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 45 of 77
Found at i:8721306 original size:22 final size:22
Alignment explanation
Indices: 8721115--8721342 Score: 87
Period size: 22 Copynumber: 10.5 Consensus size: 22
8721105 ATAGTAAATC
* * *
8721115 ATCAATAATAACTTAATAGTAA
1 ATCATTAATAATTTAGTAGTAA
** *
8721137 ATCATGCATAATTTAATA-TAA
1 ATCATTAATAATTTAGTAGTAA
* * *
8721158 AACAGTAATAACTTTA-TAGTGA
1 ATCATTAATAA-TTTAGTAGTAA
*
8721180 ATCATAAATAATTTAGT-GATAA
1 ATCATTAATAATTTAGTAG-TAA
* *
8721202 ATCAGTAATAATTTTGT-GATAA
1 ATCATTAATAATTTAGTAG-TAA
* * * * *
8721224 ATAATTAAAAATTAAATAGTCA
1 ATCATTAATAATTTAGTAGTAA
* * ** * *
8721246 ATCAATGATAATACAATAAT-A
1 ATCATTAATAATTTAGTAGTAA
* *
8721267 ATTATATAA-ATATGTAGTAGTAA
1 ATCAT-TAATA-ATTTAGTAGTAA
*
8721290 ATCATTAATAATTTAGTAAT-A
1 ATCATTAATAATTTAGTAGTAA
* *
8721311 AT--TTGATAATTTAGTATTAA
1 ATCATTAATAATTTAGTAGTAA
*
8721331 ATCACTAATAAT
1 ATCATTAATAAT
8721343 GTAATAGCAA
Statistics
Matches: 150, Mismatches: 44, Indels: 24
0.69 0.20 0.11
Matches are distributed among these distances:
19 14 0.09
20 3 0.02
21 25 0.17
22 101 0.67
23 7 0.05
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (22 bp):
ATCATTAATAATTTAGTAGTAA
Found at i:8721308 original size:19 final size:20
Alignment explanation
Indices: 8721284--8721326 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
8721274 AAATATGTAG
*
8721284 TAGTAAATCA-TTAATAATT
1 TAGTAAATAATTTAATAATT
*
8721303 TAGT-AATAATTTGATAATT
1 TAGTAAATAATTTAATAATT
8721322 TAGTA
1 TAGTA
8721327 TTAAATCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (20 bp):
TAGTAAATAATTTAATAATT
Found at i:8721385 original size:22 final size:22
Alignment explanation
Indices: 8721295--8721402 Score: 62
Period size: 22 Copynumber: 5.0 Consensus size: 22
8721285 AGTAAATCAT
*
8721295 TAATAATTTAGTAAT-AATT--
1 TAATAATTTAATAATAAATTAG
* * * * *
8721314 TGATAATTTAGTATTAAATCAC
1 TAATAATTTAATAATAAATTAG
* ** *
8721336 TAATAATGTAATAGCAAATTAC
1 TAATAATTTAATAATAAATTAG
* *
8721358 TAATAACTTT-TTTATAAATTAG
1 TAATAA-TTTAATAATAAATTAG
*
8721380 TGATAATTTAATAATAAATTAG
1 TAATAATTTAATAATAAATTAG
8721402 T
1 T
8721403 TAATTACTAA
Statistics
Matches: 66, Mismatches: 18, Indels: 7
0.73 0.20 0.08
Matches are distributed among these distances:
19 13 0.20
20 3 0.05
21 3 0.05
22 45 0.68
23 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (22 bp):
TAATAATTTAATAATAAATTAG
Found at i:8721415 original size:19 final size:21
Alignment explanation
Indices: 8721371--8721415 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
8721361 TAACTTTTTT
8721371 ATAAATTAGTGATAATTTAATA
1 ATAAATTAGT-ATAATTTAATA
*
8721393 ATAAATTAGT-TAA-TTACTA
1 ATAAATTAGTATAATTTAATA
8721412 ATAA
1 ATAA
8721416 CCTTTTAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 3 0.14
22 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
ATAAATTAGTATAATTTAATA
Found at i:8721428 original size:52 final size:52
Alignment explanation
Indices: 8721352--8721450 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
8721342 TGTAATAGCA
* * *
8721352 AATTACTAATAACTTTTTTATAAATTAGTGAT-AATTTAATAATAAATTAGTT
1 AATTACTAATAACTCTTTTATAAATCAATGATAAATTT-ATAATAAATTAGTT
*
8721404 AATTACTAATAAC-CTTTTAGTAAATCAATTATAAATTTATAATAAAT
1 AATTACTAATAACTCTTTTA-TAAATCAATGATAAATTTATAATAAAT
8721451 CATTAATAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 5 0.12
52 31 0.76
53 5 0.12
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (52 bp):
AATTACTAATAACTCTTTTATAAATCAATGATAAATTTATAATAAATTAGTT
Found at i:8721536 original size:22 final size:22
Alignment explanation
Indices: 8721511--8721580 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
8721501 AACTCAACAA
*
8721511 CAAATCCTTCATAAATTAGTAG
1 CAAATCATTCATAAATTAGTAG
8721533 CAAATCATTCATAAATTAGTAG
1 CAAATCATTCATAAATTAGTAG
* * * * *
8721555 TACATAATTGATAACTTAGTAG
1 CAAATCATTCATAAATTAGTAG
8721577 CAAA
1 CAAA
8721581 CAACTATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.31
Consensus pattern (22 bp):
CAAATCATTCATAAATTAGTAG
Found at i:8721962 original size:22 final size:22
Alignment explanation
Indices: 8721907--8721971 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
8721897 CTAATAATTA
* * *
8721907 ATAACTTAATAAAAAATCAATG
1 ATAACTTAATAGAAAATTAGTG
*
8721929 ATAATTTAATAGAAAATTAGTG
1 ATAACTTAATAGAAAATTAGTG
*
8721951 ATAACTTAATAGCAAATTAGT
1 ATAACTTAATAGAAAATTAGT
8721972 TTCATTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.32
Consensus pattern (22 bp):
ATAACTTAATAGAAAATTAGTG
Found at i:8722043 original size:22 final size:22
Alignment explanation
Indices: 8722018--8722185 Score: 85
Period size: 22 Copynumber: 7.6 Consensus size: 22
8722008 TGAATCACAA
8722018 ATAACTTAATAATAAATCAATG
1 ATAACTTAATAATAAATCAATG
* * * * *
8722040 ATAATTTAGTAGTTAATCATTG
1 ATAACTTAATAATAAATCAATG
* *
8722062 AAAACTTAA-AAGTAATTCAAT-
1 ATAACTTAATAA-TAAATCAATG
* *
8722083 ATAACTTAGTAATAGTTAATC-ATCA
1 ATAACTTAATAATA---AATCAAT-G
* *
8722108 ATAACTTAATAGTTAATCAATG
1 ATAACTTAATAATAAATCAATG
* * * *
8722130 ATAATTTGATAGTAAAT-TATG
1 ATAACTTAATAATAAATCAATG
* *
8722151 AATAATTTAAT-ATAAAACAATG
1 -ATAACTTAATAATAAATCAATG
*
8722173 ATAACTTGATAAT
1 ATAACTTAATAAT
8722186 GAGTTATGGT
Statistics
Matches: 106, Mismatches: 29, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
21 25 0.24
22 63 0.59
23 4 0.04
24 3 0.03
25 11 0.10
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAATG
Found at i:8722271 original size:22 final size:22
Alignment explanation
Indices: 8722246--8722343 Score: 67
Period size: 22 Copynumber: 4.5 Consensus size: 22
8722236 GAAAAAACGA
8722246 AGTAGTAAATCAATGATAACAT
1 AGTAGTAAATCAATGATAACAT
* *
8722268 AGTACTAAATGC-ATAATAACAT
1 AGTAGTAAAT-CAATGATAACAT
* * **
8722290 AAT-GATAAATCATTGATAATTT
1 AGTAG-TAAATCAATGATAACAT
* * *
8722312 AG-ATGTAAATTATTGATAACTT
1 AGTA-GTAAATCAATGATAACAT
8722334 AGTAGTAAAT
1 AGTAGTAAAT
8722344 TACTAATAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.02
22 55 0.93
23 3 0.05
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (22 bp):
AGTAGTAAATCAATGATAACAT
Found at i:8722344 original size:22 final size:22
Alignment explanation
Indices: 8722295--8722345 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
8722285 AACATAATGA
* *
8722295 TAAATCATTGATAATTTAGATG
1 TAAATTATTGATAACTTAGATG
8722317 TAAATTATTGATAACTTAG-TAG
1 TAAATTATTGATAACTTAGAT-G
8722339 TAAATTA
1 TAAATTA
8722346 CTAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (22 bp):
TAAATTATTGATAACTTAGATG
Found at i:8722741 original size:29 final size:30
Alignment explanation
Indices: 8722708--8722777 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
8722698 ATTTATTATT
* *
8722708 AGTGATCAAATTATAAA-TTTT-CAAAATTG
1 AGTGATCAAA-TAAAAATTTTTACAAAATTA
* *
8722737 AGTGAGCAGAATAAAAATTTTTAGAAAATTA
1 AGTGATCA-AATAAAAATTTTTACAAAATTA
8722768 AGTGATCAAA
1 AGTGATCAAA
8722778 ATGTAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
29 12 0.36
30 8 0.24
31 13 0.39
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (30 bp):
AGTGATCAAATAAAAATTTTTACAAAATTA
Found at i:8722890 original size:12 final size:12
Alignment explanation
Indices: 8722873--8722898 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8722863 GTTTTCCAGC
8722873 TTTCAATCAAAT
1 TTTCAATCAAAT
8722885 TTTCAATCAAAT
1 TTTCAATCAAAT
8722897 TT
1 TT
8722899 ATAAGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTCAATCAAAT
Found at i:8722890 original size:40 final size:40
Alignment explanation
Indices: 8722845--8722929 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
8722835 TCAATAATGC
8722845 TTTCAATCAAATTTATAAGTTTTCCAGCTTTCAATCAAAT
1 TTTCAATCAAATTTATAAGTTTTCCAGCTTTCAATCAAAT
* *
8722885 TTTCAATCAAATTTATAAGTTTTTCTGCTTTCAATCAAAT
1 TTTCAATCAAATTTATAAGTTTTCCAGCTTTCAATCAAAT
8722925 TTTCA
1 TTTCA
8722930 CATTTAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (40 bp):
TTTCAATCAAATTTATAAGTTTTCCAGCTTTCAATCAAAT
Found at i:8723831 original size:15 final size:16
Alignment explanation
Indices: 8723805--8723835 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8723795 AATAATATAA
8723805 TTAAGTTAATTTGATT
1 TTAAGTTAATTTGATT
8723821 TTAAG-TAATTTGATT
1 TTAAGTTAATTTGATT
8723836 CAGAATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (16 bp):
TTAAGTTAATTTGATT
Found at i:8725865 original size:15 final size:15
Alignment explanation
Indices: 8725845--8725877 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8725835 TTTTAATATT
8725845 TTTATATGATAA-AAA
1 TTTATAT-ATAATAAA
8725860 TTTATATATAATAAA
1 TTTATATATAATAAA
8725875 TTT
1 TTT
8725878 TTTTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTTATATATAATAAA
Found at i:8728156 original size:22 final size:22
Alignment explanation
Indices: 8728131--8728187 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
8728121 TGTAATCGGT
** *
8728131 ATAATTTAGTAGTAAATTAGTA
1 ATAATTTAGTAGTAAAAGAATA
* *
8728153 ATAATTTAATAGTAAAAGAATG
1 ATAATTTAGTAGTAAAAGAATA
8728175 ATAATTTAGTAGT
1 ATAATTTAGTAGT
8728188 TAATAGTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (22 bp):
ATAATTTAGTAGTAAAAGAATA
Found at i:8728414 original size:22 final size:22
Alignment explanation
Indices: 8728320--8728415 Score: 93
Period size: 22 Copynumber: 4.4 Consensus size: 22
8728310 ATTAAACAAA
* *
8728320 AAATAAGTGACAACTTAATAGT
1 AAATTAGTGATAACTTAATAGT
* * * * *
8728342 TAATTATTTATAACTTAGTAAT
1 AAATTAGTGATAACTTAATAGT
* * *
8728364 GAATCAATGATAACTTAATAGT
1 AAATTAGTGATAACTTAATAGT
*
8728386 AAATTAGTGATAATTTAATAGT
1 AAATTAGTGATAACTTAATAGT
8728408 AAATTAGT
1 AAATTAGT
8728416 TTCAGTTTAA
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (22 bp):
AAATTAGTGATAACTTAATAGT
Found at i:8728546 original size:22 final size:21
Alignment explanation
Indices: 8728458--8728557 Score: 71
Period size: 22 Copynumber: 4.7 Consensus size: 21
8728448 ATTCATTGAA
* *
8728458 AACTTAAAAGTAAATTAGT-AT
1 AACTTAATAGTAAATCA-TCAT
*
8728479 AACTTAGTAGTAAATCATCAAT
1 AACTTAATAGTAAATCATC-AT
* * *
8728501 TA-TATAATAGTTAATCAATAAT
1 AACT-TAATAGTAAATC-ATCAT
8728523 AACTTAATAGTAAATCATGCAT
1 AACTTAATAGTAAATCAT-CAT
*
8728545 AATTTAATA-TAAA
1 AACTTAATAGTAAA
8728558 ACAGTAATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
20 1 0.02
21 21 0.34
22 37 0.60
23 3 0.05
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (21 bp):
AACTTAATAGTAAATCATCAT
Found at i:8728690 original size:42 final size:41
Alignment explanation
Indices: 8728622--8728730 Score: 105
Period size: 42 Copynumber: 2.7 Consensus size: 41
8728612 TTTTGTGATA
* *
8728622 AATAAT-TAAAAAT-TAAATAGTCAATCAATGATAATATAAT
1 AATAATATAAAAATAT-AGTAGTAAATCAATGATAATATAAT
* * *
8728662 AATAAATATAAAAATATAGTAGTAAATCATTGATAATTTAGT
1 AAT-AATATAAAAATATAGTAGTAAATCAATGATAATATAAT
* * * *
8728704 AATAATTTGATAATTTAGTAGTAAATC
1 AATAATATAAAAATATAGTAGTAAATC
8728731 CCTAAAAACG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.05
41 23 0.40
42 30 0.53
43 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (41 bp):
AATAATATAAAAATATAGTAGTAAATCAATGATAATATAAT
Found at i:8728704 original size:22 final size:22
Alignment explanation
Indices: 8728477--8728730 Score: 110
Period size: 22 Copynumber: 11.8 Consensus size: 22
8728467 GTAAATTAGT
* *
8728477 ATAACTTAGTAGTAAATCATCA
1 ATAATTTAGTAGTAAATCATTA
* * * * *
8728499 ATTATATAATAGTTAATCAATA
1 ATAATTTAGTAGTAAATCATTA
* * **
8728521 ATAACTTAATAGTAAATCATGC
1 ATAATTTAGTAGTAAATCATTA
* * *
8728543 ATAATTTAATA-TAAAACAGTA
1 ATAATTTAGTAGTAAATCATTA
* * * * *
8728564 ATAACTTGGTATTGAATCATAA
1 ATAATTTAGTAGTAAATCATTA
*
8728586 ATAATTTAGT-GATAAATCAATA
1 ATAATTTAGTAG-TAAATCATTA
* *
8728608 ATAATTTTGT-GATAAATAATTA
1 ATAATTTAGTAG-TAAATCATTA
* * * * * *
8728630 AAAATTAAATAGTCAATCAATG
1 ATAATTTAGTAGTAAATCATTA
* * *
8728652 ATAATATAATAATAAAT-A-TA
1 ATAATTTAGTAGTAAATCATTA
* * *
8728672 AAAATATAGTAGTAAATCATTG
1 ATAATTTAGTAGTAAATCATTA
* *
8728694 ATAATTTAGTAAT-AAT--TTG
1 ATAATTTAGTAGTAAATCATTA
8728713 ATAATTTAGTAGTAAATC
1 ATAATTTAGTAGTAAATC
8728731 CCTAAAAACG
Statistics
Matches: 168, Mismatches: 57, Indels: 15
0.70 0.24 0.06
Matches are distributed among these distances:
19 15 0.09
20 18 0.11
21 19 0.11
22 115 0.68
23 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCATTA
Found at i:8728705 original size:19 final size:20
Alignment explanation
Indices: 8728681--8728723 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
8728671 AAAAATATAG
*
8728681 TAGTAAATCA-TTGATAATT
1 TAGTAAATAATTTGATAATT
8728700 TAGT-AATAATTTGATAATT
1 TAGTAAATAATTTGATAATT
8728719 TAGTA
1 TAGTA
8728724 GTAAATCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (20 bp):
TAGTAAATAATTTGATAATT
Found at i:8728782 original size:22 final size:22
Alignment explanation
Indices: 8728748--8728799 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
8728738 ACGTAATAGC
* *
8728748 AAATTACTAATAACTTT-ATTAT
1 AAATTAGTAATAA-TTTGATAAT
* *
8728770 AAATTAGTGATAATTTGGTAAT
1 AAATTAGTAATAATTTGATAAT
8728792 AAATTAGT
1 AAATTAGT
8728800 TAATTACTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (22 bp):
AAATTAGTAATAATTTGATAAT
Found at i:8728987 original size:22 final size:22
Alignment explanation
Indices: 8728818--8728999 Score: 97
Period size: 22 Copynumber: 8.3 Consensus size: 22
8728808 GATAACTTTT
* *
8728818 TAGTATATCA-TCAGTAAATAAG
1 TAGTAAATCATTCA-TAAATTAG
8728840 TAGTAAATCAATT-ATAAATTTA-
1 TAGTAAATC-ATTCATAAA-TTAG
* * *
8728862 TAATAAATCA-TCAATAACTTAA
1 TAGTAAATCATTC-ATAAATTAG
* * *
8728884 TAGTAAATCACT-A-ACAATGAT
1 TAGTAAATCATTCATA-AATTAG
* * * *
8728905 TGGTAAATTATTCATAACTTAA
1 TAGTAAATCATTCATAAATTAG
* * *
8728927 TAGCAAATCCTTCAAAAATTAG
1 TAGTAAATCATTCATAAATTAG
*
8728949 TAGCAAATCATTCATAAATTAG
1 TAGTAAATCATTCATAAATTAG
* * * *
8728971 TAGTACATTATTGATAACTTAG
1 TAGTAAATCATTCATAAATTAG
8728993 TAGTAAA
1 TAGTAAA
8729000 CAACTATTAA
Statistics
Matches: 121, Mismatches: 29, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
20 2 0.02
21 17 0.14
22 95 0.79
23 6 0.05
24 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
TAGTAAATCATTCATAAATTAG
Found at i:8729364 original size:22 final size:22
Alignment explanation
Indices: 8729339--8729389 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
8729329 AACTTAATGA
8729339 AAAATCAATGAGAATTTAATAG
1 AAAATCAATGAGAATTTAATAG
* * *
8729361 AAAATTAGTGATAATTTAATAG
1 AAAATCAATGAGAATTTAATAG
*
8729383 TAAATCA
1 AAAATCA
8729390 GTTTCATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (22 bp):
AAAATCAATGAGAATTTAATAG
Found at i:8729447 original size:45 final size:44
Alignment explanation
Indices: 8729398--8729595 Score: 163
Period size: 44 Copynumber: 4.5 Consensus size: 44
8729388 CAGTTTCATT
* *
8729398 TTAATAGTAATTAATTGATAAATTTAGTAGTGAATCATAAATAAC
1 TTAATAGTAATCAA-TGATAAATTTAGTAGTTAATCATAAATAAC
* *
8729443 TTAATAGTAAATCAATGAT-AATTTAGTAATTAATCATTGAA-AAC
1 TTAATAGT-AATCAATGATAAATTTAGTAGTTAATCA-TAAATAAC
* * * *
8729487 TTAAAAGTATTCAAT-ATAACTTAGTAGTAGTTAATCATCAATAAC
1 TTAATAGTAATCAATGATAAATT--TAGTAGTTAATCATAAATAAC
* * * * * *
8729532 TTAATAGTTAATCAATGATAACTTGA-TAGTAAATTATGAATAAT
1 TTAATAG-TAATCAATGATAAATTTAGTAGTTAATCATAAATAAC
*
8729576 TTAATA-TAAAACAATGATAA
1 TTAATAGT-AATCAATGATAA
8729596 CTTGATAATG
Statistics
Matches: 127, Mismatches: 17, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
42 3 0.02
43 20 0.16
44 48 0.38
45 37 0.29
46 12 0.09
47 7 0.06
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (44 bp):
TTAATAGTAATCAATGATAAATTTAGTAGTTAATCATAAATAAC
Found at i:8729455 original size:22 final size:22
Alignment explanation
Indices: 8729425--8729585 Score: 64
Period size: 22 Copynumber: 7.3 Consensus size: 22
8729415 ATAAATTTAG
*
8729425 TAGTGAATCATAAATAACTTAA
1 TAGTAAATCATAAATAACTTAA
* * *
8729447 TAGTAAATCA-ATGATAATTTAG
1 TAGTAAATCATA-AATAACTTAA
* * *
8729469 TAATTAATCATTGAA-AACTTAA
1 TAGTAAATCA-TAAATAACTTAA
* * *
8729491 AAGT-ATTCA-ATATAACTTAGTA
1 TAGTAAATCATAAATAACTTA--A
* *
8729513 GTAGTTAATCATCAATAACTTAA
1 -TAGTAAATCATAAATAACTTAA
* * *
8729536 TAGTTAATCA-ATGATAACTTGA
1 TAGTAAATCATA-AATAACTTAA
* * *
8729558 TAGTAAATTATGAATAATTTAA
1 TAGTAAATCATAAATAACTTAA
8729580 TA-TAAA
1 TAGTAAA
8729586 ACAATGATAA
Statistics
Matches: 100, Mismatches: 28, Indels: 23
0.66 0.19 0.15
Matches are distributed among these distances:
19 1 0.01
20 6 0.06
21 9 0.09
22 67 0.67
23 5 0.05
24 4 0.04
25 8 0.08
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
TAGTAAATCATAAATAACTTAA
Found at i:8729462 original size:89 final size:88
Alignment explanation
Indices: 8729354--8729565 Score: 205
Period size: 89 Copynumber: 2.4 Consensus size: 88
8729344 CAATGAGAAT
* * * ** ** *
8729354 TTAATAGAAAATTAGTGATAATTTAATAGTAAATCAGTT-TCATTTTAATAGTAATT-AATTGAT
1 TTAATAGTAAATCAATGATAATTTAATAGTAAATCA-TTGAAAACTTAAAAGT-ATTCAA-T-AT
8729417 AAATT-TAGTAGTGAATCATAAATAAC
62 AAATTATAGTAGTGAATCATAAATAAC
* * * *
8729443 TTAATAGTAAATCAATGATAATTTAGTAATTAATCATTGAAAACTTAAAAGTATTCAATATAACT
1 TTAATAGTAAATCAATGATAATTTAATAGTAAATCATTGAAAACTTAAAAGTATTCAATATAAAT
* *
8729508 TAGTAGTAGTTAATCATCAATAAC
66 TA-TAGTAGTGAATCATAAATAAC
* * *
8729532 TTAATAGTTAATCAATGATAACTTGATAGTAAAT
1 TTAATAGTAAATCAATGATAATTTAATAGTAAAT
8729566 TATGAATAAT
Statistics
Matches: 99, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
87 6 0.06
88 6 0.06
89 87 0.88
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (88 bp):
TTAATAGTAAATCAATGATAATTTAATAGTAAATCATTGAAAACTTAAAAGTATTCAATATAAAT
TATAGTAGTGAATCATAAATAAC
Found at i:8729598 original size:43 final size:44
Alignment explanation
Indices: 8729437--8729612 Score: 128
Period size: 43 Copynumber: 4.0 Consensus size: 44
8729427 GTGAATCATA
* * * *
8729437 AATAACTTAATAGTAAATCAATGATAA-TTTAGTAATTAATCATTG
1 AATAACTTAATAGTAAAACAATGATAACTTGA-TAATAAATTA-TG
* ** * * * *
8729482 AA-AACTTAAAAGT-ATTCAAT-ATAACTTAGTAGTAGTTAATCATC
1 AATAACTTAATAGTAAAACAATGATAACTT-G-A-TAATAAATTATG
* * *
8729526 AATAACTTAATAGTTAATCAATGATAACTTGATAGTAAATTATG
1 AATAACTTAATAGTAAAACAATGATAACTTGATAATAAATTATG
* *
8729570 AATAATTTAATA-TAAAACAATGATAACTTGATAATGAATTATG
1 AATAACTTAATAGTAAAACAATGATAACTTGATAATAAATTATG
8729613 GTTAATTTTG
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
42 4 0.04
43 35 0.32
44 33 0.30
45 24 0.22
46 7 0.06
47 7 0.06
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (44 bp):
AATAACTTAATAGTAAAACAATGATAACTTGATAATAAATTATG
Found at i:8729738 original size:22 final size:22
Alignment explanation
Indices: 8729692--8730037 Score: 109
Period size: 22 Copynumber: 15.6 Consensus size: 22
8729682 AACATAGTAC
* *
8729692 TAAATGCA-TAATAATATAATGG
1 TAAAT-CATTAATAATTTAATAG
8729714 TAAATCATTAATAATTTAGAT-G
1 TAAATCATTAATAATTTA-ATAG
* * *
8729736 TAAATTATTGATAACTTAATAG
1 TAAATCATTAATAATTTAATAG
* * *
8729758 TAAATTACTAATAATTTAATTG
1 TAAATCATTAATAATTTAATAG
* * * *
8729780 TAAATAAGTGATAA-TTAGTAG
1 TAAATCATTAATAATTTAATAG
*
8729801 TAAAGT-AGTTAATCATTATAACTTTGTAG
1 TAAA-TCA-TTAATAATT-TAA-----TAG
* * * *
8729830 GAAATCATCAGTAAATTAATAG
1 TAAATCATTAATAATTTAATAG
* *
8729852 TAAATCAATT-ATAACTTT-GTAA
1 TAAATC-ATTAATAA-TTTAATAG
* * *
8729874 CAAATCA-T--CAA-TTAGTAG
1 TAAATCATTAATAATTTAATAG
* * *
8729892 TAAATTATTAACAATTTAGTAG
1 TAAATCATTAATAATTTAATAG
* * * *
8729914 TAAATTAATGATAACTTAATAG
1 TAAATCATTAATAATTTAATAG
* *
8729936 TAAATTATTGATAATTTAATAG
1 TAAATCATTAATAATTTAATAG
** * * *
8729958 TATTTGATTAATAGTTTAGTAG
1 TAAATCATTAATAATTTAATAG
* * * *
8729980 TAAATCGTTGAGAATATAATAG
1 TAAATCATTAATAATTTAATAG
* * * *
8730002 TAAATTAATAATAACTTAATTG
1 TAAATCATTAATAATTTAATAG
*
8730024 TTAATCATTAATAA
1 TAAATCATTAATAA
8730038 ATTTTTTTAT
Statistics
Matches: 238, Mismatches: 66, Indels: 40
0.69 0.19 0.12
Matches are distributed among these distances:
17 2 0.01
18 8 0.03
19 3 0.01
20 1 0.00
21 18 0.08
22 181 0.76
23 7 0.03
24 2 0.01
27 3 0.01
28 6 0.03
29 7 0.03
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (22 bp):
TAAATCATTAATAATTTAATAG
Found at i:8730014 original size:44 final size:44
Alignment explanation
Indices: 8729911--8730032 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
8729901 AACAATTTAG
* * * *
8729911 TAGTAAATTAATGATAACTTAATAGTAAATTATTGATAATTTAA
1 TAGTAAATTAATAATAACTTAATAGTAAATCATTGAGAATATAA
* * ** * *
8729955 TAGT-ATTTGATTAATAGTTTAGTAGTAAATCGTTGAGAATATAA
1 TAGTAAATT-AATAATAACTTAATAGTAAATCATTGAGAATATAA
* *
8729999 TAGTAAATTAATAATAACTTAATTGTTAATCATT
1 TAGTAAATTAATAATAACTTAATAGTAAATCATT
8730033 AATAAATTTT
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
43 3 0.05
44 52 0.90
45 3 0.05
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.42
Consensus pattern (44 bp):
TAGTAAATTAATAATAACTTAATAGTAAATCATTGAGAATATAA
Found at i:8731878 original size:12 final size:12
Alignment explanation
Indices: 8731863--8731900 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
8731853 TCAATAATGC
8731863 TTTCAATCAAAT
1 TTTCAATCAAAT
8731875 TTTCAATCAAAT
1 TTTCAATCAAAT
8731887 TTTCAATCAAAT
1 TTTCAATCAAAT
8731899 TT
1 TT
8731901 ATAAGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTCAATCAAAT
Found at i:8732830 original size:15 final size:16
Alignment explanation
Indices: 8732804--8732834 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8732794 AATAATATAA
8732804 TTAAGTTAATTTGATT
1 TTAAGTTAATTTGATT
8732820 TTAAG-TAATTTGATT
1 TTAAGTTAATTTGATT
8732835 CAAAATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (16 bp):
TTAAGTTAATTTGATT
Found at i:8733771 original size:15 final size:16
Alignment explanation
Indices: 8733746--8733776 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8733736 AATAATATAA
8733746 TTAAGTTAATTTGATT
1 TTAAGTTAATTTGATT
8733762 TTAA-TTAATTTGATT
1 TTAAGTTAATTTGATT
8733777 CAAAATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TTAAGTTAATTTGATT
Found at i:8734508 original size:58 final size:58
Alignment explanation
Indices: 8734328--8734594 Score: 389
Period size: 58 Copynumber: 4.6 Consensus size: 58
8734318 GTGCAGGGAC
* * *
8734328 AATTGATACTTTCAAGTTTTTC-CCAAAATATTTTTTAGAAA-CTTTAATTTT-GAGGAA
1 AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGC-TT-ATTTTCAAGGAA
* * *
8734385 AATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTTTAGAAAGCTTATTTTCGAGGAA
1 AATTGATACTTTCAACTTTTTCTCAAAAAT-A-TTTTTTAGAAAGCTTATTTTCAAGGAA
8734445 AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAA
1 AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAA
*
8734503 AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGGAA
1 AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAA
*
8734561 AATTGATACTTTTC-ACTTTTCCTCAAAAATATTT
1 AATTGATAC-TTTCAACTTTTTCTCAAAAATATTT
8734595 CAAAACATAT
Statistics
Matches: 196, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
57 20 0.10
58 117 0.60
59 11 0.06
60 47 0.24
61 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (58 bp):
AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAA
Found at i:8737358 original size:9 final size:8
Alignment explanation
Indices: 8737346--8737384 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 8
8737336 TTTTTGCCAT
8737346 TTTTTTTA
1 TTTTTTTA
8737354 CTTTTTTTA
1 -TTTTTTTA
8737363 -TTTTTTA
1 TTTTTTTA
8737370 TTTTTTTTA
1 -TTTTTTTA
8737379 TTTTTT
1 TTTTTT
8737385 GTTTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.25
8 6 0.21
9 15 0.54
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:8737389 original size:16 final size:16
Alignment explanation
Indices: 8737347--8737390 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
8737337 TTTTGCCATT
*
8737347 TTTTTTACTTTTTTTA
1 TTTTTTATTTTTTTTA
8737363 TTTTTTATTTTTTTTA
1 TTTTTTATTTTTTTTA
*
8737379 TTTTTTGTTTTT
1 TTTTTTATTTTT
8737391 AAATTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.09, C:0.02, G:0.02, T:0.86
Consensus pattern (16 bp):
TTTTTTATTTTTTTTA
Found at i:8737583 original size:45 final size:44
Alignment explanation
Indices: 8737528--8737770 Score: 232
Period size: 42 Copynumber: 5.7 Consensus size: 44
8737518 GGCTCAACGA
* *
8737528 CAGAGACTCAACAACTTTGAAAAAATAAACAAAGGCTCCTTTAAG
1 CAGAGGCTCAACAACTTTGAAAAAATAAA-AAAGGCTCCTCTAAG
** *
8737573 CAGAGGCTCAACAACTTTGAAAAAATAAATTA--CTCCTCTAAA
1 CAGAGGCTCAACAACTTTGAAAAAATAAAAAAGGCTCCTCTAAG
* *
8737615 CAGAGGCTCAACGACTTTGAAAAAATAAATAAAGGCTCATCTAAG
1 CAGAGGCTCAACAACTTTGAAAAAATAAA-AAAGGCTCCTCTAAG
* ** *
8737660 CAGAGGCTCAACGACTTTGAAAAAAT--AAATTGCTCCTCTAAT
1 CAGAGGCTCAACAACTTTGAAAAAATAAAAAAGGCTCCTCTAAG
* ** * * *
8737702 TAGAGGCTCAATGACTTTG-AAAAAT--AAATGGCTCCTATAAT
1 CAGAGGCTCAACAACTTTGAAAAAATAAAAAAGGCTCCTCTAAG
* * *
8737743 CAGAGGCTTAACGACTTTG-GAAAATAAA
1 CAGAGGCTCAACAACTTTGAAAAAATAAA
8737771 TAAATTCTCT
Statistics
Matches: 171, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
41 41 0.24
42 64 0.37
43 3 0.02
44 1 0.01
45 62 0.36
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (44 bp):
CAGAGGCTCAACAACTTTGAAAAAATAAAAAAGGCTCCTCTAAG
Found at i:8737622 original size:42 final size:42
Alignment explanation
Indices: 8737527--8737829 Score: 249
Period size: 45 Copynumber: 7.2 Consensus size: 42
8737517 AGGCTCAACG
* * * *
8737527 ACAGAGACTCAACAACTTTGAAAAAATAAACAAAGGCTCCTTTAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAA-TAA--CTCCTCTAA
* * *
8737572 GCAGAGGCTCAACAACTTTGAAAAAATAAATTACTCCTCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATAACTCCTCTAA
*
8737614 ACAGAGGCTCAACGACTTTGAAAAAATAAATAAAGGCTCATCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAAT-AA--CTCCTCTAA
* **
8737659 GCAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATAACTCCTCTAA
** * ** *
8737701 TTAGAGGCTCAATGACTTTG-AAAAATAAATGGCTCCTATAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATAACTCCTCTAA
* * * * *
8737742 TCAGAGGCTTAACGACTTTG-GAAAATAAATAAATTCTCTAA
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATAACTCCTCTAA
* * * * *
8737783 GCAGAAGCATC-ATGAC-TT-CAAAAATAAAT-GCTCCTCTAA
1 ACAGAGGC-TCAACGACTTTGAAAAAATAAATAACTCCTCTAA
*
8737822 ACATAGGC
1 ACAGAGGC
8737830 ACCATAATTT
Statistics
Matches: 215, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
39 12 0.06
40 11 0.05
41 61 0.28
42 63 0.29
43 1 0.00
44 1 0.00
45 66 0.31
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (42 bp):
ACAGAGGCTCAACGACTTTGAAAAAATAAATAACTCCTCTAA
Found at i:8737677 original size:87 final size:87
Alignment explanation
Indices: 8737527--8737771 Score: 329
Period size: 87 Copynumber: 2.9 Consensus size: 87
8737517 AGGCTCAACG
* * * * *
8737527 ACAGAGACTCAACAACTTTGAAAAAATAAACAAAGGCTCCTTTAAGCAGAGGCTCAACAACTTTG
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATAAAGGCTCCTATAAGCAGAGGCTCAACGACTTTG
8737592 AAAAAATAAATTACTCCTCTAA
66 AAAAAATAAATTACTCCTCTAA
* *
8737614 ACAGAGGCTCAACGACTTTGAAAAAATAAATAAAGGCTCATCTAAGCAGAGGCTCAACGACTTTG
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATAAAGGCTCCTATAAGCAGAGGCTCAACGACTTTG
*
8737679 AAAAAATAAATTGCTCCTCTAA
66 AAAAAATAAATTACTCCTCTAA
** * * *
8737701 TTAGAGGCTCAATGACTTTG-AAAAATAAAT---GGCTCCTATAATCAGAGGCTTAACGACTTTG
1 ACAGAGGCTCAACGACTTTGAAAAAATAAATAAAGGCTCCTATAAGCAGAGGCTCAACGACTTTG
*
8737762 -GAAAATAAAT
66 AAAAAATAAAT
8737772 AAATTCTCTA
Statistics
Matches: 143, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
82 9 0.06
83 27 0.19
86 10 0.07
87 97 0.68
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (87 bp):
ACAGAGGCTCAACGACTTTGAAAAAATAAATAAAGGCTCCTATAAGCAGAGGCTCAACGACTTTG
AAAAAATAAATTACTCCTCTAA
Found at i:8737725 original size:41 final size:41
Alignment explanation
Indices: 8737562--8737894 Score: 253
Period size: 42 Copynumber: 8.0 Consensus size: 41
8737552 ATAAACAAAG
* * *
8737562 GCTCCTTTAAGCAGAGGCTCAACAACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTG-AAAAATAAATT
* *
8737604 ACTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAAAG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTG-AAAAATAAAT---T
* *
8737649 GCTCATCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTG-AAAAATAAATT
** * *
8737691 GCTCCTCTAATTAGAGGCTCAATGACTTTGAAAAATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
* * * * *
8737732 GCTCCTATAATCAGAGGCTTAACGACTTTGGAAAATAAATA
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
** * * * * *
8737773 AATTCTCTAAGCAGAAGCATC-ATGAC-TTCAAAAATAAA-T
1 GCTCCTCTAAACAGAGGC-TCAACGACTTTGAAAAATAAATT
* * * ** * *
8737812 GCTCCTCTAAACATAGGCACCATAATTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
* *
8737853 GCTCCTTTAAATAGAGG-T-AACCCCGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAA---CGACTTTGAAAAATAAATT
8737895 ATTTTTTAAC
Statistics
Matches: 230, Mismatches: 51, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
38 1 0.00
39 16 0.07
40 20 0.09
41 76 0.33
42 79 0.34
45 38 0.17
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
Found at i:8738246 original size:21 final size:22
Alignment explanation
Indices: 8738221--8738280 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
8738211 TCCAAAAATC
8738221 TAAAGCTTTTCATTTGAAT-TT
1 TAAAGCTTTTCATTTGAATATT
* ** * *
8738242 TAAAGATTCACATCTAAATATT
1 TAAAGCTTTTCATTTGAATATT
*
8738264 CAAAGCTTTTCATTTGA
1 TAAAGCTTTTCATTTGA
8738281 GTTCAAAGGC
Statistics
Matches: 27, Mismatches: 11, Indels: 1
0.69 0.28 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.43
Consensus pattern (22 bp):
TAAAGCTTTTCATTTGAATATT
Found at i:8739067 original size:63 final size:63
Alignment explanation
Indices: 8738932--8739067 Score: 193
Period size: 63 Copynumber: 2.2 Consensus size: 63
8738922 GCCAGGTTTA
* * *
8738932 TCAGCACTAACCATTTCAAAATAAATTTCATGTTCTGTCACTTGGTCATCGTTCATAAGCTTC
1 TCAGCACTAGCCATTTCAAAACAAATTTCATATTCTGTCACTTGGTCATCGTTCATAAGCTTC
** *
8738995 TCAATACTAGCCATTTCAAAACAAATTTCATCATT-TGTCATTTGGTCATCGTTCATAAGCTTC
1 TCAGCACTAGCCATTTCAAAACAAATTTCAT-ATTCTGTCACTTGGTCATCGTTCATAAGCTTC
*
8739058 TTAGCACTAG
1 TCAGCACTAG
8739068 TTTCGTCTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 61 0.97
64 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (63 bp):
TCAGCACTAGCCATTTCAAAACAAATTTCATATTCTGTCACTTGGTCATCGTTCATAAGCTTC
Found at i:8739809 original size:19 final size:18
Alignment explanation
Indices: 8739769--8739811 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
8739759 TTTTCTAATT
* *
8739769 TTTTTTCTTCTTTCTTTC
1 TTTTTTCCTCTTTCTTTA
*
8739787 TTTTTTCCTCTATTTTTTA
1 TTTTTTCCTCT-TTCTTTA
8739806 TTTTTT
1 TTTTTT
8739812 TTATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTCCTCTTTCTTTA
Found at i:8743985 original size:58 final size:57
Alignment explanation
Indices: 8743806--8744074 Score: 303
Period size: 58 Copynumber: 4.6 Consensus size: 57
8743796 TTATGCAGGG
* * * *
8743806 AAAATTGATACTTTCAACTTTTCCCCAAAATA-TTTTTTAGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAGAAAC-TTATTTTCAAGA
* * *
8743863 AAAATTGATACTTTCAACTTTTTCC-CAAAAATAATTTTTTGAGAAAGCTTATTTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCTC-AAAA-AATTTTTTTAGAAA-CTTATTTTCAAGA
8743923 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAGAAAGCTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAGAAA-CTTATTTTCAAGA
* * * * *
8743981 AAAATTGATGCTTTCAACTTTTTCT-TAAAACTATTTTTTAGAATACTTATTTTCAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTAGAA-ACTTATTTTCAAGA
*
8744039 AAAATTGATACTTTTC-ACTTTTTCTCAAAAATATTT
1 AAAATTGATAC-TTTCAACTTTTCCTCAAAAA-ATTT
8744075 CAAAACATTT
Statistics
Matches: 186, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
57 24 0.13
58 99 0.53
59 22 0.12
60 40 0.22
61 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAGAAACTTATTTTCAAGA
Found at i:8744017 original size:117 final size:117
Alignment explanation
Indices: 8743804--8744074 Score: 354
Period size: 118 Copynumber: 2.3 Consensus size: 117
8743794 TTTTATGCAG
* * *
8743804 GGAAAATTGATACTTTCAACTTTTCCCCAAAATA-TTTTTTAGAAACTTTAATTTCGAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAGAAACTTTAATTTCAAGAAAAAT
*
8743868 TGATACTTTCAACTTTTTCCCAAAAATAATTTTTTGAGAA-AGCTTATTTTCGA
66 TGATACTTTCAACTTTTTCCCAAAAATAATTTTTT-AGAATA-CTTATTTTCAA
*
8743921 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAGAAAGC-TTATTTTCAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAGAAA-CTTTAATTTCAAGAAAAA
* ** *
8743985 TTGATGCTTTCAACTTTTTCTTAAAACT-ATTTTTTAGAATACTTATTTTCAA
65 TTGATACTTTCAACTTTTTCCCAAAAATAATTTTTTAGAATACTTATTTTCAA
** *
8744037 AAAAAATTGATACTTTTC-ACTTTTTCTCAAAAATATTT
1 GGAAAATTGATAC-TTTCAACTTTTCCTCAAAAA-ATTT
8744075 CAAAACATTT
Statistics
Matches: 137, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
116 39 0.28
117 48 0.35
118 49 0.36
119 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTAGAAACTTTAATTTCAAGAAAAAT
TGATACTTTCAACTTTTTCCCAAAAATAATTTTTTAGAATACTTATTTTCAA
Found at i:8746670 original size:21 final size:20
Alignment explanation
Indices: 8746623--8746676 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
8746613 AGATAGACCA
8746623 TAAAATAAAAATAAAAAAAC
1 TAAAATAAAAATAAAAAAAC
* * *
8746643 GATAAATATGAAATAAAAAATC
1 TA-AAATA-AAAATAAAAAAAC
8746665 TAAAATAAAAAT
1 TAAAATAAAAAT
8746677 GAATAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 12 0.44
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (20 bp):
TAAAATAAAAATAAAAAAAC
Found at i:8747223 original size:16 final size:16
Alignment explanation
Indices: 8747204--8747237 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8747194 TAATTTAAAT
*
8747204 GAATTTTTTATTATTA
1 GAATTTTTTATAATTA
8747220 GAATTTTTTATAATTA
1 GAATTTTTTATAATTA
8747236 GA
1 GA
8747238 CTAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
GAATTTTTTATAATTA
Found at i:8747507 original size:17 final size:17
Alignment explanation
Indices: 8747475--8747508 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8747465 TTTAAATAAA
*
8747475 TTTTTTATTATCAGACT
1 TTTTTTATAATCAGACT
*
8747492 TTTTTTATAATTAGACT
1 TTTTTTATAATCAGACT
8747509 AAAAAGTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTTTATAATCAGACT
Found at i:8750890 original size:2 final size:2
Alignment explanation
Indices: 8750883--8750918 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
8750873 AGGTGCGTCA
*
8750883 AT AT AT AT AT AT AT AT AT AT AT AT CAT CT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT A
8750919 AAATTGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8751126 original size:147 final size:148
Alignment explanation
Indices: 8750965--8751230 Score: 401
Period size: 147 Copynumber: 1.8 Consensus size: 148
8750955 ATAATTACAT
* * *
8750965 TTATGAATTTTAAAAAATAACAA-ATTTACCTTTAAATTTCTAGCATTTTTTATTTATTTAATAA
1 TTATAAATTCTAAAAAATAA-AATATTTACATTTAAATTTCTAGCATTTTTTATTTATTTAATAA
*
8751029 AGATTATTTATCAGTAAATATAT-AGCTTTTATTAGTTAGTTATTTAAATTTAAAAGTGTTAAAA
65 AGATTATTTATCAGTAAATATATAAGCTTTTATTAGTTAGTTATTTAAATATAAAAGTGTTAAAA
8751093 ATGAATAACATAAATATCC
130 ATGAATAACATAAATATCC
* *
8751112 TTATAAATTCTAAAAAATAAAATATTTATATTTCAATTTCTAGCATTTTTTATTTATTTAATAAA
1 TTATAAATTCTAAAAAATAAAATATTTACATTTAAATTTCTAGCATTTTTTATTTATTTAATAAA
* * * ** *
8751177 GATTTTTTGTCATTAAATATATAATTTTTTATTTGTTAGTTATTTAAATATAAA
66 GATTATTTATCAGTAAATATATAAGCTTTTATTAGTTAGTTATTTAAATATAAA
8751231 TAAATTAAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
146 2 0.02
147 76 0.72
148 27 0.26
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (148 bp):
TTATAAATTCTAAAAAATAAAATATTTACATTTAAATTTCTAGCATTTTTTATTTATTTAATAAA
GATTATTTATCAGTAAATATATAAGCTTTTATTAGTTAGTTATTTAAATATAAAAGTGTTAAAAA
TGAATAACATAAATATCC
Found at i:8751872 original size:154 final size:153
Alignment explanation
Indices: 8751592--8751892 Score: 426
Period size: 154 Copynumber: 2.0 Consensus size: 153
8751582 GTCAACTCTG
* * * * *
8751592 AAAGTATTAAAAATGAATGACATAAATACCCTTATGAATTTTAAGAAATAATATATTTACCTTTT
1 AAAGTATTAAAAATAAATAACATAAATACCCTTATAAATTTTAAAAAATAACATATTTA-CTTTT
* * *
8751657 AAATTTTTGGCATTTTTTATTTATTTAATAAAAATTATTTGTCATTAAATATATTGTTTTTATTA
65 AAATTTCTAGCATTTTTTATTTATTTAATAAAAATTATTTGTCATTAAATATAATGTTTTTATTA
*
8751722 GTTAGTTATTTAAATTTAAATATA
130 ATTAGTTATTTAAATTTAAATATA
* * *
8751746 AAAGTGTTAAAAATAAATAATATAAATATCCTTATAAATTTTAAAAAATAACATATTTA-TATTT
1 AAAGTATTAAAAATAAATAACATAAATACCCTTATAAATTTTAAAAAATAACATATTTACT-TTT
* *
8751810 CAATTTCTAGCATTTTTTATTTATTTAATAAATATTATTTGTCATTAAATAAATAAT-TTTTTAT
65 AAATTTCTAGCATTTTTTATTTATTTAATAAAAATTATTTGTCATTAAAT--ATAATGTTTTTAT
8751874 TAATTAGTTATTTAAATTT
128 TAATTAGTTATTTAAATTT
8751893 GAATCAATTA
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
152 1 0.01
153 49 0.38
154 76 0.58
155 4 0.03
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (153 bp):
AAAGTATTAAAAATAAATAACATAAATACCCTTATAAATTTTAAAAAATAACATATTTACTTTTA
AATTTCTAGCATTTTTTATTTATTTAATAAAAATTATTTGTCATTAAATATAATGTTTTTATTAA
TTAGTTATTTAAATTTAAATATA
Found at i:8754509 original size:22 final size:22
Alignment explanation
Indices: 8754496--8754784 Score: 116
Period size: 22 Copynumber: 13.2 Consensus size: 22
8754486 AACTTTATAT
* *
8754496 TAAATTAATGATAA-CTATATAT
1 TAAATTAATGATAATTTA-ATAG
8754518 TAAATT-ATGTATAATTTAATAG
1 TAAATTAATG-ATAATTTAATAG
* *
8754540 TAAATAAATAATAATTTAATAG
1 TAAATTAATGATAATTTAATAG
** *
8754562 TAAA-TAATTGATAAGATAATTG
1 TAAATTAA-TGATAATTTAATAG
**** ** *
8754584 TATGCCAATGATAACGTAATAA
1 TAAATTAATGATAATTTAATAG
* *
8754606 TAAA-TACATAATAATATT-GTAG
1 TAAATTA-ATGATAAT-TTAATAG
** *
8754628 TAAA-TAACAAATAACTTAATAG
1 TAAATTAA-TGATAATTTAATAG
* * *
8754650 TAAATTATTTATACA--TAATTG
1 TAAATTAATGATA-ATTTAATAG
* * * *
8754671 TAAA-TACATAACAATATAGTAG
1 TAAATTA-ATGATAATTTAATAG
8754693 TAAATTAA-GAATAATTTAATA-
1 TAAATTAATG-ATAATTTAATAG
* *
8754714 -AAAATAAGTGATAACTTAATAG
1 TAAATTAA-TGATAATTTAATAG
* *
8754736 TAAATTAATTATAATTTAGTAG
1 TAAATTAATGATAATTTAATAG
* *
8754758 TAAATTAATAATAATTTAATGG
1 TAAATTAATGATAATTTAATAG
8754780 TAAAT
1 TAAAT
8754785 AAGATTTAGT
Statistics
Matches: 198, Mismatches: 49, Indels: 40
0.69 0.17 0.14
Matches are distributed among these distances:
20 9 0.05
21 31 0.16
22 140 0.71
23 18 0.09
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
TAAATTAATGATAATTTAATAG
Found at i:8754706 original size:65 final size:66
Alignment explanation
Indices: 8754592--8754787 Score: 202
Period size: 65 Copynumber: 3.0 Consensus size: 66
8754582 TGTATGCCAA
* * * * *
8754592 TGATAACGTAATAATAAATACATAATAATATTGTAGTAAA-TAACAAATAACTTAATAGTAAATT
1 TGATAACATAATAGTAAATACATAATAATATAGTAGTAAATTAA-AAATAATTTAATAGTAAATA
*
8754656 AT
65 AG
* * * * *
8754658 TTAT-ACATAATTGTAAATACATAACAATATAGTAGTAAATTAAGAATAATTTAATA-AAAATAA
1 TGATAACATAATAGTAAATACATAATAATATAGTAGTAAATTAAAAATAATTTAATAGTAAATAA
8754721 G
66 G
* * * * *
8754722 TGATAACTTAATAGTAAATTA-ATTATAATTTAGTAGTAAATTAATAATAATTTAATGGTAAATA
1 TGATAACATAATAGTAAA-TACATAATAATATAGTAGTAAATTAAAAATAATTTAATAGTAAATA
8754786 AG
65 AG
8754788 ATTTAGTTTA
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
64 8 0.08
65 83 0.78
66 15 0.14
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (66 bp):
TGATAACATAATAGTAAATACATAATAATATAGTAGTAAATTAAAAATAATTTAATAGTAAATAA
G
Found at i:8755226 original size:22 final size:22
Alignment explanation
Indices: 8755080--8755732 Score: 195
Period size: 22 Copynumber: 29.9 Consensus size: 22
8755070 AAATTTAGTG
*
8755080 GTAAATC-ATAAATAATTTAATA
1 GTAAATCAAT-AATAACTTAATA
* * * *
8755102 ATAAATTAATGATAA-TTGAGTA
1 GTAAATCAATAATAACTT-AATA
* * *
8755124 GTAAAT-AATTTAGAACTTAGTA
1 GTAAATCAA-TAATAACTTAATA
* *
8755146 GT-AATCAATAATTGAAAATTAAAA
1 GTAAATCAATAA-T--AACTTAATA
8755170 GTAAATCAAT-ATAACTTAATA
1 GTAAATCAATAATAACTTAATA
* * *
8755191 GT-AATCATTGATAAATTAATA
1 GTAAATCAATAATAACTTAATA
* * *
8755212 GTTAATCAGTAATAATTTAGTATA
1 GTAAATCAATAATAACTTA--ATA
* * *
8755236 GTAAATTAGTGATAACTTAATA
1 GTAAATCAATAATAACTTAATA
* * *
8755258 GTATATTAATAATAATTTAATA
1 GTAAATCAATAATAACTTAATA
* **
8755280 GTAAAT-AATTGATAACTTTGTA
1 GTAAATCAA-TAATAACTTAATA
8755302 GTAAATCAATAATAA-TATAATA
1 GTAAATCAATAATAACT-TAATA
8755324 GTAAATGC-ATAATAACTTAATA
1 GTAAAT-CAATAATAACTTAATA
* * *
8755346 GTAAAATCAATTATAACATAATT
1 GT-AAATCAATAATAACTTAATA
*
8755369 GTAAATGC-ATAATAACATAGA-A
1 GTAAAT-CAATAATAACTTA-ATA
* *
8755391 GTAAATCAATGAGAACTT--TA
1 GTAAATCAATAATAACTTAATA
* *
8755411 --AAA-AAATGATAACTTAATA
1 GTAAATCAATAATAACTTAATA
* * * * *
8755430 GTTAATCATTGACAATTTAATA
1 GTAAATCAATAATAACTTAATA
* * *
8755452 GTAAAT-AAAAAAAATTTAATA
1 GTAAATCAATAATAACTTAATA
* * *
8755473 TTAAATTACA-GATAACTTAATA
1 GTAAATCA-ATAATAACTTAATA
** ** **
8755495 GTAAATCTGTTTTAGTTTAATA
1 GTAAATCAATAATAACTTAATA
* * * **
8755517 GTAATTAAATTATAAACTTAGCA
1 GTAAATCAATAAT-AACTTAATA
* **
8755540 GTAAATC-ATAAATAATTTAGCA
1 GTAAATCAAT-AATAACTTAATA
* * * * *
8755562 ATAAATTAATGATAATTTAGTA
1 GTAAATCAATAATAACTTAATA
* * *
8755584 GTTAATCACTAA-AACTTAAAA
1 GTAAATCAATAATAACTTAATA
* *
8755605 GTAAATCAATGATAA-TATAGTA
1 GTAAATCAATAATAACT-TAATA
* *
8755627 GTAAAT--GT-ATAACAGTATATA
1 GTAAATCAATAATAAC-TTA-ATA
* * *
8755648 GTAAATCATTGATAATTTAATA
1 GTAAATCAATAATAACTTAATA
* * * * *
8755670 GTAAATTATTGATAATTTAGTA
1 GTAAATCAATAATAACTTAATA
* *
8755692 GTAAATCACTAATAA-TGTCATA
1 GTAAATCAATAATAACT-TAATA
* * *
8755714 TTAAATCACTGATAACTTA
1 GTAAATCAATAATAACTTA
8755733 GTTATAAATT
Statistics
Matches: 473, Mismatches: 113, Indels: 90
0.70 0.17 0.13
Matches are distributed among these distances:
17 10 0.02
18 3 0.01
19 6 0.01
20 10 0.02
21 77 0.16
22 282 0.60
23 47 0.10
24 31 0.07
25 7 0.01
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
GTAAATCAATAATAACTTAATA
Found at i:8755740 original size:22 final size:22
Alignment explanation
Indices: 8755723--8755787 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
8755713 ATTAAATCAC
*
8755723 TGATAACTTAGTTATAAATTAA
1 TGATAATTTAGTTATAAATTAA
8755745 TGATAATTTAGTTATAAATTAA
1 TGATAATTTAGTTATAAATTAA
*
8755767 TGATAATTTAGTTGTAAATTA
1 TGATAATTTAGTTATAAATTA
8755788 GTTAATTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (22 bp):
TGATAATTTAGTTATAAATTAA
Found at i:8755773 original size:66 final size:66
Alignment explanation
Indices: 8755587--8755977 Score: 176
Period size: 66 Copynumber: 5.8 Consensus size: 66
8755577 TTTAGTAGTT
* * * * ** * * * *
8755587 AATCACT-AAAACTTAAAAGTAAATCAATGATAATATAGTAGTAAATGTATAACAGTAT-ATAGT
1 AATCACTGATAACTTAATAGTAAATTAATGATAATTTAGTAGTAAATCAATAATAATGTCATATT
8755650 A
66 A
* * * *
8755651 AATCATTGATAATTTAATAGTAAATTATTGATAATTTAGTAGTAAATCACTAATAATGTCATATT
1 AATCACTGATAACTTAATAGTAAATTAATGATAATTTAGTAGTAAATCAATAATAATGTCATATT
8755716 A
66 A
* * *
8755717 AATCACTGATAACTTAGTTA-TAAATTAATGATAATTTAGTTA-TAAATTAATGATAATTTAGTT
1 AATCACTGATAACTTA-ATAGTAAATTAATGATAATTTAG-TAGTAAATCAATAATAA--T-G-T
* *
8755780 GTAAATTA
60 -CATATTA
* * * * * * * * * * *
8755788 GTTAATTATTAACAACTTCATAGTAAA-TCATCAATAACTTCA-TAGTAAATTAATAATAATTTT
1 ---AATCACTGATAACTTAATAGTAAATTAAT-GATAA-TTTAGTAGTAAATCAATAATAATGTC
*
8755851 ATAATA
61 ATATTA
* * * * *
8755857 AATTATCT-ATAACATAATAGTAAA-T-ATCAATAATTTAGTAGTAAATCAATTATAAT-TTAGT
1 AATCA-CTGATAACTTAATAGTAAATTAAT-GATAATTTAGTAGTAAATCAATAATAATGTCA-T
*
8755918 AATA
63 ATTA
* * * *
8755922 AATCATCT-ACAACTTAGT-GATAAATTGATGATAATTTAGTAGTAAATCAATGATAA
1 AATCA-CTGATAACTTAATAG-TAAATTAATGATAATTTAGTAGTAAATCAATAATAA
8755978 GATAGCAATT
Statistics
Matches: 256, Mismatches: 49, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
64 13 0.05
65 86 0.34
66 93 0.36
67 7 0.03
68 1 0.00
69 6 0.02
70 2 0.01
71 5 0.02
72 1 0.00
73 7 0.03
74 32 0.12
75 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (66 bp):
AATCACTGATAACTTAATAGTAAATTAATGATAATTTAGTAGTAAATCAATAATAATGTCATATT
A
Found at i:8755826 original size:22 final size:22
Alignment explanation
Indices: 8755801--8755904 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
8755791 AATTATTAAC
8755801 AACTTCATAGTAAATCATCAAT
1 AACTTCATAGTAAATCATCAAT
*
8755823 AACTTCATAGTAAATTAAT-AAT
1 AACTTCATAGTAAA-TCATCAAT
* * * * *
8755845 AATTTTATAATAAATTATCTAT
1 AACTTCATAGTAAATCATCAAT
* *
8755867 AACATAATAGTAAAT-ATCAAT
1 AACTTCATAGTAAATCATCAAT
*
8755888 AA-TTTAGTAGTAAATCA
1 AACTTCA-TAGTAAATCA
8755905 ATTATAATTT
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.03
21 18 0.28
22 42 0.65
23 3 0.05
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (22 bp):
AACTTCATAGTAAATCATCAAT
Found at i:8755914 original size:22 final size:22
Alignment explanation
Indices: 8755886--8755977 Score: 89
Period size: 22 Copynumber: 4.2 Consensus size: 22
8755876 GTAAATATCA
*
8755886 ATAATTTAGTAGTAAATCAATT
1 ATAATTTAGTAGTAAATCAATG
* *
8755908 ATAATTTAGTAATAAATC-ATCT
1 ATAATTTAGTAGTAAATCAAT-G
* * **
8755930 ACAACTTAGT-GATAAATTGATG
1 ATAATTTAGTAG-TAAATCAATG
8755952 ATAATTTAGTAGTAAATCAATG
1 ATAATTTAGTAGTAAATCAATG
8755974 ATAA
1 ATAA
8755978 GATAGCAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
21 2 0.04
22 51 0.91
23 3 0.05
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATCAATG
Found at i:8755946 original size:65 final size:66
Alignment explanation
Indices: 8755807--8755977 Score: 181
Period size: 65 Copynumber: 2.6 Consensus size: 66
8755797 TAACAACTTC
* * * *
8755807 ATAGTAAATCATCAATAACTTCA-TAGTAAATTAATAATAATTTTATAATAAATTATCTATAACA
1 ATAGTAAATCATCAATAA-TTTAGTAGTAAATCAATAATAATTTTATAATAAATCATCTACAACA
8755871 TA
65 TA
* *
8755873 ATAGTAAAT-ATCAATAATTTAGTAGTAAATCAATTATAA-TTTAGTAATAAATCATCTACAACT
1 ATAGTAAATCATCAATAATTTAGTAGTAAATCAATAATAATTTTA-TAATAAATCATCTACAACA
8755936 TA
65 TA
* * * *
8755938 GT-GATAAATTGAT-GATAATTTAGTAGTAAATCAATGATAA
1 ATAG-TAAA-TCATCAATAATTTAGTAGTAAATCAATAATAA
8755978 GATAGCAATT
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
64 8 0.09
65 46 0.51
66 35 0.38
67 2 0.02
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (66 bp):
ATAGTAAATCATCAATAATTTAGTAGTAAATCAATAATAATTTTATAATAAATCATCTACAACAT
A
Found at i:8756241 original size:22 final size:22
Alignment explanation
Indices: 8756216--8756267 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
8756206 CTCAGATATT
* *
8756216 GTAATTTATTAATAAATTAATA
1 GTAATTCATAAATAAATTAATA
* * *
8756238 GTAAATCATAAATAACTTAGTA
1 GTAATTCATAAATAAATTAATA
8756260 GTAATTCA
1 GTAATTCA
8756268 ATTGATAACT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (22 bp):
GTAATTCATAAATAAATTAATA
Found at i:8756277 original size:23 final size:23
Alignment explanation
Indices: 8756249--8756312 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
8756239 TAAATCATAA
8756249 ATAACTTAGTAG-TAATTCAATTG
1 ATAACTTAGTAGATAATT-AATTG
*
8756272 ATAACTTAGT-GATAAATAATTG
1 ATAACTTAGTAGATAATTAATTG
* *
8756294 ATAACTTAATAGCTAATTA
1 ATAACTTAGTAGATAATTA
8756313 TTTAAAAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (23 bp):
ATAACTTAGTAGATAATTAATTG
Found at i:8756295 original size:22 final size:23
Alignment explanation
Indices: 8756227--8756301 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 23
8756217 TAATTTATTA
* * **
8756227 ATAAATTAATAGTAAATC-ATAA
1 ATAACTTAGTAGTAAATCAATTG
*
8756249 ATAACTTAGTAGTAATTCAATTG
1 ATAACTTAGTAGTAAATCAATTG
8756272 ATAACTTAGT-GATAAAT-AATTG
1 ATAACTTAGTAG-TAAATCAATTG
8756294 ATAACTTA
1 ATAACTTA
8756302 ATAGCTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 29 0.64
23 16 0.36
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (23 bp):
ATAACTTAGTAGTAAATCAATTG
Found at i:8758233 original size:144 final size:144
Alignment explanation
Indices: 8757973--8758263 Score: 537
Period size: 144 Copynumber: 2.0 Consensus size: 144
8757963 GTAGTTTTAG
*
8757973 TCAATATCCTTTGTAAATACATAAATAAACATCATTGATAATTACATCAAGATATTAATAGTTCT
1 TCAATATCCTTTGTAAATACATAAATAAACATCATTGATAATTAAATCAAGATATTAATAGTTCT
8758038 TGATTGCTTCAAATCCTTTTTTTTAGAATATGTTTATAAATTAATATTTTTTAATTAGTAAAATT
66 TGATTGCTTCAAATCCTTTTTTTTAGAATATGTTTATAAATTAATATTTTTTAATTAGTAAAATT
* *
8758103 CATGTAAGTATGCA
131 AATGTAAGGATGCA
*
8758117 TCAATATCCTTTGTAAATGCATAAATAAACATCATTGATAATTAAATCAAGATATTAATAGTTCT
1 TCAATATCCTTTGTAAATACATAAATAAACATCATTGATAATTAAATCAAGATATTAATAGTTCT
8758182 TGATTGCTTCAAATCCTTTTTTTTTAGAATATGTTTATAAATTAATATTTTTTAATTAGTAAAAT
66 TGATTGCTTCAAATCC-TTTTTTTTAGAATATGTTTATAAATTAATATTTTTTAATTAGTAAAAT
8758247 TAATGTAAGGATGCA
130 TAATGTAAGGATGCA
8758262 TC
1 TC
8758264 TTTTTTACTA
Statistics
Matches: 142, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
144 79 0.56
145 63 0.44
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (144 bp):
TCAATATCCTTTGTAAATACATAAATAAACATCATTGATAATTAAATCAAGATATTAATAGTTCT
TGATTGCTTCAAATCCTTTTTTTTAGAATATGTTTATAAATTAATATTTTTTAATTAGTAAAATT
AATGTAAGGATGCA
Found at i:8766031 original size:2 final size:2
Alignment explanation
Indices: 8766024--8766052 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8766014 AAATAAAATC
8766024 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 A
8766053 ACGTTATGAT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8767273 original size:15 final size:16
Alignment explanation
Indices: 8767253--8767291 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8767243 ACAAGGTCTT
8767253 CTTCAATGAAC-TCAA
1 CTTCAATGAACTTCAA
**
8767268 CTTCAATGCCCTTCAA
1 CTTCAATGAACTTCAA
8767284 CTTCAATG
1 CTTCAATG
8767292 CCCATACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (16 bp):
CTTCAATGAACTTCAA
Found at i:8767285 original size:16 final size:16
Alignment explanation
Indices: 8767264--8767294 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8767254 TTCAATGAAC
8767264 TCAACTTCAATGCCCT
1 TCAACTTCAATGCCCT
8767280 TCAACTTCAATGCCC
1 TCAACTTCAATGCCC
8767295 ATACAACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.39, G:0.06, T:0.29
Consensus pattern (16 bp):
TCAACTTCAATGCCCT
Found at i:8769149 original size:2 final size:2
Alignment explanation
Indices: 8769142--8769172 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8769132 TAAGACATAC
8769142 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 A
8769173 ACTAAGTTCG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8776095 original size:2 final size:2
Alignment explanation
Indices: 8776090--8776119 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8776080 TTGTGTGATA
8776090 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
8776120 CCATGTTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8784367 original size:22 final size:22
Alignment explanation
Indices: 8784342--8784385 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8784332 ATTTTCTGTC
*
8784342 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8784364 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8784386 TAAACATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:8786497 original size:22 final size:22
Alignment explanation
Indices: 8786461--8786503 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8786451 TTTTCTGGCT
* *
8786461 TTAATTTTAGGGATACAAATAC
1 TTAATTCTAGAGATACAAATAC
8786483 TTAATTCTAGAGATACAAATA
1 TTAATTCTAGAGATACAAATA
8786504 TAAATTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAC
Found at i:8786520 original size:21 final size:22
Alignment explanation
Indices: 8786472--8786522 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
8786462 TAATTTTAGG
* *
8786472 GATACAAATACTTAATTCTAGA
1 GATACAAATACTAAATTCTACA
8786494 GATACAAATA-TAAATT-TACA
1 GATACAAATACTAAATTCTACA
8786514 GATTACAAA
1 GA-TACAAA
8786523 CAGCTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 11 0.42
22 10 0.38
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (22 bp):
GATACAAATACTAAATTCTACA
Found at i:8789396 original size:22 final size:23
Alignment explanation
Indices: 8789357--8789400 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8789347 ATATATTGTG
*
8789357 GAAAAACTGAGAAATAAAACTGT
1 GAAAAACTAAGAAATAAAACTGT
*
8789380 GAAAAACTAAG-AGTAAAACTG
1 GAAAAACTAAGAAATAAAACTG
8789401 AATGTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.57, C:0.09, G:0.18, T:0.16
Consensus pattern (23 bp):
GAAAAACTAAGAAATAAAACTGT
Found at i:8789538 original size:22 final size:22
Alignment explanation
Indices: 8789513--8789556 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8789503 ATTTTTTGTC
**
8789513 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAAAGATACAAATA
8789535 CTTAATTCTAAAGATACAAATA
1 CTTAATTCTAAAGATACAAATA
8789557 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAAAGATACAAATA
Found at i:8793440 original size:24 final size:24
Alignment explanation
Indices: 8793391--8793440 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
8793381 TCTGATACCA
* *
8793391 TGTGGAAAAACTAAGAAATAACAC
1 TGTGGAAAAAATAAGAAATAAAAC
*
8793415 TGTGTGAAAAAATAAG-AGTAAAAC
1 TGTG-GAAAAAATAAGAAATAAAAC
8793439 TG
1 TG
8793441 AATGTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.52, C:0.08, G:0.20, T:0.20
Consensus pattern (24 bp):
TGTGGAAAAAATAAGAAATAAAAC
Found at i:8793607 original size:22 final size:22
Alignment explanation
Indices: 8793582--8793625 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8793572 ATTTTTTGTC
*
8793582 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8793604 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8793626 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:8797653 original size:6 final size:6
Alignment explanation
Indices: 8797644--8797699 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
8797634 TTTATTTACT
* * * *
8797644 TTTATA TTTATG TTTATA TATATT TTTATA TTTAT- TTAAT- TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
8797690 TTTATA TTTA
1 TTTATA TTTA
8797700 AAATATAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:8797653 original size:12 final size:11
Alignment explanation
Indices: 8797627--8797699 Score: 69
Period size: 12 Copynumber: 6.4 Consensus size: 11
8797617 TATATTATTT
8797627 TTTATTATT-TA
1 TTTATT-TTATA
8797638 TTTACTTTTATA
1 TTTA-TTTTATA
8797650 TTTATGTTTATA
1 TTTAT-TTTATA
*
8797662 TATATTTTTATA
1 TTTA-TTTTATA
*
8797674 TTTATTTAAT-
1 TTTATTTTATA
8797684 TTTATATTTATA
1 TTTAT-TTTATA
8797696 TTTA
1 TTTA
8797700 AAATATAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
10 5 0.10
11 16 0.31
12 30 0.58
13 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (11 bp):
TTTATTTTATA
Found at i:8797670 original size:24 final size:22
Alignment explanation
Indices: 8797622--8797699 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
8797612 GTATATATAT
8797622 TATTTTT-TA-TTATTT-ATT-
1 TATTTTTATATTTATTTAATTA
* *
8797640 TACTTTTATATTTATGTTTATATA
1 TATTTTTATATTTAT-TTAAT-TA
*
8797664 TATTTTTATATTTATTTAATTT
1 TATTTTTATATTTATTTAATTA
*
8797686 TATATTTATATTTA
1 TATTTTTATATTTA
8797700 AAATATAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 6 0.12
19 2 0.04
20 4 0.08
21 2 0.04
22 16 0.33
23 5 0.10
24 14 0.29
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (22 bp):
TATTTTTATATTTATTTAATTA
Found at i:8797687 original size:40 final size:43
Alignment explanation
Indices: 8797615--8797699 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 43
8797605 CAACCCAGTA
* *
8797615 TATATATTATTTTTTATTATTTATTTACTTTTATATTTATGTT
1 TATATATTATTTTTTATTATTTATTTAATTTTATATTTATATT
8797658 TATATA-TA-TTTTTA-TATTTATTTAATTTTATATTTATATT
1 TATATATTATTTTTTATTATTTATTTAATTTTATATTTATATT
8797698 TA
1 TA
8797700 AAATATAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
40 26 0.65
41 6 0.15
42 2 0.05
43 6 0.15
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (43 bp):
TATATATTATTTTTTATTATTTATTTAATTTTATATTTATATT
Found at i:8797697 original size:18 final size:18
Alignment explanation
Indices: 8797650--8797700 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
8797640 TACTTTTATA
* * *
8797650 TTTATGTTTATATATATT
1 TTTATATTTATATTTAAT
8797668 TTTATA-TT-TATTTAAT
1 TTTATATTTATATTTAAT
8797684 TTTATATTTATATTTAA
1 TTTATATTTATATTTAA
8797701 AATATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 12 0.43
17 4 0.14
18 12 0.43
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTATATTTATATTTAAT
Found at i:8806522 original size:20 final size:18
Alignment explanation
Indices: 8806497--8806540 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
8806487 TTTTAATTGA
*
8806497 GATTTTGATGATATTTTTGT
1 GATTTTGAGGA-A-TTTTGT
*
8806517 GATTTTTAGGAATTTTGT
1 GATTTTGAGGAATTTTGT
8806535 GATTTT
1 GATTTT
8806541 TTTGTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 12 0.55
19 1 0.05
20 9 0.41
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.59
Consensus pattern (18 bp):
GATTTTGAGGAATTTTGT
Found at i:8810051 original size:33 final size:33
Alignment explanation
Indices: 8809980--8810084 Score: 84
Period size: 33 Copynumber: 3.2 Consensus size: 33
8809970 TGAGCATACC
* * * * * *
8809980 AGGATAACCAGCTGGTGGATGTCCACTATGAGT
1 AGGATAACCAGCAGGAGGATATCCACCAGGAGG
* * * * * *
8810013 TGGATAAGCTGCCGGAGGGTATCCTCCAGGAGG
1 AGGATAACCAGCAGGAGGATATCCACCAGGAGG
* *
8810046 AGGATATCCAGCAGGCGGATATCCACCAGGAGG
1 AGGATAACCAGCAGGAGGATATCCACCAGGAGG
8810079 AGGATA
1 AGGATA
8810085 TCCCCCTGGA
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.28, C:0.20, G:0.34, T:0.18
Consensus pattern (33 bp):
AGGATAACCAGCAGGAGGATATCCACCAGGAGG
Found at i:8810053 original size:18 final size:18
Alignment explanation
Indices: 8810026--8810105 Score: 85
Period size: 18 Copynumber: 4.6 Consensus size: 18
8810016 ATAAGCTGCC
*
8810026 GGAGGGTATCCTCCAGGA
1 GGAGGATATCCTCCAGGA
*
8810044 GGAGGATA---TCCAGCA
1 GGAGGATATCCTCCAGGA
* *
8810059 GGCGGATATCCACCAGGA
1 GGAGGATATCCTCCAGGA
* *
8810077 GGAGGATATCCCCCTGGA
1 GGAGGATATCCTCCAGGA
8810095 GGAGGATATCC
1 GGAGGATATCC
8810106 AGCCGGTGGG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
15 13 0.25
18 38 0.75
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (18 bp):
GGAGGATATCCTCCAGGA
Found at i:8810055 original size:15 final size:15
Alignment explanation
Indices: 8810037--8810150 Score: 66
Period size: 15 Copynumber: 7.2 Consensus size: 15
8810027 GAGGGTATCC
8810037 TCCAGGAGGAGGATA
1 TCCAGGAGGAGGATA
* *
8810052 TCCAGCAGGCGGATA
1 TCCAGGAGGAGGATA
8810067 TCCACCAGGAGGAGGATA
1 T---CCAGGAGGAGGATA
*
8810085 TCCCCCTGGAGGAGGATA
1 T---CCAGGAGGAGGATA
** * *
8810103 TCCAGCCGGTGGGTA
1 TCCAGGAGGAGGATA
* ** *
8810118 GCCTTGTGGAGGATA
1 TCCAGGAGGAGGATA
*
8810133 TCCATGAGGAGGATA
1 TCCAGGAGGAGGATA
8810148 TCC
1 TCC
8810151 TTGTGGAGGG
Statistics
Matches: 75, Mismatches: 21, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
15 46 0.61
18 29 0.39
ACGTcount: A:0.25, C:0.22, G:0.35, T:0.18
Consensus pattern (15 bp):
TCCAGGAGGAGGATA
Found at i:8810158 original size:15 final size:15
Alignment explanation
Indices: 8810119--8810159 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
8810109 CGGTGGGTAG
8810119 CCTTGTGGAGGATAT
1 CCTTGTGGAGGATAT
* *
8810134 CCATGAGGAGGATAT
1 CCTTGTGGAGGATAT
8810149 CCTTGTGGAGG
1 CCTTGTGGAGG
8810160 GTAGGGTCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.27
Consensus pattern (15 bp):
CCTTGTGGAGGATAT
Found at i:8810548 original size:27 final size:25
Alignment explanation
Indices: 8810498--8810548 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
8810488 AGATCAAGAA
*
8810498 ATTTCAATGACATTCAAGTTCCATT
1 ATTTCAATGACATTCAAGTCCCATT
8810523 ATTTACAATGA-ATTCTGAAGTCCCAT
1 ATTT-CAATGACATTC--AAGTCCCAT
8810549 ATGTCAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 8 0.36
26 6 0.27
27 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (25 bp):
ATTTCAATGACATTCAAGTCCCATT
Found at i:8815225 original size:30 final size:30
Alignment explanation
Indices: 8815191--8815247 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8815181 TTTTAATTGA
8815191 GATTTTGATGA-TATTTTTGTGATTTTTAGG
1 GATTTTG-TGATTATTTTTGTGATTTTTAGG
* *
8815221 GATTTTGTGATTTTTTTTGTTATTTTT
1 GATTTTGTGATTATTTTTGTGATTTTT
8815248 TCAACTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (30 bp):
GATTTTGTGATTATTTTTGTGATTTTTAGG
Found at i:8815783 original size:3 final size:3
Alignment explanation
Indices: 8815775--8815810 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
8815765 TAAGGTATAC
*
8815775 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8815811 CATTTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8819899 original size:5 final size:5
Alignment explanation
Indices: 8819876--8819970 Score: 56
Period size: 5 Copynumber: 18.2 Consensus size: 5
8819866 GGATTTTTGT
* *
8819876 TATTA TCATAA TA-TA TATTA TATTA TAATA TCATGGTA TATTA TTATTA
1 TATTA T-ATTA TATTA TATTA TATTA TATTA T-AT--TA TATTA -TATTA
8819925 -A-TA TCATTA TTATTA TATTA TTATTA CTATTA TA-T- TATTA TATTA
1 TATTA T-ATTA -TATTA TATTA -TATTA -TATTA TATTA TATTA TATTA
8819970 T
1 T
8819971 TTTTTATTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
3 4 0.06
4 6 0.08
5 30 0.42
6 26 0.36
7 3 0.04
8 3 0.04
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:8819922 original size:3 final size:3
Alignment explanation
Indices: 8819914--8819971 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
8819904 TATCATGGTA
* * *
8819914 TAT TAT TAT TAA TAT CAT TAT TAT TA- TAT TAT TAT TAC TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8819960 TAT TA- TAT TAT T
1 TAT TAT TAT TAT T
8819972 TTTTATTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 6 0.13
3 40 0.87
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:8819945 original size:8 final size:8
Alignment explanation
Indices: 8819886--8819971 Score: 73
Period size: 8 Copynumber: 10.0 Consensus size: 8
8819876 TATTATCATA
8819886 ATATATATT
1 ATAT-TATT
*
8819895 ATATTATA
1 ATATTATT
*
8819903 ATATCATGGT
1 ATATTAT--T
8819913 ATATTATT
1 ATATTATT
* *
8819921 ATTAATATC
1 A-TATTATT
8819930 ATTATTATT
1 A-TATTATT
8819939 ATATTATT
1 ATATTATT
*
8819947 ATTACTATT
1 A-TATTATT
8819956 ATATTATT
1 ATATTATT
8819964 ATATTATT
1 ATATTATT
8819972 TTTTATTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
8 33 0.52
9 24 0.38
10 6 0.10
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.56
Consensus pattern (8 bp):
ATATTATT
Found at i:8820011 original size:23 final size:23
Alignment explanation
Indices: 8819972--8820028 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
8819962 TTATATTATT
*
8819972 TTTTATTTTTTCTTTC-TTTCTTTC
1 TTTT-TTTTTTCATTCTTTTC-TTC
8819996 TTTTTTTTTTCATTCTTTTCTTC
1 TTTTTTTTTTCATTCTTTTCTTC
*
8820019 TTTTCTTTTT
1 TTTTTTTTTT
8820029 GCTCCAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTTTTTTCATTCTTTTCTTC
Found at i:8821150 original size:17 final size:17
Alignment explanation
Indices: 8821112--8821153 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8821102 ATAATAATAA
* *
8821112 AAAATAAAAAATCTTTTC
1 AAAAT-AAAAATCCTTAC
8821130 -AAATAAAAATCCTTAC
1 AAAATAAAAATCCTTAC
8821146 AAAATAAA
1 AAAATAAA
8821154 TTCATGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAAAAATCCTTAC
Found at i:8823040 original size:19 final size:20
Alignment explanation
Indices: 8823007--8823050 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 20
8822997 CCTAAAATTA
8823007 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTT-AAT
8823028 ATAAAATA-T-TTTTTTAAT
1 ATAAAATATTATTTTTTAAT
8823046 ATAAA
1 ATAAA
8823051 TATAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 6 0.26
20 1 0.04
21 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTATTTTTTAAT
Found at i:8824561 original size:18 final size:18
Alignment explanation
Indices: 8824538--8824572 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8824528 CTTATGTTTA
*
8824538 CCAAACATGCCATGCTTC
1 CCAAACATCCCATGCTTC
*
8824556 CCAAACTTCCCATGCTT
1 CCAAACATCCCATGCTT
8824573 AAATTTCCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.40, G:0.09, T:0.26
Consensus pattern (18 bp):
CCAAACATCCCATGCTTC
Found at i:8825159 original size:15 final size:15
Alignment explanation
Indices: 8825158--8825194 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8825148 ATCCTCCAGG
*
8825158 AGGAGGATATCCAGC
1 AGGAGGATATCCACC
*
8825173 AGGCGGATATCCACC
1 AGGAGGATATCCACC
8825188 AGGAGGA
1 AGGAGGA
8825195 GGATATCCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.35, T:0.11
Consensus pattern (15 bp):
AGGAGGATATCCACC
Found at i:8825164 original size:18 final size:18
Alignment explanation
Indices: 8825141--8825238 Score: 112
Period size: 18 Copynumber: 5.6 Consensus size: 18
8825131 ATAAGCTGCC
*
8825141 GGAGGATATCCTCCAGGA
1 GGAGGATATCCCCCAGGA
*
8825159 GGAGGATAT---CCAGCA
1 GGAGGATATCCCCCAGGA
* *
8825174 GGCGGATATCCACCAGGA
1 GGAGGATATCCCCCAGGA
* *
8825192 GGAGGATATCCCCCTGGT
1 GGAGGATATCCCCCAGGA
*
8825210 GGAGGATATCCCCCTGGA
1 GGAGGATATCCCCCAGGA
8825228 GGAGGATATCC
1 GGAGGATATCC
8825239 AGCCGGTGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.19
18 56 0.81
ACGTcount: A:0.26, C:0.24, G:0.34, T:0.16
Consensus pattern (18 bp):
GGAGGATATCCCCCAGGA
Found at i:8825166 original size:33 final size:33
Alignment explanation
Indices: 8825095--8825199 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
8825085 TGAGCATACC
* * * * *
8825095 AGGATAACCAGCTGGTGGATGTCCACCATGAGT
1 AGGATAACCAGCAGGAGGATATCCACCAGGAGG
* * * * *
8825128 TGGATAAGCTGCCGGAGGATATCCTCCAGGAGG
1 AGGATAACCAGCAGGAGGATATCCACCAGGAGG
* *
8825161 AGGATATCCAGCAGGCGGATATCCACCAGGAGG
1 AGGATAACCAGCAGGAGGATATCCACCAGGAGG
8825194 AGGATA
1 AGGATA
8825200 TCCCCCTGGT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.29, C:0.21, G:0.33, T:0.17
Consensus pattern (33 bp):
AGGATAACCAGCAGGAGGATATCCACCAGGAGG
Found at i:8825291 original size:15 final size:15
Alignment explanation
Indices: 8825252--8825292 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
8825242 CGGTGGGTAG
*
8825252 CCTTGTGAAGGATAT
1 CCTTGTGGAGGATAT
* *
8825267 CCATGAGGAGGATAT
1 CCTTGTGGAGGATAT
8825282 CCTTGTGGAGG
1 CCTTGTGGAGG
8825293 GTAGGATCCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (15 bp):
CCTTGTGGAGGATAT
Found at i:8830794 original size:32 final size:31
Alignment explanation
Indices: 8830758--8830817 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
8830748 TTTTAACAAA
*
8830758 CCATTGTCATAAAAAGATAAAATCTTGATGAC
1 CCATTATCATAAAAAGATAAAA-CTTGATGAC
* *
8830790 CCATTATCATGAAAAGATAGAACTTGAT
1 CCATTATCATAAAAAGATAAAACTTGAT
8830818 AATGAAGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (31 bp):
CCATTATCATAAAAAGATAAAACTTGATGAC
Found at i:8843026 original size:20 final size:20
Alignment explanation
Indices: 8842979--8843018 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8842969 TAATCCTAAA
8842979 AAATAAATCAAACAATATAG
1 AAATAAATCAAACAATATAG
8842999 AAATAAATCAAACAATATAG
1 AAATAAATCAAACAATATAG
8843019 CAAAAAATAG
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:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (20 bp):
AAATAAATCAAACAATATAG
Found at i:8850372 original size:32 final size:32
Alignment explanation
Indices: 8850331--8850407 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 32
8850321 TTTTATTTGA
*
8850331 TTGATGATCTTGATGATATGAGAAATTCCTAC
1 TTGATGATCTTGATGATATGAAAAATTCCTAC
* *
8850363 TTGATGATCTTGATGGTATGAAAAATTCCTAT
1 TTGATGATCTTGATGATATGAAAAATTCCTAC
*
8850395 TTGATGATATTGA
1 TTGATGATCTTGA
8850408 CATTGTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (32 bp):
TTGATGATCTTGATGATATGAAAAATTCCTAC
Found at i:8852984 original size:17 final size:17
Alignment explanation
Indices: 8852959--8852991 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8852949 CAATACAAAA
*
8852959 TATAGATATTTTAATAG
1 TATAAATATTTTAATAG
8852976 TATAAATATTTTAATA
1 TATAAATATTTTAATA
8852992 ACAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TATAAATATTTTAATAG
Found at i:8853131 original size:13 final size:13
Alignment explanation
Indices: 8853125--8853149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8853115 TATTTTAATT
8853125 AAATATTATTATA
1 AAATATTATTATA
8853138 AAATATTATTAT
1 AAATATTATTAT
8853150 TATTGAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTATTATA
Found at i:8853219 original size:23 final size:24
Alignment explanation
Indices: 8853165--8853222 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
8853155 AATATTAATA
8853165 ATTTTAATAATAAATAATTTCAACAT
1 ATTTTAATAATAAATAATTT--ACAT
* *
8853191 ACTTTAATAATAAATAATTT-GAT
1 ATTTTAATAATAAATAATTTACAT
8853214 ATTTTAATA
1 ATTTTAATA
8853223 GTTATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.34
26 19 0.66
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTTAATAATAAATAATTTACAT
Found at i:8864839 original size:20 final size:20
Alignment explanation
Indices: 8864792--8864831 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8864782 TAATCCTAAA
8864792 AAATAAATCAAACAATATAG
1 AAATAAATCAAACAATATAG
8864812 AAATAAATCAAACAATATAG
1 AAATAAATCAAACAATATAG
8864832 CAAAAAATAG
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:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (20 bp):
AAATAAATCAAACAATATAG
Found at i:8872190 original size:32 final size:32
Alignment explanation
Indices: 8872149--8872225 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
8872139 TTTTATTTGA
* *
8872149 TTGATGATCTTGCTGATATGAGAAATTCCTAC
1 TTGATGATCTTGATGATATGAAAAATTCCTAC
* * *
8872181 TTGATGATCTTGATGGTGTGAAAAATTCTTAC
1 TTGATGATCTTGATGATATGAAAAATTCCTAC
*
8872213 TTGATGATATTGA
1 TTGATGATCTTGA
8872226 CATTGTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (32 bp):
TTGATGATCTTGATGATATGAAAAATTCCTAC
Found at i:8874941 original size:18 final size:18
Alignment explanation
Indices: 8874884--8875020 Score: 58
Period size: 18 Copynumber: 7.8 Consensus size: 18
8874874 AAAATAATAA
* *
8874884 ATTATTTT-ATTTTAAGT
1 ATTATTTTAATATTAAAT
*
8874901 ATT-TTTT-ATATCAATAT
1 ATTATTTTAATATTAA-AT
*
8874918 AATATTTTAATATTAAAT
1 ATTATTTTAATATTAAAT
* * * *
8874936 ATTATTATAAAATATGATT
1 ATTATTTTAATAT-TAAAT
*
8874955 ATTA-TTGAATATT-AAT
1 ATTATTTTAATATTAAAT
*
8874971 A--ATTTTAATAATAAAT
1 ATTATTTTAATATTAAAT
*
8874987 AATT-TTTT-ATATTTTAAT
1 -ATTATTTTAATA-TTAAAT
*
8875005 AGTTATATTAATATTA
1 A-TTATTTTAATATTA
8875021 TTTTAAAAAA
Statistics
Matches: 87, Mismatches: 20, Indels: 24
0.66 0.15 0.18
Matches are distributed among these distances:
14 1 0.01
15 7 0.08
16 15 0.17
17 12 0.14
18 31 0.36
19 18 0.21
20 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTATTTTAATATTAAAT
Found at i:8886580 original size:42 final size:41
Alignment explanation
Indices: 8886474--8886870 Score: 431
Period size: 42 Copynumber: 9.5 Consensus size: 41
8886464 CAAAGACTCA
** * **
8886474 ACAACTTT-AAAAGATAAAAGGCTCCTCTAAATAGAGGCATG
1 ACAACTTTGAAAA-ATAAATTGCTCCTCTAAACAGAGGCACC
* * * *
8886515 ATAACTTTGAAAAATAAAATGTTCTTCTAAACAGAGGCACC
1 ACAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
* * *
8886556 ATAACATTTGAAAAATAAATTGTTCCTCTAAATAGAGGCACC
1 ACAAC-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
* * *
8886598 ACAACTTTTGAAAAACAAATTGCTCTTCGAAACAGAGGCACC
1 ACAAC-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
* * *
8886640 ACAACTTTTGAAAAATAAATTACTCCTCTAAATAGAGGCACT
1 ACAAC-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
* *
8886682 AAAACTTTGAAAGAAAAATAAATTGCTCCT-TGAAACAGAGGCATC
1 ACAACTTT----GAAAAATAAATTGCTCCTCT-AAACAGAGGCACC
* **
8886727 ATAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGATACC
1 ACAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
*
8886768 ACAACTTTGGAAAAATAAATTGCTCCTCTAAATAGAGGCACC
1 ACAACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACC
* *
8886810 ACAACTTTGAAAAAATAAA-TACTTCTCTAAACAGAGGCACC
1 ACAACTTTG-AAAAATAAATTGCTCCTCTAAACAGAGGCACC
*
8886851 ACAACTTTGTAAAATAAATT
1 ACAACTTTGAAAAATAAATT
8886871 ACTCTTTGAC
Statistics
Matches: 305, Mismatches: 40, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
40 8 0.03
41 102 0.33
42 160 0.52
44 1 0.00
45 34 0.11
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (41 bp):
ACAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACC
Found at i:8886589 original size:83 final size:82
Alignment explanation
Indices: 8886474--8886876 Score: 443
Period size: 83 Copynumber: 4.8 Consensus size: 82
8886464 CAAAGACTCA
** ** * * *
8886474 ACAACTTT-AAAAGATAAAAGGCTCCTCTAAATAGAGGCATGATAACTTTGAAAAATAAAATGTT
1 ACAACTTTGAAAA-ATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAATAAATTGCT
*
8886538 CTTCTAAACAGAGGCACC
65 CTTCGAAACAGAGGCACC
* * *
8886556 ATAACATTTGAAAAATAAATTGTTCCTCTAAATAGAGGCACCACAACTTTTGAAAAACAAATTGC
1 ACAAC-TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAAC-TTTGAAAAATAAATTGC
8886621 TCTTCGAAACAGAGGCACC
64 TCTTCGAAACAGAGGCACC
* * *
8886640 ACAACTTTTGAAAAATAAATTACTCCTCTAAATAGAGGCACTAAAACTTTGAAAGAAAAATAAAT
1 ACAAC-TTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTT----GAAAAATAAAT
*
8886705 TGCTCCTT-GAAACAGAGGCATC
61 TGCT-CTTCGAAACAGAGGCACC
* * **
8886727 ATAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGATACCACAACTTTGGAAAAATAAATTGCT
1 ACAACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTT-GAAAAATAAATTGCT
* * *
8886792 CCTCTAAATAGAGGCACC
65 CTTCGAAACAGAGGCACC
* * * * *
8886810 ACAACTTTGAAAAAATAAA-TACTTCTCTAAACAGAGGCACCACAACTTTGTAAAATAAATTACT
1 ACAACTTTG-AAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAATAAATTGCT
8886874 CTT
65 CTT
8886877 TGACAATCAT
Statistics
Matches: 272, Mismatches: 39, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
82 21 0.08
83 93 0.34
84 86 0.32
86 38 0.14
87 31 0.11
88 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (82 bp):
ACAACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAATAAATTGCTC
TTCGAAACAGAGGCACC
Found at i:8886947 original size:127 final size:127
Alignment explanation
Indices: 8886788--8887043 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 127
8886778 AAAAATAAAT
*
8886788 TGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAAATAAATACTTCTCTAAACAGAGGCACCAC
1 TGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATACTTCTCTAAACAGAGGCACCAC
8886853 AACTTTGTAAAATAAATTACTCTTTGACAATCATGTCCAGAGGAGTCGTAGATCTGATTTGA
66 AACTTTGTAAAATAAATTACTCTTTGACAATCATGTCCAGAGGAGTCGTAGATCTGATTTGA
8886915 TGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATACTTCTCTAAACAGAGGCACCAC
1 TGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATACTTCTCTAAACAGAGGCACCAC
8886980 AACTTTGTAAAATAAATTACTCTTTGACAATCATGTCCAGAGGAGTCGTAGATCTGATTTGA
66 AACTTTGTAAAATAAATTACTCTTTGACAATCATGTCCAGAGGAGTCGTAGATCTGATTTGA
8887042 TG
1 TG
8887044 AAATTTGTAA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (127 bp):
TGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATACTTCTCTAAACAGAGGCACCAC
AACTTTGTAAAATAAATTACTCTTTGACAATCATGTCCAGAGGAGTCGTAGATCTGATTTGA
Found at i:8886966 original size:41 final size:40
Alignment explanation
Indices: 8886920--8886996 Score: 136
Period size: 41 Copynumber: 1.9 Consensus size: 40
8886910 TTTGATGCTC
8886920 CTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATACTT
1 CTCTAAACAGAGGCACCACAACTTTG-AAAAATAAATACTT
*
8886961 CTCTAAACAGAGGCACCACAACTTTGTAAAATAAAT
1 CTCTAAACAGAGGCACCACAACTTTGAAAAATAAAT
8886997 TACTCTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 9 0.26
41 26 0.74
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.22
Consensus pattern (40 bp):
CTCTAAACAGAGGCACCACAACTTTGAAAAATAAATACTT
Found at i:8887645 original size:157 final size:158
Alignment explanation
Indices: 8887431--8887870 Score: 571
Period size: 157 Copynumber: 2.8 Consensus size: 158
8887421 AACATTAGGG
* ** *
8887431 TTTCACACCTCAAATAACTT-T-ATTTGAAACACAAAGATTCTCATTTGAGTTCAAAGATTCACA
1 TTTCACACCTCAAA-GA-TTCTCATTTGAAATTCAAAGATTCTCATTTGAGTTCGAAGATTCACA
* * * * *
8887494 TTTGATAAATTTTGCGTTTCACACCTTAAAGATTCTCATTTGCAACTCAAAGATTCTCATTTGAG
64 TTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAG
* *
8887559 TTCGAAGATTCATATTCGACAAATTTTAGA
129 TTCGAAAATTCACATTCGACAAATTTTAGA
* *
8887589 TTTCACACCTCAAATATTCTCATTT-AAATTTAAAGATTCTCATTTGAGTTCGAAGATTCACATT
1 TTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAGTTCGAAGATTCACATT
* * * *
8887653 CGATAAATTTTGGGTTTCACACATCAAATATTCTTACTTGAAATTCAAAGATTCTCATTTGAGTT
66 CGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAGTT
* * * *
8887718 TGAAAATTCACATTCGATAAATTTTGGG
131 CGAAAATTCACATTCGACAAATTTTAGA
* * * * *
8887746 TTTCACACCTCAAAGATTCTTATTTGAAATTCAAATATTATCATTTAAGTTTGAAGATTCACATT
1 TTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAGTTCGAAGATTCACATT
* * * *
8887811 CAACAAATTTTGGGTTTCACACCTCACAGATTCTCATTTAAAATTCAAAGATTCTCATTT
66 CGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTT
8887871 AAAAATCTAG
Statistics
Matches: 244, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
156 2 0.01
157 138 0.57
158 104 0.43
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (158 bp):
TTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAGTTCGAAGATTCACATT
CGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAGTT
CGAAAATTCACATTCGACAAATTTTAGA
Found at i:8887846 original size:236 final size:238
Alignment explanation
Indices: 8887398--8887870 Score: 659
Period size: 236 Copynumber: 2.0 Consensus size: 238
8887388 CTTTCATCAT
* *
8887398 AGTTCGAAGATTCACATCCGATGAACATTAGGGTTTCACACCTCAAATAACTTTATTTGAAACAC
1 AGTTCGAAGATTCACATCCGATGAACATTAGGGTTTCACACATCAAATAACTTTACTTGAAACAC
* *
8887463 AAAGATTCTCATTTGAGTTCAAAGATTCACATTTGATAAATTTTGCGTTTCACACCTTAAAGATT
66 AAAGATTCTCATTTGAGTTCAAAGATTCACATTCGATAAATTTTGCGTTTCACACCTCAAAGATT
* * * * *
8887528 CTCATTTGCAACTCAAAGATTCTCATTTGAGTTCGAAGATTCATATTCGACAAATTTTAGATTTC
131 CTCATTTGAAACTCAAAGATTATCATTTAAGTTCGAAGATTCACATTCAACAAATTTTAGATTTC
* *
8887593 ACACCTCAAATATTCTCATTT-AAATTTAAAGATTCTCATTTG
196 ACACCTCAAAGATTCTCATTTAAAATTCAAAGATTCTCATTTG
* * * *
8887635 AGTTCGAAGATTCACATTCGAT-AA-ATTTTGGGTTTCACACATCAAAT-ATTCTTACTTGAAAT
1 AGTTCGAAGATTCACATCCGATGAACA-TTAGGGTTTCACACATCAAATAACT-TTACTTGAAAC
* * *
8887697 TCAAAGATTCTCATTTGAGTTTGAAA-ATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAG
64 ACAAAGATTCTCATTTGAG-TTCAAAGATTCACATTCGATAAATTTTGCGTTTCACACCTCAAAG
* * * * * *
8887761 ATTCTTATTTGAAATTCAAATATTATCATTTAAGTTTGAAGATTCACATTCAACAAATTTTGGGT
128 ATTCTCATTTGAAACTCAAAGATTATCATTTAAGTTCGAAGATTCACATTCAACAAATTTTAGAT
*
8887826 TTCACACCTCACAGATTCTCATTTAAAATTCAAAGATTCTCATTT
193 TTCACACCTCAAAGATTCTCATTTAAAATTCAAAGATTCTCATTT
8887871 AAAAATCTAG
Statistics
Matches: 207, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
235 3 0.01
236 159 0.77
237 45 0.22
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (238 bp):
AGTTCGAAGATTCACATCCGATGAACATTAGGGTTTCACACATCAAATAACTTTACTTGAAACAC
AAAGATTCTCATTTGAGTTCAAAGATTCACATTCGATAAATTTTGCGTTTCACACCTCAAAGATT
CTCATTTGAAACTCAAAGATTATCATTTAAGTTCGAAGATTCACATTCAACAAATTTTAGATTTC
ACACCTCAAAGATTCTCATTTAAAATTCAAAGATTCTCATTTG
Found at i:8887872 original size:79 final size:79
Alignment explanation
Indices: 8887398--8887870 Score: 594
Period size: 79 Copynumber: 6.0 Consensus size: 79
8887388 CTTTCATCAT
* * *
8887398 AGTTCGAAGATTCACATCCGATGAACA-TTAGGGTTTCACACCTCAAATAACTT-T-ATTTGAAA
1 AGTTCGAAGATTCACATTCGAT-AA-ATTTTGGGTTTCACACCTCAAA-GA-TTCTCATTTGAAA
**
8887460 CACAAAGATTCTCATTTG
62 TTCAAAGATTCTCATTTG
* * * * * *
8887478 AGTTCAAAGATTCACATTTGATAAATTTTGCGTTTCACACCTTAAAGATTCTCATTTGCAACTCA
1 AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCA
8887543 AAGATTCTCATTTG
66 AAGATTCTCATTTG
* * * * * *
8887557 AGTTCGAAGATTCATATTCGACAAATTTTAGATTTCACACCTCAAATATTCTCATTT-AAATTTA
1 AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCA
8887621 AAGATTCTCATTTG
66 AAGATTCTCATTTG
* * * *
8887635 AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACATCAAATATTCTTACTTGAAATTCA
1 AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCA
8887700 AAGATTCTCATTTG
66 AAGATTCTCATTTG
* * *
8887714 AGTTTGAAAATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTTATTTGAAATTCA
1 AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCA
* * *
8887779 AATATTATCATTTA
66 AAGATTCTCATTTG
* * * * *
8887793 AGTTTGAAGATTCACATTCAACAAATTTTGGGTTTCACACCTCACAGATTCTCATTTAAAATTCA
1 AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCA
8887858 AAGATTCTCATTT
66 AAGATTCTCATTT
8887871 AAAAATCTAG
Statistics
Matches: 344, Mismatches: 45, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
77 2 0.01
78 71 0.21
79 252 0.73
80 19 0.06
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (79 bp):
AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCA
AAGATTCTCATTTG
Found at i:8888365 original size:63 final size:63
Alignment explanation
Indices: 8888246--8888374 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 63
8888236 TAAGTTTCTG
* * *
8888246 TCCTCCATCACTTGGTCACCACTCATAGGCTTTTCAGCACTAACCATTTCAAAACAAATTTTA
1 TCCTCCATCACTGGGTCACCACTCATAGGCTTTTAAACACTAACCATTTCAAAACAAATTTTA
* * * * * *
8888309 TCCTTCATCACTGGGTCATCACTCATAGG-TTTCTAAACACTTACTATTTTAGAACAAATTTTA
1 TCCTCCATCACTGGGTCACCACTCATAGGCTTT-TAAACACTAACCATTTCAAAACAAATTTTA
8888372 TCC
1 TCC
8888375 GCTGGTCCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 3 0.05
63 53 0.95
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (63 bp):
TCCTCCATCACTGGGTCACCACTCATAGGCTTTTAAACACTAACCATTTCAAAACAAATTTTA
Found at i:8889079 original size:9 final size:8
Alignment explanation
Indices: 8889076--8889120 Score: 81
Period size: 8 Copynumber: 5.5 Consensus size: 8
8889066 CTTTTTTCTA
8889076 TTTTTATT
1 TTTTTATT
8889084 TTTTTATT
1 TTTTTATT
8889092 TTTTTATT
1 TTTTTATT
8889100 TTTTTATTT
1 TTTTTA-TT
8889109 TTTTTATT
1 TTTTTATT
8889117 TTTT
1 TTTT
8889121 CACCTGTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:8889088 original size:16 final size:16
Alignment explanation
Indices: 8889056--8889120 Score: 85
Period size: 16 Copynumber: 3.9 Consensus size: 16
8889046 CTTTTTTCCT
*
8889056 TTTTTTTCATCTTTTTTC
1 TTTTTTT-AT-TTTTTTA
*
8889074 TATTTTTATTTTTTTA
1 TTTTTTTATTTTTTTA
8889090 TTTTTTTATTTTTTTA
1 TTTTTTTATTTTTTTA
8889106 TTTTTTTTATTTTTT
1 -TTTTTTTATTTTTT
8889121 CACCTGTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
16 21 0.49
17 16 0.37
18 6 0.14
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTATTTTTTTA
Found at i:8889511 original size:26 final size:24
Alignment explanation
Indices: 8889465--8889512 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
8889455 ATGTATGGCA
*
8889465 TTCATTTCTTTTTTCTCTTTTTCT
1 TTCATTTCTTTTTTCTATTTTTCT
*
8889489 TTCATTTTGCTTTTTTTTATTTTT
1 TTCA-TTT-CTTTTTTCTATTTTT
8889513 GAAATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 3 0.15
26 13 0.65
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (24 bp):
TTCATTTCTTTTTTCTATTTTTCT
Found at i:8891920 original size:20 final size:20
Alignment explanation
Indices: 8891895--8891937 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8891885 GAGCATGAAA
* *
8891895 ATAATGCATAGGATGATATG
1 ATAATGCATAGAATGAAATG
8891915 ATAATGCATAGAATGAAATG
1 ATAATGCATAGAATGAAATG
8891935 ATA
1 ATA
8891938 TGGAAATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
ATAATGCATAGAATGAAATG
Done.