Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 46 of 129
Found at i:9068950 original size:27 final size:27
Alignment explanation
Indices: 9068922--9069011 Score: 98
Period size: 29 Copynumber: 3.4 Consensus size: 27
9068912 ATTCACTATA
9068922 TTTTATTTTTTTAATATTTCAAAATTAT
1 TTTTATTTTTTTAATATTT-AAAATTAT
* *
9068950 TTTGTATTTTTTTAACATCT-AAA--AT
1 TTT-TATTTTTTTAATATTTAAAATTAT
*
9068975 TTTTA-TTTTTTCATATTTTAAAATTAT
1 TTTTATTTTTTTAATA-TTTAAAATTAT
9069002 TTTTATTTTT
1 TTTTATTTTT
9069012 ACTTTTTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
23 8 0.16
24 4 0.08
25 8 0.16
27 10 0.20
28 7 0.14
29 14 0.27
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTTATTTTTTTAATATTTAAAATTAT
Found at i:9070792 original size:26 final size:25
Alignment explanation
Indices: 9070733--9070795 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
9070723 TTAGGATTTG
9070733 AATATTTATATATTTATATAGTATAA
1 AATATTT-TATATTTATATAGTATAA
*
9070759 AATA-TTTATATTTATATA-TTTAA
1 AATATTTTATATTTATATAGTATAA
9070782 ATCATATTTTATAT
1 A--ATATTTTATAT
9070796 AAAAATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.15
24 12 0.36
25 5 0.15
26 11 0.33
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
AATATTTTATATTTATATAGTATAA
Found at i:9071115 original size:17 final size:17
Alignment explanation
Indices: 9071095--9071134 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
9071085 TAGTAATGTA
* *
9071095 ATTATTGAAATGCTTTT
1 ATTATTAAAATGATTTT
*
9071112 ATTAGTAAAATGATTTT
1 ATTATTAAAATGATTTT
9071129 ATTATT
1 ATTATT
9071135 TGTGATTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (17 bp):
ATTATTAAAATGATTTT
Found at i:9072172 original size:30 final size:28
Alignment explanation
Indices: 9072138--9072210 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 28
9072128 AAATTTCAAA
9072138 AAAAAAAATTAAAATATT-TAAAATTATTCT
1 AAAAAAAATTAAAAT-TTCTAAAA--ATTCT
*
9072168 -AAAAAAATTGTAAATTTCTAAAAATTCT
1 AAAAAAAATT-AAAATTTCTAAAAATTCT
9072196 ACAAAAAAATTAAAA
1 A-AAAAAAATTAAAA
9072211 AAAACTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
28 5 0.14
29 14 0.38
30 18 0.49
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAAAAAATTAAAATTTCTAAAAATTCT
Found at i:9072241 original size:22 final size:23
Alignment explanation
Indices: 9072198--9072247 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
9072188 AAAATTCTAC
9072198 AAAAAAATTAAAAAAAACTTTTT
1 AAAAAAATTAAAAAAAACTTTTT
** * *
9072221 AAAAAAATTCTAACAAATTTTTT
1 AAAAAAATTAAAAAAAACTTTTT
9072244 AAAA
1 AAAA
9072248 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAAAAATTAAAAAAAACTTTTT
Found at i:9072411 original size:20 final size:19
Alignment explanation
Indices: 9072387--9072517 Score: 72
Period size: 20 Copynumber: 6.7 Consensus size: 19
9072377 AAATAATTGG
9072387 AAAATTTTTTAAAAATTTT
1 AAAATTTTTTAAAAATTTT
*
9072406 GAAAA-TTTCTAAAATATTATT
1 -AAAATTTTTTAAAA-ATT-TT
*
9072427 AAAA-TTTTT-AAATTTTAT
1 AAAATTTTTTAAAAATTT-T
***
9072445 AAAAAAAATTTAAAAATTCTT
1 -AAAATTTTTTAAAAATT-TT
* * *
9072466 AAAGTTTTTAAAAAATATT
1 AAAATTTTTTAAAAATTTT
* *
9072485 AAAATATTTTTTAAAACTTT
1 AAAAT-TTTTTAAAAATTTT
*
9072505 -AAATTTTATAAAA
1 AAAATTTTTTAAAA
9072518 TTAAAAATAT
Statistics
Matches: 84, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
17 1 0.01
18 10 0.12
19 25 0.30
20 39 0.46
21 8 0.10
22 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAATTTTTTAAAAATTTT
Found at i:9072448 original size:69 final size:68
Alignment explanation
Indices: 9072375--9072518 Score: 148
Period size: 69 Copynumber: 2.1 Consensus size: 68
9072365 CAAAGAAATT
* * * * *
9072375 TAAAATAATTGGAAAATTTTTTAAAAATTTT-GAAAATTTCTAAAATA-TTATTAAAATTTTTAA
1 TAAAATAATT-GAAAAATTCTTAAAAATTTTAAAAAATAT-TAAAATATTTATTAAAA-CTTTAA
9072438 ATTTTA
63 ATTTTA
* * ** *
9072444 TAAAAAAAATTTAAAAATTCTTAAAGTTTTTAAAAAATATTAAAATATTTTTTAAAACTTTAAAT
1 T-AAAATAATTGAAAAATTCTTAAAAATTTTAAAAAATATTAAAATATTTATTAAAACTTTAAAT
9072509 TTTA
65 TTTA
9072513 TAAAAT
1 TAAAAT
9072519 TAAAAATATA
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
68 4 0.07
69 35 0.57
70 22 0.36
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (68 bp):
TAAAATAATTGAAAAATTCTTAAAAATTTTAAAAAATATTAAAATATTTATTAAAACTTTAAATT
TTA
Found at i:9072449 original size:19 final size:20
Alignment explanation
Indices: 9072407--9072449 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
9072397 AAAAATTTTG
*
9072407 AAAATTTCTAAAATATTATT
1 AAAATTTCTAAAATATTATA
* *
9072427 AAAATTT-TTAAATTTTATA
1 AAAATTTCTAAAATATTATA
9072446 AAAA
1 AAAA
9072450 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTTCTAAAATATTATA
Found at i:9072468 original size:30 final size:29
Alignment explanation
Indices: 9072427--9072488 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
9072417 AAATATTATT
*
9072427 AAAATTTTTAAA-TTTTATAAAAAAAATTTA
1 AAAATTCTTAAAGTTTT-TAAAAAAAA-TTA
*
9072457 AAAATTCTTAAAGTTTTTAAAAAATATTA
1 AAAATTCTTAAAGTTTTTAAAAAAAATTA
9072486 AAA
1 AAA
9072489 TATTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 19 0.66
31 4 0.14
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAATTCTTAAAGTTTTTAAAAAAAATTA
Found at i:9072746 original size:19 final size:19
Alignment explanation
Indices: 9072724--9072761 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9072714 TATTGGAAAA
9072724 TTTTAAAAAATTTAAAATT
1 TTTTAAAAAATTTAAAATT
* *
9072743 TTTTAAAAATTTTGAAATT
1 TTTTAAAAAATTTAAAATT
9072762 AAATAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTTAAAAAATTTAAAATT
Found at i:9072796 original size:27 final size:26
Alignment explanation
Indices: 9072744--9072828 Score: 75
Period size: 28 Copynumber: 3.3 Consensus size: 26
9072734 TTTAAAATTT
* * *
9072744 TTTAAAAATTTTG-AAATTA-AATAA
1 TTTAAAAAATCTGAAAATTATAAAAA
*
9072768 TTTAAAAAATCTGAAACATTCTAAAAA
1 TTTAAAAAATCTGAAA-ATTATAAAAA
* * *
9072795 TTTTAAAAATTGTGAAAATTAAAAAAA
1 -TTTAAAAAATCTGAAAATTATAAAAA
9072822 TTTAAAA
1 TTTAAAA
9072829 TTTTAATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
24 11 0.22
25 2 0.04
26 10 0.20
27 12 0.24
28 14 0.29
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (26 bp):
TTTAAAAAATCTGAAAATTATAAAAA
Found at i:9072869 original size:9 final size:9
Alignment explanation
Indices: 9072720--9072871 Score: 71
Period size: 9 Copynumber: 16.6 Consensus size: 9
9072710 AAAATATTGG
9072720 AAAATTTTA
1 AAAATTTTA
*
9072729 AAAAATTTA
1 AAAATTTTA
*
9072738 AAATTTTTTA
1 AAA-ATTTTA
9072748 AAAATTTT-
1 AAAATTTTA
*
9072756 GAAA--TTA
1 AAAATTTTA
*
9072763 AATAATTTAA
1 AA-AATTTTA
* *
9072773 AAAATCTGA
1 AAAATTTTA
* *
9072782 AACATTCTA
1 AAAATTTTA
9072791 AAAATTTTA
1 AAAATTTTA
* *
9072800 AAAATTGTG
1 AAAATTTTA
*
9072809 AAAA-TTAA
1 AAAATTTTA
*
9072817 AAAAATTT-
1 AAAATTTTA
9072825 AAAATTTTAA
1 AAAATTTT-A
**
9072835 TAAAATTCCA
1 -AAAATTTTA
9072845 AAAATTTTTGAAA
1 AAAA-TTTT---A
9072858 AAAATTTTA
1 AAAATTTTA
9072867 AAAAT
1 AAAAT
9072872 AAAATTGTAG
Statistics
Matches: 104, Mismatches: 26, Indels: 26
0.67 0.17 0.17
Matches are distributed among these distances:
6 2 0.02
7 1 0.01
8 17 0.16
9 55 0.53
10 14 0.13
11 6 0.06
12 4 0.04
13 5 0.05
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (9 bp):
AAAATTTTA
Found at i:9072869 original size:22 final size:21
Alignment explanation
Indices: 9072813--9072871 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
9072803 ATTGTGAAAA
9072813 TTAAAAAAA-TTT-AAAA-TT
1 TTAAAAAAATTTTAAAAATTT
* **
9072831 TTAATAAAATTCCAAAAATTT
1 TTAAAAAAATTTTAAAAATTT
9072852 TTGAAAAAAATTTTAAAAAT
1 TT-AAAAAAATTTTAAAAAT
9072872 AAAATTGTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 8 0.26
19 1 0.03
20 4 0.13
21 4 0.13
22 14 0.45
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (21 bp):
TTAAAAAAATTTTAAAAATTT
Found at i:9073047 original size:20 final size:19
Alignment explanation
Indices: 9073006--9073048 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
9072996 AATCTTTATT
* * *
9073006 TTTTGGATTTTTTTTAACA
1 TTTTGGATTTATTGTAAAA
9073025 TTTTGAGATTTATTGTAAAA
1 TTTTG-GATTTATTGTAAAA
9073045 TTTT
1 TTTT
9073049 AAGCTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (19 bp):
TTTTGGATTTATTGTAAAA
Found at i:9073089 original size:20 final size:19
Alignment explanation
Indices: 9073063--9073126 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
9073053 TTCTTTTATT
9073063 TTTTTAGAATTTTTAAAAA
1 TTTTTAGAATTTTTAAAAA
*
9073082 TATTTTAGACTTTATTTAAAAA
1 T-TTTTAGA-ATT-TTTAAAAA
*
9073104 TTTATA-AATTTTTAAGAAA
1 TTTTTAGAATTTTTAA-AAA
9073123 TTTT
1 TTTT
9073127 CAAATTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.14
19 9 0.24
20 8 0.22
21 6 0.16
22 9 0.24
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTTTAGAATTTTTAAAAA
Found at i:9073123 original size:19 final size:18
Alignment explanation
Indices: 9073064--9073158 Score: 57
Period size: 20 Copynumber: 4.8 Consensus size: 18
9073054 TCTTTTATTT
*
9073064 TTTTAGAATTTTTAAAAATA
1 TTTTA-AATTTTTAAGAA-A
*
9073084 TTTTAGACTTTATTTAA-AAA
1 TTTTA-A-ATT-TTTAAGAAA
9073104 TTTATAAATTTTTAAGAAA
1 TTT-TAAATTTTTAAGAAA
* *
9073123 TTTTCAAATTTTATTAGAATT
1 TTTT-AAATTTT-TAAGAA-A
*
9073144 TTTTAAGTTTTTAAG
1 TTTTAAATTTTTAAG
9073159 TTTTTTATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.10
19 18 0.29
20 23 0.37
21 10 0.16
22 5 0.08
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTAAATTTTTAAGAAA
Found at i:9073366 original size:8 final size:8
Alignment explanation
Indices: 9073353--9073382 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9073343 ATTTTATCTC
9073353 TCTCTTTT
1 TCTCTTTT
9073361 TCTCTTTT
1 TCTCTTTT
*
9073369 TCTCTTTC
1 TCTCTTTT
9073377 TCTCTT
1 TCTCTT
9073383 ACCTAGCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (8 bp):
TCTCTTTT
Found at i:9076099 original size:21 final size:22
Alignment explanation
Indices: 9076059--9076104 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
9076049 TTTAAAAATT
*
9076059 TTTTATATATTATTTTAATAAGA
1 TTTTATATATTATTTAAATAA-A
9076082 TTTTA-ATA-TATTTAAATAAA
1 TTTTATATATTATTTAAATAAA
9076102 TTT
1 TTT
9076105 ATCTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 3 0.14
23 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTATATATTATTTAAATAAA
Found at i:9076605 original size:15 final size:15
Alignment explanation
Indices: 9076585--9076614 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9076575 TAAGATTTAC
9076585 AAAATAATCATAAAG
1 AAAATAATCATAAAG
*
9076600 AAAATATTCATAAAG
1 AAAATAATCATAAAG
9076615 TTATTAATAG
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:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (15 bp):
AAAATAATCATAAAG
Found at i:9077425 original size:509 final size:501
Alignment explanation
Indices: 9076410--9077423 Score: 1288
Period size: 509 Copynumber: 2.0 Consensus size: 501
9076400 TAATCATTTT
* * * * *
9076410 ATAGAGTTATTATTATTATTACATGGGAGAAATTGAGAAGGTTATAGTAGTATCCTTCCTTTTAT
1 ATAGAATTATTATTATTATTACATGAGAGAAATTGAAAAGGTTATAGTAGTATCCTTCCCTTCAT
* *
9076475 TTGCATAGAAAAGAAAAAAGATATAGGAGGGTTAATCATTTTATAGAACTAGGAAGATACTCGCA
66 TTGCATAGAAAAGAAAAAAGATACAGGAGGGTTAATCATTTTATAGAACTAGGAAAATACTCGCA
* * *
9076540 CTATGCCACAAGTTTTATTAAAATTATCAAAATGATAAGATTTACAAAATAATCATAAAGAAAAT
131 CTATGCCACAAGCTTGATTAAAATCATCAAAATGATAAGATTTACAAAATAATCATAAAGAAAAT
** *
9076605 ATTCATAAAGTTATTAATAGAAGATTAAAGTTAAAGTTTATAGCATAATAGTGAAAAATACTATT
196 ATTCATAAAGTTACGAATAGAAGATTAAAGTTAAAGTTAATAGCATAATAGTGAAAAATACTATT
*** *
9076670 CATAATTAGAATAAATAAAAATTTTGAAAGTGTTGGTTTTGAATATGCCAAAGAGACAATAATCA
261 CATAATTAGAATAAATAAAAATTAAAAAAGTGTTGGTTTTGAATATGCCAAAGAGAAAATAATCA
* *
9076735 CTGACTTTTAATGATTATTAATGACAAATTTCTTCCATTCTTCAGTGAATGATTTGTTTCAGGCA
326 CCGACTTTTAATGATTATTAATGACAAATTTCTTCCATTCTTCAATGAATGATTTGTTTCAGGCA
* * * ** * *
9076800 TTGTAATGGATAGTCCAAGATTTATTTTCTTCATAAATCAGTAGGGTAATTAAAGTATGTTGATT
391 TTGTAATGAATAGTCCAAGATTTATTTTCTTCAAAAATCAATAAAGTAATTAAAATATGTTGATC
*
9076865 TGGGAGATACATAGAGATACATATGGAAAGAAGTTGGTATATACTATATATACA
456 TGGGAGATAC------AT--ATATGGAAAGAAGCTGGTATATACTATATATACA
* *
9076919 ATAGAATTATTATTATTATTACATGAGAGAAATTGAAAAGGTTATAGTTGTTTCCTTCCCTTCAT
1 ATAGAATTATTATTATTATTACATGAGAGAAATTGAAAAGGTTATAGTAGTATCCTTCCCTTCAT
*
9076984 TTGCATAGAAAAGAAAAAAGATACAGGA-GGTTCAATCATTTTATAGAACTAGGAAAATGCTCGC
66 TTGCATAGAAAAGAAAAAAGATACAGGAGGGTT-AATCATTTTATAGAACTAGGAAAATACTCGC
** * * ** **
9077048 ACTATGCCA-TGGCTTGATTAAAATCGTTAAAATGATAAGATTTACAGCATAATCATGGAGAAAA
130 ACTATGCCACAAGCTTGATTAAAATCATCAAAATGATAAGATTTACAAAATAATCATAAAGAAAA
* * *
9077112 TATTCTTAAAGTTACGAATATAAGATTAAAGTTAAAGTTAA-AGCTTACAACTTAATATTGAAAA
195 TATTCATAAAGTTACGAATAGAAGATTAAAGTTAAAGTTAATAG----C-A--TAATAGTGAAAA
* * *
9077176 ATATTATTCATAATTAGGAT-AATAAAAATTAAAAAAGTGTTGGTTTTGAATATGTCAAAGAGAT
253 ATACTATTCATAATTAGAATAAATAAAAATTAAAAAAGTGTTGGTTTTGAATATGCCAAAGAGA-
* *
9077240 AATAGTAATCACCGA-TTTTCAAATGATTATTAATGACAATTTTCTTTCA-TCTTTCAATGAATG
317 AA-A-TAATCACCGACTTTT--AATGATTATTAATGACAAATTTCTTCCATTC-TTCAATGAATG
* * * *
9077303 ATTTGTTTCGGGCATTGTAATGAATAGTCCAGGATTTGTTTTCTTCAAAAATCAATAAAGTGATT
377 ATTTGTTTCAGGCATTGTAATGAATAGTCCAAGATTTATTTTCTTCAAAAATCAATAAAGTAATT
* * * *
9077368 AAAATATGTTGATCTGGGAGATAC-T-TGTGGAAATAAGCTGGTATATTCTGTATATA
442 AAAATATGTTGATCTGGGAGATACATATATGGAAAGAAGCTGGTATATACTATATATA
9077424 TAACATGATA
Statistics
Matches: 437, Mismatches: 54, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
507 28 0.06
508 84 0.19
509 123 0.28
510 1 0.00
511 1 0.00
512 1 0.00
513 39 0.09
514 30 0.07
515 5 0.01
516 11 0.03
517 114 0.26
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (501 bp):
ATAGAATTATTATTATTATTACATGAGAGAAATTGAAAAGGTTATAGTAGTATCCTTCCCTTCAT
TTGCATAGAAAAGAAAAAAGATACAGGAGGGTTAATCATTTTATAGAACTAGGAAAATACTCGCA
CTATGCCACAAGCTTGATTAAAATCATCAAAATGATAAGATTTACAAAATAATCATAAAGAAAAT
ATTCATAAAGTTACGAATAGAAGATTAAAGTTAAAGTTAATAGCATAATAGTGAAAAATACTATT
CATAATTAGAATAAATAAAAATTAAAAAAGTGTTGGTTTTGAATATGCCAAAGAGAAAATAATCA
CCGACTTTTAATGATTATTAATGACAAATTTCTTCCATTCTTCAATGAATGATTTGTTTCAGGCA
TTGTAATGAATAGTCCAAGATTTATTTTCTTCAAAAATCAATAAAGTAATTAAAATATGTTGATC
TGGGAGATACATATATGGAAAGAAGCTGGTATATACTATATATACA
Found at i:9079985 original size:23 final size:23
Alignment explanation
Indices: 9079955--9080016 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
9079945 TTTATAGAGC
*
9079955 TTTCTAGGATTCAAATA-TCAGAT
1 TTTCTAGGATTCAAATACT-AAAT
9079978 TTTCTAGGATTCAAATACTAAAT
1 TTTCTAGGATTCAAATACTAAAT
* *
9080001 TTTTTGGGATTCAAAT
1 TTTCTAGGATTCAAAT
9080017 CCTAGATTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (23 bp):
TTTCTAGGATTCAAATACTAAAT
Found at i:9080178 original size:1 final size:1
Alignment explanation
Indices: 9080174--9080235 Score: 61
Period size: 1 Copynumber: 62.0 Consensus size: 1
9080164 AACTGAATCG
* * * * * * *
9080174 AAAAAAAAAAAGAAAAAATAAAAAGAAAGAAAAAATAAAAAAAAAATAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9080236 TATAGTAATA
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.89, C:0.00, G:0.05, T:0.06
Consensus pattern (1 bp):
A
Found at i:9080202 original size:17 final size:17
Alignment explanation
Indices: 9080176--9080235 Score: 84
Period size: 17 Copynumber: 3.4 Consensus size: 17
9080166 CTGAATCGAA
9080176 AAAAAAAAAGAAAAAAT
1 AAAAAAAAAGAAAAAAT
*
9080193 AAAAAGAAAGAAAAAAT
1 AAAAAAAAAGAAAAAAT
*
9080210 AAAAAAAAAATAAAAAAAT
1 -AAAAAAAAA-GAAAAAAT
9080229 AAAAAAA
1 AAAAAAA
9080236 TATAGTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.42
18 15 0.39
19 7 0.18
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAT
Found at i:9080208 original size:19 final size:17
Alignment explanation
Indices: 9080175--9080235 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 17
9080165 ACTGAATCGA
9080175 AAAAAAAAAAGAAAAAAT
1 AAAAAAAAAA-AAAAAAT
* *
9080193 AAAAAGAAAGAAAAAAT
1 AAAAAAAAAAAAAAAAT
9080210 AAAAAAAAAATAAAAAAAT
1 -AAAAAAAAA-AAAAAAAT
9080229 AAAAAAA
1 AAAAAAA
9080236 TATAGTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.19
18 23 0.62
19 7 0.19
ACGTcount: A:0.89, C:0.00, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAT
Found at i:9080232 original size:6 final size:6
Alignment explanation
Indices: 9080187--9080270 Score: 50
Period size: 6 Copynumber: 14.2 Consensus size: 6
9080177 AAAAAAAAGA
* *
9080187 AAAAAT AAAAAG AAAGA- AAAAAT AAAAA- AAAAAT AAAAA- AATAAA-
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT
** * * *
9080232 AAAATAT AGTAAT AATAAT AATAAT AATAAT ACAAAAT A
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT A
9080271 GTGTTTATAG
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
5 13 0.20
6 45 0.69
7 7 0.11
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:9080520 original size:44 final size:44
Alignment explanation
Indices: 9080419--9080655 Score: 153
Period size: 44 Copynumber: 5.2 Consensus size: 44
9080409 AAACAAAGGT
* * * *
9080419 TCAACAACATTTTTGAAAATTT-AAAATGCTC-TTTCGAGCAAAGGC
1 TCAACAAC--TTTTAAAAATTTAAAAAGGCTCATTT-AAGCAGAGGC
*
9080464 TCAACGACTTTTAAAAATTTAAAAAGGCTCATTTAAGCAGAGGC
1 TCAACAACTTTTAAAAATTTAAAAAGGCTCATTTAAGCAGAGGC
* * * * * ** *
9080508 TCAATAATTTTTATAAATTTAAAGAGGCT-ACTCTAAATAGAAGC
1 TCAACAACTTTTAAAAATTTAAAAAGGCTCA-TTTAAGCAGAGGC
* ** *
9080552 TCAACGACTTTTAAAAATTTTAAAAAAGGCTTTTTTAAGCAGAGGT
1 TCAACAACTTTTAAAAA-TTT-AAAAAGGCTCATTTAAGCAGAGGC
* *
9080598 TCAATAAC-TTAAAAATTCATCTTGAAAAA-GCTC-TTCTAAGCAGAGGC
1 TCAACAACTTTTAAAA---AT-TT-AAAAAGGCTCATT-TAAGCAGAGGC
9080645 TCAACAACTTT
1 TCAACAACTTT
9080656 AAACTTCATT
Statistics
Matches: 148, Mismatches: 32, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
43 12 0.08
44 62 0.42
45 19 0.13
46 24 0.16
47 21 0.14
48 10 0.07
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (44 bp):
TCAACAACTTTTAAAAATTTAAAAAGGCTCATTTAAGCAGAGGC
Found at i:9080787 original size:93 final size:93
Alignment explanation
Indices: 9080641--9080812 Score: 249
Period size: 93 Copynumber: 1.8 Consensus size: 93
9080631 TTCTAAGCAG
* * *
9080641 AGGCTCAACAACTTTAAACTTCATTTTGAAAAAGCTCCTCTAAGTAGAAGCTCAACAACTGTAAA
1 AGGCTCAACAACTTTAAACTTCATCTTGAAAAAGCTCATCTAAGCAGAAGCTCAA-AACTGTAAA
9080706 CGTCATCTTAGAAAAGCTCCTTTAAATAA
65 CGTCATCTTAGAAAAGCTCCTTTAAATAA
* *
9080735 AGGCTCAACAAC-TTAAACTTCATCTTGAAAAAGGTCATCTAAGCA-AATGCTCAAAACTTTAAA
1 AGGCTCAACAACTTTAAACTTCATCTTGAAAAAGCTCATCTAAGCAGAA-GCTCAAAACTGTAAA
* *
9080798 CTTCATCTTGGAAAA
65 CGTCATCTTAGAAAA
9080813 ATTCCTCTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 23 0.33
93 35 0.50
94 12 0.17
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (93 bp):
AGGCTCAACAACTTTAAACTTCATCTTGAAAAAGCTCATCTAAGCAGAAGCTCAAAACTGTAAAC
GTCATCTTAGAAAAGCTCCTTTAAATAA
Found at i:9080842 original size:47 final size:47
Alignment explanation
Indices: 9080587--9080844 Score: 263
Period size: 47 Copynumber: 5.5 Consensus size: 47
9080577 AAGGCTTTTT
* * * * * *
9080587 TAAGCAGAGGTTCAATAACTTAAAAATTCATCTTGAAAAAGCTCTTC
1 TAAGTAGAGGCTCAACAACTTTAAACTTCATCTTGAAAAAGCTCCTC
* *
9080634 TAAGCAGAGGCTCAACAACTTTAAACTTCATTTTGAAAAAGCTCCTC
1 TAAGTAGAGGCTCAACAACTTTAAACTTCATCTTGAAAAAGCTCCTC
* * * *
9080681 TAAGTAGAAGCTCAACAACTGTAAACGTCATCTT-AGAAAAGCTCCTT
1 TAAGTAGAGGCTCAACAACTTTAAACTTCATCTTGA-AAAAGCTCCTC
* * * *
9080728 TAAATAAAGGCTCAACAAC-TTAAACTTCATCTTGAAAAAGGTCATC
1 TAAGTAGAGGCTCAACAACTTTAAACTTCATCTTGAAAAAGCTCCTC
* * * *
9080774 TAAGCAAATGCTCAA-AACTTTAAACTTCATCTTGGAAAAA-TTCCTC
1 TAAGTAGAGGCTCAACAACTTTAAACTTCATCTT-GAAAAAGCTCCTC
* **
9080820 TAAGTAGAGGTTTGACAACTTTAAA
1 TAAGTAGAGGCTCAACAACTTTAAA
9080845 AATCTCATAT
Statistics
Matches: 175, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
45 3 0.02
46 60 0.34
47 112 0.64
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (47 bp):
TAAGTAGAGGCTCAACAACTTTAAACTTCATCTTGAAAAAGCTCCTC
Found at i:9090013 original size:19 final size:19
Alignment explanation
Indices: 9089991--9090029 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9089981 TAAATGGGAT
9089991 TTACCATCCTAAAATTATA
1 TTACCATCCTAAAATTATA
*
9090010 TTACCATCCTAGAATTATA
1 TTACCATCCTAAAATTATA
9090029 T
1 T
9090030 CCATGGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (19 bp):
TTACCATCCTAAAATTATA
Found at i:9094843 original size:23 final size:23
Alignment explanation
Indices: 9094809--9094858 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
9094799 TTTATAAAGC
* *
9094809 TTTCTGGTATTCAAATCTCAGAT
1 TTTCTGGTATTCAAATCCCAAAT
9094832 TTTCTAGG-ATTCAAATCCCAAAT
1 TTTCT-GGTATTCAAATCCCAAAT
9094855 TTTC
1 TTTC
9094859 AATGACGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCTGGTATTCAAATCCCAAAT
Found at i:9095024 original size:14 final size:14
Alignment explanation
Indices: 9095007--9095047 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
9094997 AGGAAAGAAG
9095007 AAGAAAGAAAAAGA
1 AAGAAAGAAAAAGA
9095021 AAGAAAGAAAATAGA
1 AAGAAAGAAAA-AGA
9095036 AA-AATAGAAAAA
1 AAGAA-AGAAAAA
9095048 AAAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (14 bp):
AAGAAAGAAAAAGA
Found at i:9100322 original size:21 final size:20
Alignment explanation
Indices: 9100298--9100346 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
9100288 AACTCTCTAG
* *
9100298 AACCTTAATCCTACCTCCAAA
1 AACCTTAATCCAAAC-CCAAA
*
9100319 AACCTAAATCCAAACCCAAA
1 AACCTTAATCCAAACCCAAA
*
9100339 AACTTTAA
1 AACCTTAA
9100347 AACAGACCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCTTAATCCAAACCCAAA
Found at i:9100732 original size:3 final size:3
Alignment explanation
Indices: 9100726--9100752 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9100716 GATGATGATG
9100726 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
9100753 TGATAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9100816 original size:8 final size:8
Alignment explanation
Indices: 9100726--9100838 Score: 56
Period size: 8 Copynumber: 14.4 Consensus size: 8
9100716 GATGATGATG
9100726 ATAATAAT
1 ATAATAAT
9100734 AATAATAAT
1 -ATAATAAT
9100743 AATAATAAT
1 -ATAATAAT
*
9100752 ATGAT-A-
1 ATAATAAT
* **
9100758 ACAATGTT
1 ATAATAAT
*
9100766 AT-ATACT
1 ATAATAAT
* *
9100773 ACAATAAC
1 ATAATAAT
*
9100781 AT-ATAAC
1 ATAATAAT
9100788 ATAAT-AT
1 ATAATAAT
*
9100795 AATAAAAAT
1 -ATAATAAT
9100804 ATAATAAT
1 ATAATAAT
*
9100812 ATAATCAT
1 ATAATAAT
**
9100820 ACCATAAT
1 ATAATAAT
9100828 ATAATAAT
1 ATAATAAT
9100836 ATA
1 ATA
9100839 CCAGACTATA
Statistics
Matches: 78, Mismatches: 20, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
6 3 0.04
7 13 0.17
8 43 0.55
9 19 0.24
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (8 bp):
ATAATAAT
Found at i:9102490 original size:19 final size:19
Alignment explanation
Indices: 9102455--9102493 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9102445 ACAAATTCTC
*
9102455 TTTATTTTCTTTATTTTTT
1 TTTATTTTCCTTATTTTTT
9102474 TTTATTTTTCCTT-TTTTTT
1 TTTA-TTTTCCTTATTTTTT
9102493 T
1 T
9102494 GTCCATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTATTTTCCTTATTTTTT
Found at i:9107046 original size:13 final size:13
Alignment explanation
Indices: 9107030--9107059 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9107020 AGATAACTAA
9107030 AAAAAATAAAATC
1 AAAAAATAAAATC
*
9107043 AAAAAATAAAATG
1 AAAAAATAAAATC
9107056 AAAA
1 AAAA
9107060 TGAAAAGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAAATAAAATC
Found at i:9107796 original size:3 final size:3
Alignment explanation
Indices: 9107790--9107837 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
9107780 AAAAGAAAAG
9107790 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9107838 TGATAACAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9110568 original size:24 final size:24
Alignment explanation
Indices: 9110538--9110593 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
9110528 TGATTTTTTA
9110538 AAAATTTT-TTATATAAAAAATTAT
1 AAAATTTTATTATATAAAAAATT-T
* *
9110562 GAAATTTTAATTTTATAAAAAATTT
1 AAAATTTT-ATTATATAAAAAATTT
9110587 AAAATTT
1 AAAATTT
9110594 AAAATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.26
25 7 0.26
26 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AAAATTTTATTATATAAAAAATTT
Found at i:9110599 original size:26 final size:26
Alignment explanation
Indices: 9110546--9110604 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
9110536 TAAAAATTTT
* *
9110546 TTATATAAAAAATTATGAAATTTTAA
1 TTATATAAAAAATTATAAAATTTAAA
*
9110572 TTTTATAAAAAATT-TAAAATTTAAAA
1 TTATATAAAAAATTATAAAATTT-AAA
9110598 TTATATA
1 TTATATA
9110605 TATTAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
TTATATAAAAAATTATAAAATTTAAA
Found at i:9110601 original size:24 final size:26
Alignment explanation
Indices: 9110549--9110602 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
9110539 AAATTTTTTA
* **
9110549 TATAAAAAATTATGAAATTTTAATTT
1 TATAAAAAATTATGAAAATTTAAAAT
9110575 TATAAAAAATT-T-AAAATTTAAAAT
1 TATAAAAAATTATGAAAATTTAAAAT
9110599 TATA
1 TATA
9110603 TATATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.52
25 1 0.04
26 11 0.44
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
TATAAAAAATTATGAAAATTTAAAAT
Found at i:9119547 original size:26 final size:26
Alignment explanation
Indices: 9119488--9119554 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
9119478 AGGGTTCGGT
* * * *
9119488 AATGAAGGCCT-AAACAGGATTCGGC
1 AATGAAGGCCTAAAATAGAAGTCAGC
9119513 AATGAAGGCCTAAAATAGAAGTCAGC
1 AATGAAGGCCTAAAATAGAAGTCAGC
9119539 AATGAAGGCCTAAAAT
1 AATGAAGGCCTAAAAT
9119555 TTTGCTTCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 11 0.30
26 26 0.70
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (26 bp):
AATGAAGGCCTAAAATAGAAGTCAGC
Found at i:9119783 original size:22 final size:22
Alignment explanation
Indices: 9119758--9119799 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9119748 TTGTCTATCC
* *
9119758 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
9119780 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
9119800 TAAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:9119811 original size:22 final size:22
Alignment explanation
Indices: 9119759--9119811 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
9119749 TGTCTATCCT
* * *
9119759 AATTTTAGGGATACAAATACTT
1 AATTATAGAGATACAAATACTA
*
9119781 AATTCTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATACTA
9119802 AATATATAGA
1 AAT-TATAGA
9119812 TTACAAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (22 bp):
AATTATAGAGATACAAATACTA
Found at i:9119951 original size:6 final size:6
Alignment explanation
Indices: 9119940--9119968 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9119930 TAAAATCATA
9119940 CCCATC CCCATC CCCATC CCCATC CCCAT
1 CCCATC CCCATC CCCATC CCCATC CCCAT
9119969 ACTCACAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.66, G:0.00, T:0.17
Consensus pattern (6 bp):
CCCATC
Found at i:9124663 original size:15 final size:17
Alignment explanation
Indices: 9124638--9124679 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9124628 TTGGGAAGCA
9124638 TTTTATCTATAAT-TT-T
1 TTTTAT-TATAATCTTAT
9124654 TTTTATTATAATCTTAT
1 TTTTATTATAATCTTAT
*
9124671 TATTATTAT
1 TTTTATTAT
9124680 TCAATCACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 9 0.39
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATTATAATCTTAT
Found at i:9127266 original size:13 final size:12
Alignment explanation
Indices: 9127220--9127267 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
9127210 AAATATAAAT
*
9127220 AAAATTTTATTA
1 AAAAATTTATTA
*
9127232 AAATAATTTCTTA
1 AAA-AATTTATTA
9127245 AAAAA-TTATTA
1 AAAAATTTATTA
9127256 AATAAATTTATT
1 AA-AAATTTATT
9127268 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 7 0.23
12 8 0.27
13 15 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAAATTTATTA
Found at i:9128669 original size:21 final size:21
Alignment explanation
Indices: 9128644--9128687 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
9128634 TATTTTATGC
9128644 ATAATAAACCAAAATTTTTAA
1 ATAATAAACCAAAATTTTTAA
*
9128665 ATAATAAACCTAAATTTTTAA
1 ATAATAAACCAAAATTTTTAA
9128686 AT
1 AT
9128688 TTTACAAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATAAACCAAAATTTTTAA
Found at i:9129191 original size:18 final size:18
Alignment explanation
Indices: 9129168--9129202 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9129158 TTTTTAAAAT
*
9129168 TTTTTAATTAAATTTAAA
1 TTTTTAAGTAAATTTAAA
*
9129186 TTTTTAAGTAATTTTAA
1 TTTTTAAGTAAATTTAA
9129203 GGGTAGATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTTAAGTAAATTTAAA
Found at i:9131444 original size:20 final size:20
Alignment explanation
Indices: 9131419--9131456 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9131409 TAATTCTAAA
9131419 TTTTTATTAATATTTTTTAT
1 TTTTTATTAATATTTTTTAT
9131439 TTTTTATTAATATTTTTT
1 TTTTTATTAATATTTTTT
9131457 TGTTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTATTAATATTTTTTAT
Found at i:9132374 original size:41 final size:40
Alignment explanation
Indices: 9132329--9132604 Score: 249
Period size: 41 Copynumber: 6.8 Consensus size: 40
9132319 CCCTAAATAA
9132329 AGGCTC-ACAACTTTGAAAAAATAAAAGGCTTCTCTAAACAG
1 AGGCTCAACAACTTTG-AAAAATAAAA-GCTTCTCTAAACAG
*
9132370 AGGCTCAACAACTTTGAAAAATAAAAAGCTTCTCTAAGCAG
1 AGGCTCAACAACTTTGAAAAAT-AAAAGCTTCTCTAAACAG
* *
9132411 AGGCAT-AATAACTTTGAAAAATAAAAGCTCCTCTAAACAG
1 AGGC-TCAACAACTTTGAAAAATAAAAGCTTCTCTAAACAG
* * * * * **
9132451 AGACACAACGACTTTAAAAAATAAAAAAC-TCATCTAAGTAG
1 AGGCTCAACAACTTTGAAAAAT-AAAAGCTTC-TCTAAACAG
* * *
9132492 AGG-TACAACAACTTTGAAAAATAATATGCTACTCTAAACAA
1 AGGCT-CAACAACTTTGAAAAATAA-AAGCTTCTCTAAACAG
* * * *
9132533 AGGCAT-AACAACTGTGAAAAACAAAAGC-TCATTTAAATAG
1 AGGC-TCAACAACTTTGAAAAATAAAAGCTTC-TCTAAACAG
* *
9132573 AGGCACAATAACTTTGAAAAATAAAAGCTTCT
1 AGGCTCAACAACTTTGAAAAATAAAAGCTTCT
9132605 TAACAATCAT
Statistics
Matches: 187, Mismatches: 34, Indels: 29
0.75 0.14 0.12
Matches are distributed among these distances:
39 1 0.01
40 68 0.36
41 102 0.55
42 15 0.08
43 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (40 bp):
AGGCTCAACAACTTTGAAAAATAAAAGCTTCTCTAAACAG
Found at i:9132465 original size:81 final size:81
Alignment explanation
Indices: 9132337--9132601 Score: 318
Period size: 81 Copynumber: 3.2 Consensus size: 81
9132327 AAAGGCTCAC
* *
9132337 AACTTTGAAAAAATAAAAGGCTTCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAAAGCTTC
1 AACTTTG-AAAAATAAAA-GCTACTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAAGC-TC
* *
9132402 -TCTAAGCAGAGGCATAAT
63 ATCTAAGTAGAGGCACAAT
* * * * *
9132420 AACTTTGAAAAATAAAAGCTCCTCTAAACAGAGACACAACGACTTTAAAAAATAAAAAACTCATC
1 AACTTTGAAAAATAAAAGCTACTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAAGCTCATC
* *
9132485 TAAGTAGAGGTACAAC
66 TAAGTAGAGGCACAAT
* * * * *
9132501 AACTTTGAAAAATAATATGCTACTCTAAACAAAGGCATAACAACTGTGAAAAA-CAAAAGCTCAT
1 AACTTTGAAAAATAA-AAGCTACTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAAGCTCAT
* *
9132565 TTAAATAGAGGCACAAT
65 CTAAGTAGAGGCACAAT
9132582 AACTTTGAAAAATAAAAGCT
1 AACTTTGAAAAATAAAAGCT
9132602 TCTTAACAAT
Statistics
Matches: 155, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
80 6 0.04
81 103 0.66
82 39 0.25
83 7 0.05
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (81 bp):
AACTTTGAAAAATAAAAGCTACTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAAGCTCATC
TAAGTAGAGGCACAAT
Found at i:9132538 original size:122 final size:122
Alignment explanation
Indices: 9132335--9132598 Score: 316
Period size: 122 Copynumber: 2.2 Consensus size: 122
9132325 ATAAAGGCTC
** **
9132335 ACAACTTTGAAAAAATAAAAGGCTTC-TCTAAACAGAGGCT-CAACAACTTTGAAAAATAAAAAG
1 ACAACTTT-AAAAAATAAAAAAC-TCATCTAAGTAGAGG-TACAACAACTTTGAAAAATAAAAAG
* * * * * * *
9132398 CTTCTCTAAGCAGAGGCATAATAACTTTGAAAAATAAAAGCTCCTCTAAACAGAGACACA
63 CTACTCTAAACAAAGGCATAACAACTGTGAAAAACAAAAGCTCATCTAAACAGAGACACA
* * *
9132458 ACGACTTTAAAAAATAAAAAACTCATCTAAGTAGAGGTACAACAACTTTGAAAAATAATATGCTA
1 ACAACTTTAAAAAATAAAAAACTCATCTAAGTAGAGGTACAACAACTTTGAAAAATAAAAAGCTA
* * *
9132523 CTCTAAACAAAGGCATAACAACTGTGAAAAACAAAAGCTCATTTAAATAGAGGCACA
66 CTCTAAACAAAGGCATAACAACTGTGAAAAACAAAAGCTCATCTAAACAGAGACACA
* *
9132580 ATAACTTTGAAAAATAAAA
1 ACAACTTTAAAAAATAAAA
9132599 GCTTCTTAAC
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
121 3 0.03
122 109 0.92
123 7 0.06
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.22
Consensus pattern (122 bp):
ACAACTTTAAAAAATAAAAAACTCATCTAAGTAGAGGTACAACAACTTTGAAAAATAAAAAGCTA
CTCTAAACAAAGGCATAACAACTGTGAAAAACAAAAGCTCATCTAAACAGAGACACA
Found at i:9132808 original size:16 final size:16
Alignment explanation
Indices: 9132787--9132822 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9132777 TTCGTAAAAT
9132787 TTCATATATGCAAGAA
1 TTCATATATGCAAGAA
* *
9132803 TTCATATTTGCAAGAT
1 TTCATATATGCAAGAA
9132819 TTCA
1 TTCA
9132823 AGATTCGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (16 bp):
TTCATATATGCAAGAA
Found at i:9133045 original size:28 final size:30
Alignment explanation
Indices: 9133003--9133063 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
9132993 GGTTTCATAC
** *
9133003 CTCAAAGATTTTCATTT-CAAACTCAAA-A
1 CTCAAAGATCCTCATTTGAAAACTCAAAGA
9133031 CTCAAAGATCCTCATTTGAAAACTCAAAGA
1 CTCAAAGATCCTCATTTGAAAACTCAAAGA
9133061 CTC
1 CTC
9133064 TCATTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 15 0.54
29 9 0.32
30 4 0.14
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.28
Consensus pattern (30 bp):
CTCAAAGATCCTCATTTGAAAACTCAAAGA
Found at i:9133055 original size:22 final size:22
Alignment explanation
Indices: 9133027--9133073 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
9133017 TTTCAAACTC
9133027 AAAACTCAAAGA-TCCTCATTTG
1 AAAACTCAAAGACT-CTCATTTG
9133049 AAAACTCAAAGACTCTCATTTG
1 AAAACTCAAAGACTCTCATTTG
9133071 AAA
1 AAA
9133074 TTTAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (22 bp):
AAAACTCAAAGACTCTCATTTG
Found at i:9133090 original size:21 final size:21
Alignment explanation
Indices: 9133032--9133113 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
9133022 AACTCAAAAC
* * *
9133032 TCAAAGATCCTCATTTGAAAAC
1 TCAAATATTCTCATTTG-AAAT
* *
9133054 TCAAAGACTCTCATTTGAAAT
1 TCAAATATTCTCATTTGAAAT
* *
9133075 TTAAATATTGTCATTTGAAAT
1 TCAAATATTCTCATTTGAAAT
*
9133096 TCAAATATTCTTATTTGA
1 TCAAATATTCTCATTTGA
9133114 GGATTCACAA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 35 0.70
22 15 0.30
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (21 bp):
TCAAATATTCTCATTTGAAAT
Found at i:9134355 original size:22 final size:22
Alignment explanation
Indices: 9134314--9134357 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9134304 AGTCTTCTTT
* * *
9134314 TTTTCTCTTTTTTTTTTTTTTC
1 TTTTCTCTTTCTTCTATTTTTC
9134336 TTTTCTCTTTCTTCTATTTTTC
1 TTTTCTCTTTCTTCTATTTTTC
9134358 CACCCATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTCTCTTTCTTCTATTTTTC
Found at i:9140514 original size:29 final size:29
Alignment explanation
Indices: 9140446--9140514 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
9140436 TTAATATGTT
*
9140446 ATAATTTAAAATTTTTTAAAAATTCTAAA
1 ATAATTTAAAATTTTTTAAAAATTATAAA
*
9140475 ATAATTTAAAA-TTTTTATAAATTATATAA
1 ATAATTTAAAATTTTTTAAAAATTATA-AA
9140504 A-AATTTCAAAA
1 ATAATTT-AAAA
9140515 AATATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAATTTAAAATTTTTTAAAAATTATAAA
Found at i:9147174 original size:10 final size:10
Alignment explanation
Indices: 9147157--9147216 Score: 66
Period size: 10 Copynumber: 5.7 Consensus size: 10
9147147 TTTTTTTTAT
9147157 AATTTTTAAA
1 AATTTTTAAA
*
9147167 AATTTTTACA
1 AATTTTTAAA
**
9147177 AATTCATAAA
1 AATTTTTAAA
9147187 AATTTTTCAAA
1 AATTTTT-AAA
9147198 AATTTTTAAGAA
1 AATTTTT-A-AA
9147210 AATTTTT
1 AATTTTT
9147217 GATTTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
10 21 0.51
11 11 0.27
12 9 0.22
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:9152209 original size:13 final size:13
Alignment explanation
Indices: 9152193--9152218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9152183 TTTAAACATG
9152193 ATTTTTATTAATT
1 ATTTTTATTAATT
9152206 ATTTTTATTAATT
1 ATTTTTATTAATT
9152219 TTAATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTATTAATT
Found at i:9152476 original size:302 final size:304
Alignment explanation
Indices: 9152016--9152600 Score: 783
Period size: 302 Copynumber: 1.9 Consensus size: 304
9152006 TGAATTTATT
*
9152016 CTTTTAAAAATTATCCTAAACTTAATTAAAGGTTCCTAAAAAAATATATATCTTGGTCTAAATCT
1 CTTTTAAAAATTATCCTAAACTTAATTAAAGGTTCCTAAAAAAATATATATCTTAGTCTAAATCT
* * *
9152081 TCATAACAAGATTCAAAAGTTGATTACATGTAATGAATATTTTAGCATCCTCCCATTGTCCAAAA
66 TCATAACAAGATTCAAAAGTTGATTACATGTAAGGAATATTTTAACATACTCCCATTGTCCAAAA
* * *
9152146 CTAATACCTAATTAATCCTACTTTATTTTATCTAAGTTTTAAACAT-GATTTTTATTAATTATTT
131 CTAATACCTAATTAATCCTACTTTATTTTATCTAAGTTTAAAAAATAG-TTTTTATCAATTATTT
* *
9152210 TTATTAATTTTAATATTTAAATATTGAAAAAATATCATTAAATTTTCAAAGAAAAACAAAATTAT
195 TAATTAATTTTAATATTTAAATATTGAAAAAAAATCATTAAATTTTC-AAG-AAAACAAAATTAT
9152275 CTTCA-C-A-A-TATTCAAGAAAAACACGTCGTCTCTTTGAATAATC
258 CTTCACCTAGAGTATTCAAGAAAAACACGTCGTCTCTTTGAATAATC
* * * *
9152318 CTTTTAAAAGTTATCCTCAACTTAATT-AAGAGTT-TTAAAAAATATATATATTTTAAG-CTAAA
1 CTTTTAAAAATTATCCTAAACTTAATTAAAG-GTTCCTAAAAAA-ATATATATCTT-AGTCTAAA
** * * *
9152380 TCTTCATAACAAGATTCAAAAGTTGATTATGTGTAAGGAATGTTTTAACCTACTCTCATTGTCCA
63 TCTTCATAACAAGATTCAAAAGTTGATTACATGTAAGGAATATTTTAACATACTCCCATTGTCCA
* * * *
9152445 AAATTAGTACCTAATTAATTCTA-TGTTATTTTATCTAAGTTTAAAAAATAGTTTTTATCAGTTA
128 AAACTAATACCTAATTAATCCTACT-TTATTTTATCTAAGTTTAAAAAATAGTTTTTATCAATTA
* * * * ** *
9152509 TTTTAATTAATTTTGATATTTAGATGTTGAAAAAAAATCTTTATGTTTTCAAGAAAACAAAATTT
192 TTTTAATTAATTTTAATATTTAAATATTGAAAAAAAATCATTAAATTTTCAAGAAAACAAAATTA
9152574 TCTTCACCTAGAGTATTCAAGAAAAAC
257 TCTTCACCTAGAGTATTCAAGAAAAAC
9152601 TTGTCATCTC
Statistics
Matches: 245, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
300 17 0.07
301 15 0.06
302 196 0.80
303 3 0.01
304 14 0.06
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (304 bp):
CTTTTAAAAATTATCCTAAACTTAATTAAAGGTTCCTAAAAAAATATATATCTTAGTCTAAATCT
TCATAACAAGATTCAAAAGTTGATTACATGTAAGGAATATTTTAACATACTCCCATTGTCCAAAA
CTAATACCTAATTAATCCTACTTTATTTTATCTAAGTTTAAAAAATAGTTTTTATCAATTATTTT
AATTAATTTTAATATTTAAATATTGAAAAAAAATCATTAAATTTTCAAGAAAACAAAATTATCTT
CACCTAGAGTATTCAAGAAAAACACGTCGTCTCTTTGAATAATC
Found at i:9162063 original size:24 final size:25
Alignment explanation
Indices: 9162022--9162069 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
9162012 TTTAGTGTGT
* *
9162022 TAATTAATTTTTTTTTATAAAATTA
1 TAATTAATTTTATATTATAAAATTA
9162047 TAATT-ATTTTATATTATAAAATT
1 TAATTAATTTTATATTATAAAATT
9162070 GAATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TAATTAATTTTATATTATAAAATTA
Found at i:9165311 original size:21 final size:20
Alignment explanation
Indices: 9165265--9165312 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
9165255 AGGTATGAAA
9165265 TTTTAGAAAAAGAAAATTTTG
1 TTTT-GAAAAAGAAAATTTTG
*
9165286 ATTTGAAAAAG-AAATTTGATG
1 TTTTGAAAAAGAAAATTT--TG
9165307 TTTTGA
1 TTTTGA
9165313 TGAATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTGAAAAAGAAAATTTTG
Found at i:9171928 original size:17 final size:18
Alignment explanation
Indices: 9171893--9171929 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9171883 ATTTTAATTA
9171893 TAAAATAAAAATTATATAT
1 TAAAATAAAAA-TATATAT
9171912 TAAAATAAAAA-ATATAT
1 TAAAATAAAAATATATAT
9171929 T
1 T
9171930 GTATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAATAAAAATATATAT
Found at i:9179050 original size:19 final size:21
Alignment explanation
Indices: 9179007--9179053 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
9178997 TAAACATATA
*
9179007 TAAATAAATATATTCATGAAC
1 TAAATAAATAAATTCATGAAC
9179028 --AATAAATAAATT-AT-AAC
1 TAAATAAATAAATTCATGAAC
9179045 TAAATAAAT
1 TAAATAAAT
9179054 TTAAATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.13
18 2 0.09
19 18 0.78
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAATAAATAAATTCATGAAC
Found at i:9181179 original size:13 final size:13
Alignment explanation
Indices: 9181148--9181197 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
9181138 AAGTTTTATT
9181148 TTAAAAATGATTTAA
1 TTAAAAAT--TTTAA
9181163 -TAAAAATTTTAA
1 TTAAAAATTTTAA
*
9181175 TTAAAAATTTAAA
1 TTAAAAATTTTAA
9181188 TTAATAAATT
1 TTAA-AAATT
9181198 GATAGAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 5 0.16
13 15 0.47
14 12 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
TTAAAAATTTTAA
Found at i:9181359 original size:9 final size:10
Alignment explanation
Indices: 9181327--9181359 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9181317 TATCTATACA
*
9181327 AAAATATATT
1 AAAATTTATT
9181337 AAAATTTATT
1 AAAATTTATT
9181347 AAAATTT-TT
1 AAAATTTATT
9181356 AAAA
1 AAAA
9181360 AATATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATTTATT
Found at i:9181415 original size:7 final size:7
Alignment explanation
Indices: 9181389--9181429 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
9181379 ATAAAATGAT
9181389 ATTTTTA
1 ATTTTTA
9181396 ATTTATTA
1 ATTT-TTA
*
9181404 A-TTTTG
1 ATTTTTA
9181410 ATTTTTA
1 ATTTTTA
9181417 A-TTTTA
1 ATTTTTA
9181423 ATTTTTA
1 ATTTTTA
9181430 TTTAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 9 0.31
7 16 0.55
8 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (7 bp):
ATTTTTA
Found at i:9181419 original size:13 final size:13
Alignment explanation
Indices: 9181391--9181429 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
9181381 AAAATGATAT
9181391 TTTTAATTTATTAA
1 TTTTAATTT-TTAA
*
9181405 TTTTGATTTTTAA
1 TTTTAATTTTTAA
9181418 TTTTAATTTTTA
1 TTTTAATTTTTA
9181430 TTTAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:9186548 original size:16 final size:17
Alignment explanation
Indices: 9186507--9186553 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
9186497 TGGAATATGC
*
9186507 AAGAAATAGAAAAAGTGA
1 AAGAAATA-AAAAAGAGA
*
9186525 AAGCAATAAAAAAGAGA
1 AAGAAATAAAAAAGAGA
9186542 AA-AAATAAAAAA
1 AAGAAATAAAAAA
9186554 ATGAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 9 0.35
17 10 0.38
18 7 0.27
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (17 bp):
AAGAAATAAAAAAGAGA
Found at i:9187933 original size:59 final size:58
Alignment explanation
Indices: 9187850--9187961 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 58
9187840 TGCATTGGTA
* * *
9187850 TTTTTAGAAAAAATATTTGCATTTCATGTGCATCATCTTAAGAAAAGACATTTAAATC
1 TTTTTAAAAAAAACATTTGCATTTCATATGCATCATCTTAAGAAAAGACATTTAAATC
* *
9187908 TTTTTAAAAAAAGACATTTGCATTTCATATGCATCATTTTAAGAAAAGATATTT
1 TTTTTAAAAAAA-ACATTTGCATTTCATATGCATCATCTTAAGAAAAGACATTT
9187962 GCATTTTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 11 0.23
59 37 0.77
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (58 bp):
TTTTTAAAAAAAACATTTGCATTTCATATGCATCATCTTAAGAAAAGACATTTAAATC
Found at i:9187954 original size:94 final size:96
Alignment explanation
Indices: 9187849--9188027 Score: 254
Period size: 94 Copynumber: 1.9 Consensus size: 96
9187839 ATGCATTGGT
* * * *
9187849 ATTTTTAGAAAAAATATTTGCATTTCATGTGCATCATCTTAAGAAAAGACATTT-A-AATCTTTT
1 ATTTTAAGAAAAAATATTTGCATTTCATATGCATCATCTTAAGAAAAAACATTTCATAATCATTT
9187912 TAAAAAAAGACATTTGCATTTCATATGCATC
66 TAAAAAAAGACATTTGCATTTCATATGCATC
* * * *
9187943 ATTTTAAGAAAAGATATTTGCATTTTATATGCATCATTTTAAGAAAAAACATTTGCATCATCATT
1 ATTTTAAGAAAAAATATTTGCATTTCATATGCATCATCTTAAGAAAAAACATTT-CATAATCATT
*
9188008 TTAAAAGAAGACATTTGCAT
65 TTAAAAAAAGACATTTGCAT
9188028 CATAGTGGTG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
94 48 0.66
96 1 0.01
97 24 0.33
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (96 bp):
ATTTTAAGAAAAAATATTTGCATTTCATATGCATCATCTTAAGAAAAAACATTTCATAATCATTT
TAAAAAAAGACATTTGCATTTCATATGCATC
Found at i:9187955 original size:35 final size:35
Alignment explanation
Indices: 9187909--9188000 Score: 148
Period size: 35 Copynumber: 2.6 Consensus size: 35
9187899 ATTTAAATCT
*
9187909 TTTTAAAAAAAGACATTTGCATTTCATATGCATCA
1 TTTTAAGAAAAGACATTTGCATTTCATATGCATCA
* *
9187944 TTTTAAGAAAAGATATTTGCATTTTATATGCATCA
1 TTTTAAGAAAAGACATTTGCATTTCATATGCATCA
*
9187979 TTTTAAGAAAAAACATTTGCAT
1 TTTTAAGAAAAGACATTTGCAT
9188001 CATCATTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (35 bp):
TTTTAAGAAAAGACATTTGCATTTCATATGCATCA
Found at i:9188008 original size:27 final size:27
Alignment explanation
Indices: 9187974--9188030 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
9187964 ATTTTATATG
9187974 CATCATTTTAAGAA-AAAACATTTGCAT
1 CATCATTTTAA-AAGAAAACATTTGCAT
*
9188001 CATCATTTTAAAAGAAGACATTTGCAT
1 CATCATTTTAAAAGAAAACATTTGCAT
9188028 CAT
1 CAT
9188031 AGTGGTGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (27 bp):
CATCATTTTAAAAGAAAACATTTGCAT
Found at i:9188683 original size:76 final size:75
Alignment explanation
Indices: 9188552--9188711 Score: 185
Period size: 76 Copynumber: 2.1 Consensus size: 75
9188542 GTATTAAAGT
* * * ** *
9188552 ATTTCATTTTCTTGATGGTGATATTCAAGGCATTTTTAAAATCTTTCAGTGGTGATATCCGAATA
1 ATTTTATTTTCTTGATAGTGATATTCAAGACATTTTTAAAATCACTCAGTAGTGATATCCGAAT-
9188617 TTAAAATATGA
65 TTAAAATATGA
* * * * *
9188628 ATTTTATTTTCTTGATAGTGATATTTAAGATATTTTTAAAATCACTCGGTAGTGATATTCGAGTT
1 ATTTTATTTTCTTGATAGTGATATTCAAGACATTTTTAAAATCACTCAGTAGTGATATCCGAATT
* *
9188693 TAAAGTTTGA
66 TAAAATATGA
9188703 ATTTGTATT
1 ATTT-TATT
9188712 CTTTCTCTAC
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
75 13 0.19
76 57 0.81
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.46
Consensus pattern (75 bp):
ATTTTATTTTCTTGATAGTGATATTCAAGACATTTTTAAAATCACTCAGTAGTGATATCCGAATT
TAAAATATGA
Found at i:9188879 original size:77 final size:76
Alignment explanation
Indices: 9188741--9188882 Score: 230
Period size: 77 Copynumber: 1.9 Consensus size: 76
9188731 TTTTTAATGG
* ** * *
9188741 TGATATCTGATTATTAAAGTATGAATTTCATTTTCTTAATGGTGATATTTAAGGCATTTTCAAAA
1 TGATATCTGAGTATTAAAGTATGAATTTCATTTTCTTAATGGTGATATCCAAGACAATTTCAAAA
9188806 CCAGTCGACAA
66 CCAGTCGACAA
9188817 TGATATCTGAGTATTAAAGTATGAATTTTCATTTTCTTAATGGTGATATCCAAGACAATTTCAAA
1 TGATATCTGAGTATTAAAGTATGAA-TTTCATTTTCTTAATGGTGATATCCAAGACAATTTCAAA
9188882 A
65 A
9188883 TTTTTTGGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
76 24 0.40
77 36 0.60
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.39
Consensus pattern (76 bp):
TGATATCTGAGTATTAAAGTATGAATTTCATTTTCTTAATGGTGATATCCAAGACAATTTCAAAA
CCAGTCGACAA
Found at i:9189075 original size:98 final size:99
Alignment explanation
Indices: 9188905--9189097 Score: 262
Period size: 98 Copynumber: 2.0 Consensus size: 99
9188895 GTTATACAAG
* * *** *
9188905 TGTTAAAGCTTGAATTGCATTTTTTTTATAGTGATATCCGCGTTTCCTTCGATGGTGATATCCGA
1 TGTTAAAGCTTGAATTGCATTTTTCTCATAGTGATATCCAAATTTCCTTCGATGGTGACATCCGA
* *
9188970 AGTCATTTGTATCTTCTCGGTAGTGATATTCGAC
66 AGTCATTTGCATCTTCTCGATAGTGATATTCGAC
* * * *
9189004 TGTTAAAGCTTGAATTGCA-TTTTCTCATGGTGATATTCAAATTTCTTTCGATGGTGACATCTGA
1 TGTTAAAGCTTGAATTGCATTTTTCTCATAGTGATATCCAAATTTCCTTCGATGGTGACATCCGA
*
9189068 AGTCATTTGCATCTTCTCGATGGTGATATT
66 AGTCATTTGCATCTTCTCGATAGTGATATT
9189098 TGAGTATTGA
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
98 62 0.77
99 19 0.23
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (99 bp):
TGTTAAAGCTTGAATTGCATTTTTCTCATAGTGATATCCAAATTTCCTTCGATGGTGACATCCGA
AGTCATTTGCATCTTCTCGATAGTGATATTCGAC
Found at i:9189117 original size:98 final size:98
Alignment explanation
Indices: 9188947--9189127 Score: 247
Period size: 98 Copynumber: 1.8 Consensus size: 98
9188937 GATATCCGCG
* * * *
9188947 TTTCCTTCGATGGTGATATCCGAAGTCATTTGTATCTTCTCGGTAGTGATATTCGACTGTTAAAG
1 TTTCCTTCGATGGTGACATCCGAAGTCATTTGCATCTTCTCGATAGTGATATTCGACTATTAAAG
*
9189012 CTTGAATTGCATTTTCTCATGGTGATATTCAAA
66 CTTGAATTGCATCTTCTCATGGTGATATTCAAA
* * * * * *
9189045 TTTCTTTCGATGGTGACATCTGAAGTCATTTGCATCTTCTCGATGGTGATATTTGAGTATTGAAG
1 TTTCCTTCGATGGTGACATCCGAAGTCATTTGCATCTTCTCGATAGTGATATTCGACTATTAAAG
9189110 -TTGGAATTGCATCTTCTC
66 CTT-GAATTGCATCTTCTC
9189128 GGTAGTGATA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
97 2 0.03
98 69 0.97
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.41
Consensus pattern (98 bp):
TTTCCTTCGATGGTGACATCCGAAGTCATTTGCATCTTCTCGATAGTGATATTCGACTATTAAAG
CTTGAATTGCATCTTCTCATGGTGATATTCAAA
Found at i:9189122 original size:42 final size:42
Alignment explanation
Indices: 9189074--9189186 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
9189064 CTGAAGTCAT
* *
9189074 TTGCATCTTCTCGATGGTGATATTTGAGTATT-GAAGTTGGAA
1 TTGCATCTTCTCGATGGTGATATTTGAGTATTAAAACTT-GAA
* * * *
9189116 TTGCATCTTCTCGGTAGTGATATTCGAGTGTTAAAACTTGAA
1 TTGCATCTTCTCGATGGTGATATTTGAGTATTAAAACTTGAA
* *
9189158 TTACATTTTCTCGATGGTGATATTTGAGT
1 TTGCATCTTCTCGATGGTGATATTTGAGT
9189187 TTTCTTTGGT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 55 0.93
43 4 0.07
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.42
Consensus pattern (42 bp):
TTGCATCTTCTCGATGGTGATATTTGAGTATTAAAACTTGAA
Found at i:9189534 original size:13 final size:13
Alignment explanation
Indices: 9189518--9189543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9189508 TTTTTTCCCT
9189518 TTTTATTTTTTTA
1 TTTTATTTTTTTA
9189531 TTTTATTTTTTTA
1 TTTTATTTTTTTA
9189544 GTAACTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:9189534 original size:14 final size:14
Alignment explanation
Indices: 9189479--9189543 Score: 60
Period size: 15 Copynumber: 4.5 Consensus size: 14
9189469 AAGACACCTA
* *
9189479 TTTTATATTTATAT
1 TTTTTTATTTTTAT
9189493 TTTTATTATTATTTAT
1 TTTT-TTATT-TTTAT
**
9189509 TTTTTCCCTTTTTAT
1 TTTTT-TATTTTTAT
9189524 TTTTTTA-TTTTAT
1 TTTTTTATTTTTAT
9189537 TTTTTTA
1 TTTTTTA
9189544 GTAACTTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 13 0.31
14 4 0.10
15 15 0.36
16 10 0.24
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:9190525 original size:16 final size:15
Alignment explanation
Indices: 9190482--9190525 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9190472 ATTTTGTCGT
* *
9190482 AATAAATAATTAATC
1 AATAAATAAATAAAC
9190497 AATAAATAAATAAAC
1 AATAAATAAATAAAC
*
9190512 AATGAAATACATAA
1 AAT-AAATAAATAA
9190526 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (15 bp):
AATAAATAAATAAAC
Found at i:9193186 original size:19 final size:19
Alignment explanation
Indices: 9193144--9193186 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
9193134 AGAACAAATG
* * *
9193144 AAAAATAATAAGGGAAGAA
1 AAAAATAAAAAAGAAAGAA
*
9193163 CAAAATAAAAAAGAAAGAA
1 AAAAATAAAAAAGAAAGAA
9193182 AAAAA
1 AAAAA
9193187 AGGATAAGAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (19 bp):
AAAAATAAAAAAGAAAGAA
Found at i:9195334 original size:903 final size:901
Alignment explanation
Indices: 9193595--9196293 Score: 4537
Period size: 903 Copynumber: 3.0 Consensus size: 901
9193585 ATCGTAAAAA
* *
9193595 GAGCATTTTAAAGCAAATTTGAAAATTTTGAATCCAATTTGGATGCCAAGTGAAGTAAGAGAACC
1 GAGCATTTTAGAGCAAATTTGAAAATTTTGAATCCCATTTGGATGCCAAGTGAAGTAAGAGAACC
*
9193660 TAGTATTAAACAACCTATACTTTTGAAAGATTGAA-AAGCGTTGATGCCCTAAAATCCATCAGAA
66 TAGTATTAAACAACCTATACTTTTGAAAGATTGAAGAAG-GTTGATGCACTAAAATCCATCAGAA
9193724 GGATTAATTTC-AAATTTGAATATTCATCACAACTAGACTTGAAGATCAATC-AAATGCAA-ATT
130 GGATTAATTTCAAAATTTGAATATTCATCACAACTAGACTTG-AGATCAATCAAAATGCAACA-T
*
9193786 CTGAGGGACCATAAAG-GTGTCAAAAAACAT-TGTTGATTTTCAAAGAATTCAT-CTTTTTCAAA
193 CTG-GAGACCATAAAGAGTGTC---AAACATGT-TTGATTTTCAAAGAATTCATACTTTTTCAAA
9193848 AATTCAATGTTTCA-TCATGAGCCTAGATGAAAGATTGTTCATTTTATCAAGTTTTTGATTTATT
253 AATTC-ATGTTTCATTCATGAGCCTAGATGAAAGATTGTTCATTTTATCAAG-TTTTGATTTATT
**
9193912 TCCCGATGAACCAAAACTTTGATATGATAAACTATTCAATTTGTTCAAAAAATATCACCTCTTTC
316 TCTTGATGAACCAAAACTTTGATATGATAAACTATTCAATTTGTTCAAAAAATATCACCTCTTTC
*
9193977 ATCCATAATAGTGAACACCAATTCTCGAGGGACTCAAAAGGCCTTTTTTTAATATTGCATTTTCC
381 ATCCATAATAGTGAACACCAATTCTCGAGGGACTCAAAAGGCTTTTTTTTAATATTGCATTTTCC
*
9194042 TTGATCATAAAATTTAGTTATGTGAGGCAATTTTTTGGTCAATTTTGAGTTACTTGTTAGGCATT
446 TTGATCATAAAATTTAGTTATGT-AGGCAATTTTTTGGTCAATTTTGAGTTATTTGTTAGGCATT
*
9194107 TTTGTAAAGAGTAAAGAAATCAATTTTGATGTAAAAGAAAAATTATGTTTAGTGAGGATTATGTC
510 TTTGTAAAGAGTAAACAAATCAATTTTGATGTAAAAGAAAAATTATGTTTAGTGAGGATTATGTC
**
9194172 AATGCAAGGTGAGTTTTGATTTGTGAAATAAAATATTTTTCACTAAAAAATTAGTCTTTTGAAAA
575 AATGCAAGGTGAGTTTTGATTTACGAAATAAAATATTTTTCACTAAAAAATTAGTCTTTTGAAAA
*
9194237 AATAAAATTCTTTTGTGAGAATAAATGGGATCATTTTCAATGAAATGGTGAATAAGTGTATGAGA
640 AATAAAATTTTTTTGTGAGAATAAATGGGATCATTTTCAATGAAA-GGTGAATAAGTGTATGAGA
*
9194302 TATTGGGCAAGAAAATGTGAAAAGGGGAATGTTTCTTTCTAAAATGAGAAGATATGTCGGATTGA
704 TATTGGGCAAGAAAATGTGAAAAGGGGAATGTTTCTTTCTAAAATGAGAAGATATGTTGGATTGA
* *
9194367 GTAAGTTCTATCGAAATGCAGTCAAAGAATAGCAAAAATGTGGGTTTGCCTTTTAAAATTTACAA
769 GTAAGTTCTATCGAAATGCAATCAAAGAATAGCAAAAATGTGGGTTTGCCTTTTAGAATTTACAA
*
9194432 TAGAGTATAAAGTGGGAACTACTTGTATGTATGTTACGTTATTGGGTTTAAAAATGGGAATAAAA
834 TGGAGTATAAAGTGGGAACTACTTGTATGTATGTTACGTTATTGGGTTTAAAAATGGGAATAAAA
9194497 AGT
899 AGT
9194500 GAGCATTTTAGAGCAAATTTGAAAA-TTTGAATCCCATTTGGATGCCAAGTGAAGTAAGAGAACC
1 GAGCATTTTAGAGCAAATTTGAAAATTTTGAATCCCATTTGGATGCCAAGTGAAGTAAGAGAACC
9194564 TAGTATTAAACAACCTATACTTTTGAAAGATTGAAGAAGGTTGATGCACTAAAATCCATCAGAAG
66 TAGTATTAAACAACCTATACTTTTGAAAGATTGAAGAAGGTTGATGCACTAAAATCCATCAGAAG
*
9194629 GATTAATTTCAAAATTTTGAATATTCATCACAACTAGACTTGATATCAATCAAAATGCAACATCT
131 GATTAATTTCAAAA-TTTGAATATTCATCACAACTAGACTTGAGATCAATCAAAATGCAACATCT
* *
9194694 GGAGACCATAAAGAGTGTCAAACATGTTTGATTTTAAAAGAATTTATACTTTTTCAAAAATTCAT
195 GGAGACCATAAAGAGTGTCAAACATGTTTGATTTTCAAAGAATTCATACTTTTTCAAAAATTCAT
*
9194759 GTTTCATTCATGAGCCTAGACGAAAGATTGTTCATTTTATCAAGTTTTGATTTATTTCTTGATGA
260 GTTTCATTCATGAGCCTAGATGAAAGATTGTTCATTTTATCAAGTTTTGATTTATTTCTTGATGA
* *
9194824 ACCAAAACTTTGATATGATAAACTATTCAATTTGTTCAAAAAATATCACATCTTTCATCCACAAT
325 ACCAAAACTTTGATATGATAAACTATTCAATTTGTTCAAAAAATATCACCTCTTTCATCCATAAT
* *
9194889 AGTGAACA-CAATTCTCGAGGGACTCAAAATGTTTTTTTTTAATATTGCATTTTCCTTGATCATA
390 AGTGAACACCAATTCTCGAGGGACTCAAAAGGCTTTTTTTTAATATTGCATTTTCCTTGATCATA
9194953 AAATTTAGTTATGTAAGGCAATTTTGTTGGTCAATTTTGAGTTATTTGTTAGGCATTTTTGTAAA
455 AAATTTAGTTATGT-AGGCAATTTT-TTGGTCAATTTTGAGTTATTTGTTAGGCATTTTTGTAAA
* * * *
9195018 AAGTAAATAAATAAATTTTAATGTAAAAGAAAAATTATGTTTAGTGAGGATTATGTCAATGCAAG
518 GAGTAAACAAATCAATTTTGATGTAAAAGAAAAATTATGTTTAGTGAGGATTATGTCAATGCAAG
*
9195083 GTGAGTTTTGATTTACGAAATAAAATATTTTTTACTAAAAAATTAGTCTTTTGAAAAAATAAAAT
583 GTGAGTTTTGATTTACGAAATAAAATATTTTTCACTAAAAAATTAGTCTTTTGAAAAAATAAAAT
9195148 TTTTTTGTGAGAATAAATGGGATCATTTTCAATGAAAGGGTGAATAAGTGTATGAGATATTGGGC
648 TTTTTTGTGAGAATAAATGGGATCATTTTCAATGAAA-GGTGAATAAGTGTATGAGATATTGGGC
9195213 AAGAAAATGTGAAAAGGGGAATGTTTCTTTCTAAAATGAGAAGATATGTTGGATTGAGTAAGTTC
712 AAGAAAATGTGAAAAGGGGAATGTTTCTTTCTAAAATGAGAAGATATGTTGGATTGAGTAAGTTC
*
9195278 TATCGAAATGCAATCAAAGAATAACAAAAATGTGGGTTTGCCTTTTAGAATTTACAATGGAGTAT
777 TATCGAAATGCAATCAAAGAATAGCAAAAATGTGGGTTTGCCTTTTAGAATTTACAATGGAGTAT
*
9195343 AAAGTGGGAACTACTTGTATGTATGTTACGTTATTGGGCTTAAAAATGGGAATAAAAAGT
842 AAAGTGGGAACTACTTGTATGTATGTTACGTTATTGGGTTTAAAAATGGGAATAAAAAGT
*
9195403 GAGCATTTTAGAGAAAATTTGAAAATTTTGAA-CCCAATTTGGATGCCAAGTGAAGTAAGAGAAC
1 GAGCATTTTAGAGCAAATTTGAAAATTTTGAATCCC-ATTTGGATGCCAAGTGAAGTAAGAGAAC
*
9195467 CTAGTATTAAACAACTTATACTTTTGAAAGATTGAAGAAGGTTGATGCACTAAAATCCATCAGAA
65 CTAGTATTAAACAACCTATACTTTTGAAAGATTGAAGAAGGTTGATGCACTAAAATCCATCAGAA
*
9195532 GGATTAATTTTAAAAATTTGAATATTCATCACAACTAGACTTGAGATCAATCAAAATGCAACATC
130 GGATTAA-TTTCAAAATTTGAATATTCATCACAACTAGACTTGAGATCAATCAAAATGCAACATC
** *
9195597 TAAAGACCATAAAGAGTGTCAAACATGTTTGATTTTCAAAGAATTCATACTTTTTCAAAAATTTA
194 TGGAGACCATAAAGAGTGTCAAACATGTTTGATTTTCAAAGAATTCATACTTTTTCAAAAATTCA
*
9195662 TGTTTCATTCGTGAGCCTAGATGAAAGATTGTTCATTTTATCAAGTTTTGATTTATTTCTTGATG
259 TGTTTCATTCATGAGCCTAGATGAAAGATTGTTCATTTTATCAAGTTTTGATTTATTTCTTGATG
*
9195727 AACCAAAACTTTGATATGATAAACTATTCAATCTGTTCAAAAAATATCACCTCTTTCATCCATAA
324 AACCAAAACTTTGATATGATAAACTATTCAATTTGTTCAAAAAATATCACCTCTTTCATCCATAA
* *
9195792 TGGTGAACACCAATTCTCGAGGGACTCAAAAGGCTTTTTTTTAATATTACATTTTCCTTGATCAT
389 TAGTGAACACCAATTCTCGAGGGACTCAAAAGGCTTTTTTTTAATATTGCATTTTCCTTGATCAT
9195857 AAAATTTAGTTATGT--G--A------GG-CAATTTTGAGTTATTTGTTAGGCATTTTTGTAAAG
454 AAAATTTAGTTATGTAGGCAATTTTTTGGTCAATTTTGAGTTATTTGTTAGGCATTTTTGTAAAG
* *
9195911 AGTAAACAAATCAATTTTGATGTAAAAGAAAAATTATGTTTAGTGAGGATTATGTTAATGCAATG
519 AGTAAACAAATCAATTTTGATGTAAAAGAAAAATTATGTTTAGTGAGGATTATGTCAATGCAAGG
*
9195976 TGAGTTTTGATTTACGAAATAAAATATTTTTCACTAAAAAATTAGTCTTTTTAAAAAAT--AATT
584 TGAGTTTTGATTTACGAAATAAAATATTTTTCACTAAAAAATTAGTCTTTTGAAAAAATAAAATT
* * * *
9196039 TTTTTTTTAGAATAAATGGGACCATTTTCAATGGAAAGGTGAATAAGTGTATGAGATATTGGGTA
649 TTTTTGTGAGAATAAATGGGATCATTTTCAAT-GAAAGGTGAATAAGTGTATGAGATATTGGGCA
* *
9196104 AGAAAATGTGAAAAAGGGGAGTGTTTCTTTCTAAAATGAGAAGTTATGTTGGATTGAGTAAGTTC
713 AGAAAATGTG-AAAAGGGGAATGTTTCTTTCTAAAATGAGAAGATATGTTGGATTGAGTAAGTTC
* * * * *
9196169 TATCGAGATGCAATCAAAGAGTAGCAAGAATGTGGGTTTGTCTTTTAGAATTTACAATGGAGTAC
777 TATCGAAATGCAATCAAAGAATAGCAAAAATGTGGGTTTGCCTTTTAGAATTTACAATGGAGTAT
* *
9196234 AAAGTGGGAACTACTTGTATGTATGTTACATTATTGGGTTTAAAAACGGGAATAAAAAGT
842 AAAGTGGGAACTACTTGTATGTATGTTACGTTATTGGGTTTAAAAATGGGAATAAAAAGT
9196294 AAAAGTGAAA
Statistics
Matches: 1705, Mismatches: 73, Indels: 46
0.93 0.04 0.03
Matches are distributed among these distances:
890 70 0.04
891 172 0.10
892 151 0.09
893 2 0.00
900 1 0.00
902 78 0.05
903 557 0.33
904 506 0.30
905 123 0.07
906 44 0.03
907 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (901 bp):
GAGCATTTTAGAGCAAATTTGAAAATTTTGAATCCCATTTGGATGCCAAGTGAAGTAAGAGAACC
TAGTATTAAACAACCTATACTTTTGAAAGATTGAAGAAGGTTGATGCACTAAAATCCATCAGAAG
GATTAATTTCAAAATTTGAATATTCATCACAACTAGACTTGAGATCAATCAAAATGCAACATCTG
GAGACCATAAAGAGTGTCAAACATGTTTGATTTTCAAAGAATTCATACTTTTTCAAAAATTCATG
TTTCATTCATGAGCCTAGATGAAAGATTGTTCATTTTATCAAGTTTTGATTTATTTCTTGATGAA
CCAAAACTTTGATATGATAAACTATTCAATTTGTTCAAAAAATATCACCTCTTTCATCCATAATA
GTGAACACCAATTCTCGAGGGACTCAAAAGGCTTTTTTTTAATATTGCATTTTCCTTGATCATAA
AATTTAGTTATGTAGGCAATTTTTTGGTCAATTTTGAGTTATTTGTTAGGCATTTTTGTAAAGAG
TAAACAAATCAATTTTGATGTAAAAGAAAAATTATGTTTAGTGAGGATTATGTCAATGCAAGGTG
AGTTTTGATTTACGAAATAAAATATTTTTCACTAAAAAATTAGTCTTTTGAAAAAATAAAATTTT
TTTGTGAGAATAAATGGGATCATTTTCAATGAAAGGTGAATAAGTGTATGAGATATTGGGCAAGA
AAATGTGAAAAGGGGAATGTTTCTTTCTAAAATGAGAAGATATGTTGGATTGAGTAAGTTCTATC
GAAATGCAATCAAAGAATAGCAAAAATGTGGGTTTGCCTTTTAGAATTTACAATGGAGTATAAAG
TGGGAACTACTTGTATGTATGTTACGTTATTGGGTTTAAAAATGGGAATAAAAAGT
Found at i:9196359 original size:23 final size:23
Alignment explanation
Indices: 9196333--9196376 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9196323 GTTGGGAAGA
* *
9196333 AAAGAAAATAAAAATAAAAATGT
1 AAAGAAAACAAAAAGAAAAATGT
*
9196356 AAAGGAAACAAAAAGAAAAAT
1 AAAGAAAACAAAAAGAAAAAT
9196377 AAATGAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAGAAAACAAAAAGAAAAATGT
Found at i:9197068 original size:27 final size:26
Alignment explanation
Indices: 9197038--9197096 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
9197028 AAAAGAGTTT
9197038 GAAAAAAAAT-AATGTAAAAGGAAAAAA
1 GAAAAAAAATCAATG-AAAA-GAAAAAA
** *
9197065 GAAAGTATATCAATGAAAAGAAAAAA
1 GAAAAAAAATCAATGAAAAGAAAAAA
9197091 GAAAAA
1 GAAAAA
9197097 TAAGAAGAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
26 11 0.42
27 11 0.42
28 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.15, T:0.12
Consensus pattern (26 bp):
GAAAAAAAATCAATGAAAAGAAAAAA
Found at i:9198202 original size:33 final size:33
Alignment explanation
Indices: 9198097--9198247 Score: 106
Period size: 33 Copynumber: 4.6 Consensus size: 33
9198087 GTAGCTCCCA
* * * *
9198097 ATCATTTCATTTTTAAC-TAGTGACTTAATTTCG
1 ATCATTTCATTTTCAACTTA-TGGCTCAATCTCG
* * * * * * *
9198130 ATAATTTCATTTTCGACTTGTGGCTTAGTCCCA
1 ATCATTTCATTTTCAACTTATGGCTCAATCTCG
* ** *
9198163 AACATTTCATTTTTTACTTATTGCTCAATCTCG
1 ATCATTTCATTTTCAACTTATGGCTCAATCTCG
* * * *
9198196 GTCATTTCATTTTCAACTTATGGTTCAGTTTCG
1 ATCATTTCATTTTCAACTTATGGCTCAATCTCG
*
9198229 ATCATTTCATTTTCGACTT
1 ATCATTTCATTTTCAACTT
9198248 GTGGTTTAAT
Statistics
Matches: 88, Mismatches: 29, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
33 87 0.99
34 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.48
Consensus pattern (33 bp):
ATCATTTCATTTTCAACTTATGGCTCAATCTCG
Found at i:9198253 original size:33 final size:33
Alignment explanation
Indices: 9198127--9198352 Score: 124
Period size: 33 Copynumber: 7.0 Consensus size: 33
9198117 TGACTTAATT
* *
9198127 TCGATAATTTCATTTTCGACTTGTGGCTT-AGTC
1 TCGATCATTTCATTTTCGACTTATGG-TTCAGTC
* * * ** * * *
9198160 CCAAACATTTCATTTTTTACTTATTGCTCAATC
1 TCGATCATTTCATTTTCGACTTATGGTTCAGTC
* * *
9198193 TCGGTCATTTCATTTTCAACTTATGGTTCAGTT
1 TCGATCATTTCATTTTCGACTTATGGTTCAGTC
* * * *
9198226 TCGATCATTTCATTTTCGACTTGTGGTTTAATT
1 TCGATCATTTCATTTTCGACTTATGGTTCAGTC
* * * *
9198259 TTG-GCAATTTTATTTTTGACTTATGGTTCAGTC
1 TCGATC-ATTTCATTTTCGACTTATGGTTCAGTC
* * * ** *
9198292 CCTATCA--T--TTTTC-ACTCATGACTCTGTC
1 TCGATCATTTCATTTTCGACTTATGGTTCAGTC
* *
9198320 TCGGTCATTTCATTTTCGACTTATGGTTTAGTC
1 TCGATCATTTCATTTTCGACTTATGGTTCAGTC
9198353 CCAGTCATTT
Statistics
Matches: 135, Mismatches: 50, Indels: 16
0.67 0.25 0.08
Matches are distributed among these distances:
28 15 0.11
29 4 0.03
30 1 0.01
31 1 0.01
32 7 0.05
33 106 0.79
34 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (33 bp):
TCGATCATTTCATTTTCGACTTATGGTTCAGTC
Found at i:9199570 original size:3 final size:3
Alignment explanation
Indices: 9199506--9199552 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
9199496 CATTAAAATT
* *
9199506 TTA TTA TTA TTA TTA TTA TTG TTA TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9199553 TATTTACGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9200808 original size:2 final size:2
Alignment explanation
Indices: 9200801--9200864 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
9200791 TTTAGTGGCC
* *
9200801 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9200843 AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
9200865 GGTTGAAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9215578 original size:2 final size:2
Alignment explanation
Indices: 9215571--9215601 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9215561 ATTGTTGTTA
9215571 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9215602 TAATAAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9219372 original size:2 final size:2
Alignment explanation
Indices: 9219365--9219389 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9219355 TACTTAAATC
9219365 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9219390 AAAGGATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9222509 original size:2 final size:2
Alignment explanation
Indices: 9222463--9222489 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9222453 ACATACATAC
9222463 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9222490 AAACAAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9225472 original size:31 final size:31
Alignment explanation
Indices: 9225436--9225494 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
9225426 TTAAAATTAA
*
9225436 TTTATTTTAATTAATATTATTGTGTAATTTT
1 TTTATTTTAATTAATATTATTGGGTAATTTT
9225467 TTTATTTTAATTAATATTATTGGGTAAT
1 TTTATTTTAATTAATATTATTGGGTAAT
9225495 GCAGTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (31 bp):
TTTATTTTAATTAATATTATTGGGTAATTTT
Found at i:9234390 original size:21 final size:21
Alignment explanation
Indices: 9234344--9234386 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9234334 ACATTAAAAT
*
9234344 TATAATTAAGTATTATATTCA
1 TATAATTAAGTATTATATTAA
*
9234365 TATAATTAATTATTATA-TAA
1 TATAATTAAGTATTATATTAA
9234385 TA
1 TA
9234387 ATAAAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATAATTAAGTATTATATTAA
Found at i:9235757 original size:16 final size:16
Alignment explanation
Indices: 9235728--9235770 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
9235718 TATTATTTAA
*
9235728 TAAATATGTTAAAT-T
1 TAAATATATTAAATAT
9235743 TAAATTATATTAAATAT
1 TAAA-TATATTAAATAT
9235760 TAAATATATTA
1 TAAATATATTA
9235771 TCCACAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TAAATATATTAAATAT
Found at i:9236598 original size:12 final size:12
Alignment explanation
Indices: 9236575--9236609 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
9236565 TTAATGAAAA
9236575 TAAAATTTTAATT
1 TAAAA-TTTAATT
9236588 TAAAATTTAATT
1 TAAAATTTAATT
*
9236600 TGAAATTTAA
1 TAAAATTTAA
9236610 AATACATGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TAAAATTTAATT
Found at i:9239617 original size:19 final size:21
Alignment explanation
Indices: 9239576--9239620 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9239566 GGCTAAAATT
**
9239576 AAAAAAAAAAGCTTAAAATGG
1 AAAAAAAAAAGAATAAAATGG
9239597 AAAAAAAAAAGAAT-AAA-GG
1 AAAAAAAAAAGAATAAAATGG
9239616 AAAAA
1 AAAAA
9239621 TAAGCCCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 3 0.14
21 12 0.55
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAAAAAAAAGAATAAAATGG
Found at i:9239966 original size:19 final size:20
Alignment explanation
Indices: 9239942--9239983 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9239932 ATAAGCTTTT
*
9239942 TAAATAT-AACTATTGAAAA
1 TAAATATGAACTATCGAAAA
*
9239961 TAAATATGAACTGTCGAAAA
1 TAAATATGAACTATCGAAAA
9239981 TAA
1 TAA
9239984 GATTTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAATATGAACTATCGAAAA
Found at i:9242225 original size:13 final size:14
Alignment explanation
Indices: 9242207--9242237 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9242197 TGCCTTTATC
9242207 TTTT-CCTTTTTTT
1 TTTTCCCTTTTTTT
9242220 TTTTCCCTTTTTTT
1 TTTTCCCTTTTTTT
9242234 TTTT
1 TTTT
9242238 TTTTTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCCCTTTTTTT
Found at i:9243715 original size:6 final size:6
Alignment explanation
Indices: 9243704--9243750 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
9243694 ATTAATTTTG
* *
9243704 AAAAAT AAAAAT AAAAAAT AAAAAT AAAGAT AAATAT AAAAAT AAAA
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
9243751 GTGGAGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:9243726 original size:12 final size:13
Alignment explanation
Indices: 9243704--9243750 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
9243694 ATTAATTTTG
9243704 AAAAATAAAA-AT
1 AAAAATAAAATAT
9243716 AAAAAATAAAA-AT
1 -AAAAATAAAATAT
*
9243729 AAAGAT-AAATAT
1 AAAAATAAAATAT
9243741 AAAAATAAAA
1 AAAAATAAAA
9243751 GTGGAGTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 3 0.10
12 12 0.40
13 15 0.50
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAATAAAATAT
Found at i:9245328 original size:3 final size:3
Alignment explanation
Indices: 9245320--9245351 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9245310 AGTAAAAATG
9245320 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9245352 ACGAATAAAT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9248775 original size:2 final size:2
Alignment explanation
Indices: 9248731--9248763 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9248721 GTACCGTCCC
9248731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9248764 CACACATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9254874 original size:3 final size:3
Alignment explanation
Indices: 9254868--9254894 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9254858 CAACATTTTG
9254868 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
9254895 ATTTGTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9254917 original size:28 final size:29
Alignment explanation
Indices: 9254886--9254941 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
9254876 TTATTATTAT
*
9254886 TATTATT-ATATTTGTTTCTTTTTTTTTC
1 TATTATTCATATTTCTTTCTTTTTTTTTC
* *
9254914 TATTTTTCTTATTTCTTTCTTTTTTTTT
1 TATTATTCATATTTCTTTCTTTTTTTTT
9254942 TCTTCTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.79
Consensus pattern (29 bp):
TATTATTCATATTTCTTTCTTTTTTTTTC
Found at i:9254932 original size:11 final size:11
Alignment explanation
Indices: 9254894--9254950 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
9254884 ATTATTATTA
*
9254894 TATTTGTTTCT
1 TATTTTTTTCT
9254905 T-TTTTTTTC-
1 TATTTTTTTCT
9254914 TA--TTTTTCT
1 TATTTTTTTCT
*
9254923 TATTTCTTTCT
1 TATTTTTTTCT
*
9254934 TTTTTTTTTCT
1 TATTTTTTTCT
*
9254945 TCTTTT
1 TATTTT
9254951 CTTTTTCGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
8 6 0.16
9 3 0.08
10 7 0.19
11 21 0.57
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (11 bp):
TATTTTTTTCT
Found at i:9254938 original size:19 final size:18
Alignment explanation
Indices: 9254900--9254956 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
9254890 ATTATATTTG
* *
9254900 TTTCTTTTTTTTTCTATT
1 TTTCTTTTTCTTTCTTTT
9254918 TTTCTTATTTCTTTCTTTT
1 TTTCTT-TTTCTTTCTTTT
9254937 TTT-TTTCTTCTTTTCTTTT
1 TTTCTTT-TTC-TTTCTTTT
9254956 T
1 T
9254957 CGAGTCAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 1 0.03
18 11 0.32
19 22 0.65
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTCTTTTTCTTTCTTTT
Found at i:9254940 original size:30 final size:29
Alignment explanation
Indices: 9254894--9254957 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
9254884 ATTATTATTA
*
9254894 TATTTGTTTCTTTTTTTTTCTAT-TTTTCT
1 TATTTCTTTCTTTTTTTTTCT-TCTTTTCT
9254923 TATTTCTTTCTTTTTTTTTTCTTCTTTTCT
1 TATTTCTTTC-TTTTTTTTTCTTCTTTTCT
9254953 T-TTTC
1 TATTTC
9254958 GAGTCAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (29 bp):
TATTTCTTTCTTTTTTTTTCTTCTTTTCT
Found at i:9268579 original size:49 final size:49
Alignment explanation
Indices: 9268504--9268640 Score: 143
Period size: 49 Copynumber: 2.8 Consensus size: 49
9268494 CTTTTTAAAA
* * * * *
9268504 TTTTAAAGTCGTTGAGCCTTTTCTTAGATA-AGCTTTTCCAATATGAGAT
1 TTTTAAAGTTGTTGAGCCTTTGCTTAGA-AGAGCTTTTCCAAAATAAGAG
* *
9268553 TTTTAAAATTGTTGAGCCTTTGCTTAGAAGAGCTTTTCTAAAATAAGAG
1 TTTTAAAGTTGTTGAGCCTTTGCTTAGAAGAGCTTTTCCAAAATAAGAG
* * *
9268602 TTTTAAAGTTATTGAG-CTTCTGTTTAGAGGAGCCTTTTC
1 TTTTAAAGTTGTTGAGCCTT-TGCTTAGAAGAG-CTTTTC
9268641 AAATTTTTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 4 0.05
49 64 0.86
50 6 0.08
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (49 bp):
TTTTAAAGTTGTTGAGCCTTTGCTTAGAAGAGCTTTTCCAAAATAAGAG
Found at i:9268668 original size:44 final size:44
Alignment explanation
Indices: 9268620--9268916 Score: 255
Period size: 44 Copynumber: 6.8 Consensus size: 44
9268610 TTATTGAGCT
* * * *
9268620 TCTGTTTAGAGGAGCCTTTTCAAATTTTTAAAAGTCGTTAAACC
1 TCTGTTTAGAAGAGCCTTTTTAAATTTTCAAAAGTCGTTGAACC
* * *
9268664 TCTGTTTA-AATGAGCCTTTTTAAATTTT-TAATGTCATTGAACC
1 TCTGTTTAGAA-GAGCCTTTTTAAATTTTCAAAAGTCGTTGAACC
** * * * *
9268707 TCTACTTAGAATAGCCTTTTTAAATTTTCAAAAGTTGTTGAGCT
1 TCTGTTTAGAAGAGCCTTTTTAAATTTTCAAAAGTCGTTGAACC
* * * * * * *
9268751 TTTGCTAAGAAAAGCCTCTTTAAATTTTCAAAAGTCATTGAATC
1 TCTGTTTAGAAGAGCCTTTTTAAATTTTCAAAAGTCGTTGAACC
* * *
9268795 TTTGCTTAG-AGAAGCCTTTTTAAATTTTCAAAAGTCGTT-AAGC
1 TCTGTTTAGAAG-AGCCTTTTTAAATTTTCAAAAGTCGTTGAACC
* * *
9268838 TATTGTTTAGAGGAG-CTTTTTAAATTTTCAAAAATGTTGTTGAACC
1 T-CTGTTTAGAAGAGCCTTTTTAAATTTTC-AAAA-GTCGTTGAACC
*
9268884 TCTATTTAGAAGAGCC-TTTTAAATTTTTCAAAA
1 TCTGTTTAGAAGAGCCTTTTTAAA-TTTTCAAAA
9268917 AACAAGATGA
Statistics
Matches: 205, Mismatches: 37, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
43 53 0.26
44 115 0.56
45 27 0.13
46 10 0.05
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (44 bp):
TCTGTTTAGAAGAGCCTTTTTAAATTTTCAAAAGTCGTTGAACC
Found at i:9268723 original size:43 final size:44
Alignment explanation
Indices: 9268631--9268741 Score: 136
Period size: 43 Copynumber: 2.5 Consensus size: 44
9268621 CTGTTTAGAG
* * **
9268631 GAGCCTTTTCAAATTTTTAAAAGTCGTTAAACCTCTGTTTAAAT
1 GAGCCTTTTTAAATTTTTAAAAGTCATTAAACCTCTACTTAAAT
* *
9268675 GAGCCTTTTTAAATTTTT-AATGTCATTGAACCTCTACTTAGAAT
1 GAGCCTTTTTAAATTTTTAAAAGTCATTAAACCTCTACTTA-AAT
*
9268719 -AGCCTTTTTAAATTTTCAAAAGT
1 GAGCCTTTTTAAATTTTTAAAAGT
9268742 TGTTGAGCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
43 33 0.58
44 24 0.42
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (44 bp):
GAGCCTTTTTAAATTTTTAAAAGTCATTAAACCTCTACTTAAAT
Found at i:9268997 original size:3 final size:3
Alignment explanation
Indices: 9268989--9269022 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
9268979 CACCATTTTG
9268989 TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
9269023 ATTTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9270118 original size:22 final size:21
Alignment explanation
Indices: 9270072--9270126 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
9270062 AAAAAATATT
*
9270072 TTTTGAATATTTTTTAGATTT
1 TTTTGAATATTTTTTAGATTA
*
9270093 TTTTGATATATTATTTTTG-TTA
1 TTTTGA-ATATT-TTTTAGATTA
9270115 TTTT-AA-ATTTTT
1 TTTTGAATATTTTT
9270127 ATTATTAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 1 0.03
21 7 0.23
22 11 0.37
23 5 0.17
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (21 bp):
TTTTGAATATTTTTTAGATTA
Found at i:9271342 original size:2 final size:2
Alignment explanation
Indices: 9271337--9271368 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9271327 ATATATATAT
9271337 AG AG AG 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 AG AG AG
9271369 TAGATTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9272756 original size:22 final size:22
Alignment explanation
Indices: 9272731--9272773 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9272721 GTTAAACATG
* *
9272731 AATTATATCTATTATTTTTATC
1 AATTATATATATGATTTTTATC
*
9272753 AATTCTATATATGATTTTTAT
1 AATTATATATATGATTTTTAT
9272774 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTATATATATGATTTTTATC
Found at i:9275939 original size:40 final size:41
Alignment explanation
Indices: 9275860--9275939 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
9275850 ACGTTCATAT
* * *
9275860 AATCAATTGAATAATCAACTATTATATTATAATTAAATTAC
1 AATCAATTGAATAATCAACTAGTAAATTATAATCAAATTAC
*
9275901 AATC-ATTGAATAATTAACTAGTAAATTA-AATCATAATTA
1 AATCAATTGAATAATCAACTAGTAAATTATAATCA-AATTA
9275940 AATAACCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.12
40 26 0.76
41 4 0.12
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.38
Consensus pattern (41 bp):
AATCAATTGAATAATCAACTAGTAAATTATAATCAAATTAC
Found at i:9276832 original size:27 final size:28
Alignment explanation
Indices: 9276783--9276837 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
9276773 TAAAAAAGCA
9276783 ATAAAGTTGAAAAAAAAAGTAGAATAGG
1 ATAAAGTTGAAAAAAAAAGTAGAATAGG
*
9276811 ATAAAGTTGAAAAAAAGA-TAGAATAGG
1 ATAAAGTTGAAAAAAAAAGTAGAATAGG
9276838 CAATCGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.60, C:0.00, G:0.22, T:0.18
Consensus pattern (28 bp):
ATAAAGTTGAAAAAAAAAGTAGAATAGG
Found at i:9277040 original size:18 final size:17
Alignment explanation
Indices: 9276997--9277040 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
9276987 AGAAAAAGCC
9276997 GAAAAAAAAGATAAAGG
1 GAAAAAAAAGATAAAGG
*
9277014 GAAAGAAAAAGGTAAGAGGG
1 GAAA-AAAAAGATAA-A-GG
9277034 GAAAAAA
1 GAAAAAA
9277041 GTTTGATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 9 0.39
19 4 0.17
20 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.05
Consensus pattern (17 bp):
GAAAAAAAAGATAAAGG
Found at i:9286126 original size:19 final size:19
Alignment explanation
Indices: 9286102--9286139 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9286092 ATTTAGGTAA
*
9286102 GAATATATTTCTTATTCTT
1 GAATATATGTCTTATTCTT
9286121 GAATATATGTCTTATTCTT
1 GAATATATGTCTTATTCTT
9286140 AAATGCACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55
Consensus pattern (19 bp):
GAATATATGTCTTATTCTT
Done.