
1 GAGCATTTTACTTTCTCAAAGTTATGGTGCCTCTGCTTAAAG
*
6057847 GAACATTTTA-TTTCTCAAAGT
1 GAGCATTTTACTTTCTCAAAGT
6057868 CATTGAGCCT
Statistics
Matches: 160, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.02
41 76 0.47
42 81 0.51
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (42 bp):
GAGCATTTTACTTTCTCAAAGTTATGGTGCCTCTGCTTAAAG
Found at i:6058653 original size:26 final size:26
Alignment explanation
Indices: 6058603--6058656 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
6058593 AATGATGGAA
*
6058603 TTTATAAAAATTTCGAATGGTAAATT
1 TTTATAAAAATTTCGAATGGGAAATT
6058629 TTTAT-AAAATTTC-AATGTGAGAAATT
1 TTTATAAAAATTTCGAATG-G-GAAATT
6058655 TT
1 TT
6058657 GTCTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 9 0.36
26 12 0.48
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (26 bp):
TTTATAAAAATTTCGAATGGGAAATT
Found at i:6058754 original size:19 final size:20
Alignment explanation
Indices: 6058726--6058763 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6058716 ATTTATTTTC
6058726 AAACAAAAAAATA-AAAAAA
1 AAACAAAAAAATATAAAAAA
*
6058745 AAACATAAAAATATAAAAA
1 AAACAAAAAAATATAAAAA
6058764 TTTTTGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (20 bp):
AAACAAAAAAATATAAAAAA
Found at i:6059913 original size:44 final size:44
Alignment explanation
Indices: 6059863--6059974 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 44
6059853 ATAATTTACT
6059863 ATTATCAATTAATTACTATTAAATTGA-AACTAATTTATTATTAA
1 ATTATCAATTAATTACTATTAAATT-ATAACTAATTTATTATTAA
* **
6059907 ATTATC-ATTAATGTACTATTAAGTTATCCCTAATTTATTATTAA
1 ATTATCAATTAAT-TACTATTAAATTATAACTAATTTATTATTAA
* *
6059951 GTTATCAA-TAATTAACTACTAAAT
1 ATTATCAATTAATT-ACTATTAAAT
6059975 GATTATTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
43 8 0.14
44 49 0.84
45 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.45
Consensus pattern (44 bp):
ATTATCAATTAATTACTATTAAATTATAACTAATTTATTATTAA
Found at i:6059918 original size:22 final size:22
Alignment explanation
Indices: 6059812--6059974 Score: 88
Period size: 22 Copynumber: 7.6 Consensus size: 22
6059802 GTTTTCAATC
* * * *
6059812 ATTTACTACTAATTTATAATTG
1 ATTTACTATTAAATTATCATTA
* *
6059834 ATTTACTATTAAGTTAGTTA-TA
1 ATTTACTATTAAATTA-TCATTA
*
6059856 ATTTACTATT--ATCA--ATTA
1 ATTTACTATTAAATTATCATTA
* *
6059874 A-TTACTATTAAATTGA-AACTA
1 ATTTACTATTAAATT-ATCATTA
*
6059895 ATTTATTATTAAATTATCATTA
1 ATTTACTATTAAATTATCATTA
* * **
6059917 ATGTACTATTAAGTTATCCCTA
1 ATTTACTATTAAATTATCATTA
* * *
6059939 ATTTATTATTAAGTTATCAATA
1 ATTTACTATTAAATTATCATTA
* *
6059961 ATTAACTACTAAAT
1 ATTTACTATTAAAT
6059975 GATTATTTAT
Statistics
Matches: 109, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
17 9 0.08
18 3 0.03
19 2 0.02
20 3 0.03
21 5 0.05
22 85 0.78
23 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTA
Found at i:6062027 original size:27 final size:27
Alignment explanation
Indices: 6061974--6062035 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
6061964 TTGACATAAA
* * *
6061974 AATAATTTAATAAAATTTCAATTATTT
1 AATAATTTTATAAAATTTAAATAATTT
6062001 AATAATTTTAT-AAATGTTAAATAATTT
1 AATAATTTTATAAAAT-TTAAATAATTT
6062028 AA-AATTTT
1 AATAATTTT
6062036 TATTAAATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
AATAATTTTATAAAATTTAAATAATTT
Found at i:6062186 original size:21 final size:21
Alignment explanation
Indices: 6062162--6062201 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6062152 ATTTCTTCGC
6062162 TATAATAAGTAATCTTACTGT
1 TATAATAAGTAATCTTACTGT
* *
6062183 TATAGTAATTAATCTTACT
1 TATAATAAGTAATCTTACT
6062202 TTTACTATTA
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:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
TATAATAAGTAATCTTACTGT
Found at i:6063232 original size:17 final size:17
Alignment explanation
Indices: 6063190--6063238 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
6063180 ATTGAAAGTT
* *
6063190 TAAATTTTTGTT-TACT
1 TAAATTTTTATTATACA
*
6063206 TAAAAATTTTATTATACA
1 T-AAATTTTTATTATACA
6063224 TAAATTTTTATTATA
1 TAAATTTTTATTATA
6063239 TAAAAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 22 0.81
18 4 0.15
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (17 bp):
TAAATTTTTATTATACA
Found at i:6063245 original size:17 final size:17
Alignment explanation
Indices: 6063206--6063245 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6063196 TTTGTTTACT
6063206 TAAAAA-TTTTATTATA
1 TAAAAATTTTTATTATA
* *
6063222 CATAAATTTTTATTATA
1 TAAAAATTTTTATTATA
6063239 TAAAAAT
1 TAAAAAT
6063246 ATTAAAATAC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAAATTTTTATTATA
Found at i:6064738 original size:63 final size:64
Alignment explanation
Indices: 6064665--6064790 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 64
6064655 TATTAATTTG
* * *
6064665 AAATTATATAAAAATATTTAAATCGATCACTATTAATACTTTTAAAATTTATATTTTTATATAA
1 AAATTATATAAAAATATTTAAATCGAGCACTATTAATACTTTTAAAATTTACATATTTATATAA
* * * *
6064729 AAATT-TATAAAAATATTTAAATTGGGCATTATTAATACTTTTAAGATTTACATATTTATATA
1 AAATTATATAAAAATATTTAAATCGAGCACTATTAATACTTTTAAAATTTACATATTTATATA
6064791 TAGACTATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
63 50 0.91
64 5 0.09
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (64 bp):
AAATTATATAAAAATATTTAAATCGAGCACTATTAATACTTTTAAAATTTACATATTTATATAA
Found at i:6073302 original size:18 final size:18
Alignment explanation
Indices: 6073279--6073324 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
6073269 TTTAAGGATG
6073279 ATACATTTGTGGTGGGAA
1 ATACATTTGTGGTGGGAA
* * *
6073297 ATACATTTATTGTGGGAG
1 ATACATTTGTGGTGGGAA
6073315 ATACATTTGT
1 ATACATTTGT
6073325 AATGAAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (18 bp):
ATACATTTGTGGTGGGAA
Found at i:6076722 original size:29 final size:29
Alignment explanation
Indices: 6076667--6076725 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
6076657 TACCTAAACA
* **
6076667 AAAAAATTATTAAATTTAAAATACAAAAT
1 AAAAAATTAGTAAATACAAAATACAAAAT
6076696 AAAAAATTAGTAAATAACAAAAT-CAAAAT
1 AAAAAATTAGTAAAT-ACAAAATACAAAAT
6076725 A
1 A
6076726 TAATATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (29 bp):
AAAAAATTAGTAAATACAAAATACAAAAT
Found at i:6076892 original size:16 final size:16
Alignment explanation
Indices: 6076873--6076905 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6076863 TTTTATTTTA
*
6076873 AAAAATTTTTAAAATT
1 AAAAATTTTGAAAATT
6076889 AAAAATTTTGAAAATT
1 AAAAATTTTGAAAATT
6076905 A
1 A
6076906 TATTTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAAATTTTGAAAATT
Found at i:6081798 original size:18 final size:19
Alignment explanation
Indices: 6081770--6081809 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6081760 CTTGATTTTT
* *
6081770 TTTGCTTTTTTTTTTATGG
1 TTTGCTTTTTTGTTAATGG
6081789 TTTG-TTTTTTGTTAATGG
1 TTTGCTTTTTTGTTAATGG
6081807 TTT
1 TTT
6081810 TCTGTTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.07, C:0.03, G:0.17, T:0.72
Consensus pattern (19 bp):
TTTGCTTTTTTGTTAATGG
Found at i:6086316 original size:23 final size:23
Alignment explanation
Indices: 6086282--6086329 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
6086272 TTTAGTTATT
6086282 TTAAAAAATATATCTTGGA-AAA
1 TTAAAAAATATATCTTGGATAAA
*
6086304 TTAACAAAATATATTTTGGATAAA
1 TTAA-AAAATATATCTTGGATAAA
6086328 TT
1 TT
6086330 TGTATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 14 0.61
24 5 0.22
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (23 bp):
TTAAAAAATATATCTTGGATAAA
Found at i:6090293 original size:46 final size:46
Alignment explanation
Indices: 6090241--6090334 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
6090231 AGACAGAGAT
* * *
6090241 TGTGTGAACCCTTTTATACTCCAGTGACTTCCTATTATGTTCGATA
1 TGTGTGAACCCTTTTATACTCCAGTAACCTCCTATTATATTCGATA
6090287 TGTGTGAACCCTTTTATACTCCAGTAACCTCCTATTATATTCGATA
1 TGTGTGAACCCTTTTATACTCCAGTAACCTCCTATTATATTCGATA
6090333 TG
1 TG
6090335 GGATTCAGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (46 bp):
TGTGTGAACCCTTTTATACTCCAGTAACCTCCTATTATATTCGATA
Found at i:6090753 original size:49 final size:49
Alignment explanation
Indices: 6090693--6090790 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
6090683 CCCTCTTATT
*
6090693 ATGTTCGATGTGGGATTAAGGACTCTTCTTTAAGTCCGTGACATTCTCC
1 ATGTTCGATGTGGGATTAAGGACTCTTCCTTAAGTCCGTGACATTCTCC
6090742 ATGTTCGATGTGGGATTAAGGACTCTTCCTTAAGTCCGTGACATTCTCC
1 ATGTTCGATGTGGGATTAAGGACTCTTCCTTAAGTCCGTGACATTCTCC
6090791 CCCACCCAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (49 bp):
ATGTTCGATGTGGGATTAAGGACTCTTCCTTAAGTCCGTGACATTCTCC
Found at i:6093872 original size:218 final size:220
Alignment explanation
Indices: 6093489--6093910 Score: 575
Period size: 218 Copynumber: 1.9 Consensus size: 220
6093479 TAAAAATTTA
*
6093489 TAATATTTAATATAAAATCTATTTACTAAATATATATAAATATATAAAGATGGGTACACATATTA
1 TAATATTTAATATAAAATCTATTTACTAAATATATATAAATATAT--A-ATGCGTACACATATTA
* * *
6093554 TATTACCTGCCTCTATATCCTTATACCCTTACTTTTACTAAATTATAGTTATCCCCATCCCCTTT
63 TATTACATGCCTCTATATCCTCATACCCTTACTTTTACTAAATTATAGTTATCCCCATCCCATTT
* *
6093619 TTCAAAATTCAATATCTATCATCATTTCATTAGAATAAAAAATTAAATTTTTCATCAAATATAAA
128 CTCAAAATTCAATATCTATCATCATTTCATTAGAATAAAAAATCAAATTTTTCATCAAATATAAA
6093684 TAAGATTGATATCTTTAATCGCTGTCAT
193 TAAGATTGATATCTTTAATCGCTGTCAT
* * *
6093712 TAATATTTAATATAAAATTTATTTATTAAATATATATAAATA-AGT-ATGCG-ACAGATATTATA
1 TAATATTTAATATAAAATCTATTTACTAAATATATATAAATATA-TAATGCGTACACATATTATA
* * * * **
6093774 TTACATGTCTCTATATCCTCATACCCTTACTTTTATTAAATTATATTTATCTCCAT-TTATTTCC
65 TTACATGCCTCTATATCCTCATACCCTTACTTTTACTAAATTATAGTTATCCCCATCCCATTT-C
* * * * *
6093838 TCAAAATTTAATATCTAT-AGTCTTTTCATTAGAATAAAAAATCAGATTTTTTATCAAATGTAAA
129 TCAAAATTCAATATCTATCA-TCATTTCATTAGAATAAAAAATCAAATTTTTCATCAAATATAAA
6093902 TAAGATTGA
193 TAAGATTGA
6093911 CGTCCTTATT
Statistics
Matches: 176, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
217 4 0.02
218 126 0.72
219 4 0.02
222 1 0.01
223 41 0.23
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (220 bp):
TAATATTTAATATAAAATCTATTTACTAAATATATATAAATATATAATGCGTACACATATTATAT
TACATGCCTCTATATCCTCATACCCTTACTTTTACTAAATTATAGTTATCCCCATCCCATTTCTC
AAAATTCAATATCTATCATCATTTCATTAGAATAAAAAATCAAATTTTTCATCAAATATAAATAA
GATTGATATCTTTAATCGCTGTCAT
Found at i:6098520 original size:145 final size:145
Alignment explanation
Indices: 6098257--6098543 Score: 538
Period size: 145 Copynumber: 2.0 Consensus size: 145
6098247 ATAAAGGCTG
* *
6098257 GCCACCTTGCCTACCTCCCTTGAGCCGCTTGACGTGAATTGAACAATTTAGGACTGGCTTTAATA
1 GCCACCTTGCCTACCTCCCTTGAGCCGCTTGACGTGAATTGAACAATTTAAGACTGGCTCTAATA
*
6098322 CCACTTATCATGCCGAGACTTACTTAAGTTCCAACCTCGTGATGCCATCATCATAAAGGCTCGCC
66 CCACTTATCATGCCGAGACTTACTTAAGTTCCAACCTCGCGATGCCATCATCATAAAGGCTCGCC
6098387 ACCCTGCCTGCCCCT
131 ACCCTGCCTGCCCCT
6098402 GCCACCTTGCCTACCTCCCTTGAGCCGCTTGACGTGAATTGAACAATTTAAGACTGGCTCTAATA
1 GCCACCTTGCCTACCTCCCTTGAGCCGCTTGACGTGAATTGAACAATTTAAGACTGGCTCTAATA
6098467 CCACTTATCATGCCGAGACTTACTTAAGTTCCAACCTCGCGATGCCATCATCATAAAGGCTCGCC
66 CCACTTATCATGCCGAGACTTACTTAAGTTCCAACCTCGCGATGCCATCATCATAAAGGCTCGCC
*
6098532 ACCTTGCCTGCC
131 ACCCTGCCTGCC
6098544 TTCCTCGAGG
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 138 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.26
Consensus pattern (145 bp):
GCCACCTTGCCTACCTCCCTTGAGCCGCTTGACGTGAATTGAACAATTTAAGACTGGCTCTAATA
CCACTTATCATGCCGAGACTTACTTAAGTTCCAACCTCGCGATGCCATCATCATAAAGGCTCGCC
ACCCTGCCTGCCCCT
Found at i:6098622 original size:57 final size:57
Alignment explanation
Indices: 6098522--6098640 Score: 186
Period size: 57 Copynumber: 2.1 Consensus size: 57
6098512 CATCATCATA
* * *
6098522 AAGGCTCGC-CACCTTGCCTGCCTTCCTCGAGGGGCTTAACGTGGATTGAACGATTT
1 AAGGCTGGCTCACCCTGCCTGCCTCCCTCGAGGGGCTTAACGTGGATTGAACGATTT
* *
6098578 AGGGCTGGCTCACCCTGCCTGCCTCCCTCGAGGGGCTTCACGTGGATTGAACGATTT
1 AAGGCTGGCTCACCCTGCCTGCCTCCCTCGAGGGGCTTAACGTGGATTGAACGATTT
6098635 AAGGCT
1 AAGGCT
6098641 AGTTGAACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
56 7 0.12
57 49 0.88
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.25
Consensus pattern (57 bp):
AAGGCTGGCTCACCCTGCCTGCCTCCCTCGAGGGGCTTAACGTGGATTGAACGATTT
Found at i:6100295 original size:40 final size:40
Alignment explanation
Indices: 6100249--6100328 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
6100239 GAAAAACAGG
*
6100249 AGGAACAAGCAATCTTAACAATTGGAGTTTTAAACAATCA
1 AGGAACAAGCAATCTTAACAATTGAAGTTTTAAACAATCA
6100289 AGGAACAAGCAATCTTAACAATTGAAGTTTTAAACAATCA
1 AGGAACAAGCAATCTTAACAATTGAAGTTTTAAACAATCA
6100329 CATTCTCAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (40 bp):
AGGAACAAGCAATCTTAACAATTGAAGTTTTAAACAATCA
Found at i:6101947 original size:22 final size:22
Alignment explanation
Indices: 6101919--6101962 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6101909 ATTTTTTGTC
6101919 CTTAATTATAGGGATACAAATA
1 CTTAATTATAGGGATACAAATA
*
6101941 CTTAATTCTAGGGATACAAATA
1 CTTAATTATAGGGATACAAATA
6101963 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (22 bp):
CTTAATTATAGGGATACAAATA
Found at i:6105641 original size:25 final size:25
Alignment explanation
Indices: 6105604--6105698 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
6105594 TTTGAAAGGG
*
6105604 TTCGGCAATGAAGACCTAAACAAGA
1 TTCGGCAATGAAGACCTAAACAGGA
*
6105629 TTTGGCAATGAAGACCTAAACAGGA
1 TTCGGCAATGAAGACCTAAACAGGA
* *
6105654 TTCGGCAATGAAAACCTAAATAGGA
1 TTCGGCAATGAAGACCTAAACAGGA
*
6105679 TTCGGCAATGAAGGCCTAAA
1 TTCGGCAATGAAGACCTAAA
6105699 AAAGTCAGCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (25 bp):
TTCGGCAATGAAGACCTAAACAGGA
Found at i:6107634 original size:4 final size:4
Alignment explanation
Indices: 6107625--6107650 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6107615 AAGTAGCGGT
6107625 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
6107651 TGTTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:6108938 original size:16 final size:16
Alignment explanation
Indices: 6108919--6108971 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
6108909 ACCTTTATTA
6108919 AATTATATATTAAATT
1 AATTATATATTAAATT
6108935 AATTATATA--AAACTT
1 AATTATATATTAAA-TT
* *
6108950 AACTATCTATTAAATT
1 AATTATATATTAAATT
6108966 -ATTATA
1 AATTATA
6108972 GTAACCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 13 0.43
16 11 0.37
17 3 0.10
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATATATTAAATT
Found at i:6109633 original size:12 final size:12
Alignment explanation
Indices: 6109618--6109678 Score: 70
Period size: 12 Copynumber: 4.8 Consensus size: 12
6109608 TTTAATAATT
6109618 TATTTAATTTTA
1 TATTTAATTTTA
6109630 TATTTAATTTTA
1 TATTTAATTTTA
*
6109642 TATATT-TTTATATA
1 TAT-TTAATT-T-TA
6109656 TATTTAATTTTA
1 TATTTAATTTTA
6109668 TATTTATATTT
1 TATTTA-ATTT
6109679 AAAATAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
12 25 0.60
13 10 0.24
14 7 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTAATTTTA
Found at i:6109650 original size:22 final size:22
Alignment explanation
Indices: 6109616--6109680 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
6109606 TTTTTAATAA
*
6109616 TTTATTTAATTTTATATTTAAT
1 TTTATTTATTTTTATATTTAAT
* *
6109638 TTTATATATTTTTATATAT-AT
1 TTTATTTATTTTTATATTTAAT
* *
6109659 TTAATTTTATATTTATATTTAA
1 TTTA-TTTATTTTTATATTTAA
6109681 AATAATATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 5 0.15
22 28 0.82
23 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTATTTATTTTTATATTTAAT
Found at i:6111354 original size:14 final size:14
Alignment explanation
Indices: 6111329--6111370 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
6111319 TTTGATCCAA
6111329 AATTA-ATAAATAT
1 AATTATATAAATAT
* * *
6111342 TATTTTTTAAATAT
1 AATTATATAAATAT
6111356 AATTATATAAATAT
1 AATTATATAAATAT
6111370 A
1 A
6111371 TATAAATAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTATATAAATAT
Found at i:6111671 original size:23 final size:23
Alignment explanation
Indices: 6111628--6111672 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6111618 CCAGATTAGG
**
6111628 TTTGTTGGTGGGGAATGTGGCCC
1 TTTGTTGGTGGGGAAAATGGCCC
6111651 TTTGATTGGT-GGGAAAATGGCC
1 TTTG-TTGGTGGGGAAAATGGCC
6111673 AATTCGGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.16, C:0.11, G:0.40, T:0.33
Consensus pattern (23 bp):
TTTGTTGGTGGGGAAAATGGCCC
Found at i:6119569 original size:2 final size:2
Alignment explanation
Indices: 6119557--6119586 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6119547 AAACATCAAA
6119557 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6119587 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6129045 original size:2 final size:2
Alignment explanation
Indices: 6129038--6129075 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6129028 TGCTCTGCAA
6129038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6129076 TACAATCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6136849 original size:7 final size:7
Alignment explanation
Indices: 6136837--6136865 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6136827 TTTGAAAGTT
6136837 TAAATTA
1 TAAATTA
6136844 TAAATTA
1 TAAATTA
6136851 TAAATTA
1 TAAATTA
6136858 TAAATTA
1 TAAATTA
6136865 T
1 T
6136866 TTTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAATTA
Found at i:6142084 original size:39 final size:39
Alignment explanation
Indices: 6142030--6142108 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
6142020 ATTTAAGGCC
6142030 AAGTAAATACTAACCAGATAACCTCGAAAAGCGGACTGT
1 AAGTAAATACTAACCAGATAACCTCGAAAAGCGGACTGT
6142069 AAGTAAATACTAACCAGATAACCTCGAAAAGCGGACTGT
1 AAGTAAATACTAACCAGATAACCTCGAAAAGCGGACTGT
6142108 A
1 A
6142109 TCCTAACAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (39 bp):
AAGTAAATACTAACCAGATAACCTCGAAAAGCGGACTGT
Found at i:6143285 original size:23 final size:24
Alignment explanation
Indices: 6143239--6143288 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6143229 GTATATTAAA
**
6143239 TAATTTTTTATTTAATTAAAAAAT
1 TAATTTTTTATACAATTAAAAAAT
6143263 TAATTTTTTATACAATT-AAAAAT
1 TAATTTTTTATACAATTAAAAAAT
6143286 TAA
1 TAA
6143289 AAAAATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATTTTTTATACAATTAAAAAAT
Found at i:6146157 original size:20 final size:20
Alignment explanation
Indices: 6146132--6146172 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6146122 AGCACAACAG
6146132 TCTCATTTCCCTTTTTACTC
1 TCTCATTTCCCTTTTTACTC
6146152 TCTCATTTCCCTTTTTACTC
1 TCTCATTTCCCTTTTTACTC
6146172 T
1 T
6146173 GTGCTCTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.34, G:0.00, T:0.56
Consensus pattern (20 bp):
TCTCATTTCCCTTTTTACTC
Found at i:6167050 original size:10 final size:10
Alignment explanation
Indices: 6167037--6167066 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
6167027 ACTTAAATTG
6167037 ATATTATATA
1 ATATTATATA
6167047 ATATTATATA
1 ATATTATATA
6167057 ATATTATATA
1 ATATTATATA
6167067 TTATAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATTATATA
Found at i:6169350 original size:46 final size:47
Alignment explanation
Indices: 6169298--6169412 Score: 119
Period size: 48 Copynumber: 2.4 Consensus size: 47
6169288 TATAAATTTA
*
6169298 ATATATTTGCATGATATTTTATATTAATTGTTTGATA-ACT-TGTATATT
1 ATATA-TTGCATGATATTTTATATTAATTGTATGATATA-TGT-TATATT
** * *
6169346 ATATTATTGCATGATAACTTGTATTTATTGTATGATATATGTTATATT
1 ATA-TATTGCATGATATTTTATATTAATTGTATGATATATGTTATATT
6169394 AT-TATTGCATGATAATTTT
1 ATATATTGCATGAT-ATTTT
6169413 TGTATGATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
46 11 0.20
47 3 0.05
48 38 0.68
49 4 0.07
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.53
Consensus pattern (47 bp):
ATATATTGCATGATATTTTATATTAATTGTATGATATATGTTATATT
Found at i:6169360 original size:27 final size:27
Alignment explanation
Indices: 6169315--6169373 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
6169305 TGCATGATAT
**
6169315 TTTATATTAATTGTTTGATAACTTGTA
1 TTTATATTAATTGCATGATAACTTGTA
6169342 TATTATATT-ATTGCATGATAACTTGTA
1 T-TTATATTAATTGCATGATAACTTGTA
6169369 TTTAT
1 TTTAT
6169374 TGTATGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 18 0.62
28 7 0.24
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (27 bp):
TTTATATTAATTGCATGATAACTTGTA
Found at i:6170703 original size:21 final size:20
Alignment explanation
Indices: 6170667--6170734 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
6170657 CAATAAAAAT
*
6170667 AAATAAATAATGAAAACTAGTA
1 AAATAAA-AAT-AAAAATAGTA
6170689 AAATAAAAATAAAAAT-GTA
1 AAATAAAAATAAAAATAGTA
* *
6170708 AAAAAAAAACTCAAAATA-TA
1 AAATAAAAA-TAAAAATAGTA
6170728 AAATAAA
1 AAATAAA
6170735 TAAAAATGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 11 0.28
20 19 0.47
21 3 0.08
22 7 0.17
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
AAATAAAAATAAAAATAGTA
Found at i:6170739 original size:28 final size:30
Alignment explanation
Indices: 6170708--6170776 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 30
6170698 TAAAAATGTA
*
6170708 AAAAAAAAACTCAAAATATAAAA-TA-AAT
1 AAAAAAAAACTCAAAAAATAAAATTACAAT
*
6170736 AAAAATGAAA-TCAAAAAATAAAATTACAAT
1 AAAAA-AAAACTCAAAAAATAAAATTACAAT
6170766 AGAAAAAAAAC
1 A-AAAAAAAAC
6170777 CTGCGATCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 17 0.52
29 5 0.15
30 7 0.21
31 4 0.12
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (30 bp):
AAAAAAAAACTCAAAAAATAAAATTACAAT
Found at i:6176101 original size:45 final size:45
Alignment explanation
Indices: 6176037--6176128 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
6176027 ATGATATAAT
6176037 AATTTAAGTTATGAACTTGAAAGAGGAATTAGGGAAAAATCTTAA
1 AATTTAAGTTATGAACTTGAAAGAGGAATTAGGGAAAAATCTTAA
6176082 AATTTAAGTTATGAACTTGAAAGAGGAATTAGGGAAAAATCTTAA
1 AATTTAAGTTATGAACTTGAAAGAGGAATTAGGGAAAAATCTTAA
6176127 AA
1 AA
6176129 GAGGATGGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (45 bp):
AATTTAAGTTATGAACTTGAAAGAGGAATTAGGGAAAAATCTTAA
Found at i:6182354 original size:22 final size:22
Alignment explanation
Indices: 6182329--6182372 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6182319 TGTATATTTA
* *
6182329 TATTTTTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
6182351 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
6182373 AAAGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:6182595 original size:25 final size:24
Alignment explanation
Indices: 6182514--6182607 Score: 124
Period size: 23 Copynumber: 4.0 Consensus size: 24
6182504 GGAAGAAAAA
*
6182514 TTTTTA-GCCTTCATTG-CTG-ACT
1 TTTTTAGGCCTTCATTGTC-GAACC
6182536 TTTTTAGGCCTTCATTGTCG-ACC
1 TTTTTAGGCCTTCATTGTCGAACC
*
6182559 TTTTTAGGCCTTCATTGTCGAATC
1 TTTTTAGGCCTTCATTGTCGAACC
6182583 TTGTTTAGGCCTTCATTGTCGAACC
1 TT-TTTAGGCCTTCATTGTCGAACC
6182608 CTTTCAAAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.09
23 33 0.51
24 5 0.08
25 21 0.32
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (24 bp):
TTTTTAGGCCTTCATTGTCGAACC
Found at i:6182595 original size:48 final size:45
Alignment explanation
Indices: 6182514--6182604 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 45
6182504 GGAAGAAAAA
*
6182514 TTTTTAGCCTTCATTGCTGACTTTTTTAGGCCTTCATTGTCGACC
1 TTTTTAGCCTTCATTGCTGACTTGTTTAGGCCTTCATTGTCGACC
6182559 TTTTTAGGCCTTCATTG-TCGAATCTTGTTTAGGCCTTCATTGTCGA
1 TTTTTA-GCCTTCATTGCT-G-A-CTTGTTTAGGCCTTCATTGTCGA
6182605 ACCCTTTCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
45 7 0.17
46 11 0.27
47 1 0.02
48 22 0.54
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (45 bp):
TTTTTAGCCTTCATTGCTGACTTGTTTAGGCCTTCATTGTCGACC
Found at i:6186276 original size:22 final size:22
Alignment explanation
Indices: 6186251--6186294 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6186241 TGTATATTTA
*
6186251 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
6186273 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
6186295 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:6192926 original size:31 final size:31
Alignment explanation
Indices: 6192876--6192934 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
6192866 TAAAAATTTA
* *
6192876 TTTATTATTGAAATGATATCATTTTATTAAT
1 TTTATTAATGAAATAATATCATTTTATTAAT
*
6192907 TTTATTAATGAGATAATATCATTTTATT
1 TTTATTAATGAAATAATATCATTTTATT
6192935 TATCGATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (31 bp):
TTTATTAATGAAATAATATCATTTTATTAAT
Found at i:6194536 original size:24 final size:27
Alignment explanation
Indices: 6194483--6194543 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
6194473 AGGATTAAAT
6194483 TTTTTTATTTTGAAATACAAATTATTTAA
1 TTTTTTATTTT-AAATACAAATTA-TTAA
6194512 TTTTTTATTTT-AATA-AAATTA-TAA
1 TTTTTTATTTTAAATACAAATTATTAA
*
6194536 TTATTTAT
1 TTTTTTAT
6194544 CTCACTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 10 0.32
26 6 0.19
27 4 0.13
29 11 0.35
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTTTATTTTAAATACAAATTATTAA
Found at i:6194899 original size:16 final size:17
Alignment explanation
Indices: 6194873--6194904 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6194863 AAGGGTACTT
6194873 TTGTAATTATAGTAATA
1 TTGTAATTATAGTAATA
6194890 TTGT-ATTATAGTAAT
1 TTGTAATTATAGTAAT
6194905 TTTGATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
TTGTAATTATAGTAATA
Found at i:6194997 original size:122 final size:121
Alignment explanation
Indices: 6194770--6195009 Score: 272
Period size: 122 Copynumber: 2.0 Consensus size: 121
6194760 AATATAAAAG
* * *
6194770 GTATTATAGTAATTTTATTCAATTATAGTATCAAGAATATTTTTGTAAGTATGATATCGAAGTAT
1 GTATTATAGTAATTTTATTCAATCATAGTATCAAGAACATTTTTATAAGTATGATA-CGAAGTAT
* *
6194835 TATAATAATTTTGACCAAATATGATAAAAAGGGTACTTTTGTAATTATAGTAATATT
65 TATAATAATTTTGACCAAATATGAGAAAAAGGATACTTTTGTAATTATAGTAATATT
* * *
6194892 GTATTATAGTAATTTTGA-TCAATCATAGT-TAGAAGGACATTTTTATAATTATGATA-GAAGGG
1 GTATTATAGTAATTTT-ATTCAATCATAGTAT-CAAGAACATTTTTATAAGTATGATACGAA--G
* * * * * *
6194954 TATTATAATAATTTTGGCTAATTATGAG-AAGAGAGATATTTTTGTAATTATGGTAA
62 TATTATAATAATTTTGACCAAATATGAGAAAAAG-GATACTTTTGTAATTATAGTAA
6195010 AAAAGTATTA
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
120 3 0.03
121 5 0.05
122 90 0.91
123 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (121 bp):
GTATTATAGTAATTTTATTCAATCATAGTATCAAGAACATTTTTATAAGTATGATACGAAGTATT
ATAATAATTTTGACCAAATATGAGAAAAAGGATACTTTTGTAATTATAGTAATATT
Found at i:6195304 original size:129 final size:129
Alignment explanation
Indices: 6195115--6195427 Score: 389
Period size: 129 Copynumber: 2.4 Consensus size: 129
6195105 GTTATTTAAC
* * * * *
6195115 ATTTAATA-AGTAATTTAATAGGAG-ATTATAGTAAATTTCAAACAAAATTTCACTTGTCAAATT
1 ATTTAATATA-TAATTTAATAGGGGTATTATAATAAATTTCAAATAAAATATCACATGTCAAATT
* ** * * * * * *
6195178 TTTATGAAGTAATGGCAAGGGTATTTTACTAATTTACTATGT-AGTTAGTTTTATATTATGTTAA
65 TTTATAAAACAATGACAAGGATATTTTAATAATTTAATATGTGA-TTAATTTTATATTATGATAA
6195242 A
129 A
* * *
6195243 ATTTCATATATAATTTAATAGGGGTATTATAATAATTTTTAAATAAAATATCACATGTCAAATTT
1 ATTTAATATATAATTTAATAGGGGTATTATAATAAATTTCAAATAAAATATCACATGTCAAATTT
* * *
6195308 TTATAAAACAATTATAATGATATTTTAATAATTTAATATGTGATTAATTTTATATTATGATAAA
66 TTATAAAACAATGACAAGGATATTTTAATAATTTAATATGTGATTAATTTTATATTATGATAAA
* *
6195372 ATTTAATATATAATTTAATAGAGGTATTATAATAAATTTGAAATAAAATATCACAT
1 ATTTAATATATAATTTAATAGGGGTATTATAATAAATTTCAAATAAAATATCACAT
6195428 ATCATCCTCC
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
128 20 0.13
129 137 0.87
130 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (129 bp):
ATTTAATATATAATTTAATAGGGGTATTATAATAAATTTCAAATAAAATATCACATGTCAAATTT
TTATAAAACAATGACAAGGATATTTTAATAATTTAATATGTGATTAATTTTATATTATGATAAA
Found at i:6195927 original size:60 final size:62
Alignment explanation
Indices: 6195801--6195938 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 62
6195791 ATTCATAAGG
* *
6195801 GTATTTTTATAATTATGATAAAATGGGTATTATAGTAATTTTGATCAATTATGAGAAAAATA
1 GTATTTTTATAATTATGATAAAATGGATATTATAGTAATTTTGATCAATAATGAGAAAAATA
* * *
6195863 -TATTTTTGTAATTATGATAAGA-GGATATTATAGTAATTTT-AGTCAATAAT-A-AGAAATGA
1 GTATTTTTATAATTATGATAAAATGGATATTATAGTAATTTTGA-TCAATAATGAGAAAAAT-A
*
6195922 GTATTTTCATAATTATG
1 GTATTTTTATAATTATG
6195939 GTATAAGGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
58 5 0.08
59 3 0.05
60 38 0.58
61 20 0.30
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (62 bp):
GTATTTTTATAATTATGATAAAATGGATATTATAGTAATTTTGATCAATAATGAGAAAAATA
Found at i:6197000 original size:18 final size:18
Alignment explanation
Indices: 6196957--6197000 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6196947 ATTTAATTAC
6196957 ATATTAAATTACTATAAT
1 ATATTAAATTACTATAAT
* *
6196975 AAAATAAATCTA-TATAAT
1 ATATTAAAT-TACTATAAT
6196993 ATATTAAA
1 ATATTAAA
6197001 GTAATCTCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATTAAATTACTATAAT
Found at i:6199637 original size:2 final size:2
Alignment explanation
Indices: 6199630--6199656 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6199620 TCCCCCTATT
6199630 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
6199657 TGGATGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6207142 original size:3 final size:3
Alignment explanation
Indices: 6207136--6207168 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6207126 TTGTTGTTGT
6207136 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
6207169 AAGTGGGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
TGC
Found at i:6207218 original size:6 final size:6
Alignment explanation
Indices: 6207207--6207231 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6207197 ACTGCAAAAA
6207207 CTGTTG CTGTTG CTGTTG CTGTTG C
1 CTGTTG CTGTTG CTGTTG CTGTTG C
6207232 CTAAGTCTCT
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:0.00, C:0.20, G:0.32, T:0.48
Consensus pattern (6 bp):
CTGTTG
Found at i:6209229 original size:22 final size:24
Alignment explanation
Indices: 6209195--6209251 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
6209185 AAGAATATTA
6209195 ATATATTAATATAAATTATAATTT-T
1 ATATATT--TATAAATTATAATTTAT
*
6209220 ATAT-TTTATAATTTATAATTTAT
1 ATATATTTATAAATTATAATTTAT
6209243 ATATATTTA
1 ATATATTTA
6209252 ACATAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 14 0.48
23 5 0.17
24 6 0.21
25 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATTTATAAATTATAATTTAT
Found at i:6209236 original size:14 final size:15
Alignment explanation
Indices: 6209204--6209243 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
6209194 AATATATTAA
*
6209204 TATAAATTATAATTT
1 TATAATTTATAATTT
*
6209219 TATATTTTATAA-TT
1 TATAATTTATAATTT
6209233 TATAATTTATA
1 TATAATTTATA
6209244 TATATTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAATTTATAATTT
Found at i:6210111 original size:22 final size:21
Alignment explanation
Indices: 6210081--6210146 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
6210071 ATTATATAAA
*
6210081 TTTACTTAAATATATTAAAATT
1 TTTATTTAAATA-ATTAAAATT
*
6210103 TTTATTTAAATAATAAATAAATT
1 TTTATTTAAATAAT-TA-AAATT
* *
6210126 TTT-TTAAAAAAATTAAAATT
1 TTTATTTAAATAATTAAAATT
6210146 T
1 T
6210147 AAAAATCGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 6 0.16
21 3 0.08
22 20 0.54
23 8 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTATTTAAATAATTAAAATT
Found at i:6213440 original size:46 final size:46
Alignment explanation
Indices: 6213369--6213460 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
6213359 ATAGAATCTA
*
6213369 TGACAATCAAGTTTGATAATCAATAATGATTTAGAAATGAAAAAAT
1 TGACAATCAAGTTTAATAATCAATAATGATTTAGAAATGAAAAAAT
*
6213415 TGACAATCAA-TCTTAATAA-CTAATAATGATTTTGAAATGAAAAAAT
1 TGACAATCAAGT-TTAATAATC-AATAATGATTTAGAAATGAAAAAAT
6213461 ACCATTGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
45 2 0.05
46 40 0.95
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.32
Consensus pattern (46 bp):
TGACAATCAAGTTTAATAATCAATAATGATTTAGAAATGAAAAAAT
Found at i:6234193 original size:25 final size:25
Alignment explanation
Indices: 6234162--6234226 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
6234152 AATCGATTTG
6234162 ATTATAATTAATTATTTAAAAAT-A
1 ATTATAATTAATTATTTAAAAATCA
* * **
6234186 TTTGATAATTTATTAAATAAAAATCA
1 ATT-ATAATTAATTATTTAAAAATCA
6234212 ATTA-AATTAATTATT
1 ATTATAATTAATTATT
6234227 AATTTTTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
24 10 0.32
25 18 0.58
26 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTATAATTAATTATTTAAAAATCA
Found at i:6234495 original size:28 final size:28
Alignment explanation
Indices: 6234462--6234520 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
6234452 CATAAAAGGG
*
6234462 ATCCCCTTTCTATCTTTAACCATAAATT
1 ATCCCCTTTCTATCATTAACCATAAATT
*
6234490 ATCCCCTTTCTATCATTAATCATAAATT
1 ATCCCCTTTCTATCATTAACCATAAATT
6234518 ATC
1 ATC
6234521 TATGAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (28 bp):
ATCCCCTTTCTATCATTAACCATAAATT
Found at i:6238591 original size:79 final size:79
Alignment explanation
Indices: 6238460--6238617 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
6238450 TGTTAGGATA
6238460 TGATTGTTTTTACAAGTGTCCCTGATTCCAATTTCAGAAAACCTGCCTTATTTGGTTGCAGTCCC
1 TGATTGTTTTTACAAGTGTCCCTGATTCCAATTTCAGAAAACCTGCCTTATTTGGTTGCAGTCCC
6238525 AATGATTTTAGCCT
66 AATGATTTTAGCCT
*
6238539 TGATTGTTTTTACAAGTGTCCCTGATTCCAATTTCAGAAAACCTGCCTTATTTGGTTGCAGTCTC
1 TGATTGTTTTTACAAGTGTCCCTGATTCCAATTTCAGAAAACCTGCCTTATTTGGTTGCAGTCCC
6238604 AATGATTTTAGCCT
66 AATGATTTTAGCCT
6238618 CCTACTCGAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (79 bp):
TGATTGTTTTTACAAGTGTCCCTGATTCCAATTTCAGAAAACCTGCCTTATTTGGTTGCAGTCCC
AATGATTTTAGCCT
Found at i:6244099 original size:6 final size:7
Alignment explanation
Indices: 6244080--6244146 Score: 55
Period size: 7 Copynumber: 9.1 Consensus size: 7
6244070 ATGAAAAATA
6244080 TATTTTT
1 TATTTTT
6244087 TATTTTT
1 TATTTTT
6244094 TATTTTT
1 TATTTTT
6244101 TATCTTTT
1 TAT-TTTT
* *
6244109 AAGGTTTT
1 TA-TTTTT
*
6244117 T-TTATT
1 TATTTTT
6244123 TATTCTTT
1 TATT-TTT
*
6244131 TATTTAT
1 TATTTTT
6244138 TATTCTTT
1 TATT-TTT
6244146 T
1 T
6244147 TGTTTTCCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
6 4 0.09
7 25 0.53
8 18 0.38
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.76
Consensus pattern (7 bp):
TATTTTT
Found at i:6244131 original size:15 final size:14
Alignment explanation
Indices: 6244113--6244147 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
6244103 TCTTTTAAGG
6244113 TTTTTTTATTTATTC
1 TTTTTTTA-TTATTC
6244128 TTTTATTTATTATTC
1 TTTT-TTTATTATTC
6244143 TTTTT
1 TTTTT
6244148 GTTTTCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 14 0.74
16 4 0.21
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTATTATTC
Found at i:6244234 original size:18 final size:18
Alignment explanation
Indices: 6244201--6244263 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
6244191 AAATGCAAAT
* *
6244201 AAATAAAAACCAAAAAAA
1 AAATAAAAACTAAAATAA
6244219 AAATAAAAACTTAAAATAA
1 AAATAAAAAC-TAAAATAA
6244238 TGAAAT-AAAA-TAAAATAA
1 --AAATAAAAACTAAAATAA
6244256 AAATAAAA
1 AAATAAAA
6244264 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 4 0.10
17 3 0.08
18 18 0.46
19 6 0.15
20 4 0.10
21 4 0.10
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.16
Consensus pattern (18 bp):
AAATAAAAACTAAAATAA
Found at i:6244250 original size:5 final size:5
Alignment explanation
Indices: 6244240--6244283 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
6244230 TAAAATAATG
6244240 AAATA AAATA AAATAA AAATA AAAT- AAA-A AAATA AAATGA AAAT
1 AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA AAAT-A AAAT
6244284 GGAAAAGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.17
5 19 0.54
6 10 0.29
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:6244261 original size:16 final size:17
Alignment explanation
Indices: 6244230--6244268 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
6244220 AATAAAAACT
6244230 TAAAATAATGAAATAAAA
1 TAAAATAA-GAAATAAAA
6244248 TAAAATAA-AAATAAAA
1 TAAAATAAGAAATAAAA
6244264 TAAAA
1 TAAAA
6244269 AAATAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
18 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAATAAGAAATAAAA
Found at i:6244272 original size:13 final size:13
Alignment explanation
Indices: 6244212--6244282 Score: 63
Period size: 13 Copynumber: 5.2 Consensus size: 13
6244202 AATAAAAACC
6244212 AAAAAA-AAAATA
1 AAAAAATAAAATA
**
6244224 AAAACTTAAAATA
1 AAAAAATAAAATA
**
6244237 ATGAAATAAAATAAA
1 AAAAAATAAAAT--A
6244252 ATAAAAATAAAATA
1 A-AAAAATAAAATA
6244266 AAAAAATAAAATGA
1 AAAAAATAAAAT-A
6244280 AAA
1 AAA
6244283 TGGAAAAGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
12 4 0.09
13 25 0.54
14 6 0.13
15 2 0.04
16 9 0.20
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:6244282 original size:11 final size:11
Alignment explanation
Indices: 6244240--6244283 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
6244230 TAAAATAATG
6244240 AAAT-AAAATA
1 AAATAAAAATA
6244250 AAATAAAAATA
1 AAATAAAAATA
6244261 AAATAAAAAAATA
1 AAAT--AAAAATA
*
6244274 AAATGAAAAT
1 AAATAAAAAT
6244284 GGAAAAGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 4 0.13
11 15 0.50
13 11 0.37
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:6244289 original size:19 final size:19
Alignment explanation
Indices: 6244212--6244276 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
6244202 AATAAAAACC
* **
6244212 AAAAAAAAAATAAAAACTT
1 AAAAATAAAATAAAAAAAT
*
6244231 AAAATAATGAAATAAAATAAAAT
1 -AAA-AATAAAAT-AAA-AAAAT
6244254 AAAAATAAAATAAAAAAAT
1 AAAAATAAAATAAAAAAAT
6244273 AAAA
1 AAAA
6244277 TGAAAATGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 9 0.24
20 6 0.16
21 13 0.35
22 6 0.16
23 3 0.08
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAATAAAATAAAAAAAT
Found at i:6244579 original size:51 final size:51
Alignment explanation
Indices: 6244491--6244587 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
6244481 AACACCCATT
* ***
6244491 GAAAATTTCAATCAAAAATTGAAAAATCCATTGATTTCTGAAAAAATCGTGA
1 GAAAATTTCAACCAAAAATTGAAAAATCCACCAATTTCT-AAAAAATCGTGA
6244543 GAAAA-TTCAACCAAAAATTGAAAAATCCACCAATTTCTAAAAAAT
1 GAAAATTTCAACCAAAAATTGAAAAATCCACCAATTTCTAAAAAAT
6244588 TGGCCCAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 7 0.17
51 29 0.71
52 5 0.12
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.26
Consensus pattern (51 bp):
GAAAATTTCAACCAAAAATTGAAAAATCCACCAATTTCTAAAAAATCGTGA
Found at i:6245088 original size:5 final size:5
Alignment explanation
Indices: 6245080--6245131 Score: 68
Period size: 5 Copynumber: 10.2 Consensus size: 5
6245070 AAATAAAAAA
* * *
6245080 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAAA ATAAT AAAAT AAAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT
6245131 A
1 A
6245132 ATACTATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 38 0.90
6 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
ATAAT
Found at i:6245114 original size:31 final size:31
Alignment explanation
Indices: 6245071--6245131 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
6245061 ATAAATAAAA
* *
6245071 AATAAAAAAATAATATAATATAATATAATAT
1 AATAAAAAAATAATAAAATAAAATATAATAT
*
6245102 AATATAAAAATAATAAAATAAAATATAATA
1 AATAAAAAAATAATAAAATAAAATATAATA
6245132 ATACTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (31 bp):
AATAAAAAAATAATAAAATAAAATATAATAT
Found at i:6245132 original size:10 final size:10
Alignment explanation
Indices: 6245058--6245131 Score: 64
Period size: 10 Copynumber: 7.6 Consensus size: 10
6245048 ATTATGCAAA
6245058 AAAATA-AAT
1 AAAATATAAT
*
6245067 AAAAAATAA-
1 AAAATATAAT
6245076 AAAA-ATAAT
1 AAAATATAAT
*
6245085 ATAATATAAT
1 AAAATATAAT
*
6245095 ATAATATAAT
1 AAAATATAAT
*
6245105 ATAAAAATAAT
1 A-AAATATAAT
*
6245116 AAAATAAAAT
1 AAAATATAAT
*
6245126 ATAATA
1 AAAATA
6245132 ATACTATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
8 4 0.07
9 12 0.22
10 30 0.56
11 8 0.15
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATATAAT
Found at i:6245133 original size:39 final size:37
Alignment explanation
Indices: 6245060--6245134 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 37
6245050 TATGCAAAAA
*
6245060 AATAAATAAAAAATAAAAAAATAATATAATATAATAT
1 AATAAATAAAAAATAAAAAAATAAAATAATATAATAT
*
6245097 AATATAATATAAAAATAATAAAATAAAAT-ATAATAATA
1 AATA-AATA-AAAAATAAAAAAATAAAATAAT-ATAATA
6245135 CTATTAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 4 0.12
38 6 0.18
39 23 0.70
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (37 bp):
AATAAATAAAAAATAAAAAAATAAAATAATATAATAT
Found at i:6245134 original size:21 final size:21
Alignment explanation
Indices: 6245058--6245134 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
6245048 ATTATGCAAA
6245058 AAAAT-AAATA-AAAAATAA-
1 AAAATAAAATATAAAAATAAT
* *
6245076 AAAA-ATAATAT-AATATAAT
1 AAAATAAAATATAAAAATAAT
* *
6245095 ATAATATAATATAAAAATAAT
1 AAAATAAAATATAAAAATAAT
*
6245116 AAAATAAAATATAATAATA
1 AAAATAAAATATAAAAATA
6245135 CTATTAATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
18 14 0.30
19 3 0.06
20 7 0.15
21 23 0.49
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATAAAATATAAAAATAAT
Found at i:6245496 original size:121 final size:120
Alignment explanation
Indices: 6245322--6245648 Score: 336
Period size: 121 Copynumber: 2.7 Consensus size: 120
6245312 TGATTTGGAT
* * * * ** *
6245322 TGAGTTGAGATCGAATGATCGAGATAAAATCACGAGTCTAAAAGATAAAGCGATTAGGACTGAGT
1 TGAGCTGAGATCGAATGACCAAGACAAAATCGTGAAT-TAAAAGATAAAGCGATTAGGACTGAGT
* * * * ** *
6245387 CGAGGTAAAAGATGAATGATCGGAATGAAATTACGAGTTAAAAAAATAATCT-AGAC
65 TGAGGTCAAAGATGAATGACCGAAACAAAATTACGAGTCAAAAAAATAATCTGA-AC
*
6245443 TGAGCTGAGATCGGATGACCAAGACAAAATCGT-AAGTTTAAAAGATAAAGCGATTAGGA-TAGA
1 TGAGCTGAGATCGAATGACCAAGACAAAATCGTGAA--TTAAAAGATAAAGCGATTAGGACT-GA
* * * ** *
6245506 GTTAAGGTCAAAGATAAATAACCGAAACAAAATTGTGAGTCAAAAAAATGATCTGAAC
63 GTTGAGGTCAAAGATGAATGACCGAAACAAAATTACGAGTCAAAAAAATAATCTGAAC
* * ** *
6245564 TGCGCTGAGATCGAATGACCAAGACGAAATCGTGAATCGAAAGATAAAGTGATTAGGACTGAGTT
1 TGAGCTGAGATCGAATGACCAAGACAAAATCGTGAATTAAAAGATAAAGCGATTAGGACTGAGTT
* *
6245629 GAGATCGAAGATGAATGACC
66 GAGGTCAAAGATGAATGACC
6245649 ATGATGAAAT
Statistics
Matches: 168, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
120 41 0.24
121 123 0.73
122 4 0.02
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (120 bp):
TGAGCTGAGATCGAATGACCAAGACAAAATCGTGAATTAAAAGATAAAGCGATTAGGACTGAGTT
GAGGTCAAAGATGAATGACCGAAACAAAATTACGAGTCAAAAAAATAATCTGAAC
Found at i:6245665 original size:120 final size:119
Alignment explanation
Indices: 6245356--6245940 Score: 472
Period size: 120 Copynumber: 4.9 Consensus size: 119
6245346 TAAAATCACG
* * * * *
6245356 AGTCTAAAAGATAAAGCGATTAGGACTGAGTCGAGGTAAAAGATGAATGATC-GGAATGAAATTA
1 AGTCT-AAAGATAAAGTGATTAGGACTGAGTTGAGATCAAAGATGAATGATCAGG-ATGAAATCA
* * * *
6245420 CGAGTTAAAAAAATAATCT-AGACTGAGCTGAGATCGGATGACCAAGAC-AAAATCGTA
64 TGAGTTAAAAAAATGATCTGA-ACTGAGCTGAGATCGAATGACCAAGACGAAACT-G-A
* * * * * * * * ** *
6245477 AGTTTAAAAGATAAAGCGATTAGGA-TAGAGTTAAGGTCAAAGATAAAT-AACCGAAACAAAATT
1 AGTCT-AAAGATAAAGTGATTAGGACT-GAGTTGAGATCAAAGATGAATGATCAG-GATGAAATC
* * *
6245540 GTGAGTCAAAAAAATGATCTGAACTGCGCTGAGATCGAATGACCAAGACGAAATCGTGA
63 ATGAGTTAAAAAAATGATCTGAACTGAGCTGAGATCGAATGACCAAGACGAAA-C-TGA
* * * *
6245599 A-TCGAAAGATAAAGTGATTAGGACTGAGTTGAGATCGAAGATGAATGACCATGATGAAATCATG
1 AGTCTAAAGATAAAGTGATTAGGACTGAGTTGAGATCAAAGATGAATGATCAGGATGAAATCATG
* * * * * ** * * *
6245663 AGTCAAGAAAATGATTTGGACTGAACCAAGATTGAATGACCAGGATGAAACT-A
66 AGTTAAAAAAATGATCTGAACTGAGCTGAGATCGAATGACCAAGACGAAACTGA
* * * * * *
6245716 CGAGTCTAAAGATAAAATGACTA-GAATCGAGTTGAAATCTAAGATGAATGATCAGGATGAAACC
1 --AGTCTAAAGATAAAGTGATTAGGACT-GAGTTGAGATCAAAGATGAATGATCAGGATGAAATC
* * *
6245780 ATAAGTTAGAAAAATGATCTGGACTGAGC-GAGATCGAATGACC-AGAACGAAACTGCA
63 ATGAGTTAAAAAAATGATCTGAACTGAGCTGAGATCGAATGACCAAG-ACGAAACTG-A
** * *
6245837 AGTCTAAAGATAAAGTGACCAGGACCT-AGTTGAGATCAAATATGAATGATCAGGATGAAATCGT
1 AGTCTAAAGATAAAGTGATTAGGA-CTGAGTTGAGATCAAAGATGAATGATCAGGATGAAATCAT
* * *
6245901 GAGTTAGAAAAATGATCTAAACTGAGTTGAGATCGAATGA
65 GAGTTAAAAAAATGATCTGAACTGAGCTGAGATCGAATGA
6245941 GTGATAATAT
Statistics
Matches: 373, Mismatches: 72, Indels: 39
0.77 0.15 0.08
Matches are distributed among these distances:
117 1 0.00
118 2 0.01
119 98 0.26
120 169 0.45
121 95 0.25
122 6 0.02
123 1 0.00
124 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (119 bp):
AGTCTAAAGATAAAGTGATTAGGACTGAGTTGAGATCAAAGATGAATGATCAGGATGAAATCATG
AGTTAAAAAAATGATCTGAACTGAGCTGAGATCGAATGACCAAGACGAAACTGA
Found at i:6246678 original size:11 final size:11
Alignment explanation
Indices: 6246662--6246695 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
6246652 AGTTTAAATC
6246662 TTTTTTTTCTT
1 TTTTTTTTCTT
6246673 TTTTTTTTCTT
1 TTTTTTTTCTT
6246684 TTTTTTATTCTT
1 TTTTTT-TTCTT
6246696 GCTTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:6246679 original size:12 final size:12
Alignment explanation
Indices: 6246662--6246695 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6246652 AGTTTAAATC
6246662 TTTTTTTTC-TT
1 TTTTTTTTCTTT
6246673 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
6246685 TTTTTATTCTT
1 TTTTTTTTCTT
6246696 GCTTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:6246739 original size:17 final size:17
Alignment explanation
Indices: 6246719--6246777 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
6246709 TTGTAATTTC
*
6246719 TTTTCACCTTTTTTTTTT
1 TTTTCACC-TTTTTCTTT
*
6246737 TTTTTACCTTTTTCTTT
1 TTTTCACCTTTTTCTTT
* *
6246754 TTTACACCTCGTTTCTCTT
1 TTTTCACCT-TTTTCT-TT
6246773 TTTTC
1 TTTTC
6246778 TTTTCATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 15 0.45
18 12 0.36
19 6 0.18
ACGTcount: A:0.07, C:0.22, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTCACCTTTTTCTTT
Found at i:6246740 original size:18 final size:19
Alignment explanation
Indices: 6246719--6246756 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6246709 TTGTAATTTC
6246719 TTTTCACCTTTTT-TTTTT
1 TTTTCACCTTTTTCTTTTT
*
6246737 TTTTTACCTTTTTCTTTTT
1 TTTTCACCTTTTTCTTTTT
6246756 T
1 T
6246757 ACACCTCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCACCTTTTTCTTTTT
Found at i:6251220 original size:104 final size:104
Alignment explanation
Indices: 6251101--6251322 Score: 372
Period size: 104 Copynumber: 2.1 Consensus size: 104
6251091 GTAAAGTTTT
* * *
6251101 TCAATAGTTTGGTAGGACTTACTTTAAAGCAGATCTCCCAATTGTTTGGTGAGATTTTATTGTAA
1 TCAATAGTTTGGTAGGACTTACTTTAAAGCAAATATCCCAATTGTTTAGTGAGATTTTATTGTAA
*
6251166 AAAGATTTGTAAAAGTTTTTGATAATTTCATTAAATCTC
66 AAAGATTTGTAAAAGTTTTTGAGAATTTCATTAAATCTC
* *
6251205 TCAATAGTTTGGTAGGATTTACTTTAAAGCAAATATCTCAATTGTTTAGTGAGATTTTATTGTAA
1 TCAATAGTTTGGTAGGACTTACTTTAAAGCAAATATCCCAATTGTTTAGTGAGATTTTATTGTAA
* *
6251270 AAAGATTTGTAAAATTTTTTGAGAATTTCATTAAGTCTC
66 AAAGATTTGTAAAAGTTTTTGAGAATTTCATTAAATCTC
6251309 TCAATAGTTTGGTA
1 TCAATAGTTTGGTA
6251323 AAAGTTAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
104 110 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.42
Consensus pattern (104 bp):
TCAATAGTTTGGTAGGACTTACTTTAAAGCAAATATCCCAATTGTTTAGTGAGATTTTATTGTAA
AAAGATTTGTAAAAGTTTTTGAGAATTTCATTAAATCTC
Found at i:6251504 original size:16 final size:16
Alignment explanation
Indices: 6251483--6251543 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
6251473 AAAAAGATTA
6251483 TTTTTTATTTTTTATT
1 TTTTTTATTTTTTATT
* *
6251499 TTTTTTATCTTTTAAGGT
1 TTTTTTAT-TTTTTA-TT
*
6251517 TTTTTTATTTATTATT
1 TTTTTTATTTTTTATT
* *
6251533 CTTTTTGTTTT
1 TTTTTTATTTT
6251544 CCAAATTTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
16 17 0.49
17 9 0.26
18 9 0.26
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTTTTATTTTTTATT
Found at i:6251606 original size:18 final size:20
Alignment explanation
Indices: 6251583--6251634 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
6251573 TATTAAATGC
6251583 AAAT-AAATAAAAAC-TAAA
1 AAATAAAATAAAAACTTAAA
6251601 AAATAAAATAAAAACTTAAA
1 AAATAAAATAAAAACTTAAA
*
6251621 ATAATGAAATAAAA
1 A-AATAAAATAAAA
6251635 TAAACTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 4 0.13
19 10 0.33
20 5 0.17
21 11 0.37
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (20 bp):
AAATAAAATAAAAACTTAAA
Found at i:6251614 original size:13 final size:13
Alignment explanation
Indices: 6251598--6251669 Score: 56
Period size: 13 Copynumber: 5.3 Consensus size: 13
6251588 AATAAAAACT
6251598 AAAAAATAAAATA
1 AAAAAATAAAATA
**
6251611 AAAACTTAAAATA
1 AAAAAATAAAATA
**
6251624 ATGAAATAAAATA
1 AAAAAATAAAATA
6251637 AACTAAAATTAAAA-A
1 AA--AAAA-TAAAATA
*
6251652 ATAAAATGAAAATA
1 AAAAAAT-AAAATA
6251666 AAAA
1 AAAA
6251670 TGAAAAAGAA
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
12 1 0.02
13 29 0.66
14 4 0.09
15 5 0.11
16 5 0.11
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (13 bp):
AAAAAATAAAATA
Done.