Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 11 of 127
Found at i:2565574 original size:27 final size:27
Alignment explanation
Indices: 2565519--2565574 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
2565509 GATATCTAAC
* *
2565519 GAGAAATTTGAGTTTTTTTGGCTAGTT
1 GAGAAATTTGAGTTTATTTGGCTAATT
2565546 GAGAAATTTG-GATTTATTT-GCTTAATT
1 GAGAAATTTGAG-TTTATTTGGC-TAATT
2565573 GA
1 GA
2565575 TTTATAGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (27 bp):
GAGAAATTTGAGTTTATTTGGCTAATT
Found at i:2567438 original size:1 final size:1
Alignment explanation
Indices: 2567432--2567459 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
2567422 CATTAACCTT
2567432 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
2567460 CTTAAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2571600 original size:2 final size:2
Alignment explanation
Indices: 2571593--2571618 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2571583 AAGCTACCTT
2571593 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
2571619 GAGCTTAAAT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2582455 original size:19 final size:19
Alignment explanation
Indices: 2582431--2582479 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
2582421 TTGGTGACTA
* *
2582431 TTTCGGCCAAGTTTGAAGT
1 TTTCGGCCAACTTTCAAGT
*
2582450 TTTCGGCCAACTTTCTAGT
1 TTTCGGCCAACTTTCAAGT
2582469 TTTCGG-CAACT
1 TTTCGGCCAACT
2582480 ATTTCCAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.39
Consensus pattern (19 bp):
TTTCGGCCAACTTTCAAGT
Found at i:2583288 original size:125 final size:113
Alignment explanation
Indices: 2583078--2583349 Score: 280
Period size: 114 Copynumber: 2.3 Consensus size: 113
2583068 ATTTTTTCGG
2583078 AAATTAAAAGTTTTCAAAAAATATTTTTGAAAAAAAATTGAAAGTTCAATTTTACTTAAAAAATC
1 AAATTAAAAGTTTTCAAAAAATATTTTTGAAAAAAAATTGAAAGTTCAATTTTACTTAAAAAATC
2583143 TAAAAAAAAAAGAGTTTTGAGGAAAAATTGAAATTCAATTTTCCTCAA
66 TAAAAAAAAAAGAGTTTTGAGGAAAAATTGAAATTCAATTTTCCTCAA
** *
2583191 AAATTAAAAGTTTTTCAAAAAATATTTTCTGAGAAAAAGTGTTGAAAGTCAATCAATTTTTCTTA
1 AAATTAAAAG-TTTTCAAAAAATATTTT-TGA-AAAAA-AATTGAAAGT---TCAATTTTACTTA
* *
2583256 AAATAGATTTTAAAAAAAAAAAGGGGTTTTGAGG-AAAATT-AAAGTATCAAATTTTTTCCTTTC
59 AAA-A-A-TCT-AAAAAAAAAA-GAGTTTTGAGGAAAAATTGAAA-T-TC-AA--TTTTCC--TC
2583319 AA
112 AA
* *
2583321 CAATTATAA-TTTTCAAAAGAATATTTTTG
1 AAATTAAAAGTTTTCAAAA-AATATTTTTG
2583350 GGGAAAAGTT
Statistics
Matches: 132, Mismatches: 7, Indels: 25
0.80 0.04 0.15
Matches are distributed among these distances:
113 10 0.08
114 17 0.13
115 3 0.02
116 5 0.04
117 8 0.06
120 15 0.11
121 1 0.01
122 1 0.01
123 5 0.04
124 17 0.13
125 12 0.09
126 2 0.02
128 17 0.13
129 8 0.06
130 11 0.08
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (113 bp):
AAATTAAAAGTTTTCAAAAAATATTTTTGAAAAAAAATTGAAAGTTCAATTTTACTTAAAAAATC
TAAAAAAAAAAGAGTTTTGAGGAAAAATTGAAATTCAATTTTCCTCAA
Found at i:2585721 original size:15 final size:15
Alignment explanation
Indices: 2585701--2585730 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2585691 CTTTTCTCTC
2585701 ATTTCTTTTCTTTTA
1 ATTTCTTTTCTTTTA
*
2585716 ATTTCTTTTTTTTTA
1 ATTTCTTTTCTTTTA
2585731 TTTATATATA
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:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTCTTTTCTTTTA
Found at i:2587674 original size:44 final size:43
Alignment explanation
Indices: 2587612--2587696 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 43
2587602 ACAAGGCAAA
*
2587612 TAAATAAAAATAAGATCTGAATATTTA-TGTTTTTTTGGTTGGT
1 TAAATAAAAATAAGATCTGAAGATTTATTG-TTTTTTGGTTGGT
* *
2587655 TAAATGAAAAGTAAGATCTGAAGCTTTATTGTTTTTTGGTTG
1 TAAAT-AAAAATAAGATCTGAAGATTTATTGTTTTTTGGTTG
2587697 TATATATGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 30 0.81
45 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.45
Consensus pattern (43 bp):
TAAATAAAAATAAGATCTGAAGATTTATTGTTTTTTGGTTGGT
Found at i:2588839 original size:36 final size:36
Alignment explanation
Indices: 2588798--2588869 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
2588788 TAGAATGATT
*
2588798 AGATTTAATTTACT-TCACAAACTTATTGATACATGA
1 AGATTTAATTCACTCT-ACAAACTTATTGATACATGA
*
2588834 AGATTTAATTCACTCTACAAATTTATTGATACATGA
1 AGATTTAATTCACTCTACAAACTTATTGATACATGA
2588870 TAAAATTGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (36 bp):
AGATTTAATTCACTCTACAAACTTATTGATACATGA
Found at i:2589898 original size:24 final size:23
Alignment explanation
Indices: 2589865--2589927 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
2589855 TACTCCCCGT
*
2589865 CGCCGCCATCGCCACTGTCATCGC
1 CGCCGTCATCGCCAC-GTCATCGC
* *
2589889 CGCCTTCATCGACGACGTCATCGC
1 CGCCGTCATCG-CCACGTCATCGC
*
2589913 CTCCGTCATCGCCAC
1 CGCCGTCATCGCCAC
2589928 CATCATCCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.14, C:0.48, G:0.19, T:0.19
Consensus pattern (23 bp):
CGCCGTCATCGCCACGTCATCGC
Found at i:2590700 original size:24 final size:23
Alignment explanation
Indices: 2590660--2590710 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
2590650 ATTAAATTTA
* * *
2590660 AAATTTTTTAAATAAATTTTAAT
1 AAATATTTTAAAAAAATATTAAT
*
2590683 AAATATTTTAATAAAAATATTATT
1 AAATATTTTAA-AAAAATATTAAT
2590707 AAAT
1 AAAT
2590711 TTATATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATATTTTAAAAAAATATTAAT
Found at i:2590716 original size:14 final size:14
Alignment explanation
Indices: 2590699--2590752 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
2590689 TTTAATAAAA
2590699 ATATTATTAAATTT
1 ATATTATTAAATTT
**
2590713 ATATTATTAAATAA
1 ATATTATTAAATTT
*
2590727 ATATAAATTAAATTT
1 ATAT-TATTAAATTT
*
2590742 AAATTA-TAAAT
1 ATATTATTAAAT
2590753 AATATTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 5 0.16
14 17 0.53
15 10 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATTATTAAATTT
Found at i:2591220 original size:23 final size:23
Alignment explanation
Indices: 2591194--2591237 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2591184 ACACTCAAAA
*
2591194 TTTAAAAATTTTATTTAAAATTT
1 TTTAAAAATTTTATTAAAAATTT
*
2591217 TTTAAAATTTTTATTAAAAAT
1 TTTAAAAATTTTATTAAAAAT
2591238 AATTATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAAAAATTTTATTAAAAATTT
Found at i:2591492 original size:3 final size:3
Alignment explanation
Indices: 2591484--2591524 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2591474 AAACTAATAT
2591484 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2591525 CTTCCTTCAC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2592274 original size:3 final size:3
Alignment explanation
Indices: 2592257--2592300 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
2592247 GTTTACATTT
*
2592257 TTA TTGA TT- TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2592301 GTTTTATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2598801 original size:34 final size:34
Alignment explanation
Indices: 2598763--2598834 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
2598753 CTTGAAATAC
* * * * *
2598763 CTTAGAATTTCGTCTTCGGATAAAGTTTTCCTTT
1 CTTAGAATCTCATCCTCCGATAAAATTTTCCTTT
*
2598797 CTTAGAATCTCATCCTCCGATAAAATTTTTCTTT
1 CTTAGAATCTCATCCTCCGATAAAATTTTCCTTT
2598831 CTTA
1 CTTA
2598835 CATTTTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.46
Consensus pattern (34 bp):
CTTAGAATCTCATCCTCCGATAAAATTTTCCTTT
Found at i:2599285 original size:11 final size:10
Alignment explanation
Indices: 2599260--2599293 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
2599250 GACCTTTTTA
2599260 TGGTTCAAGT
1 TGGTTCAAGT
2599270 TGGTTCAAGTT
1 TGGTTCAAG-T
2599281 TGGTTCAATGT
1 TGGTTCAA-GT
2599292 TG
1 TG
2599294 ATTTAGTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 12 0.55
12 1 0.05
ACGTcount: A:0.18, C:0.09, G:0.29, T:0.44
Consensus pattern (10 bp):
TGGTTCAAGT
Found at i:2599871 original size:17 final size:18
Alignment explanation
Indices: 2599846--2599883 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2599836 AGTTAAAAGA
*
2599846 TTTT-TTTTTTACAGAGG
1 TTTTGTTTTTAACAGAGG
2599863 TTTTGTTTTTAAACAGAGG
1 TTTTGTTTTT-AACAGAGG
2599882 TT
1 TT
2599884 ATCCCTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.21, C:0.05, G:0.18, T:0.55
Consensus pattern (18 bp):
TTTTGTTTTTAACAGAGG
Found at i:2601260 original size:21 final size:22
Alignment explanation
Indices: 2601221--2601266 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2601211 AATTTAAAAT
* *
2601221 TTTAATGAAAATTATAAATAAA
1 TTTAATGAAAATAAAAAATAAA
*
2601243 TTTAAT-AAAATAAAAAATATA
1 TTTAATGAAAATAAAAAATAAA
2601264 TTT
1 TTT
2601267 TTTTATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TTTAATGAAAATAAAAAATAAA
Found at i:2602123 original size:25 final size:25
Alignment explanation
Indices: 2602085--2602143 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
2602075 TTTTATTTTA
* * *
2602085 TTAAAATATTTTAAAATATATTATT
1 TTAAATTATATTAAAATACATTATT
* * *
2602110 TTATATTATATTAATATGCATTATT
1 TTAAATTATATTAAAATACATTATT
2602135 TTAAATTAT
1 TTAAATTAT
2602144 CATGTGCACA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAAATTATATTAAAATACATTATT
Found at i:2602481 original size:40 final size:40
Alignment explanation
Indices: 2602425--2602504 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
2602415 TCTACAAATT
* *
2602425 AATAGCTATTCCAGAT-CACTAAAAATAACCTAACTATACA
1 AATAGCTATTCAAGATCCACCAAAAA-AACCTAACTATACA
* *
2602465 AATAGCTATTCAAGATCCACCAAAAACACCTGACTATACA
1 AATAGCTATTCAAGATCCACCAAAAAAACCTAACTATACA
2602505 TATATACGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (40 bp):
AATAGCTATTCAAGATCCACCAAAAAAACCTAACTATACA
Found at i:2602522 original size:2 final size:2
Alignment explanation
Indices: 2602517--2602541 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2602507 TATACGTATG
2602517 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 T
2602542 CAAAGATTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2603016 original size:25 final size:24
Alignment explanation
Indices: 2602988--2603038 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2602978 AGATAAAATT
2602988 ATAAGATTTAATAAAATTAAAATGA
1 ATAAGATTTAAT-AAATTAAAATGA
* * *
2603013 ATAATATTTTATAAATTAAAGTGA
1 ATAAGATTTAATAAATTAAAATGA
2603037 AT
1 AT
2603039 TTTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (24 bp):
ATAAGATTTAATAAATTAAAATGA
Found at i:2604086 original size:30 final size:29
Alignment explanation
Indices: 2604021--2604112 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 29
2604011 TATTGCACTT
* *
2604021 TAAATAAATTTATAACATTT-ATTTATAC
1 TAAATAAATTTTTAAAATTTAATTTATAC
**
2604049 TAAATAAATTTTTAAAATTTAATTTATGT
1 TAAATAAATTTTTAAAATTTAATTTATAC
* **
2604078 TCAAATAAATCTTTAATTTTTAATTTATAC
1 T-AAATAAATTTTTAAAATTTAATTTATAC
2604108 ATAAA
1 -TAAA
2604113 CCAATCTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 18 0.35
29 7 0.13
30 26 0.50
31 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (29 bp):
TAAATAAATTTTTAAAATTTAATTTATAC
Found at i:2611589 original size:13 final size:13
Alignment explanation
Indices: 2611573--2611597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2611563 TAAAAATAAA
2611573 AATTAATTTAATT
1 AATTAATTTAATT
2611586 AATTAATTTAAT
1 AATTAATTTAAT
2611598 CCATTTAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:2613738 original size:408 final size:407
Alignment explanation
Indices: 2612995--2613798 Score: 1297
Period size: 408 Copynumber: 2.0 Consensus size: 407
2612985 ATTTTTCCAT
* *
2612995 AGCTTTTCTTTTTACCGTAGCCGCTGGCAAATCCTCCATTGTCGCCGCCGTAACCGGTCATCATA
1 AGCTTTTCTTTTTACCGTAACCACTGGCAAATCCTCCATTGTCGCCGCCGTAACCGGTCATCATA
*
2613060 GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTCTGGGCATTATCGTTGTTCTCATTTGC
66 GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTCTGGGCATTATCGTTGTTCTCATTCGC
* * *
2613125 TCCAATGAAAGCCATGAAATCATCAACCAATTTTTTCTTCGTCTCTTCCTTTGCGAGCATATCCT
131 TCCAATGAAAGCCATGAAATCATCAACCAATTTTTCCTTCGCCGCTTCCTTTGCGAGCATATCCT
* *
2613190 GATTTTTTCTCATAAGCATGGAACGCTCCCTCTCCTTCTCCTGAAGTGCAACTTCATCAGCCCTC
196 GATTGTTTCTCATAAGCATGGAACGCTCCCTCTCCTTCTCCTGAAGTGCAACTTCATCAGCCATC
* * * * *
2613255 AGTGATTCTTTCATCAGCCTTATCTTCAGCCTCTTTCCTGCCAAAAAAATTTCCACATCCACAGC
261 AGTGATTCATTCATCAACCTTATCTTCAGCCTCTTTCCTGCCAAAAAAATTACCACAACCACAAC
* *
2613320 AATGAATTCTTGGGGATCCTGTTAGATATTCAAGTAAAGCAGAAAAAAGCCATTAACAGCCACAT
326 AATAAATTCTTGGAGATCCTGTTAGATATTCAAGTAAAGCAG-AAAAAGCCATTAACAGCCACAT
2613385 TAACAGTAATTTTTTGGG
390 TAACAGTAATTTTTTGGG
* * * * *
2613403 AGCTTTTCTTTTTACCGTAACCATTGGCAAATCCTCCATTGTCGTCGCCGTCACTGTTCATCATA
1 AGCTTTTCTTTTTACCGTAACCACTGGCAAATCCTCCATTGTCGCCGCCGTAACCGGTCATCATA
* * *
2613468 GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTGTGGGCATTCTCGTTGTTCTTATTCGC
66 GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTCTGGGCATTATCGTTGTTCTCATTCGC
* *
2613533 TCCAATGAAAGCCATGAAATCATCAACCAATTTTTCCTTTGCCGCTTCTTTTGCGAGCATATCCT
131 TCCAATGAAAGCCATGAAATCATCAACCAATTTTTCCTTCGCCGCTTCCTTTGCGAGCATATCCT
2613598 GATTGTTTCTCATAAGCATGGAACGCTCCCTCTCCTTCTCCTGAAGTGCAAC-TCGATCAGCCAT
196 GATTGTTTCTCATAAGCATGGAACGCTCCCTCTCCTTCTCCTGAAGTGCAACTTC-ATCAGCCAT
* * * * *
2613662 CAGTGATTCATTCATCAACCTTATCTTCTGTCT-TTCTCCTTCCAAAAAAATTACCAGAAGCACA
260 CAGTGATTCATTCATCAACCTTATCTTCAGCCTCTT-TCCTGCCAAAAAAATTACCACAACCACA
2613726 ACAATAAATTCTTGGAGATCCTGTTAGATATTCAAGTAAAGCAGAAAAAGCCATTAACAGCCACA
324 ACAATAAATTCTTGGAGATCCTGTTAGATATTCAAGTAAAGCAGAAAAAGCCATTAACAGCCACA
2613791 TTAACAGT
389 TTAACAGT
2613799 TAAAATTGTC
Statistics
Matches: 364, Mismatches: 30, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
407 33 0.09
408 331 0.91
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (407 bp):
AGCTTTTCTTTTTACCGTAACCACTGGCAAATCCTCCATTGTCGCCGCCGTAACCGGTCATCATA
GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTCTGGGCATTATCGTTGTTCTCATTCGC
TCCAATGAAAGCCATGAAATCATCAACCAATTTTTCCTTCGCCGCTTCCTTTGCGAGCATATCCT
GATTGTTTCTCATAAGCATGGAACGCTCCCTCTCCTTCTCCTGAAGTGCAACTTCATCAGCCATC
AGTGATTCATTCATCAACCTTATCTTCAGCCTCTTTCCTGCCAAAAAAATTACCACAACCACAAC
AATAAATTCTTGGAGATCCTGTTAGATATTCAAGTAAAGCAGAAAAAGCCATTAACAGCCACATT
AACAGTAATTTTTTGGG
Found at i:2614481 original size:28 final size:29
Alignment explanation
Indices: 2614436--2614493 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
2614426 ATAAGGTCAA
*
2614436 TATTAAATTTGATCATTAT-ATTTTAATT
1 TATTAAATTTAATCATTATAATTTTAATT
*
2614464 TATTGAAATTTAAT-ATTATAATTTTCATT
1 TATT-AAATTTAATCATTATAATTTTAATT
2614493 T
1 T
2614494 TGTTGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (29 bp):
TATTAAATTTAATCATTATAATTTTAATT
Found at i:2616865 original size:18 final size:19
Alignment explanation
Indices: 2616828--2616869 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2616818 AAAATCTTAT
*
2616828 ATATAATGGTTAATTCAAA
1 ATATAATGGTTAATTAAAA
*
2616847 ATATAAT-GTTATTTAAAA
1 ATATAATGGTTAATTAAAA
2616865 A-ATAA
1 ATATAA
2616870 CAAATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (19 bp):
ATATAATGGTTAATTAAAA
Found at i:2619120 original size:59 final size:57
Alignment explanation
Indices: 2619016--2619400 Score: 445
Period size: 58 Copynumber: 6.6 Consensus size: 57
2619006 TTCAAAAACC
* *
2619016 TTTTTGAAAATTTATTTTTAAGAAAAACTGATACTTT-AACTTTTTCCTAAAAATATT
1 TTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAAC-TTTTCCTAAAAATATT
* * * * *
2619073 TTTTTGAAAATTTTGATTTTCAAGGAAAATTGATACTATCAGCTTTTCCTCAAAAAAAAT
1 TTTTTGAAAA-TTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCT-AAAAATATT
*
2619133 TTTTTGAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTT
1 TTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTT-CCTAAAAATA--TT
* * *
2619193 TTTTTG-AAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAAAATT
1 TTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC-CTAAAAATATT
* * *
2619250 TTTTTGAAAATTTATTTTTAAAGAAAATTAATACTTTCAACTTTTTCC-CAAAATATT
1 TTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAAC-TTTTCCTAAAAATATT
* * **
2619307 TTTTGGAAACTTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TT
1 TTTTTGAAAATTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCT-AAAAA--TATT
*
2619367 TTTTTGAAAATTTATTTTTTAAGAAAAATTGATA
1 TTTTTGAAAATTTA-TTTTTAAGGAAAATTGATA
2619401 AAACAAAATA
Statistics
Matches: 278, Mismatches: 34, Indels: 29
0.82 0.10 0.09
Matches are distributed among these distances:
57 42 0.15
58 95 0.34
59 86 0.31
60 54 0.19
61 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (57 bp):
TTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTAAAAATATT
Found at i:2619153 original size:117 final size:116
Alignment explanation
Indices: 2619016--2619400 Score: 519
Period size: 117 Copynumber: 3.3 Consensus size: 116
2619006 TTCAAAAACC
*
2619016 TTTTTGAAAATTTATTTTTAAGAAAAACTGATACTTT-AACTTTTTCCTAAAAATATTTTTTTGA
1 TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTG-
* * *
2619080 AAATTTTGATTTTCAAGGAAAATTGATACTATCAGCTTTTCCTCAAAAAAAAT
65 AAA-TTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAATT
* * *
2619133 TTTTTGAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT
1 TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATA--TTTTTTT
* *
2619198 GAAATTT-ATTTTTAAGAAAAATTGATACTTTCAACTTTT-CTCCAAAAAAATT
64 GAAATTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAAAATT
* * *
2619250 TTTTTGAAAATTTATTTTTAA-AGAAAATTAATACTTTCAACTTTTTCC-CAAAATATTTTTTGG
1 TTTTTGAAAATTTATTTTTAAGA-AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTG
* **
2619313 AAACTTTGATTTCCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTT
65 AAA-TTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-AATT
2619367 TTTTTGAAAATTTATTTTTTAAGAAAAATTGATA
1 TTTTTGAAAATTTA-TTTTTAAGAAAAATTGATA
2619401 AAACAAAATA
Statistics
Matches: 236, Mismatches: 21, Indels: 21
0.85 0.08 0.08
Matches are distributed among these distances:
114 10 0.04
115 3 0.01
116 43 0.18
117 132 0.56
118 36 0.15
119 4 0.02
120 8 0.03
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (116 bp):
TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGA
AATTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAATT
Found at i:2619413 original size:5 final size:5
Alignment explanation
Indices: 2619398--2619484 Score: 56
Period size: 5 Copynumber: 17.2 Consensus size: 5
2619388 AGAAAAATTG
* * *
2619398 ATAAA ACAAA ATAAA AGTGAAA A-AAA AT-AA ATTAA AT-AA ATTAA A-AAA
1 ATAAA ATAAA ATAAA A-T-AAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
* *
2619446 ATAAA AGAAA GTAAAA ATAAAA ATAAA ATAAA TATAAA A
1 ATAAA ATAAA AT-AAA AT-AAA ATAAA ATAAA -ATAAA A
2619485 AGAATATTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
4 15 0.22
5 32 0.48
6 16 0.24
7 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:2619468 original size:17 final size:17
Alignment explanation
Indices: 2619442--2619488 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2619432 AATAAATTAA
*
2619442 AAAAAT-AAAAGAAAGT
1 AAAAATAAAAAGAAAAT
*
2619458 AAAAATAAAAATAAAAT
1 AAAAATAAAAAGAAAAT
*
2619475 AAATATAAAAAGAA
1 AAAAATAAAAAGAA
2619489 TATTAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAATAAAAAGAAAAT
Found at i:2619484 original size:22 final size:20
Alignment explanation
Indices: 2619417--2619490 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 20
2619407 AATAAAAGTG
*
2619417 AAAAAAAATAAATTAAATAA
1 AAAAAAAATAAAATAAATAA
*
2619437 ATTAAAAAAATAAAAGAAAGTAA
1 A--AAAAAAATAAAATAAA-TAA
*
2619460 AAATAAAAATAAAATAAATAT
1 AAA-AAAAATAAAATAAATAA
*
2619481 AAAAAGAATA
1 AAAAAAAATA
2619491 TTAAATAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
20 7 0.16
21 7 0.16
22 27 0.60
23 4 0.09
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAAAAAATAAAATAAATAA
Found at i:2620385 original size:21 final size:21
Alignment explanation
Indices: 2620327--2620403 Score: 77
Period size: 21 Copynumber: 3.6 Consensus size: 21
2620317 AATCTCTAGC
*
2620327 CAGATAAATCAAAAAAATAAA
1 CAGATAAATAAAAAAAATAAA
*
2620348 -A-AAAAATCAAAAGAAAATAAA
1 CAGATAAAT-AAAA-AAAATAAA
*
2620369 TCAGATAAATAAAAAAAATTAA
1 -CAGATAAATAAAAAAAATAAA
*
2620391 CAGATAATTAAAA
1 CAGATAAATAAAA
2620404 TTAAATACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
19 5 0.11
20 4 0.09
21 20 0.43
22 7 0.15
23 5 0.11
24 5 0.11
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.17
Consensus pattern (21 bp):
CAGATAAATAAAAAAAATAAA
Found at i:2620502 original size:6 final size:6
Alignment explanation
Indices: 2620491--2620570 Score: 71
Period size: 6 Copynumber: 13.7 Consensus size: 6
2620481 GTAAATAGCT
* *
2620491 AAAATA AAAATA AAATATAA AATAATA ATAATA AAAAT- AAAATA GAAAT-
1 AAAATA AAAATA AAA-AT-A AA-AATA AAAATA AAAATA AAAATA AAAATA
*
2620540 AGAATA AAAAT- AAAAT- -AAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
2620571 AACATATACC
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
4 4 0.07
5 13 0.21
6 34 0.56
7 4 0.07
8 5 0.08
9 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:2620502 original size:27 final size:27
Alignment explanation
Indices: 2620475--2620558 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
2620465 AAATATTAAT
*
2620475 AAATAAGTAAATAGCTAAAATAAAAATA
1 AAAT-AGTAAATAGATAAAATAAAAATA
2620503 AAATA-TAAAATA-ATAATAATAAAAATA
1 AAATAGT-AAATAGATAA-AATAAAAATA
2620530 AAATAG-AAATAGAATAAAA-ATAAAATA
1 AAATAGTAAATAG-ATAAAATA-AAAATA
2620557 AA
1 AA
2620559 TAAAAATAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
26 10 0.20
27 31 0.63
28 8 0.16
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (27 bp):
AAATAGTAAATAGATAAAATAAAAATA
Found at i:2620505 original size:5 final size:5
Alignment explanation
Indices: 2620490--2620569 Score: 65
Period size: 5 Copynumber: 15.0 Consensus size: 5
2620480 AGTAAATAGC
*
2620490 TAAAA TAAAAA TAAAA TATAAA -ATAA TAATAA TAAAAA TAAAA TAGAAA
1 TAAAA T-AAAA TAAAA TA-AAA TAAAA TAA-AA T-AAAA TAAAA TA-AAA
*
2620539 TAGAA TAAAAA TAAAA T-AAA TAAAAA TAAAA
1 TAAAA T-AAAA TAAAA TAAAA T-AAAA TAAAA
2620570 AAACATATAC
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
4 6 0.10
5 27 0.44
6 27 0.44
7 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:2620506 original size:11 final size:11
Alignment explanation
Indices: 2620491--2620570 Score: 85
Period size: 11 Copynumber: 7.4 Consensus size: 11
2620481 GTAAATAGCT
2620491 AAAATAAAAATA
1 AAAAT-AAAATA
2620503 AAATATAAAATA
1 AAA-ATAAAATA
*
2620515 ATAAT--AATA
1 AAAATAAAATA
2620524 AAAATAAAATA
1 AAAATAAAATA
* *
2620535 GAAATAGAATA
1 AAAATAAAATA
2620546 AAAATAAAATA
1 AAAATAAAATA
*
2620557 AATA-AAAATA
1 AAAATAAAATA
2620567 AAAA
1 AAAA
2620571 AACATATACC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
9 8 0.14
10 9 0.16
11 27 0.47
12 11 0.19
13 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:2620545 original size:22 final size:20
Alignment explanation
Indices: 2620493--2620570 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 20
2620483 AAATAGCTAA
*
2620493 AATAAAAATAAAATATAAAAT
1 AATAATAATAAAA-ATAAAAT
2620514 AATAATAATAAAAATAAAAT
1 AATAATAATAAAAATAAAAT
2620534 AGA-AATAGAATAAAAATAAAAT
1 A-ATAAT--AATAAAAATAAAAT
*
2620556 AAATAAAAATAAAAA
1 -AATAATAATAAAAA
2620571 AACATATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
20 11 0.22
21 21 0.42
22 15 0.30
23 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AATAATAATAAAAATAAAAT
Found at i:2620842 original size:41 final size:41
Alignment explanation
Indices: 2620774--2621080 Score: 422
Period size: 41 Copynumber: 7.4 Consensus size: 41
2620764 CAGCTCAACA
* * *
2620774 ACTTTGAGAAACATAAA-TGACTCCTCTAATCAGAGGCTCAACG
1 ACTTTG-GAAA-ATAAATTG-CTCCTCTAAACAGAGGCACCACG
* *
2620817 ACTTTGGAAAATAAACTGCTCCTCTAAACAGAGGCATCACG
1 ACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
*
2620858 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATG
1 ACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACG
* *
2620899 ACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCACG
1 AC-TTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
* *
2620941 ACTTTGAAAAATAAATTGCTACTCTAAACAGAGGCACCACG
1 ACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
2620982 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 ACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACG
*
2621023 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 ACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
* *
2621064 ATTTTGAAAAATAAATT
1 ACTTTGGAAAATAAATT
2621081 ACTCTTTGAC
Statistics
Matches: 240, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
40 9 0.04
41 178 0.74
42 43 0.18
43 10 0.04
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
ACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
Found at i:2621007 original size:124 final size:123
Alignment explanation
Indices: 2620774--2621080 Score: 456
Period size: 124 Copynumber: 2.5 Consensus size: 123
2620764 CAGCTCAACA
* * * *
2620774 ACTTTGAGAAACATAAA-TGACTCCTCT-AATCAGAGGCTCAACGACTTTGGAAAATAAACTGCT
1 ACTTTGA-AAA-ATAAATTG-CTCCTCTAAAT-AGAGGCACCACGACTTTGAAAAATAAATTGCT
* * *
2620837 CCTCTAAACAGAGGCATCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATG
62 ACTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
2620899 ACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATTGCTACT
1 AC-TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATTGCTACT
2620964 CTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
65 CTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
2621023 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGATTTTGAAAAATAAATT
1 ACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATT
2621081 ACTCTTTGAC
Statistics
Matches: 166, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
123 52 0.31
124 100 0.60
125 10 0.06
126 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (123 bp):
ACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATTGCTACTC
TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
Found at i:2621934 original size:167 final size:167
Alignment explanation
Indices: 2621658--2621990 Score: 641
Period size: 167 Copynumber: 2.0 Consensus size: 167
2621648 CAGCATTAAC
2621658 CATTCCAAAACAAACTTTGTCCACTGATTGTTCTCATCATTCAATCATAACTTGTAAGTCATATC
1 CATTCCAAAACAAACTTTGTCCACTGATTGTTCTCATCATTCAATCATAACTTGTAAGTCATATC
*
2621723 AACCAATTCATCTTTGTACTCATCACTTGGTTATATCACTTTTCAAGATTTGCCCCATTATATTC
66 AACCAATTAATCTTTGTACTCATCACTTGGTTATATCACTTTTCAAGATTTGCCCCATTATATTC
2621788 TTCATTTGA-TCACATCATATATCTTTTCAAATCATCA
131 TTCATTTGATTCACATCATATATCTTTTC-AATCATCA
2621825 CATTCCAAAACAAACTTTGTCCACTGATTGTTCTCATCATTCAATCATAACTTGTAAGTCATATC
1 CATTCCAAAACAAACTTTGTCCACTGATTGTTCTCATCATTCAATCATAACTTGTAAGTCATATC
2621890 AACCAATTAATCTTTGTACTCATCACTTGGTTATATCACTTTTCAAGATTTGCCCCATTATATTC
66 AACCAATTAATCTTTGTACTCATCACTTGGTTATATCACTTTTCAAGATTTGCCCCATTATATTC
2621955 TTCATTTGATTCACATCATATATCTTTTCAATCATC
131 TTCATTTGATTCACATCATATATCTTTTCAATCATC
2621991 TCTTTTAGGT
Statistics
Matches: 164, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
167 145 0.88
168 19 0.12
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.40
Consensus pattern (167 bp):
CATTCCAAAACAAACTTTGTCCACTGATTGTTCTCATCATTCAATCATAACTTGTAAGTCATATC
AACCAATTAATCTTTGTACTCATCACTTGGTTATATCACTTTTCAAGATTTGCCCCATTATATTC
TTCATTTGATTCACATCATATATCTTTTCAATCATCA
Found at i:2622523 original size:13 final size:15
Alignment explanation
Indices: 2622505--2622539 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
2622495 TTCTTTTTTC
2622505 TTTTTTTTTC-TC-T
1 TTTTTTTTTCATCAT
2622518 TTTTTTTTTCATCAT
1 TTTTTTTTTCATCAT
2622533 TTTTTTT
1 TTTTTTT
2622540 ATTTTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 2 0.10
15 8 0.40
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTCATCAT
Found at i:2623375 original size:12 final size:13
Alignment explanation
Indices: 2623353--2623385 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2623343 TTATCTCCAA
2623353 CTTGAAAAAAAAT
1 CTTGAAAAAAAAT
2623366 CTTGAAAAAAAAT
1 CTTGAAAAAAAAT
2623379 CTT-AAAA
1 CTTGAAAA
2623386 TGATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (13 bp):
CTTGAAAAAAAAT
Found at i:2629978 original size:24 final size:23
Alignment explanation
Indices: 2629945--2630007 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
2629935 TACTCCCCGT
*
2629945 CGCCGCCATCGCCACTGTCATCGC
1 CGCCGTCATCGCCAC-GTCATCGC
* *
2629969 CGCCTTCATCGACGACGTCATCGC
1 CGCCGTCATCG-CCACGTCATCGC
*
2629993 CTCCGTCATCGCCAC
1 CGCCGTCATCGCCAC
2630008 CATCATCCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.14, C:0.48, G:0.19, T:0.19
Consensus pattern (23 bp):
CGCCGTCATCGCCACGTCATCGC
Found at i:2630771 original size:12 final size:12
Alignment explanation
Indices: 2630747--2630790 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 12
2630737 TTTAAAATTT
2630747 TTTTAATA-A-A
1 TTTTAATATATA
2630757 TTTTAATATATA
1 TTTTAATATATA
2630769 TTTTAATATAAATA
1 TTTTAATAT--ATA
2630783 TTTTAATA
1 TTTTAATA
2630791 AAAATATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.27
11 1 0.03
12 10 0.33
14 11 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAATATATA
Found at i:2630785 original size:14 final size:14
Alignment explanation
Indices: 2630756--2630803 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
2630746 TTTTTAATAA
2630756 ATTTTAATAT--AT
1 ATTTTAATATAAAT
2630768 ATTTTAATATAAAT
1 ATTTTAATATAAAT
*
2630782 ATTTTAATAAAAAT
1 ATTTTAATATAAAT
2630796 ATTATTAA
1 ATT-TTAA
2630804 ATTTATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 10 0.31
14 18 0.56
15 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTAATATAAAT
Found at i:2630791 original size:12 final size:12
Alignment explanation
Indices: 2630747--2630792 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
2630737 TTTAAAATTT
2630747 TTTTAAT-AA-A
1 TTTTAATAAATA
*
2630757 TTTTAATATATA
1 TTTTAATAAATA
2630769 TTTTAATATAAATA
1 TTTT-A-ATAAATA
2630783 TTTTAATAAA
1 TTTTAATAAA
2630793 AATATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 10 0.33
13 2 0.07
14 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTAATAAATA
Found at i:2630831 original size:29 final size:29
Alignment explanation
Indices: 2630799--2630854 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
2630789 TAAAAATATT
*
2630799 ATTAAATTTATATTATTAAATAA-ATTTCA
1 ATTAAATTTAAATTA-TAAATAATATTTCA
2630828 ATTAAATTTAAATTATAAATAATATTT
1 ATTAAATTTAAATTATAAATAATATTT
2630855 TTAATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTAAATTTAAATTATAAATAATATTTCA
Found at i:2632330 original size:13 final size:13
Alignment explanation
Indices: 2632314--2632350 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
2632304 TGTTTACATT
2632314 TTTATTGATT-TTA
1 TTTATT-ATTATTA
2632327 TTTATTATTATTA
1 TTTATTATTATTA
2632340 -TTATTATTATT
1 TTTATTATTATT
2632351 GTTGTTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:2632355 original size:3 final size:3
Alignment explanation
Indices: 2632349--2632374 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2632339 ATTATTATTA
2632349 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
2632375 TTATTTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:2638405 original size:14 final size:13
Alignment explanation
Indices: 2638357--2638409 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
2638347 ATATTATTTT
2638357 AATTTTAATTAAAA
1 AATTTT-ATTAAAA
*
2638371 AA-ATTA-TAAAA
1 AATTTTATTAAAA
2638382 AATTTATATTAAATA
1 AATTT-TATTAAA-A
2638397 AATTTTATTAAAA
1 AATTTTATTAAAA
2638410 TTAATATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
11 7 0.21
12 2 0.06
13 5 0.15
14 13 0.39
15 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AATTTTATTAAAA
Found at i:2641341 original size:12 final size:12
Alignment explanation
Indices: 2641321--2641349 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2641311 ATCTCCTCCG
2641321 TCATCGCCACCA
1 TCATCGCCACCA
2641333 TCATCGCCACCA
1 TCATCGCCACCA
2641345 TCATC
1 TCATC
2641350 CCTTATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.48, G:0.07, T:0.21
Consensus pattern (12 bp):
TCATCGCCACCA
Found at i:2642116 original size:24 final size:23
Alignment explanation
Indices: 2642076--2642126 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
2642066 ATTAAATTTA
* * *
2642076 AAATTTTTTAAATAAATTTTAAT
1 AAATATTTTAAAAAAATATTAAT
*
2642099 AAATATTTTAATAAAAATATTATT
1 AAATATTTTAA-AAAAATATTAAT
2642123 AAAT
1 AAAT
2642127 TTATATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATATTTTAAAAAAATATTAAT
Found at i:2642132 original size:14 final size:14
Alignment explanation
Indices: 2642115--2642168 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
2642105 TTTAATAAAA
2642115 ATATTATTAAATTT
1 ATATTATTAAATTT
**
2642129 ATATTATTAAATAA
1 ATATTATTAAATTT
*
2642143 ATATCAATTAAATTT
1 ATAT-TATTAAATTT
*
2642158 AAATTA-TAAAT
1 ATATTATTAAAT
2642169 AATATTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 5 0.16
14 17 0.53
15 10 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATTATTAAATTT
Found at i:2642132 original size:28 final size:29
Alignment explanation
Indices: 2642101--2642164 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
2642091 ATTTTAATAA
*
2642101 ATATT-TTAATAAAAATAT-TATTAAATTT
1 ATATTATTAA-AAAAATATCAATTAAATTT
*
2642129 ATATTATTAAATAAATATCAATTAAATTT
1 ATATTATTAAAAAAATATCAATTAAATTT
*
2642158 AAATTAT
1 ATATTAT
2642165 AAATAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
ATATTATTAAAAAAATATCAATTAAATTT
Found at i:2642260 original size:13 final size:13
Alignment explanation
Indices: 2642229--2642270 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
2642219 CAAACTATCA
2642229 ATTTAAATTTTTT
1 ATTTAAATTTTTT
2642242 -TATTAAATTTTTT
1 AT-TTAAATTTTTT
2642255 ATTTAATATATTTTT
1 ATTTAA-AT-TTTTT
2642270 A
1 A
2642271 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 15 0.60
14 3 0.12
15 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTAAATTTTTT
Found at i:2642636 original size:14 final size:13
Alignment explanation
Indices: 2642610--2642654 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
2642600 GACACTCAAA
2642610 ATTTAAAAATTTT
1 ATTTAAAAATTTT
2642623 ATTTAAAAA-TTT
1 ATTTAAAAATTTT
*
2642635 -TTT-AAATTTTT
1 ATTTAAAAATTTT
2642646 A-TTAAAAAT
1 ATTTAAAAAT
2642655 AATTATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
10 3 0.11
11 8 0.30
12 7 0.26
13 9 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTAAAAATTTT
Found at i:2642663 original size:23 final size:23
Alignment explanation
Indices: 2642607--2642663 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
2642597 TTTGACACTC
*
2642607 AAAAT-TTA-AAAATTTTATTTA
1 AAAATATTATAAATTTTTATTTA
* *
2642628 AAAATTTTTTAAATTTTTA-TTA
1 AAAATATTATAAATTTTTATTTA
2642650 AAAATAATTATAAA
1 AAAAT-ATTATAAA
2642664 CACTTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 10 0.34
23 14 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATATTATAAATTTTTATTTA
Found at i:2642909 original size:3 final size:3
Alignment explanation
Indices: 2642901--2642932 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2642891 AAACTAATAT
2642901 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2642933 CTTCCTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2643686 original size:3 final size:3
Alignment explanation
Indices: 2643669--2643739 Score: 126
Period size: 3 Copynumber: 23.7 Consensus size: 3
2643659 GTTTGCATTT
2643669 TTA TTGA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2643714 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2643740 GTTTTATTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 61 0.92
4 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2644569 original size:165 final size:166
Alignment explanation
Indices: 2644289--2644624 Score: 487
Period size: 165 Copynumber: 2.0 Consensus size: 166
2644279 ATAAAAATAT
* * * *
2644289 TTTAAGGCTTAGATAATTTGAAATCAAACTGGTATTATCTTTTAGATGTGTGCTATGAGGGTGCC
1 TTTAAGGCTTAGATAATTTGAAATCAAACTGGTATCATCCTTTAGATATGTGCTATAAGGGTGCC
2644354 ATAATATTCCTCACGCGTAACGCACTCTTCAAACCTAAGATATAATTTCATTGACTAGAATCTAC
66 ATAATATTCCTCACGCGTAACGCACTCTTCAAACCTAAGATATAATTTCATTGACTAGAATCTAC
* *
2644419 TATTTAAATATACTTAAGTCAAT-TTCGGATTCCTC
131 TATTTAAATATACCTAAGTCAATATTCGGACTCCTC
* * **
2644454 TTTAAGGCTTGGATAATTTGAAATCAAACTGGTATCATCCTTTAGATATGTGCTGTAAGGGTGTT
1 TTTAAGGCTTAGATAATTTGAAATCAAACTGGTATCATCCTTTAGATATGTGCTATAAGGGTGCC
* * ** * *
2644519 ATAATATTCCTTACGCGTAACCGTACT-TTTGAACCTAATATATGATTTCATTGACTAGAATCTA
66 ATAATATTCCTCACGCGTAA-CGCACTCTTCAAACCTAAGATATAATTTCATTGACTAGAATCTA
* *
2644583 CTATTTAAATATACCTAAGTCAATATTGGGGCTCCTC
130 CTATTTAAATATACCTAAGTCAATATTCGGACTCCTC
2644620 TTTAA
1 TTTAA
2644625 ATAGGACAGA
Statistics
Matches: 151, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 132 0.87
166 19 0.13
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (166 bp):
TTTAAGGCTTAGATAATTTGAAATCAAACTGGTATCATCCTTTAGATATGTGCTATAAGGGTGCC
ATAATATTCCTCACGCGTAACGCACTCTTCAAACCTAAGATATAATTTCATTGACTAGAATCTAC
TATTTAAATATACCTAAGTCAATATTCGGACTCCTC
Found at i:2650235 original size:34 final size:34
Alignment explanation
Indices: 2650196--2650267 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
2650186 CTTGAAATAC
* * * * *
2650196 CTTAGAATTTCGTCTTCGGATAAAGTTTTCCTTT
1 CTTAGAATCTCATCCTCCGATAAAATTTTCCTTT
*
2650230 CTTAGAATCTCATCCTCCGATAAAATTTTTCTTT
1 CTTAGAATCTCATCCTCCGATAAAATTTTCCTTT
2650264 CTTA
1 CTTA
2650268 CATTTTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.46
Consensus pattern (34 bp):
CTTAGAATCTCATCCTCCGATAAAATTTTCCTTT
Found at i:2650715 original size:11 final size:10
Alignment explanation
Indices: 2650690--2650723 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
2650680 GACCTTTTTA
2650690 TGGTTCAAGT
1 TGGTTCAAGT
2650700 TGGTTCAAGTT
1 TGGTTCAAG-T
2650711 TGGTTCAATGT
1 TGGTTCAA-GT
2650722 TG
1 TG
2650724 ATTTAGTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 12 0.55
12 1 0.05
ACGTcount: A:0.18, C:0.09, G:0.29, T:0.44
Consensus pattern (10 bp):
TGGTTCAAGT
Found at i:2651188 original size:10 final size:9
Alignment explanation
Indices: 2651159--2651189 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
2651149 CCAAAAACAT
2651159 TTTTTTGGA
1 TTTTTTGGA
2651168 TTTTTTGGA
1 TTTTTTGGA
2651177 TTTTTTGTGA
1 TTTTTTG-GA
2651187 TTT
1 TTT
2651190 GTTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.10, C:0.00, G:0.19, T:0.71
Consensus pattern (9 bp):
TTTTTTGGA
Found at i:2651305 original size:17 final size:18
Alignment explanation
Indices: 2651280--2651317 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2651270 GGTTAAAAGA
*
2651280 TTTT-TTTTTTACAGAGG
1 TTTTGTTTTTAACAGAGG
2651297 TTTTGTTTTTAAACAGAGG
1 TTTTGTTTTT-AACAGAGG
2651316 TT
1 TT
2651318 ATCCCTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.21, C:0.05, G:0.18, T:0.55
Consensus pattern (18 bp):
TTTTGTTTTTAACAGAGG
Found at i:2652627 original size:13 final size:12
Alignment explanation
Indices: 2652600--2652636 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
2652590 TCGAGACTTA
2652600 ATAATTTAAAAT
1 ATAATTTAAAAT
2652612 ATAATTTAATAAT
1 ATAATTTAA-AAT
*
2652625 ATAATATAAAAT
1 ATAATTTAAAAT
2652637 CATATGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAATTTAAAAT
Found at i:2653616 original size:25 final size:25
Alignment explanation
Indices: 2653578--2653636 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
2653568 TTTTATTTTA
* * *
2653578 TTAAAATATTTTAAAATATATTATT
1 TTAAATTATATTAAAATACATTATT
* * *
2653603 TTATATTATATTAATATGCATTATT
1 TTAAATTATATTAAAATACATTATT
2653628 TTAAATTAT
1 TTAAATTAT
2653637 CATGTGCACA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAAATTATATTAAAATACATTATT
Found at i:2653973 original size:40 final size:40
Alignment explanation
Indices: 2653917--2653996 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
2653907 TCTACAAATT
* *
2653917 AATAGCTATTCCAGAT-CACTAAAAATAACCTAACTATACA
1 AATAGCTATTCAAGATCCACCAAAAA-AACCTAACTATACA
* *
2653957 AATAGCTATTCAAGATCCACCAAAAACACCTGACTATACA
1 AATAGCTATTCAAGATCCACCAAAAAAACCTAACTATACA
2653997 TATATACGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (40 bp):
AATAGCTATTCAAGATCCACCAAAAAAACCTAACTATACA
Found at i:2654014 original size:2 final size:2
Alignment explanation
Indices: 2654009--2654033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2653999 TATACGTATG
2654009 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 T
2654034 CAAAGATTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2654507 original size:25 final size:24
Alignment explanation
Indices: 2654479--2654529 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2654469 AGATAAAATT
2654479 ATAAGATTTAATAAAATTAAAATGA
1 ATAAGATTTAAT-AAATTAAAATGA
* * *
2654504 ATAATATTTTATAAATTAAAGTGA
1 ATAAGATTTAATAAATTAAAATGA
2654528 AT
1 AT
2654530 TTTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (24 bp):
ATAAGATTTAATAAATTAAAATGA
Found at i:2658635 original size:12 final size:12
Alignment explanation
Indices: 2658618--2658653 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
2658608 GATTGATGTG
2658618 TTCAAATATCAA
1 TTCAAATATCAA
2658630 TTCAAATATCAA
1 TTCAAATATCAA
2658642 TTCAAATATCAA
1 TTCAAATATCAA
2658654 ATTTTGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (12 bp):
TTCAAATATCAA
Found at i:2659588 original size:19 final size:20
Alignment explanation
Indices: 2659564--2659602 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2659554 AAAGAAAAGT
*
2659564 TAAAAAAATT-TTATTTTTA
1 TAAAAAAATTATTATATTTA
2659583 TAAAAAAATTATTATATTTA
1 TAAAAAAATTATTATATTTA
2659603 GATTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAAAAATTATTATATTTA
Found at i:2659940 original size:17 final size:18
Alignment explanation
Indices: 2659908--2659943 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2659898 TGTTATTTTA
2659908 TAAAAAAAAAGGTTATAAT
1 TAAAAAAAAA-GTTATAAT
2659927 TAAAAAAAAA-TTATAAT
1 TAAAAAAAAAGTTATAAT
2659944 GAATTATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
TAAAAAAAAAGTTATAAT
Found at i:2663091 original size:13 final size:13
Alignment explanation
Indices: 2663075--2663099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2663065 TAAAAATAAA
2663075 AATTAATTTAATT
1 AATTAATTTAATT
2663088 AATTAATTTAAT
1 AATTAATTTAAT
2663100 CCATTTAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:2665275 original size:407 final size:407
Alignment explanation
Indices: 2664495--2665297 Score: 1288
Period size: 407 Copynumber: 2.0 Consensus size: 407
2664485 ATTTTTCCAT
* *
2664495 AGCTTTTCTTTTTACCGTAGCCGCTGGCAAATCCTCCATTGTCGCCGCCGTAACCGGTCATCATA
1 AGCTTTTCTTTTTACCGTAACCACTGGCAAATCCTCCATTGTCGCCGCCGTAACCGGTCATCATA
*
2664560 GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTCTGGGCATTATCGTTGTTCTCATTTGC
66 GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTCTGGGCATTATCGTTGTTCTCATTCGC
* * *
2664625 TCCAATGAAAGCCATGAAATCATCAACCAATTTTTTCTTCGTCTCTTCCTTTGCGAGCATATCCT
131 TCCAATGAAAGCCATGAAATCATCAACCAATTTTTCCTTCGCCGCTTCCTTTGCGAGCATATCCT
* *
2664690 GATTTTTTCTCATAAGCATGGAACGCTCCTCTCCTTCTCCTGAAGTGCAACTTCATCAGCCCTCA
196 GATTGTTTCTCATAAGCATGGAACGCTCCTCTCCTTCTCCTGAAGTGCAACTTCATCAGCCATCA
* * * * *
2664755 GTGATTCTTTCATCAGCCTTATCTTCAGCCTCTTTCCTGCCAAAAAAATTTCCACATCCACAGCA
261 GTGATTCATTCATCAACCTTATCTTCAGCCTCTTTCCTGCCAAAAAAATTACCACAACCACAACA
* *
2664820 ATGAATTCTTGGGGATCCTGTTAGATATTCAAGTAAAGCAGAAAAAAGCCATTAACAGCCACATT
326 ATAAATTCTTGGAGATCCTGTTAGATATTCAAGTAAAGCAGAAAAAAGCCATTAACAGCCACATT
2664885 AACAGTAATTTTTTGGG
391 AACAGTAATTTTTTGGG
* * * * *
2664902 AGCTTTTCTTTTTACCGTAACCATTGGCAAATCCTCCATTGTCGTCGCCGTCACTGTTCATCATA
1 AGCTTTTCTTTTTACCGTAACCACTGGCAAATCCTCCATTGTCGCCGCCGTAACCGGTCATCATA
* * *
2664967 GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTGTGGGCATTCTCGTTGTTCTTATTCGC
66 GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTCTGGGCATTATCGTTGTTCTCATTCGC
* *
2665032 TCCAATGAAAGCCATGAAATCATCAACCAATTTTTCCTTTGCCGCTTCTTTTGCGAGCATATCCT
131 TCCAATGAAAGCCATGAAATCATCAACCAATTTTTCCTTCGCCGCTTCCTTTGCGAGCATATCCT
2665097 GATTGTTTCTCATAAGCATGGAACGCTCCCTCTCCTTCTCCTGAAGTGCAAC-TCGATCAGCCAT
196 GATTGTTTCTCATAAGCATGGAACGCT-CCTCTCCTTCTCCTGAAGTGCAACTTC-ATCAGCCAT
* * * * *
2665161 CAGTGATTCATTCATCAACCTTATCTTCTGTCT-TTCTCCTTCCAAAAAAATTACCAGAAGCACA
259 CAGTGATTCATTCATCAACCTTATCTTCAGCCTCTT-TCCTGCCAAAAAAATTACCACAACCACA
2665225 ACAATAAATTCTTGGAGATCCTGTTAGATATTCAAGTAAAGCAG-AAAAAGCCATTAACAGCCAC
323 ACAATAAATTCTTGGAGATCCTGTTAGATATTCAAGTAAAGCAGAAAAAAGCCATTAACAGCCAC
2665289 ATTAACAGT
388 ATTAACAGT
2665298 TAAAATTGTC
Statistics
Matches: 363, Mismatches: 30, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
407 238 0.66
408 125 0.34
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (407 bp):
AGCTTTTCTTTTTACCGTAACCACTGGCAAATCCTCCATTGTCGCCGCCGTAACCGGTCATCATA
GTTTCAATAGCTTTCATCATTGCTTTTTCATCAAAATTCTGGGCATTATCGTTGTTCTCATTCGC
TCCAATGAAAGCCATGAAATCATCAACCAATTTTTCCTTCGCCGCTTCCTTTGCGAGCATATCCT
GATTGTTTCTCATAAGCATGGAACGCTCCTCTCCTTCTCCTGAAGTGCAACTTCATCAGCCATCA
GTGATTCATTCATCAACCTTATCTTCAGCCTCTTTCCTGCCAAAAAAATTACCACAACCACAACA
ATAAATTCTTGGAGATCCTGTTAGATATTCAAGTAAAGCAGAAAAAAGCCATTAACAGCCACATT
AACAGTAATTTTTTGGG
Found at i:2668349 original size:18 final size:19
Alignment explanation
Indices: 2668312--2668353 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2668302 AAAATCTTAT
*
2668312 ATATAATGGTTAATTCAAA
1 ATATAATGGTTAATTAAAA
*
2668331 ATATAAT-GTTATTTAAAA
1 ATATAATGGTTAATTAAAA
2668349 A-ATAA
1 ATATAA
2668354 CAAATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (19 bp):
ATATAATGGTTAATTAAAA
Found at i:2670614 original size:59 final size:59
Alignment explanation
Indices: 2670510--2670779 Score: 343
Period size: 60 Copynumber: 4.6 Consensus size: 59
2670500 TTCAAAAACC
*
2670510 TTTTTGAAAATTTATTTTTAAGAAAAACTGATACTTT-AACTTTTTCCT-AAAAA-TATT
1 TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTTCCTCAAAAACTATT
* * * *
2670567 TTTTTGAAAATTTTGATTTTCAAGGAAAATTGATACTATCAGCTTTTCCTCAAAAACT-TT
1 TTTTTGAAAA-TTT-ATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTATT
* * * *
2670627 TTTTTGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT
1 TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTT-CCTCAAAA-ACTATT
* *
2670688 TTTTTG-AAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTT
1 TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTATT
*
2670746 TTTTTTAAAATTTATTTTTTAAGAAAAATTGATA
1 TTTTTGAAAATTTA-TTTTTAAGAAAAATTGATA
2670780 AAACAAAATA
Statistics
Matches: 185, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
57 10 0.05
58 41 0.22
59 51 0.28
60 74 0.40
61 9 0.05
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (59 bp):
TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTATT
Found at i:2670731 original size:118 final size:118
Alignment explanation
Indices: 2670510--2670779 Score: 404
Period size: 118 Copynumber: 2.3 Consensus size: 118
2670500 TTCAAAAACC
* *
2670510 TTTTTGAAAATTTATTTTTAAGAAAAACTGATACTTTAACTTTTTCCTAAAAATATTTTTTTGAA
1 TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTAACTTTTCCCTAAAAATATTTTTTTGAA
*
2670575 AATTTTGATTTTCAAGGAAAATTGATACTATCAGCTTTTCCTCAAAAAC-TTT
66 AATTTTGATTTTCAAGGAAAATTGATACTATCAACTTTTCCTCAAAAACTTTT
*
2670627 TTTTTGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT
1 TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTT-AACTTTTCCCTAAAAATA---TTTTTT
* *
2670692 TG-AAA-TTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTT
62 TGAAAATTTTGATTTTCAAGGAAAATTGATACTATCAACTTTTCCTCAAAAACTTTT
*
2670746 TTTTTTAAAATTTATTTTTTAAGAAAAATTGATA
1 TTTTTGAAAATTTA-TTTTTAAGAAAAATTGATA
2670780 AAACAAAATA
Statistics
Matches: 139, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
117 35 0.25
118 56 0.40
119 18 0.13
120 22 0.16
121 8 0.06
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (118 bp):
TTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTAACTTTTCCCTAAAAATATTTTTTTGAA
AATTTTGATTTTCAAGGAAAATTGATACTATCAACTTTTCCTCAAAAACTTTT
Found at i:2670792 original size:5 final size:5
Alignment explanation
Indices: 2670777--2670859 Score: 64
Period size: 5 Copynumber: 16.2 Consensus size: 5
2670767 AGAAAAATTG
* *
2670777 ATAAA ACAAA ATAAA AGTGAAA A-AAA ATAAA AT-AA ATTAA A-AAA ATAAA
1 ATAAA ATAAA ATAAA A-T-AAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
* *
2670826 AGAAA GTAAAA ATAAA TATAAA ATAAA TATAAA A
1 ATAAA AT-AAA ATAAA -ATAAA ATAAA -ATAAA A
2670860 AGAATATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
4 11 0.17
5 33 0.52
6 15 0.24
7 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:2670818 original size:18 final size:20
Alignment explanation
Indices: 2670797--2670876 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 20
2670787 ATAAAAGTGA
2670797 AAAAAAATAAAATAAA-T-T
1 AAAAAAATAAAATAAACTAT
* * *
2670815 AAAAAAATAAAAGAAAGTAA
1 AAAAAAATAAAATAAACTAT
2670835 AAATAAATATAAAATAAA-TAT
1 AAA-AAA-ATAAAATAAACTAT
2670856 AAAAAGAATATTAAATAAACT
1 AAAAA-AATA--AAATAAACT
2670877 TAATCTAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
18 15 0.30
19 1 0.02
20 8 0.16
21 9 0.18
22 16 0.32
23 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (20 bp):
AAAAAAATAAAATAAACTAT
Found at i:2670823 original size:34 final size:34
Alignment explanation
Indices: 2670784--2670852 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
2670774 TTGATAAAAC
*
2670784 AAAATAAAAGTGAAA-AAAAATAAA-ATAAATTAAA
1 AAAATAAAA--GAAAGAAAAATAAATATAAAATAAA
2670818 AAAATAAAAGAAAGTAAAAATAAATATAAAATAAA
1 AAAATAAAAGAAAG-AAAAATAAATATAAAATAAA
2670853 TATAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 4 0.13
34 18 0.58
35 9 0.29
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (34 bp):
AAAATAAAAGAAAGAAAAATAAATATAAAATAAA
Found at i:2670859 original size:22 final size:21
Alignment explanation
Indices: 2670796--2670874 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 21
2670786 AATAAAAGTG
2670796 AAAAAAA-ATAAAATAAAT-T
1 AAAAAAATATAAAATAAATAT
*
2670815 AAAAAAATA-AAAGA-AAGTA-
1 AAAAAAATATAAA-ATAAATAT
2670834 AAAATAAATATAAAATAAATAT
1 AAAA-AAATATAAAATAAATAT
*
2670856 AAAAAGAATATTAAATAAA
1 AAAAA-AATATAAAATAAA
2670875 CTTAATCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 17 0.35
20 8 0.16
21 8 0.16
22 16 0.33
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAAAATATAAAATAAATAT
Found at i:2671738 original size:24 final size:23
Alignment explanation
Indices: 2671707--2671752 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
2671697 CAGATAAATC
2671707 AAAAAAATAAAAAAAATCAAAAG
1 AAAAAAATAAAAAAAATCAAAAG
* * *
2671730 AAAATAAATCAGATAAATCAAAA
1 AAAA-AAATAAAAAAAATCAAAA
2671753 AAATTAACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (23 bp):
AAAAAAATAAAAAAAATCAAAAG
Found at i:2671863 original size:6 final size:6
Alignment explanation
Indices: 2671852--2671965 Score: 116
Period size: 6 Copynumber: 19.7 Consensus size: 6
2671842 GTAAATAGCT
*
2671852 AAAATA AAAATA AAATATAA AATAATA AAAATA AAAAT- AAAATA GAAAT-
1 AAAATA AAAATA AAA-AT-A AA-AATA AAAATA AAAATA AAAATA AAAATA
* **
2671901 AGAATA AAAAT- AAAATA AAAAT- -AAATA AAAATA AAAATA AAAACG
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
2671946 AAAAT- AAAATA AAAA-A AAAA
1 AAAATA AAAATA AAAATA AAAA
2671966 AACATATACC
Statistics
Matches: 92, Mismatches: 7, Indels: 19
0.78 0.06 0.16
Matches are distributed among these distances:
4 4 0.04
5 23 0.25
6 54 0.59
7 5 0.05
8 5 0.05
9 1 0.01
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:2671865 original size:27 final size:25
Alignment explanation
Indices: 2671851--2671965 Score: 107
Period size: 27 Copynumber: 4.6 Consensus size: 25
2671841 AGTAAATAGC
2671851 TAAAATAAAAATAAAATATAAAATAA
1 TAAAATAAAAATAAAATAT-AAATAA
*
2671877 TAAAAATAAAAATAAAATAGAAATAGAA
1 T-AAAATAAAAATAAAATATAAAT--AA
2671905 TAAAA-ATAAAATAAAA-ATAAAT-A
1 TAAAATA-AAAATAAAATATAAATAA
**
2671928 -AAAATAAAAATAAAA-ACGAA-AA
1 TAAAATAAAAATAAAATATAAATAA
*
2671950 TAAAATAAAAAAAAAA
1 TAAAATAAAAATAAAA
2671966 AACATATACC
Statistics
Matches: 77, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
22 17 0.22
23 16 0.21
26 11 0.14
27 30 0.39
28 3 0.04
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (25 bp):
TAAAATAAAAATAAAATATAAATAA
Found at i:2671928 original size:49 final size:50
Alignment explanation
Indices: 2671851--2671965 Score: 173
Period size: 49 Copynumber: 2.3 Consensus size: 50
2671841 AGTAAATAGC
2671851 TAAAATAAAAATAAAATATAAAATAATAAAAATAAAAATAAAATA-G-AAA
1 TAAAATAAAAATAAAATATAAAATAATAAAAATAAAAATAAAA-ACGAAAA
*
2671900 TAGAATAAAAATAAAATA-AAAATAAATAAAAATAAAAATAAAAACGAAAA
1 TAAAATAAAAATAAAATATAAAAT-AATAAAAATAAAAATAAAAACGAAAA
*
2671950 TAAAATAAAAAAAAAA
1 TAAAATAAAAATAAAA
2671966 AACATATACC
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
48 6 0.10
49 37 0.62
50 17 0.28
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (50 bp):
TAAAATAAAAATAAAATATAAAATAATAAAAATAAAAATAAAAACGAAAA
Found at i:2671959 original size:22 final size:22
Alignment explanation
Indices: 2671858--2671965 Score: 107
Period size: 22 Copynumber: 5.0 Consensus size: 22
2671848 AGCTAAAATA
*
2671858 AAAATAAAATATAAAAT-AATA-
1 AAAATAAAA-ATAAAATAAAAAG
* *
2671879 AAAATAAAAATAAAATAGAAAT
1 AAAATAAAAATAAAATAAAAAG
*
2671901 AGAATAAAAATAAAATAAAAA-
1 AAAATAAAAATAAAATAAAAAG
*
2671922 TAAATAAAAATAAAAATAAAAACG
1 AAAATAAAAAT-AAAATAAAAA-G
*
2671946 AAAAT-AAAATAAAAAAAAAA
1 AAAATAAAAATAAAATAAAAA
2671966 AACATATACC
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
20 7 0.09
21 20 0.27
22 38 0.51
23 5 0.07
24 4 0.05
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.17
Consensus pattern (22 bp):
AAAATAAAAATAAAATAAAAAG
Found at i:2672322 original size:42 final size:41
Alignment explanation
Indices: 2672173--2672370 Score: 254
Period size: 41 Copynumber: 4.8 Consensus size: 41
2672163 AGCTCAACAG
** * *
2672173 CTTTGAGAAACATAAA-TGACTCCTCTAATTAGAGGCTCAACGA
1 CTTTGA-AAA-ATAAATTG-CTCCTCTAAACAGAGGCACCACGA
* *
2672216 CTTTGAAAAATAAACTGCTCCTCTAAACAGAGGCATCACGA
1 CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
*
2672257 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
* *
2672298 CTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 C-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
* *
2672340 CTTTGAAAAATAAATTACTACTCTAAACAGA
1 CTTTGAAAAATAAATTGCTCCTCTAAACAGA
2672371 AAATTGCTCC
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
41 89 0.64
42 45 0.32
43 6 0.04
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (41 bp):
CTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
Found at i:2672342 original size:83 final size:82
Alignment explanation
Indices: 2672173--2672370 Score: 261
Period size: 83 Copynumber: 2.4 Consensus size: 82
2672163 AGCTCAACAG
* ** *
2672173 CTTTGAGAAACATAAATGACTCCTCTAATTAGAGGCTCAACGACTTTGAAAAATAAACTGCTCCT
1 CTTTGA-AAA-ATAAATTACTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAACTGCTCCT
*
2672238 CTAAACAGAGGCATCACGA
64 CTAAACAGAGGCACCACGA
* * * * * *
2672257 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTC
1 CTTTGAAAAATAAATTACTCCTCTAAACAGAGGCACAACGAC-TTTGAAAAATAAACTGCTCCTC
2672322 TAAACAGAGGCACCACGA
65 TAAACAGAGGCACCACGA
*
2672340 CTTTGAAAAATAAATTACTACTCTAAACAGA
1 CTTTGAAAAATAAATTACTCCTCTAAACAGA
2672371 AAATTGCTCC
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
82 26 0.26
83 67 0.68
84 6 0.06
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (82 bp):
CTTTGAAAAATAAATTACTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAACTGCTCCTCT
AAACAGAGGCACCACGA
Found at i:2672405 original size:61 final size:61
Alignment explanation
Indices: 2672310--2672431 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
2672300 TTTGGAAAGT
2672310 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTACTCTAAACAGA
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTACTCTAAACAGA
*
2672371 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTACTCTAAACAGA
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTACTCTAAACAGA
2672432 GGCACCACGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (61 bp):
AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTACTCTAAACAGA
Found at i:2672425 original size:41 final size:41
Alignment explanation
Indices: 2672371--2672587 Score: 371
Period size: 41 Copynumber: 5.3 Consensus size: 41
2672361 TCTAAACAGA
2672371 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAT
*
2672412 AAATTGCTACTCTAAACAGAGGCACCACGACTTTGAAAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-T
* *
2672454 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAT
2672495 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAT
* *
2672536 AAATTGCTCCTCTAAACAGAGGCACCACGATTTTGGAAAAT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAT
*
2672577 AAATTACTCCT
1 AAATTGCTCCT
2672588 TGACAATCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 128 0.77
42 38 0.23
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAT
Found at i:2672498 original size:144 final size:144
Alignment explanation
Indices: 2672231--2672514 Score: 480
Period size: 144 Copynumber: 2.0 Consensus size: 144
2672221 AAAAATAAAC
* * *
2672231 TGCTCCTCTAAACAGAGGCATCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 TGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTACTCTAAACAGAGGCACCAC
*
2672296 GACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTAC
66 GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTAC
2672361 TCTAAACAGAAAAT
131 TCTAAACAGAAAAT
2672375 TGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTACTCTAAACAGAGGCACCAC
1 TGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTACTCTAAACAGAGGCACCAC
* * * *
2672440 GAC-TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTC
66 GACTTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTA
2672504 CTCTAAACAGA
130 CTCTAAACAGA
2672515 GGCACCACGA
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
143 4 0.03
144 127 0.97
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.23
Consensus pattern (144 bp):
TGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTACTCTAAACAGAGGCACCAC
GACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTAC
TCTAAACAGAAAAT
Found at i:2672504 original size:185 final size:185
Alignment explanation
Indices: 2672192--2672555 Score: 631
Period size: 185 Copynumber: 2.0 Consensus size: 185
2672182 ACATAAATGA
** * * *
2672192 CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAATAAACTGCTCCTCTAAACAGAGGCATCACGA
1 CTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAACTGCTACTCTAAACAGAGGCACCACGA
2672257 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTC
66 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTC
2672322 TAAACAGAGGCACCACGACTTTGAAAAATAAATTACTACTCTAAACAGAAAATTG
131 TAAACAGAGGCACCACGACTTTGAAAAATAAATTACTACTCTAAACAGAAAATTG
* *
2672377 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTACTCTAAACAGAGGCACCACGA
1 CTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAACTGCTACTCTAAACAGAGGCACCACGA
2672442 CTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCT
66 CTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCT
* *
2672506 CTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGA
130 CTAAACAGAGGCACCACGACTTTGAAAAATAAATTACTACTCTAAACAGA
2672556 GGCACCACGA
Statistics
Matches: 169, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
185 132 0.78
186 37 0.22
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (185 bp):
CTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAACTGCTACTCTAAACAGAGGCACCACGA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTC
TAAACAGAGGCACCACGACTTTGAAAAATAAATTACTACTCTAAACAGAAAATTG
Found at i:2672510 original size:83 final size:82
Alignment explanation
Indices: 2672371--2672587 Score: 380
Period size: 83 Copynumber: 2.6 Consensus size: 82
2672361 TCTAAACAGA
* *
2672371 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTACTCTAAACAGAGGCA
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCA
2672436 CCACGACTTTGAAAAAGT
66 CCACGACTTTGAAAAA-T
*
2672454 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCA
2672519 CCACGACTTTGAAAAAT
66 CCACGACTTTGAAAAAT
* *
2672536 AAATTGCTCCTCTAAACAGAGGCACCACGATTTTGGAAAATAAATTACTCCT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGCTCCT
2672588 TGACAATCAA
Statistics
Matches: 128, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 50 0.39
83 78 0.61
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.23
Consensus pattern (82 bp):
AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCA
CCACGACTTTGAAAAAT
Found at i:2673338 original size:24 final size:23
Alignment explanation
Indices: 2673283--2673336 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
2673273 TTTTCTTTTG
2673283 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
2673306 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
2673332 TATTT
1 TATTT
2673337 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:2673395 original size:3 final size:3
Alignment explanation
Indices: 2673387--2673412 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2673377 AGTTATATAT
2673387 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2673413 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2674008 original size:20 final size:20
Alignment explanation
Indices: 2673985--2674027 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
2673975 TGCCCAGTTT
*
2673985 CCGGCGAAGTATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
2674005 CCGGCGAAGAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
2674025 CCG
1 CCG
2674028 TCAAATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.26, T:0.07
Consensus pattern (20 bp):
CCGGCGAAGAATCCCAGAAA
Found at i:2674089 original size:20 final size:20
Alignment explanation
Indices: 2674046--2674090 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2674036 CCGGCCAACT
*
2674046 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
2674066 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
2674086 TCCGG
1 TCCGG
2674091 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:2686735 original size:3 final size:3
Alignment explanation
Indices: 2686727--2686775 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
2686717 AACTCTTCGT
*
2686727 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2686775 G
1 G
2686776 GACTGGAGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2692630 original size:2 final size:2
Alignment explanation
Indices: 2692618--2692655 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
2692608 CAGATTGTTC
2692618 AT AT A- AT AT AT AT AT AT AT AT -T 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 AT
2692656 GTTGTTTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2692642 original size:15 final size:15
Alignment explanation
Indices: 2692618--2692653 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2692608 CAGATTGTTC
*
2692618 ATATAATATATATAT
1 ATATATTATATATAT
2692633 ATATATTATATATAT
1 ATATATTATATATAT
2692648 ATATAT
1 ATATAT
2692654 ATGTTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATTATATATAT
Found at i:2692643 original size:17 final size:17
Alignment explanation
Indices: 2692618--2692655 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2692608 CAGATTGTTC
2692618 ATATAATATATATATAT
1 ATATAATATATATATAT
*
2692635 ATATTATATATATATAT
1 ATATAATATATATATAT
2692652 ATAT
1 ATAT
2692656 GTTGTTTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATAATATATATATAT
Found at i:2697256 original size:23 final size:23
Alignment explanation
Indices: 2697222--2697267 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2697212 TATCATATAT
2697222 TAATTCTAATTAATTTAA-AAAAA
1 TAATTCTAATT-ATTTAATAAAAA
2697245 TAATT-TATATTATTTAATAAAAA
1 TAATTCTA-ATTATTTAATAAAAA
2697268 ATCTATTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATTCTAATTATTTAATAAAAA
Found at i:2700542 original size:23 final size:23
Alignment explanation
Indices: 2700512--2700559 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
2700502 CTCCATAAAG
2700512 ATCATTTATGCTAAACATTCTGT
1 ATCATTTATGCTAAACATTCTGT
2700535 ATCATTTATGCTAAACATTCTGT
1 ATCATTTATGCTAAACATTCTGT
2700558 AT
1 AT
2700560 TGCATGCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (23 bp):
ATCATTTATGCTAAACATTCTGT
Found at i:2714472 original size:24 final size:24
Alignment explanation
Indices: 2714445--2714490 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2714435 ATTAATATTT
* * *
2714445 TTATTATTTATCTGTTTTTTTTTA
1 TTATCATTTATCTATTTCTTTTTA
2714469 TTATCATTTATCTATTTCTTTT
1 TTATCATTTATCTATTTCTTTT
2714491 ATTTATCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (24 bp):
TTATCATTTATCTATTTCTTTTTA
Found at i:2714496 original size:24 final size:23
Alignment explanation
Indices: 2714444--2714502 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
2714434 TATTAATATT
* * *
2714444 TTTATTATTTATCTGTTTTTTTT
1 TTTATCATTTATCTATTTTTTTA
2714467 TATTATCATTTATCTATTTCTTTTA
1 T-TTATCATTTATCTATTT-TTTTA
2714492 TTTATCTATTT
1 TTTATC-ATTT
2714503 TTTGTTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 20 0.67
25 9 0.30
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTATCATTTATCTATTTTTTTA
Found at i:2715878 original size:61 final size:62
Alignment explanation
Indices: 2715772--2715976 Score: 242
Period size: 60 Copynumber: 3.4 Consensus size: 62
2715762 AGTTTTGAAT
* * * * *
2715772 AAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAAATTT-TAAAAAAAATATTTTTTGA-A
1 AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAATTTCAAAAAAAAATATTTTTTGAGG
* * * * **
2715832 AAAAGTTGAAACTATAAATTTTCCT-TAAGAAT-AAATTTTCAAAAAAAGGT-TTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTCCTCGAA-AATAAAAATTTCAAAAAAAAATATTTTTTGAGG
* *
2715892 AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTTCAAAAAAAAATA-TTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAATTTCAAAAAAAAATATTTTTTGAGG
2715953 AAAAGTTGAAAGTATCAATTTTCC
1 AAAAGTTGAAAGTATCAATTTTCC
2715977 CTTGTACAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
59 16 0.13
60 55 0.46
61 49 0.41
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (62 bp):
AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAATTTCAAAAAAAAATATTTTTTGAGG
Found at i:2719879 original size:25 final size:24
Alignment explanation
Indices: 2719842--2719895 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
2719832 ACAATGGATG
2719842 AAAAATGAGAAAAAAATGATGAAAGAA
1 AAAAATGAGAAAAAAAT-A-GAAA-AA
2719869 AAAAAT-A-AAAAAAATAGAAAAA
1 AAAAATGAGAAAAAAATAGAAAAA
2719891 AAAAA
1 AAAAA
2719896 GAAAGAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.26
23 4 0.15
24 1 0.04
25 8 0.30
26 1 0.04
27 6 0.22
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (24 bp):
AAAAATGAGAAAAAAATAGAAAAA
Found at i:2719887 original size:19 final size:19
Alignment explanation
Indices: 2719865--2719929 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
2719855 AAATGATGAA
2719865 AGAAAAAAATAAAAAAAAT
1 AGAAAAAAATAAAAAAAAT
2719884 AGAAAAAAA-AAAGAAAGAA-
1 AGAAAAAAATAAA-AAA-AAT
*
2719903 AGAAGAAAGAAT-GAAAAAAT
1 AGAA-AAA-AATAAAAAAAAT
2719923 -GAAAAAA
1 AGAAAAAA
2719930 GAGATTCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
17 1 0.03
18 6 0.15
19 21 0.54
20 8 0.21
21 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (19 bp):
AGAAAAAAATAAAAAAAAT
Found at i:2719899 original size:30 final size:30
Alignment explanation
Indices: 2719863--2719921 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2719853 AAAAATGATG
*
2719863 AAAGAAAAAAATAA-AAAAAATAGAAAAAAA
1 AAAGAAAAAAAGAAGAAAAAAT-GAAAAAAA
* *
2719893 AAAGAAAGAAAGAAGAAAGAATGAAAAAA
1 AAAGAAAAAAAGAAGAAAAAATGAAAAAA
2719922 TGAAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (30 bp):
AAAGAAAAAAAGAAGAAAAAATGAAAAAAA
Found at i:2719904 original size:8 final size:7
Alignment explanation
Indices: 2719863--2719931 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
2719853 AAAAATGATG
2719863 AAAGAAA
1 AAAGAAA
*
2719870 AAA-ATA
1 AAAGAAA
2719876 AAA-AAA
1 AAAGAAA
*
2719882 ATAGAAA
1 AAAGAAA
*
2719889 AAAAAAA
1 AAAGAAA
2719896 GAAAGAAA
1 -AAAGAAA
*
2719904 GAAGAAA
1 AAAGAAA
*
2719911 GAATGAAA
1 -AAAGAAA
2719919 AAATGAAA
1 AAA-GAAA
2719927 AAAGA
1 AAAGA
2719932 GATTCAAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
6 9 0.19
7 21 0.44
8 18 0.38
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (7 bp):
AAAGAAA
Found at i:2719908 original size:11 final size:11
Alignment explanation
Indices: 2719862--2719931 Score: 54
Period size: 11 Copynumber: 6.2 Consensus size: 11
2719852 AAAAAATGAT
2719862 GAAAGAAAAAA
1 GAAAGAAAAAA
*
2719873 -ATAAAAAAAATA
1 GA-AAGAAAAA-A
*
2719885 GAAAAAAAAAA
1 GAAAGAAAAAA
*
2719896 GAAAGAAAGAA
1 GAAAGAAAAAA
2719907 GAAAGAATGAAAA
1 GAAAGAA--AAAA
*
2719920 -AATGAAAAAA
1 GAAAGAAAAAA
2719930 GA
1 GA
2719932 GATTCAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
10 5 0.10
11 25 0.52
12 14 0.29
13 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.06
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:2721289 original size:43 final size:42
Alignment explanation
Indices: 2721241--2721322 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
2721231 GCTTTTGAAC
* *
2721241 TCAAATGAGAAGCTTT-GAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ATTTTTGGATATGAAT-TCCAAAAT
2721284 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
2721323 GTTTGCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 5 0.14
43 30 0.83
44 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAAAAT
Found at i:2721690 original size:41 final size:40
Alignment explanation
Indices: 2721616--2721866 Score: 294
Period size: 41 Copynumber: 6.2 Consensus size: 40
2721606 ATAATTGTCA
* *
2721616 AGGAACAATTTA-TTTCCAAAGTTTCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG--TCGTGTGCCTCTGTTTAG
* *
2721656 AGGAGCAATTTACTTTTCAAAGTCGTAGTACCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* * *
2721697 AGGAGCAA-TTACTTTCCAAAATTTCGT-TGCCTCTATTTAG
1 AGGAGCAATTTACTTTTC-AAA-GTCGTGTGCCTCTGTTTAG
2721737 AGGAGCAATTTACTTTTCAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTG-TGCCTCTGTTTAG
2721778 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* * * *
2721819 AGGAGCAATTTATTTTTCAGAAGTTGTGGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTCA-AAGTCGT-GTGCCTCTGTTTAG
2721861 AGGAGC
1 AGGAGC
2721867 TTTGTTTATG
Statistics
Matches: 185, Mismatches: 16, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
39 8 0.04
40 40 0.22
41 107 0.58
42 30 0.16
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (40 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAG
Found at i:2721750 original size:81 final size:82
Alignment explanation
Indices: 2721615--2721842 Score: 313
Period size: 81 Copynumber: 2.8 Consensus size: 82
2721605 CATAATTGTC
* *
2721615 AAGGAACAATTTA-TTTCCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AAGGAGCAATTTACTTTCCAAAATTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
2721679 CGT-AGTACCTCTGTTTA
66 CGTGA-TACCTCTGTTTA
*
2721696 AAGGAGCAA-TTACTTTCCAAAATTTCGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGT
1 AAGGAGCAATTTACTTTCCAAAATTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
*
2721760 CGTGATGCCTCTGTTTA
66 CGTGATACCTCTGTTTA
* * * *
2721777 GAGGAGCAATTTACTTTTC-AAA-GTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAGA
1 AAGGAGCAATTTACTTTCCAAAATTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCA-A
2721840 AGT
63 AGT
2721843 TGTGGAGCCT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
80 7 0.05
81 82 0.62
82 39 0.30
83 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (82 bp):
AAGGAGCAATTTACTTTCCAAAATTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
CGTGATACCTCTGTTTA
Found at i:2721962 original size:10 final size:10
Alignment explanation
Indices: 2721949--2722002 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
2721939 AAAAAAAAGG
2721949 AACAAAACAA
1 AACAAAACAA
2721959 AACAAAACAA
1 AACAAAACAA
2721969 AACAAAA-AA
1 AACAAAACAA
*
2721978 AATAAAA-AA
1 AACAAAACAA
2721987 ATA-AAAACAA
1 A-ACAAAACAA
2721997 AA-AAAA
1 AACAAAA
2722003 TGTCAAGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
9 20 0.49
10 21 0.51
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.04
Consensus pattern (10 bp):
AACAAAACAA
Found at i:2722003 original size:15 final size:14
Alignment explanation
Indices: 2721936--2722002 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 14
2721926 TAATAAGCAA
2721936 AAAAAAAAAAAGGAAC
1 AAAAAAAAAAA--AAC
*
2721952 AAAACAAAACAAAAC
1 AAAA-AAAAAAAAAC
* *
2721967 AAAACAAAAAAAAT
1 AAAAAAAAAAAAAC
*
2721981 AAAAAAATAAAAAC
1 AAAAAAAAAAAAAC
2721995 AAAAAAAA
1 AAAAAAAA
2722003 TGTCAAGTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
14 25 0.60
15 7 0.17
16 4 0.10
17 6 0.14
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:2722227 original size:24 final size:23
Alignment explanation
Indices: 2722200--2722277 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
2722190 CTTTTATTTT
2722200 TATTTTTATTATATATATATTATC
1 TATTTTTATTAT-TATATATTATC
** *
2722224 TATTAATATTTTTAT-TATTTATC
1 TATTTTTATTATTATATA-TTATC
*
2722247 TACTTTTTTTTATTATCAT-TTATC
1 TA-TTTTTATTATTAT-ATATTATC
2722271 TATTTTT
1 TATTTTT
2722278 TTTGTTTGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
22 2 0.05
23 15 0.35
24 25 0.58
26 1 0.02
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTTTATTATTATATATTATC
Found at i:2722278 original size:24 final size:24
Alignment explanation
Indices: 2722235--2722280 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2722225 ATTAATATTT
*
2722235 TTATTATTTATCTACTTTTTTTTA
1 TTATCATTTATCTACTTTTTTTTA
2722259 TTATCATTTATCTA-TTTTTTTT
1 TTATCATTTATCTACTTTTTTTT
2722281 GTTTGTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (24 bp):
TTATCATTTATCTACTTTTTTTTA
Found at i:2723690 original size:62 final size:59
Alignment explanation
Indices: 2723608--2723880 Score: 295
Period size: 62 Copynumber: 4.5 Consensus size: 59
2723598 CAAAAATGGG
2723608 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTCAAAAAAAAAAATA
1 TTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTC--AAAAAAAAATA
* * ** *** *
2723670 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCT-TAAGAATAAATTTTCAAAAAATGGTT
1 TTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAAAATTCAAAAAAAAATA
*
2723730 TTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAAATTTCAAAAAAAAAATA
1 TTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAA-TTC-AAAAAAAAATA
** **
2723792 TTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAGTTTC---AAAAAATA
1 TTTTTGG-GAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTCAAAAAAAAATA
*
2723849 -TTTTGGAAAAAAGTTGAAAGTATCAATTTTTC
1 TTTTTGG-GAAAAGTTGAAAGTATCAATTTTTC
2723881 CTTGTATAAA
Statistics
Matches: 181, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
56 31 0.17
57 8 0.04
59 1 0.01
60 43 0.24
61 11 0.06
62 86 0.48
63 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (59 bp):
TTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTCAAAAAAAAATA
Done.