Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 76 of 77
Found at i:15476115 original size:32 final size:33
Alignment explanation
Indices: 15476055--15476146 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 33
15476045 ACTAAAATAA
* **
15476055 TTAAAAAACTATATATATATA-TATATATATTTT
1 TTAAAAAA-TATATATTTATATTATATATAAATT
*
15476088 TTAAAAAATTTATATTTATATTA-ATATAAATT
1 TTAAAAAATATATATTTATATTATATATAAATT
* *
15476120 TTAATATAATATA-ATTTATATTTTATA
1 TTAA-AAAATATATATTTATATTATATA
15476147 CGTATTAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
32 30 0.61
33 19 0.39
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (33 bp):
TTAAAAAATATATATTTATATTATATATAAATT
Found at i:15476118 original size:22 final size:21
Alignment explanation
Indices: 15476064--15476146 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 21
15476054 ATTAAAAAAC
* *
15476064 TATATATATATATATATATATT
1 TATATA-ATATAAATTTATATT
*
15476086 T-TTTAA-A-AAATTTATATT
1 TATATAATATAAATTTATATT
15476104 TATATTAATATAAATTT-TA--
1 TATA-TAATATAAATTTATATT
15476123 -ATATAATAT-AATTTATATT
1 TATATAATATAAATTTATATT
15476142 T-TATA
1 TATATA
15476147 CGTATTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 19
0.68 0.06 0.26
Matches are distributed among these distances:
16 5 0.10
17 8 0.16
18 13 0.27
19 6 0.12
20 4 0.08
21 6 0.12
22 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATAATATAAATTTATATT
Found at i:15476187 original size:31 final size:29
Alignment explanation
Indices: 15476152--15476229 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
15476142 TTATACGTAT
*
15476152 TAATATGTTTAAATATATTATATGATATAAA
1 TAATAT-TTT-AATATATTATATCATATAAA
* * *
15476183 TAATACATTTAATTTAATTTTATCATATAAA
1 TAATA-TTTTAATAT-ATTATATCATATAAA
15476214 T-ATATTTTAATATATT
1 TAATATTTTAATATATT
15476230 TAACGCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
28 3 0.08
29 7 0.18
30 7 0.18
31 22 0.56
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (29 bp):
TAATATTTTAATATATTATATCATATAAA
Found at i:15476389 original size:23 final size:21
Alignment explanation
Indices: 15476361--15476414 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
15476351 TAAACATTTA
15476361 ATTATAATATTTATTTAATTATT
1 ATTATAATATTTATTT-ATTA-T
* *
15476384 ATTATAA-AATTATTTTTTAT
1 ATTATAATATTTATTTATTAT
15476404 ATTAATAATAT
1 ATT-ATAATAT
15476415 AAATACAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 4 0.15
21 7 0.27
22 8 0.31
23 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATAATATTTATTTATTAT
Found at i:15476397 original size:26 final size:26
Alignment explanation
Indices: 15476368--15476417 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
15476358 TTAATTATAA
* *
15476368 TATTTATTTA-ATTATTATTATAAAAT
1 TATTT-TTTATATTAATAATATAAAAT
15476394 TATTTTTTATATTAATAATATAAA
1 TATTTTTTATATTAATAATATAAA
15476418 TACAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTTTTTATATTAATAATATAAAAT
Found at i:15480723 original size:30 final size:29
Alignment explanation
Indices: 15480668--15480730 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
15480658 CAAGTAAGGC
**
15480668 TTTATATTTTTATTATATTTGAATAAATT
1 TTTATATTTTTATTATATTCAAATAAATT
15480697 TTTAT-TTTTTAATCTATATTCAAATAAATT
1 TTTATATTTTT-AT-TATATTCAAATAAATT
15480727 TTTA
1 TTTA
15480731 CTTTAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 5 0.17
29 7 0.23
30 18 0.60
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTATATTTTTATTATATTCAAATAAATT
Found at i:15483502 original size:2 final size:2
Alignment explanation
Indices: 15483495--15483544 Score: 73
Period size: 2 Copynumber: 24.5 Consensus size: 2
15483485 CTTAATTTGA
* *
15483495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT CAT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
15483538 AT AT AT A
1 AT AT AT A
15483545 AATGTACGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15483782 original size:165 final size:165
Alignment explanation
Indices: 15483582--15483888 Score: 488
Period size: 165 Copynumber: 1.9 Consensus size: 165
15483572 ATGATCGATT
** ** * * *
15483582 TAAATATTTTTATGAATTTTTAAATTAACAAATTTATTTTTAATTATGTAACTTTTATTTATTAA
1 TAAATATCCTTATGAATTTTTAAATTAACAAATTTATCCTTAAATATATAACTTTTATTAATTAA
* * * *
15483647 TTTCAGTTTAATTTAAATTAACTAAAATTAAAATTAGAGTTTATATGAAATTAAATTTTTTAAAA
66 TTTAAGTTTAATTTAAATCAACTAAAATTAAAAATAGAGTTTATATGAAATTAAATTTCTTAAAA
15483712 TTTTAAAATTTTCACTCACTCCAAATGTATTGACC
131 TTTTAAAATTTTCACTCACTCCAAATGTATTGACC
* *
15483747 TAAATATCCTTATGAATTTTTATATTAATAAATTTATCCTTAAATATATAACTTTTATTAATTAA
1 TAAATATCCTTATGAATTTTTAAATTAACAAATTTATCCTTAAATATATAACTTTTATTAATTAA
*
15483812 TTTAAGTTTAATTTAAATCAATTAAAATTAAAAATAGAGTTTATATGAAATTAAATTTCTTAAAA
66 TTTAAGTTTAATTTAAATCAACTAAAATTAAAAATAGAGTTTATATGAAATTAAATTTCTTAAAA
15483877 TTTTAAAATTTT
131 TTTTAAAATTTT
15483889 AATTGAAAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
165 128 1.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (165 bp):
TAAATATCCTTATGAATTTTTAAATTAACAAATTTATCCTTAAATATATAACTTTTATTAATTAA
TTTAAGTTTAATTTAAATCAACTAAAATTAAAAATAGAGTTTATATGAAATTAAATTTCTTAAAA
TTTTAAAATTTTCACTCACTCCAAATGTATTGACC
Found at i:15483990 original size:18 final size:18
Alignment explanation
Indices: 15483967--15484002 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15483957 ATGAATTTTC
*
15483967 TTTTTTTATTATTAGACT
1 TTTTTTTATAATTAGACT
15483985 TTTTTTTATAATTAGACT
1 TTTTTTTATAATTAGACT
15484003 AATAAAGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTTTTATAATTAGACT
Found at i:15485171 original size:16 final size:15
Alignment explanation
Indices: 15485132--15485186 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15485122 TTTTAAGCTT
* *
15485132 TAAAATTATATATATT
1 TAAAATTTTATATA-A
*
15485148 TAATATTTTATATAA
1 TAAAATTTTATATAA
* *
15485163 TAAAAATTTGTATAA
1 TAAAATTTTATATAA
15485178 TAAAATTTT
1 TAAAATTTT
15485187 TTAAGTAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 20 0.62
16 12 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TAAAATTTTATATAA
Found at i:15487495 original size:22 final size:22
Alignment explanation
Indices: 15487378--15487553 Score: 107
Period size: 22 Copynumber: 8.2 Consensus size: 22
15487368 AGATTGCACA
*
15487378 AAATAA-TGATAACATAATAGT
1 AAATAATTGATAACTTAATAGT
* * * *
15487399 AAATAATTAATAAATTAGTAATT
1 AAATAATTGATAACTTAAT-AGT
*
15487422 AAA-AATTGAAAACTTAA-ATGT
1 AAATAATTGATAACTTAATA-GT
* * *
15487443 -AAT--TGGTATAATTTAGTAGT
1 AAATAATTG-ATAACTTAATAGT
* *
15487463 -AATTATCGATAACTTAATAGT
1 AAATAATTGATAACTTAATAGT
15487484 AAATTAA-TGATAACTTAATAGT
1 AAA-TAATTGATAACTTAATAGT
* *
15487506 AAATAATTGATAATTTAGTAGT
1 AAATAATTGATAACTTAATAGT
* * **
15487528 TAATAATTGATAGCTTTTTAGT
1 AAATAATTGATAACTTAATAGT
15487550 AAAT
1 AAAT
15487554 TAGTAAAATA
Statistics
Matches: 117, Mismatches: 27, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
19 2 0.02
20 14 0.12
21 22 0.19
22 72 0.62
23 7 0.06
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (22 bp):
AAATAATTGATAACTTAATAGT
Found at i:15487568 original size:65 final size:65
Alignment explanation
Indices: 15487450--15487574 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 65
15487440 TGTAATTGGT
* * *
15487450 ATAATTTAGTAGTAATTATCGATAACTTAATAGTAAATTAATGATAACTTAATAGTAAATAATTG
1 ATAATTTAGTAGTAATAATCGATAACTTAATAGTAAATTAATGATAAATTAATAATAAATAATTG
* * ** *
15487515 ATAATTTAGTAGTTAATAATTGATAGCTTTTTAGTAAATTAGT-A-AAATATAATAATAAAT
1 ATAATTTAGTAG-TAATAATCGATAACTTAATAGTAAATTAATGATAAAT-TAATAATAAAT
15487575 GCATAATACT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
64 3 0.06
65 23 0.46
66 24 0.48
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.40
Consensus pattern (65 bp):
ATAATTTAGTAGTAATAATCGATAACTTAATAGTAAATTAATGATAAATTAATAATAAATAATTG
Found at i:15487796 original size:20 final size:20
Alignment explanation
Indices: 15487764--15487802 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15487754 TTTATAGTAG
15487764 TAAATAATAAATAATTTAAA
1 TAAATAATAAATAATTTAAA
15487784 TAAATCAAT-AATAATTTAA
1 TAAAT-AATAAATAATTTAA
15487803 TAGTACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATAATAAATAATTTAAA
Found at i:15487981 original size:11 final size:11
Alignment explanation
Indices: 15487967--15487996 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15487957 GTGAATTATA
15487967 GATAATTTAGT
1 GATAATTTAGT
*
15487978 GATAAATTAGT
1 GATAATTTAGT
15487989 GATAATTT
1 GATAATTT
15487997 TATAGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (11 bp):
GATAATTTAGT
Found at i:15488083 original size:22 final size:22
Alignment explanation
Indices: 15487450--15488363 Score: 123
Period size: 22 Copynumber: 42.0 Consensus size: 22
15487440 TGTAATTGGT
* * *
15487450 ATAATTTAGTAGT-AATTATCG
1 ATAATTTAATAGTAAATCATTG
* * *
15487471 ATAACTTAATAGTAAATTAATG
1 ATAATTTAATAGTAAATCATTG
* *
15487493 ATAACTTAATAGTAAATAATTG
1 ATAATTTAATAGTAAATCATTG
* * *
15487515 ATAATTTAGTAGTTAATAATTG
1 ATAATTTAATAGTAAATCATTG
* * * *
15487537 ATAGCTTT-TTAGTAAATTAGT-
1 ATA-ATTTAATAGTAAATCATTG
* * * *
15487558 AAAATATAATAATAAATGCA-TA
1 ATAATTTAATAGTAAAT-CATTG
* *
15487580 ATACTTTAATAGTAAAGCAATT-
1 ATAATTTAATAGTAAATC-ATTG
* * * *
15487602 ATAATATAGTTGTAAATGCA-TA
1 ATAATTTAATAGTAAAT-CATTG
* * * **
15487624 ACAATATAATACTAAATCAAAG
1 ATAATTTAATAGTAAATCATTG
* * ** * *
15487646 ATAACTTAACAAAAAATAAGTG
1 ATAATTTAATAGTAAATCATTG
* * * *
15487668 ATAACTTAGTCA-TTAATTATTG
1 ATAATTTAAT-AGTAAATCATTG
* * * *
15487690 ATAACTTAGTAATAAA-CAATG
1 ATAATTTAATAGTAAATCATTG
* * * *
15487711 AAAACTTAATAGTAAATTAGTG
1 ATAATTTAATAGTAAATCATTG
* * *
15487733 ACAATTTATTTGTAAATC----
1 ATAATTTAATAGTAAATCATTG
* **
15487751 A-AATTTATAGTAGTAAATAATAA
1 ATAATTTA-A-TAGTAAATCATTG
* *
15487774 ATAATTTAA-A-TAAATCAATA
1 ATAATTTAATAGTAAATCATTG
* *
15487794 ATAATTTAATAGTACATAATTG
1 ATAATTTAATAGTAAATCATTG
* * * * *
15487816 ATAATTTAGTAGTTAGT-AATA
1 ATAATTTAATAGTAAATCATTG
* * *
15487837 AAAATTTAAAAGTAAATCAAT-
1 ATAATTTAATAGTAAATCATTG
** * *
15487858 ATAATTTGGTTA-CAAATCATCG
1 ATAATTT-AATAGTAAATCATTG
* * * *
15487880 ATAATTTAATAATTAATAAGTG
1 ATAATTTAATAGTAAATCATTG
*
15487902 ATAATTGAATAGTAAATCA-TG
1 ATAATTTAATAGTAAATCATTG
* ***
15487923 TATAATTTAATA-TAAATTAAAA
1 -ATAATTTAATAGTAAATCATTG
* ** * * *
15487945 ATAAAATTGTTAGTGAATTATAG
1 AT-AATTTAATAGTAAATCATTG
* * *
15487968 ATAATTTAGT-GATAAATTAGTG
1 ATAATTTAATAG-TAAATCATTG
* * *
15487990 ATAATTTTATAGTAAATAACTG
1 ATAATTTAATAGTAAATCATTG
* *
15488012 A-AAATTAAGTAGTAAATCAATG
1 ATAATTTAA-TAGTAAATCATTG
** *
15488034 ATAACATATTAGTAAAT-A-T-
1 ATAATTTAATAGTAAATCATTG
*
15488053 ATAA--AAATAGTAAATCATTG
1 ATAATTTAATAGTAAATCATTG
*
15488073 ATAATTTAATAGT-AA--ATTA
1 ATAATTTAATAGTAAATCATTG
*** * * *
15488092 ATAGCCTAGTAGTAAATCAATA
1 ATAATTTAATAGTAAATCATTG
* * * * *
15488114 ATAATGTAATAATAAATTACTA
1 ATAATTTAATAGTAAATCATTG
* * *
15488136 ATAACTTATTA-TAAATCAGTG
1 ATAATTTAATAGTAAATCATTG
* * * * *
15488157 ATATTTTAATAATTAATTAGTTA
1 ATAATTTAATAGTAAATCA-TTG
* *
15488180 ATCATTGTTAACTTTTTAGTAAATCATCG
1 AT-AAT-TTAA-----TAGTAAATCATTG
** * *
15488209 ATAAACTAGTAGTAAATTAATT-
1 ATAATTTAATAGTAAA-TCATTG
* **
15488231 ATAAATTT-ATAATAAATCATCA
1 AT-AATTTAATAGTAAATCATTG
* * * *
15488253 ATAATTTAGTGGTAAATCACTA
1 ATAATTTAATAGTAAATCATTG
*
15488275 ATAATTTACATA-TAGAAATCATTC
1 ATAATTTA-ATAGT--AAATCATTG
* * * *
15488299 ATAACTTAATAGGAAATTATTA
1 ATAATTTAATAGTAAATCATTG
* *
15488321 ATAAATGAATAGTAAATCATTG
1 ATAATTTAATAGTAAATCATTG
*
15488343 ATAATTTAGTAGTAAATCATT
1 ATAATTTAATAGTAAATCATT
15488364 AATAGCTTAG
Statistics
Matches: 637, Mismatches: 197, Indels: 117
0.67 0.21 0.12
Matches are distributed among these distances:
17 15 0.02
18 2 0.00
19 24 0.04
20 25 0.04
21 114 0.18
22 382 0.60
23 35 0.05
24 23 0.04
25 4 0.01
27 2 0.00
28 1 0.00
29 3 0.00
30 7 0.01
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATTG
Found at i:15488365 original size:44 final size:44
Alignment explanation
Indices: 15488196--15488367 Score: 143
Period size: 44 Copynumber: 3.9 Consensus size: 44
15488186 GTTAACTTTT
** * *
15488196 TAGTAAATCATCGATAAACTAGTAGTAAATTAATT-ATAAATTTA
1 TAGTAAATCATCGATAATTTAGTAGTAAA-TCATTAATAAATTAA
* * * * *
15488240 TAATAAATCATCAATAATTTAGTGGTAAATCACTAATAATTTACA
1 TAGTAAATCATCGATAATTTAGTAGTAAATCATTAATAAATTA-A
* * * * *
15488285 TA-TAGAAATCATTC-ATAACTTAATAGGAAATTATTAATAAATGAA
1 TAGT--AAATCA-TCGATAATTTAGTAGTAAATCATTAATAAATTAA
*
15488330 TAGTAAATCATTGATAATTTAGTAGTAAATCATTAATA
1 TAGTAAATCATCGATAATTTAGTAGTAAATCATTAATA
15488368 GCTTAGTACT
Statistics
Matches: 99, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
43 4 0.04
44 58 0.59
45 6 0.06
46 29 0.29
47 2 0.02
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.36
Consensus pattern (44 bp):
TAGTAAATCATCGATAATTTAGTAGTAAATCATTAATAAATTAA
Found at i:15488373 original size:22 final size:22
Alignment explanation
Indices: 15488196--15488393 Score: 91
Period size: 22 Copynumber: 9.0 Consensus size: 22
15488186 GTTAACTTTT
**
15488196 TAGTAAATCATCGATAAAC-TAG
1 TAGTAAATCATTAAT-AACTTAG
* *
15488218 TAGTAAATTAATT-ATAAATTTA-
1 TAGTAAA-TCATTAAT-AACTTAG
* * *
15488240 TAATAAATCATCAATAATTTAG
1 TAGTAAATCATTAATAACTTAG
* * * *
15488262 TGGTAAATCACTAATAATTTACA
1 TAGTAAATCATTAATAACTTA-G
* *
15488285 TA-TAGAAATCATTCATAACTTAA
1 TAGT--AAATCATTAATAACTTAG
* * * * *
15488308 TAGGAAATTATTAATAAATGAA
1 TAGTAAATCATTAATAACTTAG
* *
15488330 TAGTAAATCATTGATAATTTAG
1 TAGTAAATCATTAATAACTTAG
*
15488352 TAGTAAATCATTAATAGCTTAG
1 TAGTAAATCATTAATAACTTAG
* * *
15488374 TACT-AATTATTGATAACTTA
1 TAGTAAATCATTAATAACTTA
15488394 ATTGTCAATT
Statistics
Matches: 135, Mismatches: 33, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
21 22 0.16
22 90 0.67
23 9 0.07
24 14 0.10
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (22 bp):
TAGTAAATCATTAATAACTTAG
Found at i:15488896 original size:22 final size:22
Alignment explanation
Indices: 15488636--15488904 Score: 142
Period size: 22 Copynumber: 12.1 Consensus size: 22
15488626 AACAACATAT
* **
15488636 TAGTAAATCAATGATAGGTTAA
1 TAGTAAATCAATAATAACTTAA
15488658 TAAG-AAA-CAAATAATAACTTAA
1 T-AGTAAATC-AATAATAACTTAA
*
15488680 TAATAAATCAA-AGATAACTTAA
1 TAGTAAATCAATA-ATAACTTAA
* * * *
15488702 TAGTAAATTAGTGATAGCTTAA
1 TAGTAAATCAATAATAACTTAA
** **
15488724 TAGTAAATCAATTTTAGTTTAA
1 TAGTAAATCAATAATAACTTAA
* *
15488746 TAGT-AATTAATTAATAAACTTAG
1 TAGTAAATCAA-TAAT-AACTTAA
*
15488769 TAGTAAATC-ATGAATAACTTAG
1 TAGTAAATCAAT-AATAACTTAA
* * *
15488791 TAGTAAATCAATGATAATTTAG
1 TAGTAAATCAATAATAACTTAA
* * *
15488813 TCA-TTAATTATTGAA-AACTTAA
1 T-AGTAAATCAAT-AATAACTTAA
* *
15488835 AAGTAAATTAAT-ATAACTTAGTA
1 TAGTAAATCAATAATAACTTA--A
*
15488858 GTAGTAAAT-TATCAATAACTTAA
1 -TAGTAAATCAAT-AATAACTTAA
*
15488881 TAGTTAATCAATAATAACTTAA
1 TAGTAAATCAATAATAACTTAA
15488903 TA
1 TA
15488905 ATGAAGTATA
Statistics
Matches: 190, Mismatches: 36, Indels: 42
0.71 0.13 0.16
Matches are distributed among these distances:
20 1 0.01
21 15 0.08
22 131 0.69
23 25 0.13
24 10 0.05
25 8 0.04
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.35
Consensus pattern (22 bp):
TAGTAAATCAATAATAACTTAA
Found at i:15489037 original size:22 final size:22
Alignment explanation
Indices: 15488985--15489069 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
15488975 TGATGATTTT
* *
15488985 ATAGTAAAT-AATAAAAAAATTA
1 ATAGTAAATGAATAATAACA-TA
* * *
15489007 AGTAGTAAATTAATGATAATATA
1 A-TAGTAAATGAATAATAACATA
15489030 ATAGTAAATGAATAATAACATA
1 ATAGTAAATGAATAATAACATA
* *
15489052 ATAGTAAATCATTAATAA
1 ATAGTAAATGAATAATAA
15489070 TTTTTATATA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
22 35 0.66
23 11 0.21
24 7 0.13
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (22 bp):
ATAGTAAATGAATAATAACATA
Found at i:15489140 original size:22 final size:22
Alignment explanation
Indices: 15489088--15489160 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
15489078 TAAATTATTT
* *
15489088 ATAATTTAATAGCAAATCAGTA
1 ATAATTTAATTGCAAATAAGTA
* * *
15489110 AAAACTTAATTGCAAATAAATA
1 ATAATTTAATTGCAAATAAGTA
* *
15489132 ATAATTTAATTGTAAATAAGTG
1 ATAATTTAATTGCAAATAAGTA
15489154 ATAATTT
1 ATAATTT
15489161 TGTATTAAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAATTTAATTGCAAATAAGTA
Found at i:15489231 original size:22 final size:22
Alignment explanation
Indices: 15489206--15489329 Score: 92
Period size: 22 Copynumber: 5.6 Consensus size: 22
15489196 TAAATTATCA
*
15489206 ATAAATTAATAGTAAATCAATT
1 ATAATTTAATAGTAAATCAATT
*
15489228 ATAATTTTAT-GATAAATC-ATT
1 ATAATTTAATAG-TAAATCAATT
* * * *
15489249 AATAACTTAGTAGTGAATC-ATCA
1 -ATAATTTAATAGTAAATCAAT-T
* * *
15489272 ATAATTTATTAATAAATCATTT
1 ATAATTTAATAGTAAATCAATT
*
15489294 ATAATTTAATAGTAAATCATTT
1 ATAATTTAATAGTAAATCAATT
* *
15489316 ATAAATTAGTAGTA
1 ATAATTTAATAGTA
15489330 CTTGCATGTT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
21 4 0.05
22 74 0.93
23 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCAATT
Found at i:15489232 original size:44 final size:44
Alignment explanation
Indices: 15489176--15489319 Score: 150
Period size: 44 Copynumber: 3.2 Consensus size: 44
15489166 TAAATTAATT
* *
15489176 AATCATTGATAATTTTA-GAATAAATTATCAATAAATTAATAGTA
1 AATCATT-ATAATTTTATGAATAAATCATTAATAAATTAATAGTA
* * *
15489220 AATCAATTATAATTTTATG-ATAAATCATTAATAACTTAGTAGTG
1 AATC-ATTATAATTTTATGAATAAATCATTAATAAATTAATAGTA
* * * *
15489264 AATCATCAATAA-TTTATTAATAAATCATTTATAATTTAATAGTA
1 AATCAT-TATAATTTTATGAATAAATCATTAATAAATTAATAGTA
15489308 AATCATTTATAA
1 AATCA-TTATAA
15489320 ATTAGTAGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
43 7 0.08
44 71 0.86
45 5 0.06
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (44 bp):
AATCATTATAATTTTATGAATAAATCATTAATAAATTAATAGTA
Found at i:15489246 original size:66 final size:66
Alignment explanation
Indices: 15489176--15489326 Score: 162
Period size: 66 Copynumber: 2.3 Consensus size: 66
15489166 TAAATTAATT
* * * * *
15489176 AATCATTGATAATTTTAG-AATAAATTATCAATAAATTAATAGTAAATCAATTATAATTTTAT-G
1 AATCATTAATAA-CTTAGTAATAAATCATCAATAAATTAATAATAAATCAATTATAATTTAATAG
15489239 ATA
65 -TA
* * * * *
15489242 AATCATTAATAACTTAGTAGTGAATCATCAATAATTTATTAATAAATCATTTATAATTTAATAGT
1 AATCATTAATAACTTAGTAATAAATCATCAATAAATTAATAATAAATCAATTATAATTTAATAGT
15489307 A
66 A
* *
15489308 AATCATTTATAAATTAGTA
1 AATCATTAATAACTTAGTA
15489327 GTACTTGCAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
65 4 0.06
66 66 0.93
67 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (66 bp):
AATCATTAATAACTTAGTAATAAATCATCAATAAATTAATAATAAATCAATTATAATTTAATAGT
A
Found at i:15489327 original size:66 final size:66
Alignment explanation
Indices: 15489202--15489328 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
15489192 AGAATAAATT
* * *
15489202 ATCAATAAATTAATAGTAAATCAATTATAATTTTATGATAAATCATTAATAACTTAGTAGTGAAT
1 ATCAATAAATTAATAATAAATCAATTATAATTTAATGATAAATCATTAATAAATTAGTAGTGAAT
15489267 C
66 C
* * * *
15489268 ATCAATAATTTATTAATAAATCATTTATAATTTAAT-AGTAAATCATTTATAAATTAGTAGT
1 ATCAATAAATTAATAATAAATCAATTATAATTTAATGA-TAAATCATTAATAAATTAGTAGT
15489329 ACTTGCATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 52 0.98
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (66 bp):
ATCAATAAATTAATAATAAATCAATTATAATTTAATGATAAATCATTAATAAATTAGTAGTGAAT
C
Found at i:15489870 original size:21 final size:20
Alignment explanation
Indices: 15489805--15489891 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 20
15489795 AATGGTTACC
15489805 AAAA-TATATCATAA-GTTAT
1 AAAATTATATCA-AAGGTTAT
* * *
15489824 CAAAGTAATATCGAAGGTTAT
1 -AAAATTATATCAAAGGTTAT
*
15489845 AAAATTATATCAAATGTTACT
1 AAAATTATATCAAAGGTTA-T
*
15489866 AAAATTTTATCAAAGGTTATT
1 AAAATTATATCAAAGGTTA-T
15489887 AAAAT
1 AAAAT
15489892 CAAAATTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
20 20 0.37
21 34 0.63
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (20 bp):
AAAATTATATCAAAGGTTAT
Found at i:15489974 original size:80 final size:80
Alignment explanation
Indices: 15489890--15490052 Score: 202
Period size: 80 Copynumber: 2.0 Consensus size: 80
15489880 GGTTATTAAA
* * *
15489890 ATCAAAATTATATAAAAAGTTATCAAATTTTACT-TATAATATAAAAAATACAAATTAAATTATT
1 ATCAAAAGTACATAAAAAGTTATCAAATTTTACTATATAATATAAAAAATA-AAAATAAATTATT
15489954 AGTATATATCATTATT
65 AGTATATATCATTATT
* * * * *
15489970 ATCAAAAGTACATAAAAAGTTATCAATTTTTACTGATATTATATCAAAATTAAAAATAAATTGTT
1 ATCAAAAGTACATAAAAAGTTATCAAATTTTACT-ATATAATATAAAAAATAAAAATAAATTATT
* * *
15490035 AGTGTTTATTATTATT
65 AGTATATATCATTATT
15490051 AT
1 AT
15490053 AATATTAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 31 0.44
81 26 0.37
82 13 0.19
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (80 bp):
ATCAAAAGTACATAAAAAGTTATCAAATTTTACTATATAATATAAAAAATAAAAATAAATTATTA
GTATATATCATTATT
Found at i:15490141 original size:2 final size:2
Alignment explanation
Indices: 15490136--15490170 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15490126 TTAGTGTGTG
15490136 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15490171 GTATGTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15490684 original size:47 final size:47
Alignment explanation
Indices: 15490615--15490708 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
15490605 TCAAAATTGG
15490615 AAAGGTTTGCTATATGACAAATGAAATGAACATCTTTTTCTATTTCC
1 AAAGGTTTGCTATATGACAAATGAAATGAACATCTTTTTCTATTTCC
15490662 AAAGGTTTGCTATATGACAAATGAAATGAACATCTTTTTCTATTTCC
1 AAAGGTTTGCTATATGACAAATGAAATGAACATCTTTTTCTATTTCC
15490709 TTTTACTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (47 bp):
AAAGGTTTGCTATATGACAAATGAAATGAACATCTTTTTCTATTTCC
Found at i:15492983 original size:13 final size:13
Alignment explanation
Indices: 15492965--15492990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15492955 GCAACTTGTG
15492965 TCTATTGGTAGCA
1 TCTATTGGTAGCA
15492978 TCTATTGGTAGCA
1 TCTATTGGTAGCA
15492991 AATGAAAGCA
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:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TCTATTGGTAGCA
Found at i:15495295 original size:32 final size:29
Alignment explanation
Indices: 15495195--15495288 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
15495185 AATATTTGGA
* * * *
15495195 ATAATTTTTAAATTATAATAAAATATTTAAA
1 ATAATATTTAAATT-TAA-AAATTTTTTAAT
15495226 ATAATATTTAAATTTAAAAATTTTTTAAT
1 ATAATATTTAAATTTAAAAATTTTTTAAT
* * *
15495255 ATGATATTTAAA-TTACAAATTTATTAAT
1 ATAATATTTAAATTTAAAAATTTTTTAAT
15495283 -TAATAT
1 ATAATAT
15495289 AATATTTCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.09
28 14 0.25
29 20 0.36
30 3 0.05
31 13 0.24
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (29 bp):
ATAATATTTAAATTTAAAAATTTTTTAAT
Found at i:15516702 original size:24 final size:25
Alignment explanation
Indices: 15516675--15516728 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
15516665 TAATTCGAAT
*
15516675 TTAAACTTAAATTTAAATA-CATAA
1 TTAAACTTAAAATTAAATATCATAA
* * *
15516699 TTAAATTTAAAATTAAGTATGATAA
1 TTAAACTTAAAATTAAATATCATAA
15516724 TTAAA
1 TTAAA
15516729 TTCATTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (25 bp):
TTAAACTTAAAATTAAATATCATAA
Found at i:15517557 original size:36 final size:37
Alignment explanation
Indices: 15517517--15517593 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 37
15517507 AATATCCACA
15517517 TTTTTAGATTTTATT-ATTATTT-ATAAATTATTCAGC
1 TTTTTAGATTTTATTGATT-TTTCATAAATTATTCAGC
**
15517553 TTTTTATTTTTTATTGGCATTTTTCATAAATTATTCAGC
1 TTTTTAGATTTTATT-G-ATTTTTCATAAATTATTCAGC
15517592 TT
1 TT
15517594 CCATAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
38 3 0.09
39 19 0.54
ACGTcount: A:0.26, C:0.08, G:0.06, T:0.60
Consensus pattern (37 bp):
TTTTTAGATTTTATTGATTTTTCATAAATTATTCAGC
Found at i:15528544 original size:28 final size:30
Alignment explanation
Indices: 15528513--15528573 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
15528503 ATACGATATT
* *
15528513 TAAATTAAATTTTTTTA-AATAAGTTAC-C
1 TAAATTAAATTTTTGTATAATAAATTACTC
**
15528541 TAAATTTTATTTTTGTATAATAAATTACTC
1 TAAATTAAATTTTTGTATAATAAATTACTC
15528571 TAA
1 TAA
15528574 TCTCTTAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.52
29 9 0.33
30 4 0.15
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (30 bp):
TAAATTAAATTTTTGTATAATAAATTACTC
Found at i:15528771 original size:129 final size:130
Alignment explanation
Indices: 15528536--15528771 Score: 312
Period size: 129 Copynumber: 1.8 Consensus size: 130
15528526 TTTAAATAAG
** * ** *
15528536 TTACCTAAATTTTATTTTTGTATAATAAATTACTCTAATCTCTTAACATTATTAGATAATATTGA
1 TTACCTAAATTTTATTTTCATATAACAAATTACTCTAATCTCTTAACACCATTAAATAATATTGA
* * ** *
15528601 TATGATACTTAAATATTGATATAAATTATATGTAATTATCATATAATAACGATGTGATTGTCAAA
66 TATGATACTTAAATATTAATATAAATGATACATAATAATCATATAATAACGATGTGATTGTCAAA
* *
15528666 TTACCTAAATTTTATTTTCATATAACAAATTA-TTTAATCTCTTAACACCGTTAAATAATATTGA
1 TTACCTAAATTTTATTTTCATATAACAAATTACTCTAATCTCTTAACACCATTAAATAATATTGA
* * **
15528730 TGTGATATTTAAATATTAATATGGATGATACATAATAATCAT
66 TATGATACTTAAATATTAATATAAATGATACATAATAATCAT
15528772 GTGATAATAA
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
129 60 0.67
130 29 0.33
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (130 bp):
TTACCTAAATTTTATTTTCATATAACAAATTACTCTAATCTCTTAACACCATTAAATAATATTGA
TATGATACTTAAATATTAATATAAATGATACATAATAATCATATAATAACGATGTGATTGTCAAA
Found at i:15530179 original size:18 final size:18
Alignment explanation
Indices: 15530158--15530193 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15530148 ATTATGGTAA
*
15530158 AAGTAGTTATAGTAATTT
1 AAGTAGTGATAGTAATTT
*
15530176 AAGTAGTGATGGTAATTT
1 AAGTAGTGATAGTAATTT
15530194 GACTTTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (18 bp):
AAGTAGTGATAGTAATTT
Found at i:15543324 original size:17 final size:19
Alignment explanation
Indices: 15543298--15543334 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
15543288 GCCTACCTTC
15543298 TGTGTGTTCT-TA-ATAGA
1 TGTGTGTTCTATAGATAGA
*
15543315 TGTGTTTTCTATAGATAGA
1 TGTGTGTTCTATAGATAGA
15543334 T
1 T
15543335 CTTACATGCT
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:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (19 bp):
TGTGTGTTCTATAGATAGA
Found at i:15561855 original size:246 final size:246
Alignment explanation
Indices: 15561421--15562154 Score: 1387
Period size: 246 Copynumber: 3.0 Consensus size: 246
15561411 GATAATCACA
*
15561421 TGAAGCAATAAGTGAAAGCTAATAAAAAATATTTAGCCTACCTTGTCATCACATGAAGTAGTTCG
1 TGAAGCAATAAGTGAAAGCTAATAAAAAATATTTAGCCTACCTTGTCATCACATGAAGGAGTTCG
*
15561486 TGAAAGAGAATTATCAAGGACAGACTCTTCCATATTTTTTGCAGTAGCAGCTCTAATCTGTCAGA
66 TGAAAGAGAATTATCAGGGACAGACTCTTCCATATTTTTTGCAGTAGCAGCTCTAATCTGTCAGA
*
15561551 TTACCAAAAATAAGCTACTACGAGAATTAAGGAACCATGCATATGAATGGTTTACTGAGATCAGA
131 TTACCAAAAATAAGCTACTAAGAGAATTAAGGAACCATGCATATGAATGGTTTACTGAGATCAGA
*
15561616 AATAGATTACCCCATCAATACATGTTTTACATGGCCTTTATCAACTATAAG
196 AACAGATTACCCCATCAATACATGTTTTACATGGCCTTTATCAACTATAAG
* *
15561667 TGAAGCAATAAGTGAAAGTTAATCAAAAATATTTAGCCTACCTTGTCATCACATGAAGGAGTTCG
1 TGAAGCAATAAGTGAAAGCTAATAAAAAATATTTAGCCTACCTTGTCATCACATGAAGGAGTTCG
*
15561732 TGAAAGAGAATTATCAGGGACAGACTCTTCCATATTTTTCGCAGTAGCAGCTCTAATCTGTCAGA
66 TGAAAGAGAATTATCAGGGACAGACTCTTCCATATTTTTTGCAGTAGCAGCTCTAATCTGTCAGA
15561797 TTACCAAAAATAAGCTACTAAGAGAATTAAGGAACCATGCATATGAATGGTTTACTGAGATCAGA
131 TTACCAAAAATAAGCTACTAAGAGAATTAAGGAACCATGCATATGAATGGTTTACTGAGATCAGA
15561862 AACAGATTACCCCATCAATACATGTTTTACATGGCCTTTATCAACTATAAG
196 AACAGATTACCCCATCAATACATGTTTTACATGGCCTTTATCAACTATAAG
*
15561913 TGAAGCAATAAGTGAAGGCTAATAAAAAATATTTAGCCTACCTTGTCATCACATGAAGGAGTTCG
1 TGAAGCAATAAGTGAAAGCTAATAAAAAATATTTAGCCTACCTTGTCATCACATGAAGGAGTTCG
15561978 TGAAAGAGAATTATCAGGGACAGACTCTTCCATATTTTTTGCAGTAGCAGCTCTAATCTGTCAGA
66 TGAAAGAGAATTATCAGGGACAGACTCTTCCATATTTTTTGCAGTAGCAGCTCTAATCTGTCAGA
15562043 TTACCAAAAATAAGCTACTAAGAGAATTAAGGAACCATGCATATGAATGGTTTACTGAGATCAGA
131 TTACCAAAAATAAGCTACTAAGAGAATTAAGGAACCATGCATATGAATGGTTTACTGAGATCAGA
*
15562108 AACAGATTACACCATCAATACATGTTTTACATGGCCTTTATCAACTA
196 AACAGATTACCCCATCAATACATGTTTTACATGGCCTTTATCAACTA
15562155 ACAATCGTTT
Statistics
Matches: 476, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
246 476 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (246 bp):
TGAAGCAATAAGTGAAAGCTAATAAAAAATATTTAGCCTACCTTGTCATCACATGAAGGAGTTCG
TGAAAGAGAATTATCAGGGACAGACTCTTCCATATTTTTTGCAGTAGCAGCTCTAATCTGTCAGA
TTACCAAAAATAAGCTACTAAGAGAATTAAGGAACCATGCATATGAATGGTTTACTGAGATCAGA
AACAGATTACCCCATCAATACATGTTTTACATGGCCTTTATCAACTATAAG
Found at i:15564239 original size:32 final size:31
Alignment explanation
Indices: 15564181--15564244 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
15564171 AAGATTATTG
*
15564181 TATTTATATCATATAAAATATTAAAATTTATA
1 TATTTATATCATATAAAATA-TAAAAATTATA
***
15564213 TATTTATATCATATTTTATATAAAAATTATA
1 TATTTATATCATATAAAATATAAAAATTATA
15564244 T
1 T
15564245 GTTATAATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTTATATCATATAAAATATAAAAATTATA
Found at i:15564331 original size:22 final size:22
Alignment explanation
Indices: 15564268--15564331 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
15564258 TCAATATAAA
15564268 AATATATAATTATTATTAAAATT
1 AATATATAATTATTATT-AAATT
* *
15564291 -ATATTTTTATT-TTATTAAATT
1 AATA-TATAATTATTATTAAATT
*
15564312 AATATATAATTATTACTAAA
1 AATATATAATTATTATTAAA
15564332 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 10 0.30
22 18 0.55
23 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATATAATTATTATTAAATT
Found at i:15566985 original size:19 final size:18
Alignment explanation
Indices: 15566942--15566985 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
15566932 TTAATAATTT
*
15566942 AAAATATGATATGATAAC
1 AAAATATGATATGATAAA
**
15566960 ACGATATGAGTATGATAAA
1 AAAATATGA-TATGATAAA
15566979 AAAATAT
1 AAAATAT
15566986 AAAAAATATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (18 bp):
AAAATATGATATGATAAA
Found at i:15572894 original size:16 final size:15
Alignment explanation
Indices: 15572867--15572916 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
15572857 TTAAATTATA
15572867 TTATTTT-T-ATATT
1 TTATTTTATCATATT
15572880 TTATTTATATCATATT
1 TTATTT-TATCATATT
**
15572896 TTAAATTATCA-ATT
1 TTATTTTATCATATT
15572910 TTATTTT
1 TTATTTT
15572917 TAACGCCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.20
14 9 0.30
15 6 0.20
16 9 0.30
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTTATCATATT
Found at i:15573434 original size:24 final size:24
Alignment explanation
Indices: 15573371--15573447 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
15573361 ATATGATATG
* *
15573371 AATATATTAAATATAAAATATT-AA
1 AATA-ATTATATATAAAATTTTAAA
*
15573395 AATAA-TATGATTTAAAATTTTAAA
1 AATAATTAT-ATATAAAATTTTAAA
*
15573419 AATAATTATATAT-AAATTTAATAA
1 AATAATTATATATAAAATTTTA-AA
15573443 AATAA
1 AATAA
15573448 AAAAATTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.05
23 18 0.41
24 21 0.48
25 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (24 bp):
AATAATTATATATAAAATTTTAAA
Found at i:15575633 original size:27 final size:27
Alignment explanation
Indices: 15575603--15575659 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
15575593 ATCAGATGAA
* * *
15575603 GAAGAGGAAGATGAGGATTATGAGGAG
1 GAAGAAGAAGATGAAGATGATGAGGAG
* *
15575630 GAAGAAGAGGATGAAGATGATGATGAG
1 GAAGAAGAAGATGAAGATGATGAGGAG
15575657 GAA
1 GAA
15575660 TTCACTCTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (27 bp):
GAAGAAGAAGATGAAGATGATGAGGAG
Found at i:15575636 original size:30 final size:30
Alignment explanation
Indices: 15575600--15575658 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
15575590 TGTATCAGAT
* *
15575600 GAAGAAGAGGAAGATGAGGATTATGAGGAG
1 GAAGAAGAGGAAGAAGAGGATGATGAGGAG
* *
15575630 GAAGAAGAGGATGAAGATGATGATGAGGA
1 GAAGAAGAGGAAGAAGAGGATGATGAGGA
15575659 ATTCACTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (30 bp):
GAAGAAGAGGAAGAAGAGGATGATGAGGAG
Found at i:15583154 original size:187 final size:190
Alignment explanation
Indices: 15582825--15583198 Score: 655
Period size: 187 Copynumber: 2.0 Consensus size: 190
15582815 CTATTTCTTC
* *
15582825 AAACCCCATAAACATATCTGCATTTTCAACTCATTTCCAAACATTAAATCATTTTTCTAATAAAA
1 AAACCCCATAAACATATCTGCATTTTCAACCCATTCCCAAACATTAAATCATTTTTCTAATAAAA
**
15582890 AAGGACAAATTCTTTGGAAAAATCTAATCTTCTTGTAATCAATTAAGTCAAGTTACTTCCTTGGC
66 AAGGACAAATTCTTTCAAAAAATCTAATCTTCTTGTAATCAATTAAGTCAAGTTACTTCCTTGGC
*
15582955 CTTCACTTTCCA-C-CACACACGCAAAAGTAAATATTTATGTATTTAACCCCAAAATAAA
131 CTTCACTTTCCACCACACACACACAAAAGTAAATATTTATGTATTTAACCCCAAAATAAA
*
15583013 AAACCTCATAAACATATCTGCA-TTTCAACCCATTCCCAAACATTAAATCATTTTTCTAATAAAA
1 AAACCCCATAAACATATCTGCATTTTCAACCCATTCCCAAACATTAAATCATTTTTCTAATAAAA
*
15583077 AAGGACAAATTCTTTCAAAAAATCTAATCTTCTTGTAATCAATTAAGTCAAGTTACTTCCTTTGC
66 AAGGACAAATTCTTTCAAAAAATCTAATCTTCTTGTAATCAATTAAGTCAAGTTACTTCCTTGGC
*
15583142 CTTCATTTTCCACCACACACACACAAAAGTAAATATTTATGTATTTAACCCCAAAAT
131 CTTCACTTTCCACCACACACACACAAAAGTAAATATTTATGTATTTAACCCCAAAAT
15583199 GAAAGTAAAA
Statistics
Matches: 176, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
187 113 0.64
188 22 0.12
189 41 0.23
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (190 bp):
AAACCCCATAAACATATCTGCATTTTCAACCCATTCCCAAACATTAAATCATTTTTCTAATAAAA
AAGGACAAATTCTTTCAAAAAATCTAATCTTCTTGTAATCAATTAAGTCAAGTTACTTCCTTGGC
CTTCACTTTCCACCACACACACACAAAAGTAAATATTTATGTATTTAACCCCAAAATAAA
Found at i:15583807 original size:22 final size:23
Alignment explanation
Indices: 15583782--15583826 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
15583772 AATTAATTAT
*
15583782 TTAAAATTTAA-TTTGAATTTAA
1 TTAAAATTTAATTTTAAATTTAA
15583804 TTAAAATTTAATTTTAAATTTAA
1 TTAAAATTTAATTTTAAATTTAA
15583827 ATTTAACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAAATTTAATTTTAAATTTAA
Found at i:15583819 original size:6 final size:6
Alignment explanation
Indices: 15583747--15583832 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
15583737 ATATGTTAAA
* * * *
15583747 AAATTT AAATTC GAATTT -AATTA AAAATT AATTATTT AAAATTT -AATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AA--ATTT -AAATTT AAATTT
* * *
15583796 GAATTT -AATTA AAATTT AATTTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AA
15583833 CTTGTAATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
5 13 0.21
6 41 0.65
7 4 0.06
8 3 0.05
9 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:15584062 original size:15 final size:15
Alignment explanation
Indices: 15584023--15584065 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
15584013 ATTAAGCACA
**
15584023 TAAATTTAAAATATT
1 TAAATTTAATTTATT
*
15584038 CAAATTTAATTTATT
1 TAAATTTAATTTATT
15584053 TAAATTTAATTTA
1 TAAATTTAATTTA
15584066 ATAATAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TAAATTTAATTTATT
Found at i:15591090 original size:2 final size:2
Alignment explanation
Indices: 15591083--15591113 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15591073 CCAAACAAAC
15591083 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
15591114 CGTGCCTTGT
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:15591676 original size:18 final size:19
Alignment explanation
Indices: 15591653--15591695 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
15591643 ATTTTTATTT
*
15591653 TATAAAAATT-TAAAAATA
1 TATAAAAATTATAAAAACA
15591671 TATAAAAATTAATAAAAACA
1 TATAAAAATT-ATAAAAACA
15591691 TATAA
1 TATAA
15591696 CTCAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAAAATTATAAAAACA
Found at i:15592431 original size:24 final size:24
Alignment explanation
Indices: 15592404--15592454 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
15592394 ATATAAAGAA
15592404 ATCCAGCTTGGAAGATATTCTTAT
1 ATCCAGCTTGGAAGATATTCTTAT
15592428 ATCCAGCTTGGAAGATATTCTTAT
1 ATCCAGCTTGGAAGATATTCTTAT
15592452 ATC
1 ATC
15592455 ATAAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (24 bp):
ATCCAGCTTGGAAGATATTCTTAT
Found at i:15594202 original size:2 final size:2
Alignment explanation
Indices: 15594195--15594219 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15594185 AATCATATCA
15594195 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
15594220 AACAATGGGT
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:15594830 original size:2 final size:2
Alignment explanation
Indices: 15594823--15594849 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15594813 TTTCTTTTGC
15594823 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
15594850 CAGATTTGAA
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:15595012 original size:30 final size:31
Alignment explanation
Indices: 15594956--15595013 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
15594946 GATTGAAATC
**
15594956 AAATTTTATTTATTCCATTAATTATTTTTTA
1 AAATTTTATTTATTAAATTAATTATTTTTTA
*
15594987 AAATTTTATTTA-TAAATTTATTATTTT
1 AAATTTTATTTATTAAATTAATTATTTT
15595014 AATAGGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (31 bp):
AAATTTTATTTATTAAATTAATTATTTTTTA
Found at i:15605293 original size:12 final size:12
Alignment explanation
Indices: 15605278--15605310 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15605268 TTAAAAACAA
15605278 TTTTATAATTAC
1 TTTTATAATTAC
*
15605290 TTTT-TAATTAT
1 TTTTATAATTAC
15605301 TTTTATAATT
1 TTTTATAATT
15605311 TGTTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATAATTAC
Found at i:15605969 original size:22 final size:25
Alignment explanation
Indices: 15605944--15606002 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
15605934 ATAATAATAT
15605944 TAAATTTAAATA-A-ATAT-TTAAA
1 TAAATTTAAATATATATATATTAAA
15605966 TAAATTTAAATATTATATATATTAAA
1 TAAATTTAAATA-TATATATATTAAA
*
15605992 TAAATTCAAAT
1 TAAATTTAAAT
15606003 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 12 0.38
24 1 0.03
25 4 0.12
26 15 0.47
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAATTTAAATATATATATATTAAA
Found at i:15605972 original size:10 final size:10
Alignment explanation
Indices: 15605944--15605977 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
15605934 ATAATAATAT
15605944 TAAATTTAAA
1 TAAATTTAAA
15605954 TAAATATTTAAA
1 T-AA-ATTTAAA
15605966 TAAATTTAAA
1 TAAATTTAAA
15605976 TA
1 TA
15605978 TTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:15612146 original size:18 final size:19
Alignment explanation
Indices: 15612125--15612160 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15612115 TAATCCAAAT
*
15612125 TTTTTTATAAAT-ATAAAA
1 TTTTATATAAATAATAAAA
15612143 TTTTATATAAATAATAAA
1 TTTTATATAAATAATAAA
15612161 TTCGAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTATATAAATAATAAAA
Found at i:15613222 original size:16 final size:16
Alignment explanation
Indices: 15613182--15613224 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15613172 TTTAATTTTT
* *
15613182 TATTTATATATTTATA
1 TATTTATATTTTTAAA
* *
15613198 TAATGATATTTTTAAA
1 TATTTATATTTTTAAA
15613214 TATTTATATTT
1 TATTTATATTT
15613225 CAAAAATAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTATATTTTTAAA
Found at i:15613242 original size:21 final size:21
Alignment explanation
Indices: 15613212--15613262 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
15613202 GATATTTTTA
15613212 AATA-TTTATATTTCAAAAA-T
1 AATATTTTATATTT-AAAAATT
15613232 AATATTTTATATTTAAAAATT
1 AATATTTTATATTTAAAAATT
15613253 AATATTTTAT
1 AATATTTTAT
15613263 TAATTTCGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAATT
Found at i:15614735 original size:19 final size:20
Alignment explanation
Indices: 15614713--15614777 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
15614703 AATAATATTT
15614713 ATTTTTTATA-TTTAAAATA
1 ATTTTTTATAGTTTAAAATA
* *
15614732 ATTTATAATAGTTT--AATA
1 ATTTTTTATAGTTTAAAATA
* *
15614750 ATATATTTATAGGTTAAAATA
1 AT-TTTTTATAGTTTAAAATA
15614771 ATTTTTT
1 ATTTTTT
15614778 TTCATATATT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
18 6 0.17
19 16 0.46
20 7 0.20
21 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTTTATAGTTTAAAATA
Found at i:15615699 original size:2 final size:2
Alignment explanation
Indices: 15615692--15615722 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15615682 CTGTGAGACT
15615692 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15615723 TTTTGCTGCA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15616848 original size:31 final size:31
Alignment explanation
Indices: 15616814--15616872 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
15616804 ATAAATTAAA
*
15616814 TATATATAATT-TAAATTT-TTTAATAAAAT
1 TATATATATTTATAAATTTGTTTAATAAAAT
*
15616843 TATATATATTTATATATTTGTTTAATAAAA
1 TATATATATTTATAAATTTGTTTAATAAAA
15616873 ATATTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.38
30 6 0.23
31 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (31 bp):
TATATATATTTATAAATTTGTTTAATAAAAT
Found at i:15616876 original size:29 final size:27
Alignment explanation
Indices: 15616810--15616894 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 27
15616800 TTATATAAAT
*
15616810 TAAATATATATAATTTAAATTTTTTAA
1 TAAAAATATATAATTTAAATTTTTTAA
*
15616837 TAAAATTATATATATTTATATATTTGTTTAA
1 TAAAAATATATA-ATTTA-A-ATTT-TTTAA
*
15616868 TAAAAATAT-TAA-TAAAATTTTTATAA
1 TAAAAATATATAATTTAAATTTTT-TAA
15616894 T
1 T
15616895 TAAATAAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
25 2 0.04
26 8 0.16
27 11 0.22
28 7 0.14
29 2 0.04
30 6 0.12
31 13 0.27
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TAAAAATATATAATTTAAATTTTTTAA
Found at i:15616985 original size:17 final size:16
Alignment explanation
Indices: 15616963--15616998 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
15616953 TATATTAAAC
*
15616963 TTTATTAATTTATATTT
1 TTTATTAAATTA-ATTT
15616980 TTTATTAAATTAATTT
1 TTTATTAAATTAATTT
15616996 TTT
1 TTT
15616999 TAAAAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTAAATTAATTT
Found at i:15618040 original size:8 final size:8
Alignment explanation
Indices: 15618024--15618062 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
15618014 TATTTTTTTA
15618024 ATATAAAT
1 ATATAAAT
*
15618032 ATTTAAAT
1 ATATAAAT
*
15618040 ATATAATT
1 ATATAAAT
15618048 ATATAAAT
1 ATATAAAT
15618056 ATATAAA
1 ATATAAA
15618063 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAAAT
Found at i:15618308 original size:24 final size:24
Alignment explanation
Indices: 15618275--15618333 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
15618265 TGATAATTTA
* * *
15618275 AAATACGATATAATAATATAACAT
1 AAATATGATATAAAAATATAACAC
* *
15618299 AAATATGATAAAAAAATATAATAC
1 AAATATGATATAAAAATATAACAC
15618323 AAATATGATAT
1 AAATATGATAT
15618334 GATTTTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (24 bp):
AAATATGATATAAAAATATAACAC
Found at i:15624027 original size:92 final size:92
Alignment explanation
Indices: 15623925--15624109 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 92
15623915 AGGCTCTTAA
*
15623925 TAAAGTGATTTGTTTTAAGATTTTCTGTCTTTTGCTTATAAATTATAATATATTTTTTGAAGTGG
1 TAAAGTGATTTGTTTTAAGATTTTCTGTCTTTTGCTTATAAATTATAATATATTTTTTGAAGTGA
15623990 TTAAATCAACTGTTAATTGCTTTGTAT
66 TTAAATCAACTGTTAATTGCTTTGTAT
15624017 TAAAGTGATTTGTTTTAAGATTTTCTGTCTTTTGCTTATAAATTATAATATATTTTTTGAAGTGA
1 TAAAGTGATTTGTTTTAAGATTTTCTGTCTTTTGCTTATAAATTATAATATATTTTTTGAAGTGA
15624082 TTAAATCAACTGTTAATTGCTTTGTAT
66 TTAAATCAACTGTTAATTGCTTTGTAT
15624109 T
1 T
15624110 GGTTTATAAG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (92 bp):
TAAAGTGATTTGTTTTAAGATTTTCTGTCTTTTGCTTATAAATTATAATATATTTTTTGAAGTGA
TTAAATCAACTGTTAATTGCTTTGTAT
Found at i:15627559 original size:2 final size:2
Alignment explanation
Indices: 15627552--15627578 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15627542 CGGAATCAGG
15627552 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15627579 CCATGGTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15638987 original size:19 final size:19
Alignment explanation
Indices: 15638963--15639009 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
15638953 AGCTTGTGAG
15638963 TTTAATTAAATTTTTA-TAT
1 TTTAATTAAA-TTTTAGTAT
*
15638982 TTTAA-TATATTTTAGTTAT
1 TTTAATTAAATTTTAG-TAT
15639001 TTTAATTAA
1 TTTAATTAA
15639010 TAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 13 0.57
20 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTAATTAAATTTTAGTAT
Found at i:15645598 original size:17 final size:17
Alignment explanation
Indices: 15645576--15645612 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15645566 ATTTTATTGT
*
15645576 AATTAATTAATATTTGA
1 AATTAATTAAAATTTGA
*
15645593 AATTAATTAAAATTTTA
1 AATTAATTAAAATTTGA
15645610 AAT
1 AAT
15645613 ATTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
AATTAATTAAAATTTGA
Found at i:15645682 original size:30 final size:29
Alignment explanation
Indices: 15645648--15645729 Score: 101
Period size: 30 Copynumber: 2.8 Consensus size: 29
15645638 CACTAAATTT
* *
15645648 TTTATTTTAAATCAATTGAATCTTTAAATA
1 TTTATTTTTATTCAATT-AATCTTTAAATA
* *
15645678 TTTATTTTTATTAAATTAAATTTTTAAATA
1 TTTATTTTTATTCAATT-AATCTTTAAATA
*
15645708 TCTATTTTTATTCAATTAATCT
1 TTTATTTTTATTCAATTAATCT
15645730 CTCGATTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 4 0.09
30 40 0.91
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (29 bp):
TTTATTTTTATTCAATTAATCTTTAAATA
Found at i:15648852 original size:36 final size:36
Alignment explanation
Indices: 15648812--15648881 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
15648802 GCTATGGTGA
15648812 AAACTCCAAAGACTGAAGAGAAAGAGGCTGTGAAGG
1 AAACTCCAAAGACTGAAGAGAAAGAGGCTGTGAAGG
15648848 AAACTCCAAAGACTGAAGAGAAAGAGGCTGTGAA
1 AAACTCCAAAGACTGAAGAGAAAGAGGCTGTGAA
15648882 AACTAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.14, G:0.29, T:0.11
Consensus pattern (36 bp):
AAACTCCAAAGACTGAAGAGAAAGAGGCTGTGAAGG
Found at i:15654404 original size:44 final size:43
Alignment explanation
Indices: 15654349--15654442 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 43
15654339 GCATTGTATG
** *
15654349 ATATAAATATAATTTAAAA-TTTTAATAATAATTTTATATCAA-T
1 ATATAAATATAATACAAAATTTTTAATAA-AATTTAATAT-AACT
*
15654392 ATATAAATTATAATACAAAATTTTTTATAAAATTTAATATAACT
1 ATATAAA-TATAATACAAAATTTTTAATAAAATTTAATATAACT
15654436 ATATAAA
1 ATATAAA
15654443 AAAAATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
43 9 0.20
44 27 0.61
45 8 0.18
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (43 bp):
ATATAAATATAATACAAAATTTTTAATAAAATTTAATATAACT
Found at i:15655562 original size:19 final size:20
Alignment explanation
Indices: 15655538--15655575 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15655528 TTTTATTTTA
*
15655538 TAAAAATTTA-AAATATATT
1 TAAAAATTAATAAATATATT
15655557 TAAAAATTAATAAATATAT
1 TAAAAATTAATAAATATAT
15655576 ATAATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAATTAATAAATATATT
Found at i:15656128 original size:13 final size:14
Alignment explanation
Indices: 15656088--15656130 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
15656078 TTTATTGATT
15656088 TATTAATTTTAAT-
1 TATTAATTTTAATA
* *
15656101 TTTTAATTTTTATA
1 TATTAATTTTAATA
15656115 TATT-ATTTTAATA
1 TATTAATTTTAATA
15656128 TAT
1 TAT
15656131 ATAAACAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 22 0.88
14 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTAATTTTAATA
Found at i:15656293 original size:20 final size:20
Alignment explanation
Indices: 15656229--15656293 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
15656219 TTGTTTTCTT
*
15656229 TTTAATTTTTTGAT-TCTAAA
1 TTTAA-TTTTTAATATCTAAA
15656249 TTTAA--TTTAA-ATCT-AA
1 TTTAATTTTTAATATCTAAA
*
15656265 TATACATTTTTAATATCTAAA
1 TTTA-ATTTTTAATATCTAAA
15656286 TTTAATTT
1 TTTAATTT
15656294 AAACCAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
16 5 0.14
17 8 0.22
19 5 0.14
20 13 0.36
21 5 0.14
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTAATTTTTAATATCTAAA
Found at i:15660401 original size:31 final size:31
Alignment explanation
Indices: 15660365--15660425 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
15660355 TTTACTCAAA
* *
15660365 ATTTTAATTTTTATTTAAATA-AATATTTAAC
1 ATTTTAATTTATACTTAAATAGAAT-TTTAAC
15660396 ATTTTAATTTATACTTAAATAGAATTTTAA
1 ATTTTAATTTATACTTAAATAGAATTTTAA
15660426 TGTAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTTTAATTTATACTTAAATAGAATTTTAAC
Found at i:15660496 original size:29 final size:29
Alignment explanation
Indices: 15660438--15660494 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
15660428 TAAATTATTT
* *
15660438 TTTATTTAAATATAATCAAAATATAAAAA
1 TTTATTTAAATACAATAAAAATATAAAAA
15660467 TTTATTTAAATACAATAAAAA-ATAAAAA
1 TTTATTTAAATACAATAAAAATATAAAAA
15660495 ATATGGAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (29 bp):
TTTATTTAAATACAATAAAAATATAAAAA
Found at i:15663693 original size:13 final size:13
Alignment explanation
Indices: 15663675--15663702 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15663665 AGAGCAAAAA
15663675 AAGAAACCCTCTG
1 AAGAAACCCTCTG
15663688 AAGAAACCCTCTG
1 AAGAAACCCTCTG
15663701 AA
1 AA
15663703 ATGGAGCAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (13 bp):
AAGAAACCCTCTG
Found at i:15663799 original size:42 final size:43
Alignment explanation
Indices: 15663715--15663800 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 43
15663705 GGAGCAGCAA
15663715 CTGAAGAAAGCTGAGACTGCGCTCAAAGACGCAGGATGCAGTTG
1 CTGAAGAAAGCTGAGACT-CGCTCAAAGACGCAGGATGCAGTTG
*
15663759 CTGAAGAAAGCTGAGACT-GCTCGAAGACGCAGGATGCAGTTG
1 CTGAAGAAAGCTGAGACTCGCTCAAAGACGCAGGATGCAGTTG
15663801 GAAAAAGCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 23 0.56
44 18 0.44
ACGTcount: A:0.31, C:0.20, G:0.33, T:0.16
Consensus pattern (43 bp):
CTGAAGAAAGCTGAGACTCGCTCAAAGACGCAGGATGCAGTTG
Found at i:15664601 original size:28 final size:28
Alignment explanation
Indices: 15664570--15664628 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
15664560 TATATATCCA
* *
15664570 TTATATCTACCCCAAATTATACTATTGG
1 TTATATCTACCCAAAATTATACTATGGG
15664598 TTATATCTACCCAAAATTATACTATGGG
1 TTATATCTACCCAAAATTATACTATGGG
15664626 TTA
1 TTA
15664629 AGCATTCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (28 bp):
TTATATCTACCCAAAATTATACTATGGG
Found at i:15666984 original size:21 final size:20
Alignment explanation
Indices: 15666960--15666998 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15666950 AATTACTATC
15666960 ATATATATTAAAAAAATTATG
1 ATATATA-TAAAAAAATTATG
* *
15666981 ATATTTATACAAAAATTA
1 ATATATATAAAAAAATTA
15666999 ATATACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
ATATATATAAAAAAATTATG
Found at i:15674130 original size:110 final size:111
Alignment explanation
Indices: 15673991--15674194 Score: 358
Period size: 110 Copynumber: 1.8 Consensus size: 111
15673981 CTTGGGAAAT
* *
15673991 TTTTTCTTTTTTTTTGACTAAAAATAAATTTAATTAAAAATATGTACTAAACCTTAAATCAAAGT
1 TTTTTCTTTTTTTTTGAATAAAAATAAATTTAATTAAAAACATGTACTAAACCTTAAATCAAAGT
15674056 AAACCATAAGGGATTGATAACCCAAAAAATTGGGCAATTTTTTCTCC
66 AAACCA-AAGGGATTGATAACCCAAAAAATTGGGCAATTTTTTCTCC
*
15674103 TTTTT-TTTTTTTTT-AATAAAAATAAATTTAATTAAAAACATGTACTAAACCTTAGATCAAAGT
1 TTTTTCTTTTTTTTTGAATAAAAATAAATTTAATTAAAAACATGTACTAAACCTTAAATCAAAGT
15674166 AAACCAAAGGGATTGATAACCCAAAAAAT
66 AAACCAAAGGGATTGATAACCCAAAAAAT
15674195 CCAACCAAGA
Statistics
Matches: 89, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
109 23 0.26
110 52 0.58
111 9 0.10
112 5 0.06
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (111 bp):
TTTTTCTTTTTTTTTGAATAAAAATAAATTTAATTAAAAACATGTACTAAACCTTAAATCAAAGT
AAACCAAAGGGATTGATAACCCAAAAAATTGGGCAATTTTTTCTCC
Found at i:15677454 original size:26 final size:27
Alignment explanation
Indices: 15677410--15677469 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
15677400 GTTTGGTTTA
* *
15677410 AAAAAATATTTTTTGTTTTTATTTTCT
1 AAAAAATATTTTATGTTTTTACTTTCT
15677437 AGAAAAAT-TTTTAT-TTTTTACTTTCT
1 A-AAAAATATTTTATGTTTTTACTTTCT
15677463 AAAAAAT
1 AAAAAAT
15677470 GTATTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 6 0.20
26 12 0.40
27 6 0.20
28 6 0.20
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (27 bp):
AAAAAATATTTTATGTTTTTACTTTCT
Found at i:15686564 original size:21 final size:21
Alignment explanation
Indices: 15686539--15686579 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15686529 GCATCAACAT
15686539 CTATAACAGCT-TTTTCTTCAA
1 CTATAACAG-TATTTTCTTCAA
*
15686560 CTATAATAGTATTTTCTTCA
1 CTATAACAGTATTTTCTTCA
15686580 TCTTTCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (21 bp):
CTATAACAGTATTTTCTTCAA
Found at i:15696425 original size:61 final size:62
Alignment explanation
Indices: 15696356--15696478 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
15696346 CCTCCTAAGA
* *
15696356 ATACAACACAACTAA-TAT-AAATTTTATGTTGGAAATGAAAAATCAAAAACTAATGTTTAGT
1 ATACAACACAAC-AACTATAAAATTGTATATTGGAAATGAAAAATCAAAAACTAATGTTTAGT
*
15696417 ATACAACACAACAACTATAAAATTGTATATTGGAAATGAAAAATTAAAAACTAATGTTTAGT
1 ATACAACACAACAACTATAAAATTGTATATTGGAAATGAAAAATCAAAAACTAATGTTTAGT
15696479 GCATCCATAG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
60 2 0.04
61 15 0.26
62 40 0.70
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (62 bp):
ATACAACACAACAACTATAAAATTGTATATTGGAAATGAAAAATCAAAAACTAATGTTTAGT
Found at i:15698193 original size:2 final size:2
Alignment explanation
Indices: 15698186--15698215 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15698176 CAACTTCATC
*
15698186 TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15698216 AATCTATACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15698216 original size:10 final size:10
Alignment explanation
Indices: 15698187--15698223 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
15698177 AACTTCATCT
*
15698187 ATATATATAT
1 ATATATATAA
15698197 ATATATATAA
1 ATATATATAA
15698207 ATATATATAA
1 ATATATATAA
*
15698217 ATCTATA
1 ATATATA
15698224 CGTACAGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATAA
Found at i:15700232 original size:2 final size:2
Alignment explanation
Indices: 15700225--15700254 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15700215 TAACATATGC
*
15700225 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15700255 TTATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15700242 original size:14 final size:14
Alignment explanation
Indices: 15700219--15700250 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15700209 CATACATAAC
15700219 ATATGCATATATAT
1 ATATGCATATATAT
*
15700233 ATATGTATATATAT
1 ATATGCATATATAT
15700247 ATAT
1 ATAT
15700251 ATATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (14 bp):
ATATGCATATATAT
Found at i:15703836 original size:2 final size:2
Alignment explanation
Indices: 15703829--15703870 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
15703819 TCAAACTCTA
* * *
15703829 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15703871 TCTAATTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15705729 original size:52 final size:52
Alignment explanation
Indices: 15705671--15705826 Score: 168
Period size: 52 Copynumber: 3.0 Consensus size: 52
15705661 GGACAAGAAA
* * * * *
15705671 ACTTGTAAAAAAAGAATTTTAAGAGAAAAGAGATTCTTAATAGGTAAATTTG
1 ACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAATTTG
* * * * * *
15705723 GCTTGTAAGAGAAGAATCCTAAAAGGAAAGTGGTTCTTAATAGGCAAGTTTG
1 ACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAATTTG
** * * *
15705775 ACTTACAAGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAATTTG
1 ACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAATTTG
15705827 TTTGGTTATA
Statistics
Matches: 83, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
52 83 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.28
Consensus pattern (52 bp):
ACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAATTTG
Found at i:15706433 original size:25 final size:25
Alignment explanation
Indices: 15706398--15706463 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
15706388 GAGTTGAAGA
* *
15706398 TTCAAGGTGTGAAAAGAGCTAAAAG
1 TTCAAGATGTGGAAAGAGCTAAAAG
* *
15706423 TTCGAGATGTGGAAAGAGCTAAAGG
1 TTCAAGATGTGGAAAGAGCTAAAAG
*
15706448 TTTAAGATGTGGAAAG
1 TTCAAGATGTGGAAAG
15706464 TGCATGGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (25 bp):
TTCAAGATGTGGAAAGAGCTAAAAG
Found at i:15706806 original size:52 final size:53
Alignment explanation
Indices: 15706761--15706905 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 53
15706751 CTTGTAAAAA
*
15706761 AAGAATTCTAAGA-GAAAGGAGATTCTTAATAGGTAAATTTGACTTGCAAGAG
1 AAGAATTCTAAGAGGAAAGGAGATTCTTAATAGGCAAATTTGACTTGCAAGAG
* * * * *
15706813 AAGAATTCTAAAAGGAAA-GTGATTCTTAATAGGCAAGTTTAACTTACAAGAG
1 AAGAATTCTAAGAGGAAAGGAGATTCTTAATAGGCAAATTTGACTTGCAAGAG
* * *
15706865 AAGAATTCTAAGAGGATAGGA-ATTTTTAATGGGCAAATTTG
1 AAGAATTCTAAGAGGAAAGGAGATTCTTAATAGGCAAATTTG
15706906 TATGGTTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 73 0.94
53 5 0.06
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (53 bp):
AAGAATTCTAAGAGGAAAGGAGATTCTTAATAGGCAAATTTGACTTGCAAGAG
Found at i:15709447 original size:15 final size:15
Alignment explanation
Indices: 15709427--15709471 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
15709417 TTCATTTTAA
15709427 TTTAATAATAATAAT
1 TTTAATAATAATAAT
15709442 TTTAATAATAATAA-
1 TTTAATAATAATAAT
*
15709456 TTTAAAAATATATAAT
1 TTTAATAATA-ATAAT
15709472 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAATAATAATAAT
Found at i:15709918 original size:11 final size:11
Alignment explanation
Indices: 15709902--15709928 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15709892 GTCTCTCTTT
15709902 AAAAAAAAAGA
1 AAAAAAAAAGA
15709913 AAAAAAAAAGA
1 AAAAAAAAAGA
15709924 AAAAA
1 AAAAA
15709929 GGCAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:15710982 original size:30 final size:31
Alignment explanation
Indices: 15710938--15711009 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
15710928 GTGTTTTTTA
* *
15710938 AAACCCCTAAAATCCGAA-ATCCTTTAAATCC
1 AAACCCCTAAAATCC-AACATCCCTAAAATCC
15710969 AAACCCC-AAAATCCAACATCCCTAAAATCC
1 AAACCCCTAAAATCCAACATCCCTAAAATCC
*
15710999 AAACCCTTAAA
1 AAACCCCTAAA
15711010 TAAAAACTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 2 0.06
30 24 0.67
31 10 0.28
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (31 bp):
AAACCCCTAAAATCCAACATCCCTAAAATCC
Found at i:15710997 original size:16 final size:15
Alignment explanation
Indices: 15710942--15711010 Score: 70
Period size: 16 Copynumber: 4.6 Consensus size: 15
15710932 TTTTTAAAAC
15710942 CCCTAAAATCCGAAAT
1 CCCTAAAATCC-AAAT
* *
15710958 CCTTTAAATCCAAA-
1 CCCTAAAATCCAAAT
*
15710972 CCCCAAAATCCAACAT
1 CCCTAAAATCCAA-AT
15710988 CCCTAAAATCCAAA-
1 CCCTAAAATCCAAAT
*
15711002 CCCTTAAAT
1 CCCTAAAAT
15711011 AAAAACTCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
14 18 0.41
15 5 0.11
16 21 0.48
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.20
Consensus pattern (15 bp):
CCCTAAAATCCAAAT
Found at i:15711044 original size:14 final size:15
Alignment explanation
Indices: 15711012--15711073 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 15
15711002 CCCTTAAATA
15711012 AAAACTCCAAA-CCT
1 AAAACTCCAAACCCT
15711026 CAAAAC-CCAAACCCT
1 -AAAACTCCAAACCCT
*
15711041 AAAATCTCCAAACTCT
1 AAAA-CTCCAAACCCT
*
15711057 AAAA-TCAAAACCCT
1 AAAACTCCAAACCCT
15711071 AAA
1 AAA
15711074 CCTTTCATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 20 0.49
15 9 0.22
16 12 0.29
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAACTCCAAACCCT
Found at i:15711050 original size:30 final size:30
Alignment explanation
Indices: 15711010--15711073 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
15711000 AACCCTTAAA
*
15711010 TAAAAACTCCAAAC-CTCAAAACCCAAACCC
1 TAAAAACTCCAAACTCT-AAAACCAAAACCC
* *
15711040 TAAAATCTCCAAACTCTAAAATCAAAACCC
1 TAAAAACTCCAAACTCTAAAACCAAAACCC
15711070 TAAA
1 TAAA
15711074 CCTTTCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.16
Consensus pattern (30 bp):
TAAAAACTCCAAACTCTAAAACCAAAACCC
Found at i:15711051 original size:51 final size:51
Alignment explanation
Indices: 15710966--15711076 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
15710956 ATCCTTTAAA
* * *
15710966 TCCAAACCCCAAAATCCAACATCCCTAAAATCCAAACCCTTAAATAAAAAC
1 TCCAAACCTCAAAACCCAACATCCCTAAAATCCAAACCCTAAAATAAAAAC
* *
15711017 TCCAAACCTCAAAACCCAA-A-CCCTAAAATCTCCAAACTCTAAAATCAAAAC
1 TCCAAACCTCAAAACCCAACATCCCTAAAA--TCCAAACCCTAAAATAAAAAC
15711068 -CCTAAACCT
1 TCC-AAACCT
15711077 TTCATATCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
49 8 0.15
50 3 0.06
51 41 0.79
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (51 bp):
TCCAAACCTCAAAACCCAACATCCCTAAAATCCAAACCCTAAAATAAAAAC
Found at i:15711053 original size:16 final size:16
Alignment explanation
Indices: 15711010--15711062 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
15711000 AACCCTTAAA
*
15711010 TAAAAACTCCAAA-CC
1 TAAAATCTCCAAACCC
15711025 TCAAAA-C-CCAAACCC
1 T-AAAATCTCCAAACCC
*
15711040 TAAAATCTCCAAACTC
1 TAAAATCTCCAAACCC
15711056 TAAAATC
1 TAAAATC
15711063 AAAACCCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 9 0.27
15 6 0.18
16 18 0.55
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (16 bp):
TAAAATCTCCAAACCC
Found at i:15713685 original size:13 final size:13
Alignment explanation
Indices: 15713667--15713694 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15713657 GTTTGAACCG
15713667 TCAAACTCTGGCC
1 TCAAACTCTGGCC
15713680 TCAAACTCTGGCC
1 TCAAACTCTGGCC
15713693 TC
1 TC
15713695 CCGAAGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.14, T:0.25
Consensus pattern (13 bp):
TCAAACTCTGGCC
Found at i:15718182 original size:145 final size:145
Alignment explanation
Indices: 15717919--15718208 Score: 562
Period size: 145 Copynumber: 2.0 Consensus size: 145
15717909 AAAATCATCA
*
15717919 TACATCACATGTACTCATGGGGTAATGTGTTATTTTAGCTGATATCAGCATTGCTAGCACAAACT
1 TACATCACATGTACTCATGGGGTAATGTGTTATTTTAGCTGATATCAGCATTGCCAGCACAAACT
15717984 ATAACTAAGTTCACAATCCACCACATACAAGGGATTCAAAGCTACCAATCATACTACTAGTACAT
66 ATAACTAAGTTCACAATCCACCACATACAAGGGATTCAAAGCTACCAATCATACTACTAGTACAT
15718049 GCATGAAAGAAGCGG
131 GCATGAAAGAAGCGG
*
15718064 TACATCACATGTACTCATGGGGTAATGTGTTATTTTAGCTGATATCAGCATTGCCATCACAAACT
1 TACATCACATGTACTCATGGGGTAATGTGTTATTTTAGCTGATATCAGCATTGCCAGCACAAACT
15718129 ATAACTAAGTTCACAATCCACCACATACAAGGGATTCAAAGCTACCAATCATACTACTAGTACAT
66 ATAACTAAGTTCACAATCCACCACATACAAGGGATTCAAAGCTACCAATCATACTACTAGTACAT
15718194 GCATGAAAGAAGCGG
131 GCATGAAAGAAGCGG
15718209 ATGATTTTTA
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 143 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (145 bp):
TACATCACATGTACTCATGGGGTAATGTGTTATTTTAGCTGATATCAGCATTGCCAGCACAAACT
ATAACTAAGTTCACAATCCACCACATACAAGGGATTCAAAGCTACCAATCATACTACTAGTACAT
GCATGAAAGAAGCGG
Found at i:15721954 original size:27 final size:28
Alignment explanation
Indices: 15721916--15721994 Score: 117
Period size: 27 Copynumber: 2.9 Consensus size: 28
15721906 ACTTGCCAAT
15721916 TTCCCAACCAGCCCCTTCAAAACCAG-A
1 TTCCCAACCAGCCCCTTCAAAACCAGAA
*
15721943 TTCCCAACCAGCCCCTTCAAAACTAGAA
1 TTCCCAACCAGCCCCTTCAAAACCAGAA
* *
15721971 TT-TCAACCAGCCCCTTGAAAACCA
1 TTCCCAACCAGCCCCTTCAAAACCA
15721995 ACTTCTCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
27 44 0.94
28 3 0.06
ACGTcount: A:0.34, C:0.41, G:0.08, T:0.18
Consensus pattern (28 bp):
TTCCCAACCAGCCCCTTCAAAACCAGAA
Found at i:15736825 original size:34 final size:33
Alignment explanation
Indices: 15736787--15736871 Score: 80
Period size: 34 Copynumber: 2.5 Consensus size: 33
15736777 ATACTTTTTG
* *
15736787 AAAATATATTTTCAATACAATGAAAAAGTTTTCA
1 AAAATA-ATTTTCAATACAATAAAAAAATTTTCA
*** * *
15736821 AAAATGAATTTTTGGTACATTAAAAAAATTTTCG
1 AAAAT-AATTTTCAATACAATAAAAAAATTTTCA
15736855 AAAATAAATTTTCAATA
1 AAAAT-AATTTTCAATA
15736872 ATTTATTAAG
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (33 bp):
AAAATAATTTTCAATACAATAAAAAAATTTTCA
Found at i:15737999 original size:2 final size:2
Alignment explanation
Indices: 15737987--15738031 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
15737977 ACTTGCATGC
* * *
15737987 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AC AC AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15738028 AT AT
1 AT AT
15738032 TTCTACATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:15741183 original size:2 final size:2
Alignment explanation
Indices: 15741176--15741200 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15741166 AGTTCAAATT
15741176 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
15741201 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15741205 original size:2 final size:2
Alignment explanation
Indices: 15741200--15741236 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
15741190 TCTCTCTCTC
15741200 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15741237 ATGGATGCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15741662 original size:12 final size:11
Alignment explanation
Indices: 15741634--15741661 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15741624 TGAAACCTAC
15741634 TTTTTTCTTTT
1 TTTTTTCTTTT
15741645 TTTTTTCTTTT
1 TTTTTTCTTTT
15741656 TTTTTT
1 TTTTTT
15741662 TATGTTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:15742132 original size:2 final size:2
Alignment explanation
Indices: 15742125--15742150 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15742115 CATTCTAGAA
15742125 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
15742151 GTAAAGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15750490 original size:15 final size:15
Alignment explanation
Indices: 15750472--15750502 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15750462 CAGTGGTAAC
*
15750472 AGCTGCAGTAAAGTT
1 AGCTGCAGCAAAGTT
15750487 AGCTGCAGCAAAGTT
1 AGCTGCAGCAAAGTT
15750502 A
1 A
15750503 TTAACCCTTA
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:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (15 bp):
AGCTGCAGCAAAGTT
Found at i:15751105 original size:2 final size:2
Alignment explanation
Indices: 15751100--15751128 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15751090 ATAGTCTAGT
15751100 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 A
15751129 ACTAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15752866 original size:30 final size:29
Alignment explanation
Indices: 15752801--15752886 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
15752791 TTAATTTTTA
* * * *
15752801 ATTTATTTAAAATTATTATATACAATTCAT
1 ATTTATTTAAAA-TATTAAATATAATACAC
15752831 ATTTATTTAAAACTATTAAATATAATACAC
1 ATTTATTTAAAA-TATTAAATATAATACAC
* * *
15752861 GTTTATCTAAAATCATTAAATGTAAT
1 ATTTATTTAAAAT-ATTAAATATAAT
15752887 TCATAATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.02
30 46 0.98
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTTATTTAAAATATTAAATATAATACAC
Found at i:15769901 original size:16 final size:17
Alignment explanation
Indices: 15769882--15769918 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
15769872 CAAAAATATA
*
15769882 TTTATATATCA-ATAAG
1 TTTATATATAATATAAG
15769898 TTTATATATAATATAAG
1 TTTATATATAATATAAG
15769915 TTTA
1 TTTA
15769919 ATTTTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
TTTATATATAATATAAG
Found at i:15773362 original size:30 final size:29
Alignment explanation
Indices: 15773305--15773376 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
15773295 TTCTATTTTT
* * *
15773305 AATAATTTTTTATATTTTTAATGTATTTA
1 AATAAATTTTTATATTTTGAATATATTTA
*
15773334 AATAAATTTTTATATTTTGATTTATATTTA
1 AATAAATTTTTATATTTTGA-ATATATTTA
* *
15773364 AGTAAAATTTTAT
1 AATAAATTTTTAT
15773377 TTTAAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 18 0.50
30 18 0.50
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (29 bp):
AATAAATTTTTATATTTTGAATATATTTA
Found at i:15773388 original size:18 final size:18
Alignment explanation
Indices: 15773354--15773387 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15773344 TATATTTTGA
*
15773354 TTTATATTTAAGTAAAAT
1 TTTATATTTAAATAAAAT
15773372 TTTAT-TTTAAATAAAA
1 TTTATATTTAAATAAAA
15773388 AGTAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTATATTTAAATAAAAT
Found at i:15773868 original size:24 final size:24
Alignment explanation
Indices: 15773841--15773890 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
15773831 AAGAAGTTAT
15773841 AACATTTTTTGAAAATACATTTTC
1 AACATTTTTTGAAAATACATTTTC
**
15773865 AACATTTTTTGAAAATGTATTTTC
1 AACATTTTTTGAAAATACATTTTC
15773889 AA
1 AA
15773891 AAAGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (24 bp):
AACATTTTTTGAAAATACATTTTC
Found at i:15773998 original size:16 final size:16
Alignment explanation
Indices: 15773980--15774010 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15773970 TTATTATTAA
15773980 AAAATT-ATAAATTTT
1 AAAATTAATAAATTTT
15773995 AAAATTAATAAATTTT
1 AAAATTAATAAATTTT
15774011 TTTTTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATTAATAAATTTT
Done.