Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 3 of 126
Found at i:735742 original size:41 final size:41
Alignment explanation
Indices: 735688--735770 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 41
735678 AAATATATAT
* * * *
735688 AATTTGATTTAATTTT-TTTAATTTTTAATTTTTTAATTTAA
1 AATTTGATGTAATTTTATTT-ATATTTAATATTTAAATTTAA
735729 AATTTGATGTAATTTTAATTTATATTTAATATTTAAATTTAA
1 AATTTGATGTAATTTT-ATTTATATTTAATATTTAAATTTAA
735771 TCCAAATAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 15 0.42
42 18 0.50
43 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (41 bp):
AATTTGATGTAATTTTATTTATATTTAATATTTAAATTTAA
Found at i:750347 original size:23 final size:23
Alignment explanation
Indices: 750316--750371 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
750306 CCCAAATTTG
750316 CATATATATATAAATTATTTATT
1 CATATATATATAAATTATTTATT
* *
750339 TATATATATATGAATTATTTATT
1 CATATATATATAAATTATTTATT
750362 CATATATATA
1 CATATATATA
750372 AATTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
CATATATATATAAATTATTTATT
Found at i:752485 original size:2 final size:2
Alignment explanation
Indices: 752478--752502 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
752468 TGAATTAATC
752478 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
752503 AACAGAATTG
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:754489 original size:15 final size:15
Alignment explanation
Indices: 754469--754522 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
754459 TGCATTAATT
754469 AAATATTAGTAAATA
1 AAATATTAGTAAATA
* * * *
754484 AAATATTATTTTATTT
1 AAATATTA-GTAAATA
*
754500 AAATTTTAGTAAATA
1 AAATATTAGTAAATA
754515 AAATATTA
1 AAATATTA
754523 TTTATTTTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (15 bp):
AAATATTAGTAAATA
Found at i:754529 original size:30 final size:31
Alignment explanation
Indices: 754467--754535 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
754457 CTTGCATTAA
*
754467 TTAAATATTAGTAAATAAAATATTATTTTAT
1 TTAAATTTTAGTAAATAAAATATTATTTTAT
754498 TTAAATTTTAGTAAATAAAATATTA-TTTAT
1 TTAAATTTTAGTAAATAAAATATTATTTTAT
*
754528 TTTAATTT
1 TTAAATTT
754536 AAAGTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 12 0.33
31 24 0.67
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (31 bp):
TTAAATTTTAGTAAATAAAATATTATTTTAT
Found at i:762418 original size:19 final size:19
Alignment explanation
Indices: 762381--762423 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
762371 ATTGAACTTA
*
762381 TTATATATTTTTATTATTT
1 TTATATATTTTTATAATTT
762400 TTATATATTTTT-TAAATTT
1 TTATATATTTTTAT-AATTT
762419 TTATA
1 TTATA
762424 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATATATTTTTATAATTT
Found at i:762425 original size:10 final size:10
Alignment explanation
Indices: 762381--762423 Score: 63
Period size: 9 Copynumber: 4.5 Consensus size: 10
762371 ATTGAACTTA
762381 TTATATATTT
1 TTATATATTT
762391 TTAT-TATTT
1 TTATATATTT
762400 TTATATATTT
1 TTATATATTT
*
762410 TT-TAAATTT
1 TTATATATTT
762419 TTATA
1 TTATA
762424 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 17 0.57
10 13 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATATATTT
Found at i:762466 original size:18 final size:18
Alignment explanation
Indices: 762434--762473 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
762424 AAATAAAAAT
*
762434 ATTTATTTTATATA-TAA
1 ATTTATTTAATATATTAA
762451 ATTTATTTAAATATATTAA
1 ATTTATTT-AATATATTAA
762470 ATTT
1 ATTT
762474 GTTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 5 0.25
19 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATTTAATATATTAA
Found at i:762513 original size:13 final size:13
Alignment explanation
Indices: 762497--762521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
762487 TATATAAAAA
762497 TTAAAAATTAATT
1 TTAAAAATTAATT
762510 TTAAAAATTAAT
1 TTAAAAATTAAT
762522 AAATCAAATT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAAAATTAATT
Found at i:763264 original size:20 final size:19
Alignment explanation
Indices: 763239--763281 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
763229 TGTTTTTTTC
763239 ATAAAAATT-TAAAATATAT
1 ATAAAAATTATAAAA-ATAT
763258 ATAAAAATTAATAAAAATAT
1 ATAAAAATT-ATAAAAATAT
763278 ATAA
1 ATAA
763282 TTTAGGTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 8 0.36
21 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAATTATAAAAATAT
Found at i:763351 original size:13 final size:13
Alignment explanation
Indices: 763330--763365 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
763320 AAATTACATT
763330 TAAATTTAATATA
1 TAAATTTAATATA
* *
763343 TATATTTAATATT
1 TAAATTTAATATA
763356 TAAATTTAAT
1 TAAATTTAAT
763366 CTAAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:763651 original size:16 final size:16
Alignment explanation
Indices: 763630--763669 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
763620 AAAATTAATC
*
763630 AATTAAATTTTGATTT
1 AATTAAATTTTGAATT
* *
763646 AATTAATTTTTTAATT
1 AATTAAATTTTGAATT
763662 AATTAAAT
1 AATTAAAT
763670 AATAAATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTAAATTTTGAATT
Found at i:763955 original size:22 final size:23
Alignment explanation
Indices: 763916--763962 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
763906 AAATTTTTTA
* * *
763916 AAAATTATTTTTATTAATTAATC
1 AAAATTATATTTAATAATCAATC
763939 AAAATTA-ATTTAATAATCAATC
1 AAAATTATATTTAATAATCAATC
763961 AA
1 AA
763963 TTAATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATTATATTTAATAATCAATC
Found at i:775491 original size:18 final size:18
Alignment explanation
Indices: 775456--775507 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
775446 ATGGATTTGA
775456 TTATTAGTTAAGTTATAAT
1 TTATTAGTTAA-TTATAAT
775475 TTATTAGTTAATTATAAT
1 TTATTAGTTAATTATAAT
* * *
775493 ATAATAATTAATTAT
1 TTATTAGTTAATTAT
775508 TCAATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 19 0.63
19 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TTATTAGTTAATTATAAT
Found at i:776599 original size:14 final size:13
Alignment explanation
Indices: 776570--776617 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
776560 TTCTTTGTTA
776570 AATTTTGAAATTT
1 AATTTTGAAATTT
776583 AATTTTGAAATTAT
1 AATTTTGAAATT-T
*
776597 AATTTATATAAATTT
1 AATTT-T-GAAATTT
776612 AATTTT
1 AATTTT
776618 TATATTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 12 0.39
14 7 0.23
15 7 0.23
16 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (13 bp):
AATTTTGAAATTT
Found at i:781997 original size:2 final size:2
Alignment explanation
Indices: 781990--782024 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
781980 TCTTCAACTT
*
781990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
782025 CTTGCCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:786282 original size:3 final size:3
Alignment explanation
Indices: 786276--786306 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
786266 TTACTACTAC
786276 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
786307 TTTAGGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:786401 original size:2 final size:2
Alignment explanation
Indices: 786394--786425 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
786384 TTTGATTTCC
786394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
786426 TAATAATTAT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:787633 original size:24 final size:23
Alignment explanation
Indices: 787602--787646 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
787592 AAAATTTATT
787602 TTAAAATTTT-TATTTATATATAA
1 TTAAAATTTTATATTT-TATATAA
787625 TTAATAATTTTATATTTTATAT
1 TTAA-AATTTTATATTTTATAT
787647 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAAAATTTTATATTTTATATAA
Found at i:787658 original size:19 final size:19
Alignment explanation
Indices: 787636--787672 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
787626 TAATAATTTT
787636 ATATTTTATATTTTAAAAA
1 ATATTTTATATTTTAAAAA
787655 ATATTTTATATTTTAAAA
1 ATATTTTATATTTTAAAA
787673 TTCGAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTTATATTTTAAAAA
Found at i:787830 original size:3 final size:3
Alignment explanation
Indices: 787822--787847 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
787812 AGAATTGTAC
787822 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
787848 GTTTGATCAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:788191 original size:13 final size:13
Alignment explanation
Indices: 788169--788207 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
788159 TTAGTTTTTA
*
788169 ATTTTTATATATT
1 ATTTTAATATATT
**
788182 ATTTTAATATAAA
1 ATTTTAATATATT
788195 ATTTTAATATATT
1 ATTTTAATATATT
788208 TAAGTAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:789383 original size:30 final size:30
Alignment explanation
Indices: 789362--789427 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 30
789352 TATTATTTTT
789362 AATATAAATATAAAATTAAATACATATAAA
1 AATATAAATATAAAATTAAATACATATAAA
*
789392 AATATAAATATAAAATTAAATAAATAATTAAA
1 AATATAAATATAAAATTAAATACAT-A-TAAA
789424 AATA
1 AATA
789428 ATTATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 24 0.73
31 1 0.03
32 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (30 bp):
AATATAAATATAAAATTAAATACATATAAA
Found at i:789414 original size:24 final size:23
Alignment explanation
Indices: 789362--789424 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
789352 TATTATTTTT
* *
789362 AATATAAATATAAAATTAAATAC
1 AATAAAAATATAAAATAAAATAC
789385 ATATAAAAATATAAATATAAAATTA-
1 A-ATAAAAATATAAA-ATAAAA-TAC
789410 AATAAATAAT-TAAAA
1 AATAAA-AATATAAAA
789425 ATAATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 2 0.06
24 21 0.62
25 9 0.26
26 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAAAAATATAAAATAAAATAC
Found at i:791211 original size:17 final size:19
Alignment explanation
Indices: 791181--791217 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
791171 TCCAATCAAG
*
791181 TTTTTACAGTAAATTATAT
1 TTTTTACAGTAAATGATAT
791200 TTTTTA-AG-AAATGATAT
1 TTTTTACAGTAAATGATAT
791217 T
1 T
791218 CAATAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (19 bp):
TTTTTACAGTAAATGATAT
Found at i:792810 original size:20 final size:20
Alignment explanation
Indices: 792774--792813 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
792764 TGATACTTTC
*
792774 AATTTGTTTGATTTATAAAT
1 AATTTGTTTGATATATAAAT
792794 AATTT-TTTGCATATATAAAT
1 AATTTGTTTG-ATATATAAAT
792814 TTACACTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (20 bp):
AATTTGTTTGATATATAAAT
Found at i:797852 original size:20 final size:20
Alignment explanation
Indices: 797827--797885 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
797817 TCTAAAATTT
797827 TATTCTATCAAGCACTTTGA
1 TATTCTATCAAGCACTTTGA
797847 TATTCTA--AA--A-TTT--
1 TATTCTATCAAGCACTTTGA
797860 TATTCTATCAAGCACTTTGA
1 TATTCTATCAAGCACTTTGA
797880 TATTCT
1 TATTCT
797886 GTATCAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 7 0.22
15 5 0.16
16 1 0.03
17 1 0.03
18 5 0.16
20 13 0.41
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.46
Consensus pattern (20 bp):
TATTCTATCAAGCACTTTGA
Found at i:797857 original size:33 final size:33
Alignment explanation
Indices: 797810--797885 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
797800 AAATTCTCGT
797810 TTTGATA-TCTAAAATTTTATTCTATCAAGCAC
1 TTTGATATTCTAAAATTTTATTCTATCAAGCAC
797842 TTTGATATTCTAAAATTTTATTCTATCAAGCAC
1 TTTGATATTCTAAAATTTTATTCTATCAAGCAC
797875 TTTGATATTCT
1 TTTGATATTCT
797886 GTATCAACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 7 0.16
33 36 0.84
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (33 bp):
TTTGATATTCTAAAATTTTATTCTATCAAGCAC
Found at i:799379 original size:89 final size:90
Alignment explanation
Indices: 799209--799385 Score: 286
Period size: 89 Copynumber: 2.0 Consensus size: 90
799199 TACTGCAACA
* *
799209 AGCAGAAAAGTAAACAAAGAAACTCACATAAAGTACAAATTTAATGGCAGACAATGCTTCAAACT
1 AGCAGAAAAGTAAACAAACAAACTCACATAAAGTACAAATTTAATGGCAGAAAATGCTTCAAACT
*
799274 AGCAATTGAACTCACAGATTCATCG
66 AGCAATAGAACTCACAGATTCATCG
* *
799299 AGCAGAAAAGTAAATAAACAAACTCACATAAAGTACAAAATTT-A-GGCAGAAAATGCTTCGAAC
1 AGCAGAAAAGTAAACAAACAAACTCACATAAAGTAC-AAATTTAATGGCAGAAAATGCTTCAAAC
799362 TAGCAATAGAACTCACAGATTCAT
65 TAGCAATAGAACTCACAGATTCAT
799386 TGATGGGACC
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
89 40 0.49
90 35 0.43
91 6 0.07
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (90 bp):
AGCAGAAAAGTAAACAAACAAACTCACATAAAGTACAAATTTAATGGCAGAAAATGCTTCAAACT
AGCAATAGAACTCACAGATTCATCG
Found at i:805635 original size:77 final size:77
Alignment explanation
Indices: 805505--805657 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 77
805495 AAGTGACAAG
*
805505 TAAATAACTAGGAATGTTTTAGTTAGTAAGAAATTGAAGAATAAAATACAGGTGACCAAACATAT
1 TAAATAACTAGGAATGTTTTAGTTAGTAAGAAATTGAAGAATAAAAGACAGGTGACCAAACATAT
805570 ACTGAAACACCC
66 ACTGAAACACCC
* * * *
805582 TAAATAACTAGGACTGTTTTAGTTAGTAAGAAATTGAAGATTAAAAGATAGGTGACCGAACATAT
1 TAAATAACTAGGAATGTTTTAGTTAGTAAGAAATTGAAGAATAAAAGACAGGTGACCAAACATAT
*
805647 ATTGAAACACC
66 ACTGAAACACC
805658 TGTGACTTGA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (77 bp):
TAAATAACTAGGAATGTTTTAGTTAGTAAGAAATTGAAGAATAAAAGACAGGTGACCAAACATAT
ACTGAAACACCC
Found at i:807742 original size:9 final size:8
Alignment explanation
Indices: 807727--807751 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
807717 AAATGTGAAA
807727 ATTTTTTT
1 ATTTTTTT
807735 ATTTTTTT
1 ATTTTTTT
807743 ATTTTTTT
1 ATTTTTTT
807751 A
1 A
807752 AAGAAAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:808280 original size:35 final size:34
Alignment explanation
Indices: 808241--808306 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
808231 CTAACTAACT
*
808241 TTATAATATTTAAAATATAATATAACTTATTTTTG
1 TTATAATATTTAAAATAAAATATAA-TTATTTTTG
* **
808276 TTATAATTTTTATGATAAAATATAATTATTT
1 TTATAATATTTAAAATAAAATATAATTATTT
808307 AAATTTATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 6 0.22
35 21 0.78
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (34 bp):
TTATAATATTTAAAATAAAATATAATTATTTTTG
Found at i:816628 original size:20 final size:21
Alignment explanation
Indices: 816603--816641 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
816593 TTAATGTTGC
816603 TATATGATGT-CTTGATTTAG
1 TATATGATGTGCTTGATTTAG
*
816623 TATATGATTTGCTTGATTT
1 TATATGATGTGCTTGATTT
816642 TTACTAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.54
Consensus pattern (21 bp):
TATATGATGTGCTTGATTTAG
Found at i:819228 original size:21 final size:21
Alignment explanation
Indices: 819202--819242 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
819192 TTCCAAGTAG
*
819202 CTTAAATGACTATGAGTGTTA
1 CTTAAATGACCATGAGTGTTA
*
819223 CTTAAATTACCATGAGTGTT
1 CTTAAATGACCATGAGTGTT
819243 GTTAATTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (21 bp):
CTTAAATGACCATGAGTGTTA
Found at i:828338 original size:68 final size:68
Alignment explanation
Indices: 828266--828420 Score: 170
Period size: 68 Copynumber: 2.3 Consensus size: 68
828256 ATAATTCTTT
* * ** *
828266 AAAATAAATTTTTGAGAATTATATTGTAGTCTT-GAAAACAAAATTTT-GAAAATATAATATAAT
1 AAAATTAATTTTAGAGAATTATATTACA-TCTTCGAAAA-AAAATTTTCGAAAATACAATATAAT
828329 TTTCA
64 TTTCA
* * * *
828334 AAAATTAATTTTAAAGAATTATATTACATTTTCGAAAATAAATTTTCGAGAATACAATATAATTT
1 AAAATTAATTTTAGAGAATTATATTACATCTTCGAAAAAAAATTTTCGAAAATACAATATAATTT
*
828399 TTA
66 TCA
* *
828402 AAAATTTATTTTCGAGAAT
1 AAAATTAATTTTAGAGAAT
828421 GTAGTATAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
67 10 0.14
68 62 0.86
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (68 bp):
AAAATTAATTTTAGAGAATTATATTACATCTTCGAAAAAAAATTTTCGAAAATACAATATAATTT
TCA
Found at i:828386 original size:34 final size:32
Alignment explanation
Indices: 828266--828386 Score: 84
Period size: 34 Copynumber: 3.6 Consensus size: 32
828256 ATAATTCTTT
* *
828266 AAAATAAATTTTTGAGAATTATATTGTAGTCTT-G
1 AAAATAAA-TTTTGAGAATTATA-T-TAATTTTCG
* * *
828300 AAAACAAAATTTTGA-AAATATAATATAATTTTCA
1 AAAA-TAAATTTTGAGAATTAT-AT-TAATTTTCG
* *
828334 AAAATTAATTTTAAAGAATTATATTACATTTTCG
1 AAAATAAATTTT-GAGAATTATATTA-ATTTTCG
828368 AAAATAAATTTTCGAGAAT
1 AAAATAAATTTT-GAGAAT
828387 ACAATATAAT
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
33 19 0.28
34 40 0.60
35 8 0.12
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (32 bp):
AAAATAAATTTTGAGAATTATATTAATTTTCG
Found at i:828399 original size:34 final size:33
Alignment explanation
Indices: 828306--828420 Score: 99
Period size: 34 Copynumber: 3.4 Consensus size: 33
828296 CTTGAAAACA
*
828306 AAATTTT-GAAAATATAATATAATTTTCAAAAAT
1 AAATTTTCGAGAATA-AATATAATTTTCAAAAAT
* ** * *
828339 TAATTTTAAAGAAT-TATATTACATTTTCGAAAAT
1 AAATTTTCGAGAATAAATA-TA-ATTTTCAAAAAT
*
828373 AAATTTTCGAGAATACAATATAATTTTTAAAAAT
1 AAATTTTCGAGAATA-AATATAATTTTCAAAAAT
**
828407 TTATTTTCGAGAAT
1 AAATTTTCGAGAAT
828421 GTAGTATAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
32 3 0.05
33 8 0.12
34 48 0.75
35 2 0.03
36 3 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (33 bp):
AAATTTTCGAGAATAAATATAATTTTCAAAAAT
Found at i:828429 original size:34 final size:32
Alignment explanation
Indices: 828322--828431 Score: 103
Period size: 34 Copynumber: 3.2 Consensus size: 32
828312 TGAAAATATA
**
828322 ATATAATTTTCAAAAATTAATTTTAAAGAATT
1 ATATAATTTTCAAAAATTAATTTTCGAGAATT
* * *
828354 ATATTACATTTTCGAAAATAAATTTTCGAGAATACA
1 ATA-TA-ATTTTCAAAAATTAATTTTCGAGAAT--T
* *
828390 ATATAATTTTTAAAAATTTATTTTCGAGAATGT
1 ATATAATTTTCAAAAATTAATTTTCGAGAAT-T
828423 AGTATAATT
1 A-TATAATT
828432 AAATTGTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
32 3 0.05
33 3 0.05
34 51 0.82
35 2 0.03
36 3 0.05
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (32 bp):
ATATAATTTTCAAAAATTAATTTTCGAGAATT
Found at i:834401 original size:42 final size:42
Alignment explanation
Indices: 834342--834422 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
834332 GCATAGCACG
834342 GGTCTAGTGAATAATGAAATGAAAACATTACCATAAGTCTAC
1 GGTCTAGTGAATAATGAAATGAAAACATTACCATAAGTCTAC
834384 GGTCTAGTGAATAATGAAATGAAAACATTACCATAAGTC
1 GGTCTAGTGAATAATGAAATGAAAACATTACCATAAGTC
834423 AGGGGTTCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTAGTGAATAATGAAATGAAAACATTACCATAAGTCTAC
Found at i:838443 original size:30 final size:29
Alignment explanation
Indices: 838383--838464 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
838373 AAAATTTAAA
* * **
838383 AAATTATATTATATATTTTTATGTTGATAT
1 AAATTATAATATA-ATTTTTATATAAATAT
838413 AAATTATAATATAATTTTTATATAAA-AT
1 AAATTATAATATAATTTTTATATAAATAT
838441 ATAA-TATAAATATAATATTTTATA
1 A-AATTAT-AATATAAT-TTTTATA
838465 CGATGTAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.13
29 20 0.44
30 19 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
AAATTATAATATAATTTTTATATAAATAT
Found at i:838451 original size:11 final size:11
Alignment explanation
Indices: 838409--838458 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
838399 TTTTATGTTG
838409 ATATAAATTATA
1 ATATAAA-TATA
* * *
838421 ATATAATTTTT
1 ATATAAATATA
838432 ATATAAAATATA
1 ATAT-AAATATA
838444 ATATAAATATA
1 ATATAAATATA
838455 ATAT
1 ATAT
838459 TTTATACGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 17 0.55
12 14 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATAAATATA
Found at i:838458 original size:23 final size:23
Alignment explanation
Indices: 838409--838458 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
838399 TTTTATGTTG
* * * *
838409 ATATAAATTATAATATAATTTTT
1 ATATAAAATATAATATAAATATA
838432 ATATAAAATATAATATAAATATA
1 ATATAAAATATAATATAAATATA
838455 ATAT
1 ATAT
838459 TTTATACGAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATAAAATATAATATAAATATA
Found at i:840269 original size:2 final size:2
Alignment explanation
Indices: 840262--840292 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
840252 CAATAAATAC
840262 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
840293 ACTATTTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:846678 original size:12 final size:12
Alignment explanation
Indices: 846647--846684 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
846637 TTTTAAATTT
846647 TAATTTTT-ATA
1 TAATTTTTAATA
*
846658 TATTATTTTAATA
1 TAAT-TTTTAATA
846671 TAATTTTTAATA
1 TAATTTTTAATA
846683 TA
1 TA
846685 TTTATATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 3 0.13
12 14 0.61
13 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TAATTTTTAATA
Found at i:852628 original size:2 final size:2
Alignment explanation
Indices: 852623--852663 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
852613 TTTTTATCCA
* *
852623 AT AT AT AT AT AT AT AT AA AT AT AA 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 AT AT AT AT A
852664 CACGGCTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:853203 original size:15 final size:15
Alignment explanation
Indices: 853183--853229 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
853173 CTTTATATTC
853183 ATTTAAGATTTGTTT
1 ATTTAAGATTTGTTT
*
853198 ATTTAA-ATTTATTT
1 ATTTAAGATTTGTTT
** *
853212 GGTTATGATTTGTTT
1 ATTTAAGATTTGTTT
853227 ATT
1 ATT
853230 GTTCATGATA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (15 bp):
ATTTAAGATTTGTTT
Found at i:853361 original size:14 final size:15
Alignment explanation
Indices: 853342--853370 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
853332 ACCTATTATT
853342 TAAACAAACA-AATA
1 TAAACAAACAGAATA
853356 TAAACAAACAGAATA
1 TAAACAAACAGAATA
853371 ATTTTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.14, G:0.03, T:0.14
Consensus pattern (15 bp):
TAAACAAACAGAATA
Found at i:854150 original size:85 final size:85
Alignment explanation
Indices: 854007--854177 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
853997 TCATTTCATG
*
854007 CATATATTCTCAGCCATTGTCATTTGTTGGGGCAACCCACGTTGATGTTAAGCAGATAATACTAG
1 CATATATTCTCAGCCATTGTCATTTGTTGGGGCAACCCAAGTTGATGTTAAGCAGATAATACTAG
854072 TTGCAGTGAACTAGGATTCC
66 TTGCAGTGAACTAGGATTCC
*
854092 CATATATTCTCAGCCATTGTCATTTGTTGGGGCAACTCAAGTTGATGTTAAGCAGATAATACTAG
1 CATATATTCTCAGCCATTGTCATTTGTTGGGGCAACCCAAGTTGATGTTAAGCAGATAATACTAG
854157 TTGCAGTGAACTAGGATTCC
66 TTGCAGTGAACTAGGATTCC
854177 C
1 C
854178 TGGTCCAACT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (85 bp):
CATATATTCTCAGCCATTGTCATTTGTTGGGGCAACCCAAGTTGATGTTAAGCAGATAATACTAG
TTGCAGTGAACTAGGATTCC
Found at i:855022 original size:20 final size:19
Alignment explanation
Indices: 854999--855034 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
854989 ATCGAATTAT
854999 ATATATTTT-AATTTTTAC
1 ATATATTTTAAATTTTTAC
855017 ATATATTTTAAATTTTTA
1 ATATATTTTAAATTTTTA
855035 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATATTTTAAATTTTTAC
Found at i:855092 original size:13 final size:13
Alignment explanation
Indices: 855074--855111 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
855064 TCTACTTAAA
855074 TATATTAAAATTT
1 TATATTAAAATTT
**
855087 TATATTAAAATAA
1 TATATTAAAATTT
855100 TATA-TAAAATTT
1 TATATTAAAATTT
855112 AAAAATCGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATTAAAATTT
Found at i:857011 original size:2 final size:2
Alignment explanation
Indices: 857004--857036 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
856994 AAAAACAAAG
857004 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
857037 ACAGTGGAAA
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:861971 original size:33 final size:33
Alignment explanation
Indices: 861916--861980 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
861906 ATATAATATT
*
861916 ATAAATTTTTAAATTTGAATTTGAATTTAAATTA
1 ATAAATTTTTAAAATTGAATTTGAA-TTAAATTA
*
861950 ATAATTTTTTAAAATTG-ATTTGAATTAAATT
1 ATAAATTTTTAAAATTGAATTTGAATTAAATT
861981 TTATTGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 7 0.24
33 7 0.24
34 15 0.52
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (33 bp):
ATAAATTTTTAAAATTGAATTTGAATTAAATTA
Found at i:862097 original size:21 final size:22
Alignment explanation
Indices: 862064--862108 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
862054 TTTAATATAT
862064 ATAAATATATTTA-TATATAAA
1 ATAAATATATTTATTATATAAA
* * *
862085 ATAATTATTTTTATTTTATAAA
1 ATAAATATATTTATTATATAAA
862107 AT
1 AT
862109 TTTAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAATATATTTATTATATAAA
Found at i:863917 original size:15 final size:15
Alignment explanation
Indices: 863897--863927 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
863887 TATTATTAAC
863897 TTTTTAAATTATATT
1 TTTTTAAATTATATT
*
863912 TTTTTATATTATATT
1 TTTTTAAATTATATT
863927 T
1 T
863928 ATATAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAAATTATATT
Found at i:867390 original size:20 final size:20
Alignment explanation
Indices: 867365--867404 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
867355 CTAAATGCCA
867365 CCTCTTAAGGTGATTGCATG
1 CCTCTTAAGGTGATTGCATG
867385 CCTCTTAAGGTGATTGCATG
1 CCTCTTAAGGTGATTGCATG
867405 AACGAACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
CCTCTTAAGGTGATTGCATG
Found at i:873824 original size:14 final size:14
Alignment explanation
Indices: 873807--873840 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
873797 TCAAATTATA
*
873807 TATTTAAATATTTT
1 TATTTAAATAATTT
873821 TA-TTAAATAATTT
1 TATTTAAATAATTT
873834 TATTTAA
1 TATTTAA
873841 TTTATTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTAAATAATTT
Found at i:873997 original size:23 final size:23
Alignment explanation
Indices: 873945--874023 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
873935 AATTCATTTG
*
873945 ATTTAATTTTCA-AAATTAAAA-A
1 ATTTAATTTT-ATTAATTAAAATA
* *
873967 ATTCAATTTTATTAATAAAAATA
1 ATTTAATTTTATTAATTAAAATA
* * *
873990 ATTTAATTTAATTAATTTAATTA
1 ATTTAATTTTATTAATTAAAATA
874013 ATTTAATTTTA
1 ATTTAATTTTA
874024 AATAATTCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.02
22 16 0.35
23 29 0.63
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAATTTTATTAATTAAAATA
Found at i:873998 original size:5 final size:5
Alignment explanation
Indices: 873988--874021 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
873978 TTAATAAAAA
873988 TAATT TAATT TAA-T TAATT TAA-T TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT T
874022 TAAATAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:874004 original size:9 final size:9
Alignment explanation
Indices: 873992--874020 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
873982 TAAAAATAAT
873992 TTAATTTAA
1 TTAATTTAA
874001 TTAATTTAA
1 TTAATTTAA
874010 TTAATTTAA
1 TTAATTTAA
874019 TT
1 TT
874021 TTAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTAATTTAA
Found at i:874005 original size:14 final size:15
Alignment explanation
Indices: 873991--874046 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
873981 ATAAAAATAA
873991 TTTAATTTAA-TTAA-
1 TTTAA-TTAATTTAAT
874005 TTTAATTAATTTAAT
1 TTTAATTAATTTAAT
* *
874020 TTTAAATAATTCAAT
1 TTTAATTAATTTAAT
874035 TTTAAATTAATT
1 TTT-AATTAATT
874047 AAATCGATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 4 0.11
14 9 0.25
15 16 0.44
16 7 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATTAATTTAAT
Found at i:875794 original size:17 final size:16
Alignment explanation
Indices: 875755--875785 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
875745 TTTATTTCCA
875755 AAACC-AAAAACAAAT
1 AAACCAAAAAACAAAT
875770 AAACCAAAAAACAAAT
1 AAACCAAAAAACAAAT
875786 TCAAGCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.74, C:0.19, G:0.00, T:0.06
Consensus pattern (16 bp):
AAACCAAAAAACAAAT
Found at i:880036 original size:64 final size:64
Alignment explanation
Indices: 879911--880039 Score: 177
Period size: 64 Copynumber: 2.0 Consensus size: 64
879901 CTATACCAAA
* * **
879911 AATTGAAAACCCTAATTATTCTCATAAAATCCCATCATTTGATCCCAATCAAGGCTGAAATACT
1 AATTGAAAACCCTAATTATTCTCATAAAATCCCATCATTTGATCACAATCAAGCCCAAAATACT
* * * **
879975 AATTGAAAACCCTAATTATTTTCATAAAGTCTCATTGTTTGATCACAATCAAGCCCAAAATACT
1 AATTGAAAACCCTAATTATTCTCATAAAATCCCATCATTTGATCACAATCAAGCCCAAAATACT
880039 A
1 A
880040 CAGCCAATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (64 bp):
AATTGAAAACCCTAATTATTCTCATAAAATCCCATCATTTGATCACAATCAAGCCCAAAATACT
Found at i:880894 original size:108 final size:108
Alignment explanation
Indices: 880707--880915 Score: 391
Period size: 108 Copynumber: 1.9 Consensus size: 108
880697 TCATAGGATG
880707 AATGGTAATATACCAAAATTTTCCAATCAACTAACCAGTTTATCCCACTGCTACAGAAGAGTTCA
1 AATGGTAATATACCAAAATTTTCCAATCAACTAACCAGTTTATCCCACTGCTACAGAAGAGTTCA
*
880772 GCAGTTGCAGGAGAAAAGAATCAGATAAAAATATGTTAGGACC
66 GCAGTTGCAAGAGAAAAGAATCAGATAAAAATATGTTAGGACC
* *
880815 AATGGTAATGTACCAAAATTTTTCAATCAACTAACCAGTTTATCCCACTGCTACAGAAGAGTTCA
1 AATGGTAATATACCAAAATTTTCCAATCAACTAACCAGTTTATCCCACTGCTACAGAAGAGTTCA
880880 GCAGTTGCAAGAGAAAAGAATCAGATAAAAATATGT
66 GCAGTTGCAAGAGAAAAGAATCAGATAAAAATATGT
880916 ATCTTAAATG
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (108 bp):
AATGGTAATATACCAAAATTTTCCAATCAACTAACCAGTTTATCCCACTGCTACAGAAGAGTTCA
GCAGTTGCAAGAGAAAAGAATCAGATAAAAATATGTTAGGACC
Found at i:886558 original size:27 final size:27
Alignment explanation
Indices: 886513--886572 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
886503 ATTTTTTATT
*
886513 AATTTTTTTTCAATTACAATTACAATA
1 AATTTTTTTTCAATCACAATTACAATA
* *
886540 AATTTTTTTTTAATCACAATTATAATA
1 AATTTTTTTTCAATCACAATTACAATA
886567 AATTTT
1 AATTTT
886573 ATTACTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (27 bp):
AATTTTTTTTCAATCACAATTACAATA
Found at i:887274 original size:13 final size:14
Alignment explanation
Indices: 887248--887276 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
887238 TATACTTTTA
887248 TAATTATAATATTT
1 TAATTATAATATTT
887262 TAATTAT-ATATTT
1 TAATTATAATATTT
887275 TA
1 TA
887277 TTCGGGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:889595 original size:23 final size:21
Alignment explanation
Indices: 889551--889595 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
889541 ATAAACTTAA
*
889551 ATTTTAATATTTATTTTTTTT
1 ATTTTAATATTTATTTTCTTT
*
889572 ATTTTTATATTATAATTTTCTTT
1 ATTTTAATATT-T-ATTTTCTTT
889595 A
1 A
889596 AATATATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTAATATTTATTTTCTTT
Found at i:890632 original size:31 final size:32
Alignment explanation
Indices: 890583--890643 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
890573 ATTTTTATAT
*
890583 ATTTTTATATTTAATTTATATATATGTAAATTA
1 ATTTTTATA-TTAATTTATATATATATAAATTA
*
890616 ATTTTTATA-TAATTTATGTATATATAAA
1 ATTTTTATATTAATTTATATATATATAAA
890644 AAAAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 17 0.65
33 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (32 bp):
ATTTTTATATTAATTTATATATATATAAATTA
Found at i:898807 original size:6 final size:6
Alignment explanation
Indices: 898796--898829 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
898786 GCATGACGGA
* *
898796 GATGGC GATGGC GATGGC GATGGT GACGGC GATG
1 GATGGC GATGGC GATGGC GATGGC GATGGC GATG
898830 TGTCGTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.15, G:0.50, T:0.18
Consensus pattern (6 bp):
GATGGC
Found at i:898942 original size:20 final size:20
Alignment explanation
Indices: 898919--898967 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
898909 TCTTTCTTCT
*
898919 TCACTTTCTCTCAGTTTCCC
1 TCACTTTCTCGCAGTTTCCC
* *
898939 TCACTTTCTCGCATTTTCTC
1 TCACTTTCTCGCAGTTTCCC
*
898959 TCGCTTTCT
1 TCACTTTCT
898968 TTTACCTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.08, C:0.37, G:0.06, T:0.49
Consensus pattern (20 bp):
TCACTTTCTCGCAGTTTCCC
Found at i:898966 original size:10 final size:10
Alignment explanation
Indices: 898915--898967 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
898905 TCTTTCTTTC
898915 TTCT-TCACT
1 TTCTCTCACT
*
898924 TTCTCTCAGT
1 TTCTCTCACT
*
898934 TTCCCTCACT
1 TTCTCTCACT
* *
898944 TTCTCGCATT
1 TTCTCTCACT
*
898954 TTCTCTCGCT
1 TTCTCTCACT
898964 TTCT
1 TTCT
898968 TTTACCTTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
9 4 0.12
10 30 0.88
ACGTcount: A:0.08, C:0.36, G:0.06, T:0.51
Consensus pattern (10 bp):
TTCTCTCACT
Found at i:899487 original size:14 final size:17
Alignment explanation
Indices: 899452--899483 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
899442 AAAATATAAT
899452 TTAAATAAAATTTTATA
1 TTAAATAAAATTTTATA
899469 TTAAAT-AAATTTTAT
1 TTAAATAAAATTTTAT
899484 TAAAATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAATAAAATTTTATA
Found at i:899499 original size:27 final size:28
Alignment explanation
Indices: 899443--899507 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
899433 TTGTATTTGA
*
899443 AAATATAATTTAAATAAAATTTTATATT
1 AAATATAATTTAAATAAAATTTCATATT
* *
899471 AAATA-AATTTTATTAAAATTATCAT-TT
1 AAATATAATTTAAATAAAATT-TCATATT
*
899498 AAATTTAATT
1 AAATATAATT
899508 AATGATGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
AAATATAATTTAAATAAAATTTCATATT
Found at i:901011 original size:18 final size:20
Alignment explanation
Indices: 900961--901010 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
900951 ATAATAGTTT
900961 TTTAATTAAAATAATAAAAA
1 TTTAATTAAAATAATAAAAA
900981 TAATT-ATTAAAAT-ATAAAAA
1 T--TTAATTAAAATAATAAAAA
901001 TTTAATTAAA
1 TTTAATTAAA
901011 TTCGTAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.07
19 6 0.22
20 9 0.33
21 8 0.30
22 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAATTAAAATAATAAAAA
Found at i:901107 original size:21 final size:19
Alignment explanation
Indices: 901082--901122 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
901072 CTATTAAAAC
*
901082 TCAAATTTAACTTAATAATTA
1 TCAAA-TTAAATTAA-AATTA
901103 TCAAATTAAATTAAAATTA
1 TCAAATTAAATTAAAATTA
901122 T
1 T
901123 ATCTAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
TCAAATTAAATTAAAATTA
Found at i:905809 original size:28 final size:29
Alignment explanation
Indices: 905777--905831 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
905767 ATCACTTTTC
* *
905777 ATGATTTGATACATATA-AACAAAATTTA
1 ATGATTTGATAAATATAGAAAAAAATTTA
905805 ATGATTTGATAAATATAGAAAAAAATT
1 ATGATTTGATAAATATAGAAAAAAATT
905832 CACTTTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (29 bp):
ATGATTTGATAAATATAGAAAAAAATTTA
Found at i:909597 original size:105 final size:106
Alignment explanation
Indices: 909462--909686 Score: 357
Period size: 105 Copynumber: 2.1 Consensus size: 106
909452 GCATTTACAA
* *
909462 TTATCAAATAATATAATTATATTTAGTATTTAATTTTTAATAACATATAAAATAG-TTTT-TAAT
1 TTATCAAATAATATAATTATATTTAGTATTTAATTTTCAATAACATAGAAAATAGTTTTTGTAAT
*
909525 ACAAATTTAATATTTAATATTTCAACATTTAA-TTTTTAAT
66 ACAAATTTAATATTTAATATTTCAACACTTAATTTTTTAAT
*
909565 TTATCAAATAATATATTATTATATTTAGTATTTAATTTTCAATAACATAGAACATAGTTTTTGTA
1 TTATCAAATAATATA--ATTATATTTAGTATTTAATTTTCAATAACATAGAAAATAGTTTTTGTA
* *
909630 ATACAAATTTAATATTTAATGTTTCAATACTTAATTTTTTAAT
64 ATACAAATTTAATATTTAATATTTCAACACTTAATTTTTTAAT
909673 TTATCAAATAATAT
1 TTATCAAATAATAT
909687 CTTACTTTGG
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
103 15 0.14
105 37 0.33
106 4 0.04
107 33 0.30
108 22 0.20
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (106 bp):
TTATCAAATAATATAATTATATTTAGTATTTAATTTTCAATAACATAGAAAATAGTTTTTGTAAT
ACAAATTTAATATTTAATATTTCAACACTTAATTTTTTAAT
Found at i:916715 original size:21 final size:23
Alignment explanation
Indices: 916691--916733 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
916681 TATGTATAAA
*
916691 TCTATTTAAAT-ATAT-TAAAAT
1 TCTATTAAAATAATATATAAAAT
916712 TCTATTAAAATAATATATAAAA
1 TCTATTAAAATAATATATAAAA
916734 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
TCTATTAAAATAATATATAAAAT
Found at i:917820 original size:46 final size:46
Alignment explanation
Indices: 917753--917843 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
917743 CATGCAGTTC
**
917753 TAGGATCTGAACAAGTATTCATTTGACATCTCAAATCAACTTAACT
1 TAGGATCTGAACAAGTATTCATTCAACATCTCAAATCAACTTAACT
*
917799 TAGGATCTGAACAAGTATTCATTCAACGTCTCAAATCAACTTAAC
1 TAGGATCTGAACAAGTATTCATTCAACATCTCAAATCAACTTAAC
917844 GAAACTCTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (46 bp):
TAGGATCTGAACAAGTATTCATTCAACATCTCAAATCAACTTAACT
Found at i:918105 original size:46 final size:46
Alignment explanation
Indices: 918053--918172 Score: 222
Period size: 46 Copynumber: 2.6 Consensus size: 46
918043 CTGAGGACAG
*
918053 TTCATTCGACATCTCAAATCAACTTAACTTAGGATCTGAACAAGTA
1 TTCATTCGACGTCTCAAATCAACTTAACTTAGGATCTGAACAAGTA
918099 TTCATTCGACGTCTCAAATCAACTTAACTTAGGATCTGAACAAGTA
1 TTCATTCGACGTCTCAAATCAACTTAACTTAGGATCTGAACAAGTA
*
918145 TTCATTCGACGTTTCAAATCAACTTAAC
1 TTCATTCGACGTCTCAAATCAACTTAAC
918173 CAAACTCTTA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (46 bp):
TTCATTCGACGTCTCAAATCAACTTAACTTAGGATCTGAACAAGTA
Found at i:918351 original size:329 final size:329
Alignment explanation
Indices: 917753--918382 Score: 1206
Period size: 329 Copynumber: 1.9 Consensus size: 329
917743 CATGCAGTTC
*
917753 TAGGATCTGAACAAGTATTCATTTGACATCTCAAATCAACTTAACTTAGGATCTGAACAAGTATT
1 TAGGATCTGAACAAGTATTCATTCGACATCTCAAATCAACTTAACTTAGGATCTGAACAAGTATT
*
917818 CATTCAACGTCTCAAATCAACTTAACGAAACTCTTATACTTAAGATCAATTATCAATTTTAATAC
66 CATTCAACGTCTCAAATCAACTTAACCAAACTCTTATACTTAAGATCAATTATCAATTTTAATAC
917883 TCAATATGCAATCCCATATCAGCCTAATTATTATAATTCATTATTCGTTTTGATTTAGATTTTAT
131 TCAATATGCAATCCCATATCAGCCTAATTATTATAATTCATTATTCGTTTTGATTTAGATTTTAT
917948 TCTACGAAAAATATATTACAAAAAAAAAACGGTGTGAACTCTTATATCTCAATATCAACTTTAAT
196 TCTACGAAAAATATATTACAAAAAAAAAACGGTGTGAACTCTTATATCTCAATATCAACTTTAAT
918013 ACTCAACTGATATAGGATTTTTAACTTCACCTGAGGACAGTTCATTCGACATCTCAAATCAACTT
261 ACTCAACTGATATAGGATTTTTAACTTCACCTGAGGACAGTTCATTCGACATCTCAAATCAACTT
918078 AACT
326 AACT
*
918082 TAGGATCTGAACAAGTATTCATTCGACGTCTCAAATCAACTTAACTTAGGATCTGAACAAGTATT
1 TAGGATCTGAACAAGTATTCATTCGACATCTCAAATCAACTTAACTTAGGATCTGAACAAGTATT
* *
918147 CATTCGACGTTTCAAATCAACTTAACCAAACTCTTATACTTAAGATCAATTATCAATTTTAATAC
66 CATTCAACGTCTCAAATCAACTTAACCAAACTCTTATACTTAAGATCAATTATCAATTTTAATAC
918212 TCAATATGCAATCCCATATCAGCCTAATTATTATAATTCATTATTCGTTTTGATTTAGATTTTAT
131 TCAATATGCAATCCCATATCAGCCTAATTATTATAATTCATTATTCGTTTTGATTTAGATTTTAT
918277 TCTACGAAAAATATATTACAAAAAAAAAACGGTGTGAACTCTTATATCTCAATATCAACTTTAAT
196 TCTACGAAAAATATATTACAAAAAAAAAACGGTGTGAACTCTTATATCTCAATATCAACTTTAAT
*
918342 ACTCAACTGATATGGGATTTTTAACTTCACCTGAGGACAGT
261 ACTCAACTGATATAGGATTTTTAACTTCACCTGAGGACAGT
918383 GTGACACTCG
Statistics
Matches: 295, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
329 295 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (329 bp):
TAGGATCTGAACAAGTATTCATTCGACATCTCAAATCAACTTAACTTAGGATCTGAACAAGTATT
CATTCAACGTCTCAAATCAACTTAACCAAACTCTTATACTTAAGATCAATTATCAATTTTAATAC
TCAATATGCAATCCCATATCAGCCTAATTATTATAATTCATTATTCGTTTTGATTTAGATTTTAT
TCTACGAAAAATATATTACAAAAAAAAAACGGTGTGAACTCTTATATCTCAATATCAACTTTAAT
ACTCAACTGATATAGGATTTTTAACTTCACCTGAGGACAGTTCATTCGACATCTCAAATCAACTT
AACT
Found at i:919385 original size:72 final size:72
Alignment explanation
Indices: 919267--919410 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
919257 TAATAGGAGA
*
919267 GTCAATGAGGTATAAAAGTGTTCACACTATCTCTTTCTTATAAGACGACTTCTGTAAGACAAAAC
1 GTCAATGAGGTATAAAAGTGTTCACACCATCTCTTTCTTATAAGACGACTTCTGTAAGACAAAAC
*
919332 TGTGAGG
66 CGTGAGG
* *
919339 GTCAATGAGGTATAAAAGTGTTCACACCATCTCTTTCTTATGAGACGACTTTTGTAAGACAAAAC
1 GTCAATGAGGTATAAAAGTGTTCACACCATCTCTTTCTTATAAGACGACTTCTGTAAGACAAAAC
919404 CGTGAGG
66 CGTGAGG
919411 TCAGAGAATT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (72 bp):
GTCAATGAGGTATAAAAGTGTTCACACCATCTCTTTCTTATAAGACGACTTCTGTAAGACAAAAC
CGTGAGG
Found at i:923818 original size:26 final size:25
Alignment explanation
Indices: 923789--923854 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 25
923779 TAACTTGATA
923789 TATATAATTTTTATTATTTATTTAAT
1 TATAT-ATTTTTATTATTTATTTAAT
*
923815 TATATATATTTATATATTTATTTAAT
1 TATATATTTTTAT-TATTTATTTAAT
* *
923841 TTTATATTTATATT
1 TATATATTTTTATT
923855 TAAAAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.23
26 27 0.77
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TATATATTTTTATTATTTATTTAAT
Found at i:923828 original size:8 final size:8
Alignment explanation
Indices: 923798--923853 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
923788 ATATATAATT
923798 TTTAT-TA
1 TTTATATA
*
923805 TTTATTTAA
1 TTTATAT-A
923814 TTATATATA
1 TT-TATATA
923823 TTTATATA
1 TTTATATA
*
923831 TTTATTTAA
1 TTTATAT-A
923840 TTT-TATA
1 TTTATATA
923847 TTTATAT
1 TTTATAT
923854 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
7 9 0.22
8 18 0.44
9 10 0.24
10 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTATATA
Found at i:923835 original size:18 final size:18
Alignment explanation
Indices: 923789--923853 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
923779 TAACTTGATA
*
923789 TATATAATTTTTAT-TATT
1 TATAT-ATTTATATATATT
* *
923807 TATTTAATTATATATATT
1 TATATATTTATATATATT
*
923825 TATATATTTATTTA-ATT
1 TATATATTTATATATATT
923842 T-TATATTTATAT
1 TATATATTTATAT
923854 TTAAAAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 10 0.26
17 10 0.26
18 19 0.49
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATATTTATATATATT
Found at i:923854 original size:18 final size:18
Alignment explanation
Indices: 923823--923857 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
923813 ATTATATATA
923823 TTTATATATTTATTTAAT
1 TTTATATATTTATTTAAT
923841 TTTATAT-TTATATTTAA
1 TTTATATATT-TATTTAA
923858 AAAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATATATTTATTTAAT
Found at i:923884 original size:18 final size:19
Alignment explanation
Indices: 923843--923890 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
923833 TATTTAATTT
923843 TATA-TTTATATTTAAAAAA
1 TATATTTTATATTT-AAAAA
*
923862 AATATTTTATATTT-AAAA
1 TATATTTTATATTTAAAAA
923880 TATATTTTATA
1 TATATTTTATA
923891 AACTTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 14 0.54
19 3 0.12
20 9 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TATATTTTATATTTAAAAA
Found at i:925192 original size:31 final size:30
Alignment explanation
Indices: 925127--925195 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
925117 GTTGAATTTG
*
925127 ATATTAAAAATTAATATAATTATGTAATAT
1 ATATTAAAAATTAATATAATTATGTAATAC
*
925157 ATATTAAAATTTAA-ATATATATAT-TAAATAC
1 ATATTAAAAATTAATATA-AT-TATGT-AATAC
925188 ATATTAAA
1 ATATTAAA
925196 TAGGTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 16 0.47
31 15 0.44
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (30 bp):
ATATTAAAAATTAATATAATTATGTAATAC
Found at i:925397 original size:29 final size:29
Alignment explanation
Indices: 925308--925404 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
925298 ATTATGTTAG
* * *
925308 TCATATTT-TTTTTATATATTTATATTAA
1 TCATATTTATTTATATATATTCATATTAT
* * *
925336 TCGTATTTATTTGTATATA-TC-TATGTTT
1 TCATATTTATTTATATATATTCATAT-TAT
*
925364 GTCATATCTATTTATATATATTCATATTAT
1 -TCATATTTATTTATATATATTCATATTAT
925394 TCATATTTATT
1 TCATATTTATT
925405 GGTGTCTTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.06
28 9 0.17
29 35 0.65
30 4 0.07
31 3 0.06
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (29 bp):
TCATATTTATTTATATATATTCATATTAT
Found at i:925544 original size:12 final size:12
Alignment explanation
Indices: 925524--925566 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
925514 TTTATATAAT
*
925524 TATATATATCAAA
1 TATA-ATATAAAA
925537 TATAATATAAAA
1 TATAATATAAAA
*
925549 TATGATATAAAAA
1 TATAATAT-AAAA
925562 TATAA
1 TATAA
925567 ATTATCAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:925964 original size:39 final size:39
Alignment explanation
Indices: 925882--925966 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
925872 AAATAACATA
* * * *
925882 AATATAATATAATTTAAAATTTTAATAATTATATATATG
1 AATATAATAAAATTAAAAATTTTAATAATAAAATATATG
*
925921 AATATAATAAAATTAAAAATTTATATTAATAAAA-ATTAT-
1 AATATAATAAAATTAAAAATTT-TAATAATAAAATA-TATG
925960 AATATAA
1 AATATAA
925967 AATTTTTACA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
39 28 0.72
40 11 0.28
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (39 bp):
AATATAATAAAATTAAAAATTTTAATAATAAAATATATG
Found at i:925968 original size:13 final size:13
Alignment explanation
Indices: 925947--925992 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
925937 AAATTTATAT
925947 TAATA-AAAATTA
1 TAATATAAAATTA
*
925959 TAATATAAAATTT
1 TAATATAAAATTA
* *
925972 TTACATAAAA-TA
1 TAATATAAAATTA
925984 TAATATAAA
1 TAATATAAA
925993 TACACAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
12 13 0.48
13 14 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATATAAAATTA
Found at i:927510 original size:27 final size:28
Alignment explanation
Indices: 927458--927511 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
927448 TGTTCATAAT
*
927458 TTGATTTTAATCGAATTAACTGATTGAA
1 TTGATTTTAATCGAATTAACTAATTGAA
*
927486 TTGATTTTATTCG-ATTAA-TCAATTGA
1 TTGATTTTAATCGAATTAACT-AATTGA
927512 TCATTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.04
27 10 0.43
28 12 0.52
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (28 bp):
TTGATTTTAATCGAATTAACTAATTGAA
Found at i:928642 original size:29 final size:28
Alignment explanation
Indices: 928605--928688 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
928595 TCCAATCGAT
*
928605 AATTTAATTAAATAAAAATAAAATATAAA
1 AATTTAATT-AATTAAAATAAAATATAAA
* * * *
928634 AATTCAATTGATTTAAAATAAAAATTTTAA
1 AATTTAATT-AATTAAAAT-AAAATATAAA
*
928664 AATTTAATTAATTATAATAAAATAT
1 AATTTAATTAATTAAAATAAAATAT
928689 CATATTTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
28 6 0.14
29 22 0.50
30 16 0.36
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (28 bp):
AATTTAATTAATTAAAATAAAATATAAA
Found at i:928658 original size:30 final size:29
Alignment explanation
Indices: 928605--928685 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 29
928595 TCCAATCGAT
* *
928605 AATTTAATTAAATAAAA-ATAAAATATAAA
1 AATTCAATTAATTAAAATA-AAAATATAAA
* * *
928634 AATTCAATTGATTTAAAATAAAAATTTTAA
1 AATTCAATT-AATTAAAATAAAAATATAAA
* *
928664 AATTTAATTAATTATAATAAAA
1 AATTCAATTAATTAAAATAAAA
928686 TATCATATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 19 0.45
30 22 0.52
31 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (29 bp):
AATTCAATTAATTAAAATAAAAATATAAA
Found at i:934018 original size:32 final size:31
Alignment explanation
Indices: 933977--934053 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 31
933967 GAATTGAATT
*
933977 ATATATATATTAATTT-TTATAAA-ATAAAATAA
1 ATATTTATATTAATTTATT-TAAATAT-AAA-AA
934009 ATATTTATATTTAAATTTATTTAAATATAAAAA
1 ATATTTATA-TT-AATTTATTTAAATATAAAAA
934042 A-ATTTATATTAA
1 ATATTTATATTAA
934054 AATAATATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 2 0.05
31 2 0.05
32 15 0.38
33 5 0.12
34 12 0.30
35 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATATTTATATTAATTTATTTAAATATAAAAA
Found at i:934018 original size:34 final size:34
Alignment explanation
Indices: 933980--934056 Score: 83
Period size: 34 Copynumber: 2.3 Consensus size: 34
933970 TTGAATTATA
933980 TATATATT-AATTT-TTATAAA-ATAAAATAAATATT
1 TATAT-TTAAATTTATT-TAAATATAAAA-AAATATT
934014 TATATTTAAATTTATTTAAATAT-AAAAAA-ATT
1 TATATTTAAATTTATTTAAATATAAAAAAATATT
*
934046 TATATTAAAAT
1 TATATTTAAAT
934057 AATATATAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
32 13 0.33
33 5 0.13
34 17 0.44
35 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
TATATTTAAATTTATTTAAATATAAAAAAATATT
Found at i:934044 original size:20 final size:20
Alignment explanation
Indices: 934021--934058 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
934011 ATTTATATTT
934021 AAATTTAT-TTAAATATAAAA
1 AAATTTATATTAAA-ATAAAA
934041 AAATTTATATTAAAATAA
1 AAATTTATATTAAAATAA
934059 TATATAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTTATATTAAAATAAAA
Found at i:953982 original size:29 final size:29
Alignment explanation
Indices: 953948--954005 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
953938 ATTGTAAGAA
953948 ATAGATTAGAAAAGACTTATATTTTATAC
1 ATAGATTAGAAAAGACTTATATTTTATAC
* *
953977 ATAGATTAGAGAAGATTTATATTTTATAC
1 ATAGATTAGAAAAGACTTATATTTTATAC
954006 GTACACTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (29 bp):
ATAGATTAGAAAAGACTTATATTTTATAC
Found at i:959193 original size:16 final size:18
Alignment explanation
Indices: 959172--959204 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
959162 TAAATGAAAA
959172 TAATT-ATT-TAATAATT
1 TAATTAATTATAATAATT
959188 TAATTAATTATAATAAT
1 TAATTAATTATAATAAT
959205 ATGATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAATTATAATAATT
Found at i:959873 original size:18 final size:20
Alignment explanation
Indices: 959841--959878 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
959831 AAAATTATAA
*
959841 TATTTGATTCGATTT-GATT
1 TATTTGATTCAATTTAGATT
959860 TATTT-ATTCAATTTAGATT
1 TATTTGATTCAATTTAGATT
959879 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (20 bp):
TATTTGATTCAATTTAGATT
Found at i:962175 original size:20 final size:19
Alignment explanation
Indices: 962150--962193 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
962140 TCGAATCAAG
*
962150 TTATATATTTTTATTAATTT
1 TTATATATTTTT-TAAATTT
962170 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
962189 TTATA
1 TTATA
962194 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:962197 original size:11 final size:10
Alignment explanation
Indices: 962150--962195 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
962140 TCGAATCAAG
*
962150 TTATATATTT
1 TTATAAATTT
*
962160 TTATTAATTT
1 TTATAAATTT
*
962170 TTATATATTT
1 TTATAAATTT
962180 TT-TAAATTT
1 TTATAAATTT
962189 TTATAAA
1 TTATAAA
962196 ATAAAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATAAATTT
Found at i:967266 original size:34 final size:33
Alignment explanation
Indices: 967227--967306 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 33
967217 TTTTTTAACA
*
967227 TACTTACTCATTAATAAAGT-ATCATTATTTGAT
1 TACTTACTCATTAATAAAGTGAT-ATTATTCGAT
*
967260 TCACTTA---ATTAATGAAGTGATATTATTCGAT
1 T-ACTTACTCATTAATAAAGTGATATTATTCGAT
*
967291 TAATTGACTCATTAAT
1 TACTT-ACTCATTAAT
967307 GAATAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
30 3 0.08
31 21 0.55
32 2 0.05
33 1 0.03
34 11 0.29
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (33 bp):
TACTTACTCATTAATAAAGTGATATTATTCGAT
Found at i:968677 original size:13 final size:13
Alignment explanation
Indices: 968659--968685 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
968649 ATATTAAAAT
968659 TTATATATTTATA
1 TTATATATTTATA
968672 TTATATATTTATA
1 TTATATATTTATA
968685 T
1 T
968686 AAAAATTACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATATTTATA
Found at i:973330 original size:2 final size:2
Alignment explanation
Indices: 973323--973354 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
973313 AAGGCGCACG
973323 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
973355 ATATCATCAG
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:976945 original size:17 final size:17
Alignment explanation
Indices: 976923--976960 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
976913 GGTTGGCCAC
976923 TTGGTTGGATG-ATTTTG
1 TTGGTTGG-TGAATTTTG
976940 TTGGTTGGTGAAATTTTG
1 TTGGTTGGTG-AATTTTG
976958 TTG
1 TTG
976961 CTTTGTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 8 0.42
18 9 0.47
ACGTcount: A:0.13, C:0.00, G:0.34, T:0.53
Consensus pattern (17 bp):
TTGGTTGGTGAATTTTG
Found at i:983494 original size:22 final size:21
Alignment explanation
Indices: 983468--983520 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
983458 AAATTTTTAA
*
983468 AATTTAATTTGAATTTGAATTG
1 AATTTAATTTG-ATATGAATTG
* *
983490 AATTTTTATATGATATGAATTG
1 AA-TTTAATTTGATATGAATTG
983512 AATTTAATT
1 AATTTAATT
983521 AAATTTTATC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 5 0.20
22 13 0.52
23 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (21 bp):
AATTTAATTTGATATGAATTG
Found at i:983557 original size:21 final size:21
Alignment explanation
Indices: 983531--983571 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
983521 AAATTTTATC
*
983531 AATTTTTGGTTTTTAAAATTA
1 AATTTTTGATTTTTAAAATTA
*
983552 AATTTTTTATTTTTAAAATT
1 AATTTTTGATTTTTAAAATT
983572 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
AATTTTTGATTTTTAAAATTA
Found at i:983581 original size:14 final size:15
Alignment explanation
Indices: 983549--983579 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
983539 GTTTTTAAAA
*
983549 TTAAATTTTTTATTT
1 TTAAAATTTTTATTT
983564 TTAAAATTTTTATTT
1 TTAAAATTTTTATTT
983579 T
1 T
983580 AATATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTAAAATTTTTATTT
Found at i:983672 original size:18 final size:19
Alignment explanation
Indices: 983635--983676 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
983625 ATTTTTATTT
*
983635 TATAAAAATTTATAAAAAA
1 TATAAAAATTAATAAAAAA
*
983654 TATATAAATTAAT-AAAAA
1 TATAAAAATTAATAAAAAA
983672 TATAA
1 TATAA
983677 TTCTTTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATTAATAAAAAA
Found at i:986925 original size:13 final size:13
Alignment explanation
Indices: 986907--986931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
986897 AAATAAATTA
986907 AATAAAATTATTG
1 AATAAAATTATTG
986920 AATAAAATTATT
1 AATAAAATTATT
986932 CAAACACCAT
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAAAATTATTG
Found at i:987162 original size:19 final size:18
Alignment explanation
Indices: 987138--987173 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
987128 CCGACTAATT
987138 AATCGAATTAAATCGATTC
1 AATCGAA-TAAATCGATTC
*
987157 AATCGAATAATTCGATT
1 AATCGAATAAATCGATT
987174 AAAATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (18 bp):
AATCGAATAAATCGATTC
Found at i:995045 original size:19 final size:19
Alignment explanation
Indices: 995021--995059 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
995011 AGATCGTTGA
995021 AAATT-AAATTTTAATTATT
1 AAATTAAAATTTTAA-TATT
995040 AAATTAAAATTTTAATATT
1 AAATTAAAATTTTAATATT
995059 A
1 A
995060 TATCAACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTAAAATTTTAATATT
Found at i:995437 original size:19 final size:19
Alignment explanation
Indices: 995413--995454 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
995403 CACTATATTG
995413 TATAAAATTTTCAAACATA
1 TATAAAATTTTCAAACATA
995432 TATAAAATTTTCAAACATA
1 TATAAAATTTTCAAACATA
995451 -ATAA
1 TATAA
995455 TTGAGGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (19 bp):
TATAAAATTTTCAAACATA
Found at i:997116 original size:187 final size:190
Alignment explanation
Indices: 996793--997345 Score: 828
Period size: 187 Copynumber: 2.9 Consensus size: 190
996783 GTTAACAACG
* * ** *
996793 CAGCTGCCATGTTTTCTGGTCTGAAGTTTACATTCTGTTAGGCGTAATTCACTCAACCTACTCTT
1 CAGCTGCCATGTTTTCTGGTCTAAAGTTTACATTCTGATAGGCGTAATTCACTCATGCTGCTC-T
* * *
996858 TTTTTGCAACTTGCAAAGAGATGGTTCTGAGCTTTATATGCATTCTAGATATAATGGAACTCCCA
65 TTTTCGCAACTTGCAAAGGGATGGTTCTGAGCTTTATATGCATTCTTGATATAATGGAACTCCCA
*
996923 TAAGGTTGCTCTTTAGATGAGGATGAGTGCCAAATATTACTTGTGGCACCAAGCTGTTA-T
130 TAAGGTTGCTCTTGAGATGAGGATGAGTGCCAAATATTACTTGTGGCACCAAGCTGTTAGT
* * *
996983 CAGCTGCCATGTGTTCTGGTCTAAAGTTTACATTTTGATA-G-GTAATTCGCTCATGCTGCTCTT
1 CAGCTGCCATGTTTTCTGGTCTAAAGTTTACATTCTGATAGGCGTAATTCACTCATGCTGCTCTT
* * *
997046 TTTCGCAACTTGCAAAGGGATGGTTCTGAGCTTTATATGCATTCTTGATATAATAGAACACCCTT
66 TTTCGCAACTTGCAAAGGGATGGTTCTGAGCTTTATATGCATTCTTGATATAATGGAACTCCCAT
* *
997111 AAGGTTGCTCTTGAGATGAGGATGCGTGCCAAGTATTACTTGTGGCACCAAGCTGTTAGT
131 AAGGTTGCTCTTGAGATGAGGATGAGTGCCAAATATTACTTGTGGCACCAAGCTGTTAGT
* * * * **
997171 -AGCTGCCATGTTTTCTGG-CCAGAAGTTTACAATCTAATAGGTGTAATTCACTTGTGCTGCTCT
1 CAGCTGCCATGTTTTCTGGTCTA-AAGTTTACATTCTGATAGGCGTAATTCACTCATGCTGCTCT
* *
997234 TTTTCGCAACTTTCAAAGGGATGGTTCCGAGCTTTATATGCATTCTTGATATAATGGAACTCCCA
65 TTTTCGCAACTTGCAAAGGGATGGTTCTGAGCTTTATATGCATTCTTGATATAATGGAACTCCCA
997299 TAAGGTTGCTCTTGAGATGAGGATGAGTGCCAAATATTACTTGTGGC
130 TAAGGTTGCTCTTGAGATGAGGATGAGTGCCAAATATTACTTGTGGC
997346 CACATGTTTG
Statistics
Matches: 327, Mismatches: 32, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
186 2 0.01
187 147 0.45
188 18 0.06
189 124 0.38
190 36 0.11
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (190 bp):
CAGCTGCCATGTTTTCTGGTCTAAAGTTTACATTCTGATAGGCGTAATTCACTCATGCTGCTCTT
TTTCGCAACTTGCAAAGGGATGGTTCTGAGCTTTATATGCATTCTTGATATAATGGAACTCCCAT
AAGGTTGCTCTTGAGATGAGGATGAGTGCCAAATATTACTTGTGGCACCAAGCTGTTAGT
Found at i:1001857 original size:22 final size:23
Alignment explanation
Indices: 1001826--1001868 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1001816 AATTTTATTC
*
1001826 AATTCATTT-AATTTTATAAATA
1 AATTCATTTAAAATTTATAAATA
*
1001848 AATTCGTTTAAAATTTATAAA
1 AATTCATTTAAAATTTATAAA
1001869 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
AATTCATTTAAAATTTATAAATA
Found at i:1001995 original size:15 final size:15
Alignment explanation
Indices: 1001975--1002022 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
1001965 GTTCTTTTAT
1001975 ATTTGTTTAAGATTA
1 ATTTGTTTAAGATTA
*
1001990 ATTTGTTTAA-ATTG
1 ATTTGTTTAAGATTA
* * *
1002004 ATTTGATTATGATTT
1 ATTTGTTTAAGATTA
1002019 ATTT
1 ATTT
1002023 ATTGCTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (15 bp):
ATTTGTTTAAGATTA
Found at i:1002061 original size:28 final size:27
Alignment explanation
Indices: 1002015--1002079 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
1002005 TTTGATTATG
*
1002015 ATTTATTTATTGCTCATAAATATATTT
1 ATTTATATATTGCTCATAAATATATTT
* *
1002042 ATTTATATATATGTTCATAAATATGTTT
1 ATTTATATAT-TGCTCATAAATATATTT
1002070 ATTTA-ATATT
1 ATTTATATATT
1002080 TATAAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 13 0.38
28 20 0.59
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTATATATTGCTCATAAATATATTT
Found at i:1006442 original size:21 final size:24
Alignment explanation
Indices: 1006395--1006442 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
1006385 TAATAATTTT
* *
1006395 ATTATATAATATATATAAATATAC
1 ATTAAATAATATATATAAAAATAC
1006419 ATTAAATAA-ATA-ATAAAAAT-C
1 ATTAAATAATATATATAAAAATAC
1006440 ATT
1 ATT
1006443 TTTTATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 4 0.18
22 7 0.32
23 3 0.14
24 8 0.36
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTAAATAATATATATAAAAATAC
Found at i:1012721 original size:6 final size:6
Alignment explanation
Indices: 1012712--1012741 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1012702 TAGCATTGTT
*
1012712 TTGCTG TTGCTG CTGCTG TTGCTG TTGCTG
1 TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG
1012742 ATGATGGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.20, G:0.33, T:0.47
Consensus pattern (6 bp):
TTGCTG
Done.