Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 79 of 120
Found at i:10112165 original size:22 final size:22
Alignment explanation
Indices: 10112130--10112175 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
10112120 AATCGAAACC
*
10112130 TTAAACCCTTCAAACCCTAAAA
1 TTAAACCCTCCAAACCCTAAAA
*
10112152 TTAAACTCTCCAAACCCTAAAA
1 TTAAACCCTCCAAACCCTAAAA
10112174 TT
1 TT
10112176 TGAAACTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAACCCTCCAAACCCTAAAA
Found at i:10114296 original size:12 final size:12
Alignment explanation
Indices: 10114279--10114314 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
10114269 TTTTTAAATA
10114279 TAAATATATAAT
1 TAAATATATAAT
10114291 TAAATATATAAT
1 TAAATATATAAT
*
10114303 TAAATAAATAAT
1 TAAATATATAAT
10114315 AAAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAATATATAAT
Found at i:10116724 original size:3 final size:3
Alignment explanation
Indices: 10116718--10116745 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10116708 AAAAAATGAA
10116718 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10116746 GGTAGTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10117926 original size:32 final size:32
Alignment explanation
Indices: 10117889--10117957 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
10117879 TAAGTTTGAC
10117889 CTTAACCAAAATATAATTAATAAAACTATTAA
1 CTTAACCAAAATATAATTAATAAAACTATTAA
10117921 CTTAACCAAAATATAATTAATAAAACTATTAA
1 CTTAACCAAAATATAATTAATAAAACTATTAA
10117953 CTTAA
1 CTTAA
10117958 AACAAACAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (32 bp):
CTTAACCAAAATATAATTAATAAAACTATTAA
Found at i:10127508 original size:33 final size:32
Alignment explanation
Indices: 10127466--10127529 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
10127456 TTCTTATAAT
*
10127466 AAATTTGATAATTCGTAAATTTATATTATATA
1 AAATTTGATAATTCATAAATTTATATTATATA
* *
10127498 AAATATTGATAATTTATATATTTATATTATAT
1 AAAT-TTGATAATTCATAAATTTATATTATAT
10127530 TTTAAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (32 bp):
AAATTTGATAATTCATAAATTTATATTATATA
Found at i:10127989 original size:20 final size:21
Alignment explanation
Indices: 10127953--10128004 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
10127943 CTCGAAATTA
10127953 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
10127975 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
10127996 AT-AAATATT
1 ATAAAATATT
10128005 TAATTATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:10127995 original size:21 final size:22
Alignment explanation
Indices: 10127953--10128004 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
10127943 CTCGAAATTA
10127953 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
10127975 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
10127996 AT-AAATATT
1 ATAAAATATT
10128005 TAATTATCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:10134130 original size:29 final size:27
Alignment explanation
Indices: 10134075--10134128 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
10134065 TAATATTTTG
10134075 AAATATATTCTAAAAATAAAATTAATA
1 AAATATATTCTAAAAATAAAATTAATA
* * *
10134102 AAATATATTTTTATAATAAAA-TAATA
1 AAATATATTCTAAAAATAAAATTAATA
10134128 A
1 A
10134129 TATGGGCCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
AAATATATTCTAAAAATAAAATTAATA
Found at i:10139562 original size:2 final size:2
Alignment explanation
Indices: 10139555--10139589 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10139545 TGAAATTATT
10139555 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
10139590 TTGAGCCTTG
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:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:10144282 original size:2 final size:2
Alignment explanation
Indices: 10144275--10144300 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10144265 TTTGCTTCAG
10144275 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
10144301 TTTAGTTTTA
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:10144572 original size:2 final size:2
Alignment explanation
Indices: 10144565--10144596 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10144555 TCACCCTCAA
10144565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10144597 CTTGAACTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10145296 original size:2 final size:2
Alignment explanation
Indices: 10145289--10145314 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10145279 AATAAACCAA
10145289 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
10145315 TTTTAATAAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10150913 original size:2 final size:2
Alignment explanation
Indices: 10150879--10150905 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10150869 GCAGTACTTA
10150879 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
10150906 AGTATATAAC
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:10153529 original size:26 final size:27
Alignment explanation
Indices: 10153499--10153554 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
10153489 CTATAAAGGC
10153499 AATATA-TGATAAATGTTAA-AGAT-ACA
1 AATATATTGA-AAA-GTTAATAGATCACA
10153525 AATATATTGAAAAGTTAATAGATCACA
1 AATATATTGAAAAGTTAATAGATCACA
10153552 AAT
1 AAT
10153555 GTAACAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 5 0.19
26 13 0.48
27 9 0.33
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (27 bp):
AATATATTGAAAAGTTAATAGATCACA
Found at i:10156997 original size:121 final size:122
Alignment explanation
Indices: 10156766--10157010 Score: 402
Period size: 121 Copynumber: 2.0 Consensus size: 122
10156756 GAGTCCAGCA
*
10156766 TACTACAAACGTGGGGATTATGTTCCTGGTTTGAAGGTGAGAATTAGTTGGTTCTTTTGAGATAA
1 TACTACAAACGTGGGAATTATGTTCCTGGTTTGAAGGTGAGAATTAGTTGGTTCTTTTGAGATAA
* * *
10156831 TAATGATTTTATTAAGTTATAATTTGTTGGTTCTTTAGTGCTCTTATTATGATTACG
66 TAATGATTTTATTAAGTTATAAGTTGTTGGTTCTTTAGTACTCTTATTATGAATACG
* *
10156888 TACTGCAAAGGTGGGAATTATGTTCCTGGTTTGAAGGTGAGAATTAGTTGGTT-TTTTGAGATAA
1 TACTACAAACGTGGGAATTATGTTCCTGGTTTGAAGGTGAGAATTAGTTGGTTCTTTTGAGATAA
* * *
10156952 TAATGATTTTGTTAAGTTGTAAGTTGTTGGTTCTTTAGTATTCTTATTATGAATACG
66 TAATGATTTTATTAAGTTATAAGTTGTTGGTTCTTTAGTACTCTTATTATGAATACG
10157009 TA
1 TA
10157011 AATAGGATTT
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
121 64 0.56
122 50 0.44
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (122 bp):
TACTACAAACGTGGGAATTATGTTCCTGGTTTGAAGGTGAGAATTAGTTGGTTCTTTTGAGATAA
TAATGATTTTATTAAGTTATAAGTTGTTGGTTCTTTAGTACTCTTATTATGAATACG
Found at i:10170941 original size:21 final size:21
Alignment explanation
Indices: 10170912--10170983 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
10170902 TTGATGAAAA
10170912 TTATTTTTAATTTTTAGTTTT
1 TTATTTTTAATTTTTAGTTTT
* **
10170933 TTTTTTTTAATTTTTAGAATT
1 TTATTTTTAATTTTTAGTTTT
** *
10170954 TCCTTTTTAATTTTCAGATTTT
1 TTATTTTTAATTTTTAG-TTTT
10170976 TTATTTTT
1 TTATTTTT
10170984 GAAAATTTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 32 0.80
22 8 0.20
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (21 bp):
TTATTTTTAATTTTTAGTTTT
Found at i:10171230 original size:21 final size:20
Alignment explanation
Indices: 10171206--10171254 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
10171196 CAGATTTTAA
*
10171206 AAAATTTTAGCAATTGTTTTT
1 AAAATTTTAG-AATTCTTTTT
* *
10171227 AAAATTTTCGTATTCTTTTT
1 AAAATTTTAGAATTCTTTTT
10171247 AAAATTTT
1 AAAATTTT
10171255 TATATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (20 bp):
AAAATTTTAGAATTCTTTTT
Found at i:10171266 original size:20 final size:20
Alignment explanation
Indices: 10171222--10171260 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10171212 TTAGCAATTG
*
10171222 TTTTTAAAATTTTCGTATTC
1 TTTTTAAAATTTTCATATTC
*
10171242 TTTTTAAAATTTTTATATT
1 TTTTTAAAATTTTCATATT
10171261 TATTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTAAAATTTTCATATTC
Found at i:10171266 original size:21 final size:20
Alignment explanation
Indices: 10171222--10171268 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
10171212 TTAGCAATTG
* *
10171222 TTTTTAAAATTTTCGTATTC
1 TTTTTAAAATTTTCATATTA
*
10171242 TTTTTAAAATTTTTATATTTA
1 TTTTTAAAATTTTCATA-TTA
10171263 TTTTTA
1 TTTTTA
10171269 TTTTTGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTAAAATTTTCATATTA
Found at i:10172158 original size:14 final size:14
Alignment explanation
Indices: 10172141--10172170 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10172131 TCAAAAGAAG
10172141 AAAAGAAGGAAGGT
1 AAAAGAAGGAAGGT
*
10172155 AAAAGCAGGAAGGT
1 AAAAGAAGGAAGGT
10172169 AA
1 AA
10172171 GATCCTGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.33, T:0.07
Consensus pattern (14 bp):
AAAAGAAGGAAGGT
Found at i:10172435 original size:13 final size:13
Alignment explanation
Indices: 10172417--10172442 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10172407 AAAAACAGTC
10172417 CTTTTCTTTTTCT
1 CTTTTCTTTTTCT
10172430 CTTTTCTTTTTCT
1 CTTTTCTTTTTCT
10172443 TCACAATAAT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTTCTTTTTCT
Found at i:10183453 original size:22 final size:22
Alignment explanation
Indices: 10183427--10183494 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
10183417 ATATCTTAAT
10183427 TTAATAAAAATTAT-ATTTATA
1 TTAATAAAAATTATAATTTATA
* *
10183448 TATAAT-TAAGTTATAATTTATA
1 T-TAATAAAAATTATAATTTATA
*
10183470 TTAA-AAAAATAAATACATTTATA
1 TTAATAAAAAT-TATA-ATTTATA
10183493 TT
1 TT
10183495 TGTCTATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
21 13 0.35
22 15 0.41
23 9 0.24
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (22 bp):
TTAATAAAAATTATAATTTATA
Found at i:10184011 original size:17 final size:17
Alignment explanation
Indices: 10183991--10184023 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10183981 CTTAGGTTTC
*
10183991 TTTTT-TTTTTCATTAA
1 TTTTTATTTTTTATTAA
10184007 TTTTTATTTTTTATTAA
1 TTTTTATTTTTTATTAA
10184024 ATAAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTTTATTAA
Found at i:10184253 original size:20 final size:19
Alignment explanation
Indices: 10184225--10184262 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10184215 TACTTATTTA
*
10184225 TTATTTATTTAATTTTATAT
1 TTATATATTT-ATTTTATAT
10184245 TTATATATTTATTTTATA
1 TTATATATTTATTTTATA
10184263 AAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTATTTTATAT
Found at i:10184665 original size:31 final size:29
Alignment explanation
Indices: 10184603--10184665 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
10184593 ATGTATTATA
* *
10184603 TTAATAAAAATATTGTTTAATATCTTAAT
1 TTAATAAAAATATTATTTAATATATTAAT
10184632 TTAATAAAAA-ATTATATTATATATAATTAAT
1 TTAATAAAAATATTAT-TTA-ATAT-ATTAAT
10184663 TTA
1 TTA
10184666 TAATTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.14
29 13 0.45
30 4 0.14
31 8 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TTAATAAAAATATTATTTAATATATTAAT
Found at i:10189882 original size:18 final size:18
Alignment explanation
Indices: 10189859--10189894 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10189849 AAAATTCGAA
10189859 TTTTATTATTTAAAATTT
1 TTTTATTATTTAAAATTT
*
10189877 TTTTATTATTTATAATTT
1 TTTTATTATTTAAAATTT
10189895 AAGATCTGTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTATTTAAAATTT
Found at i:10190415 original size:11 final size:11
Alignment explanation
Indices: 10190399--10190428 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10190389 TTTTAATAAT
10190399 TATTATAAATA
1 TATTATAAATA
10190410 TATTATAAATA
1 TATTATAAATA
*
10190421 AATTATAA
1 TATTATAA
10190429 TAAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTATAAATA
Found at i:10190424 original size:25 final size:23
Alignment explanation
Indices: 10190396--10190453 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
10190386 AAATTTTAAT
*
10190396 AATTATTATAAATATATTATAAATA
1 AATTATTATAAA-ATAATA-AAATA
*
10190421 AATTATAATAAAATAATAAAATA
1 AATTATTATAAAATAATAAAATA
* *
10190444 TATTTTTATA
1 AATTATTATA
10190454 TTGATATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 12 0.43
24 5 0.18
25 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTATTATAAAATAATAAAATA
Found at i:10190439 original size:22 final size:24
Alignment explanation
Indices: 10190396--10190440 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
10190386 AAATTTTAAT
*
10190396 AATTATTATAAATATATTATAAATA
1 AATTATAATAAATATA-TATAAATA
10190421 AATTATAATAAA-ATA-ATAAA
1 AATTATAATAAATATATATAAA
10190441 ATATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
24 3 0.16
25 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AATTATAATAAATATATATAAATA
Found at i:10190492 original size:31 final size:30
Alignment explanation
Indices: 10190427--10190492 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
10190417 AATAAATTAT
**
10190427 AATA-AAATAATAAAATATATTTTTATATT
1 AATATAAATAATAAAATATATTTTTATAAA
* * *
10190456 GATATAAATTATAATATATAGTTTTTATAAA
1 AATATAAATAATAAAATATA-TTTTTATAAA
10190487 AATATA
1 AATATA
10190493 TAATGCAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 3 0.10
30 13 0.45
31 13 0.45
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (30 bp):
AATATAAATAATAAAATATATTTTTATAAA
Found at i:10191914 original size:25 final size:24
Alignment explanation
Indices: 10191885--10191932 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10191875 TAAATTTATT
10191885 AATAAA-AAATATAAAAAGAAAAAAC
1 AATAAACAAA-ATAAAAA-AAAAAAC
*
10191910 AATAAACAAAATAAACAAAAAAA
1 AATAAACAAAATAAAAAAAAAAA
10191933 GGGAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 12 0.57
26 3 0.14
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.10
Consensus pattern (24 bp):
AATAAACAAAATAAAAAAAAAAAC
Found at i:10193713 original size:2 final size:2
Alignment explanation
Indices: 10193672--10193700 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10193662 ATGTATATTA
10193672 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
10193701 CTTTTAAATA
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:10195892 original size:392 final size:388
Alignment explanation
Indices: 10195237--10196019 Score: 959
Period size: 392 Copynumber: 2.0 Consensus size: 388
10195227 ATTACTTTTG
* *
10195237 TATTATTATATAAATGTTAAAATTTAATATGTAATTATAAAACAATTAAAAGGGTATTTCGTAAT
1 TATTATTATATAAATGTTAAAATTTAATATGTAATTATAAAACAATTAAAAGAGCATTTCGTAAT
* * * * *
10195302 TATGATAAAGGTCGTTATAGTAATTTTGACTAATTATAATATTATGTAATTTTTTTATTATGGTA
66 TATAATAAAGGTCATTATAGTAATTTTGACTAATTATAATATTAGGTAATTTTTTAATTATGATA
* * * * *
10195367 AAATGGATATTATAGTAATATTGACCAATTATGGTAAGAAAGGTATCTTCATAGTTATGACAAAA
131 AAATGAACATTATAGTAATATTGACCAATTATGATAAGAAAGATATCTTCATAATTATGACAAAA
* * * * * ** *
10195432 GTGGCAGTATAGTAATTTTGATTGTTTATAAGGAAAAAGGCATTATAGTAATTTATATGATTTAA
196 GTGGCAATATAATAATTTTGACTATTTATAAGGAAAAAGGCATTATAGTAATTTACACAATATAA
* * *
10195497 TTAAACAGATATATAAGGT-ATTTTTGTAATTTTGG-TAAAGGATGACATAAAATGCCACATGTC
261 TTAAACAGATATAAAAGATAATTTTTGTAATTTTGGCGAAA-G-TGACATAAAATGCCACATGTC
* * *
10195560 AACGAATTATGAAAAAATCAAAAGGGTATTAATGTAATTTTGGTGAGAGTTCATTTTTAATTATA
324 AACAAATTATGAAAAAATCAAAAGAGTATTAATGTAATTTTGGTG-G-GTTCACTTTTAATTATA
*
10195625 GT
387 AT
* * * *
10195627 TATTATTATATAGATGTTAAAATTTAATATGTAATTATTAAGCAATTAAAAGAGCATTTTTGTAA
1 TATTATTATATAAATGTTAAAATTTAATATGTAATTATAAAACAATTAAAAGAGCA-TTTCGTAA
** *
10195692 TTATAATTAAAGGGT-ATTATAGTAATTTTGTTTAATTATAGTATTAAGGT-ATTTTTATAATTA
65 TTATAA-TAAA-GGTCATTATAGTAATTTTGACTAATTATAATATT-AGGTAATTTTT-TAATTA
* * * * * * **
10195755 TGATAAGA-GAAGCATTATAGTAATTTTGACCATTTAT-ATAGGAGAGATATTTTTGTAATTATG
126 TGATAAAATGAA-CATTATAGTAATATTGACCAATTATGATAAGAAAGATATCTTCATAATTATG
* * * * *
10195818 ACAGAAGTGGCAATATAATAATTTTGGCTATTTAT-ATGAAGAAAGGTATTATTGTAATTTACAC
190 ACAAAAGTGGCAATATAATAATTTTGACTATTTATAAGGAA-AAAGGCATTATAGTAATTTACAC
* *
10195882 AATATAATTAAATAGATATAAAAGATAATTTTTGTAATTTTGGCGAAAGTGATATAAAATGCCAC
254 AATATAATTAAACAGATATAAAAGATAATTTTTGTAATTTTGGCGAAAGTGACATAAAATGCCAC
* *
10195947 ATGTCAACAAATTATGAAACAATCAAAAGAGTATTAATGTAATTTTGGTGGGTTTACTTTTAATT
319 ATGTCAACAAATTATGAAAAAATCAAAAGAGTATTAATGTAATTTTGGTGGGTTCACTTTTAATT
10196012 ATAAT
384 ATAAT
10196017 TAT
1 TAT
10196020 AAATATGCAA
Statistics
Matches: 333, Mismatches: 51, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
390 70 0.21
391 17 0.05
392 187 0.56
393 56 0.17
394 3 0.01
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (388 bp):
TATTATTATATAAATGTTAAAATTTAATATGTAATTATAAAACAATTAAAAGAGCATTTCGTAAT
TATAATAAAGGTCATTATAGTAATTTTGACTAATTATAATATTAGGTAATTTTTTAATTATGATA
AAATGAACATTATAGTAATATTGACCAATTATGATAAGAAAGATATCTTCATAATTATGACAAAA
GTGGCAATATAATAATTTTGACTATTTATAAGGAAAAAGGCATTATAGTAATTTACACAATATAA
TTAAACAGATATAAAAGATAATTTTTGTAATTTTGGCGAAAGTGACATAAAATGCCACATGTCAA
CAAATTATGAAAAAATCAAAAGAGTATTAATGTAATTTTGGTGGGTTCACTTTTAATTATAAT
Found at i:10196192 original size:25 final size:24
Alignment explanation
Indices: 10196141--10196201 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
10196131 ATAGAAAGGT
10196141 ATTTC-GTAATTATGTAATAGAAGC
1 ATTTCAGTAATTATG-AATAGAAGC
10196165 ATTTCAGTAATTATG-ATAGGAAGAC
1 ATTTCAGTAATTATGAATA-GAAG-C
10196190 ATTAT-AGTAATT
1 ATT-TCAGTAATT
10196202 TTGGTTGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
23 3 0.09
24 9 0.27
25 20 0.61
26 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (24 bp):
ATTTCAGTAATTATGAATAGAAGC
Found at i:10200165 original size:21 final size:21
Alignment explanation
Indices: 10200141--10200185 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10200131 GAATTGACGG
* *
10200141 TGATGGGGATGGCGATTG-TGA
1 TGATGGAGATGACGA-TGATGA
10200162 TGATGGAGATGACGATGATGA
1 TGATGGAGATGACGATGATGA
10200183 TGA
1 TGA
10200186 AGAAAGCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.27, C:0.04, G:0.42, T:0.27
Consensus pattern (21 bp):
TGATGGAGATGACGATGATGA
Found at i:10202604 original size:16 final size:16
Alignment explanation
Indices: 10202580--10202613 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10202570 TTGAAAAAAC
10202580 ATGAAAAAATTTTATT
1 ATGAAAAAATTTTATT
*
10202596 ATGATAAAATTTTATT
1 ATGAAAAAATTTTATT
10202612 AT
1 AT
10202614 TACATATAAA
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:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATGAAAAAATTTTATT
Found at i:10202615 original size:19 final size:17
Alignment explanation
Indices: 10202591--10202637 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 17
10202581 TGAAAAAATT
10202591 TTATTATGATAAAATTTTA
1 TTATTAT-ATAAAA-TTTA
10202610 TTATTACATATAAAATTTA
1 TTATT--ATATAAAATTTA
10202629 TTATTATAT
1 TTATTATAT
10202638 GCTATATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.15
19 14 0.54
20 6 0.23
21 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTATTATATAAAATTTA
Found at i:10202719 original size:20 final size:19
Alignment explanation
Indices: 10202694--10202749 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
10202684 ACAAAAATAC
*
10202694 TAAATAAATAATTTATATAT
1 TAAATAAATAATTTATA-AA
*
10202714 TAAATAAATAAAATTATAAA
1 TAAATAAAT-AATTTATAAA
10202734 TAAATAAATAATTTAT
1 TAAATAAATAATTTAT
10202750 TTATATGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.19
20 19 0.59
21 7 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATAAATAATTTATAAA
Found at i:10206311 original size:2 final size:2
Alignment explanation
Indices: 10206304--10206337 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10206294 TTAAGCCATC
10206304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10206338 CAATAAACCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10206991 original size:9 final size:9
Alignment explanation
Indices: 10206974--10207008 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
10206964 TCATATGAGT
10206974 ACATATTTA
1 ACATATTTA
*
10206983 ACATGTTTA
1 ACATATTTA
*
10206992 ACACATTTA
1 ACATATTTA
10207001 ACATATTT
1 ACATATTT
10207009 TTTATTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (9 bp):
ACATATTTA
Found at i:10207156 original size:10 final size:10
Alignment explanation
Indices: 10207124--10207186 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
10207114 AAACATTTAA
10207124 TTATTATACTT
1 TTATTATA-TT
*
10207135 ATT-TTATTTT
1 -TTATTATATT
10207145 TTATTATATT
1 TTATTATATT
*
10207155 TTAATATA-T
1 TTATTATATT
**
10207164 TTAACATATT
1 TTATTATATT
10207174 TTATTATATT
1 TTATTATATT
10207184 TTA
1 TTA
10207187 ATTTTAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 10 0.23
10 27 0.63
11 4 0.09
12 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATTATATT
Found at i:10207202 original size:36 final size:36
Alignment explanation
Indices: 10207134--10207202 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
10207124 TTATTATACT
* *
10207134 TATTTTATTTTTTATTATATTTTAATATATTTAACA
1 TATTTTATTTATTATTATATTTTAATAAATTTAACA
10207170 TATTTTATTATATT-TTA-ATTTTAAATAAATTTA
1 TATTTTATT-TATTATTATATTTT-AATAAATTTA
10207203 CAAACTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 5 0.17
36 21 0.72
37 3 0.10
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (36 bp):
TATTTTATTTATTATTATATTTTAATAAATTTAACA
Found at i:10207766 original size:22 final size:22
Alignment explanation
Indices: 10207715--10207768 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
10207705 AGCATTAAAT
*
10207715 TTTTTTTAAAAATTCTACAAAA
1 TTTTTTAAAAAATTCTACAAAA
* * *
10207737 ATTCTTAAAAAATT-TTCAAAA
1 TTTTTTAAAAAATTCTACAAAA
10207758 GTTTTTTAAAA
1 -TTTTTTAAAA
10207769 TATGAAATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTTTTAAAAAATTCTACAAAA
Found at i:10207781 original size:29 final size:29
Alignment explanation
Indices: 10207764--10207824 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
10207754 AAAAGTTTTT
10207764 TAAAA-TATGAAATATTTTAAAAAAATTA
1 TAAAACTATGAAATATTTTAAAAAAATTA
*
10207792 TAAAACTATGAAATATTTT-TAAAAATTA
1 TAAAACTATGAAATATTTTAAAAAAATTA
10207820 TAAAA
1 TAAAA
10207825 ATTTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 18 0.58
29 13 0.42
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAAACTATGAAATATTTTAAAAAAATTA
Found at i:10207834 original size:29 final size:29
Alignment explanation
Indices: 10207765--10207832 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
10207755 AAAGTTTTTT
*
10207765 AAAATATGAAATATTTTAAAAAAATTATA
1 AAAATATAAAATATTTTAAAAAAATTATA
* * *
10207794 AAACTATGAAATATTTT-TAAAAATTATA
1 AAAATATAAAATATTTTAAAAAAATTATA
*
10207822 AAAATTTAAAA
1 AAAATATAAAA
10207833 ATCAAGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATATAAAATATTTTAAAAAAATTATA
Found at i:10207859 original size:17 final size:17
Alignment explanation
Indices: 10207810--10207860 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
10207800 TGAAATATTT
* *
10207810 TTAAAAATTATAAAAAT
1 TTAAAAATTAAAAAAAC
* *
10207827 TTAAAAATCAAGAAAAC
1 TTAAAAATTAAAAAAAC
10207844 TTAAAAATTAAAAAAAC
1 TTAAAAATTAAAAAAAC
10207861 CAACATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (17 bp):
TTAAAAATTAAAAAAAC
Found at i:10207893 original size:19 final size:19
Alignment explanation
Indices: 10207871--10207907 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10207861 CAACATTTTA
10207871 ATAAAAAATCCAAAAAATT
1 ATAAAAAATCCAAAAAATT
*
10207890 ATAAAAAATTCAAAAAAT
1 ATAAAAAATCCAAAAAAT
10207908 GAAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAAAATCCAAAAAATT
Found at i:10208042 original size:36 final size:34
Alignment explanation
Indices: 10207973--10208040 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 34
10207963 AATTGAAAAC
10207973 AAAAAAAAAAAATTTTTGAAAAATTTTAAAAATT
1 AAAAAAAAAAAATTTTTGAAAAATTTTAAAAATT
10208007 AAAAAAATAAAAATTTTAT-AAAAAGTTCTTAAAA
1 AAAAAAA-AAAAATTTT-TGAAAAA-TT-TTAAAA
10208041 TTTTAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 7 0.23
35 14 0.47
36 3 0.10
37 6 0.20
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (34 bp):
AAAAAAAAAAAATTTTTGAAAAATTTTAAAAATT
Found at i:10208120 original size:18 final size:18
Alignment explanation
Indices: 10208085--10208122 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10208075 AGACCAAAAT
* *
10208085 ATTCTAAAAAATTTTAAA
1 ATTCTAAAAAACTGTAAA
10208103 ATTCTAAAAAACTGTAAA
1 ATTCTAAAAAACTGTAAA
10208121 AT
1 AT
10208123 ATAAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (18 bp):
ATTCTAAAAAACTGTAAA
Found at i:10208259 original size:19 final size:18
Alignment explanation
Indices: 10208232--10208271 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10208222 TTTCTACAAC
**
10208232 TTTTTAAAAATTTTTATA
1 TTTTTAAAAAAATTTATA
10208250 TTTTTCAAAAAAATTTATA
1 TTTTT-AAAAAAATTTATA
10208269 TTT
1 TTT
10208272 ATATTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAAAATTTATA
Found at i:10208385 original size:19 final size:17
Alignment explanation
Indices: 10208350--10208400 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
10208340 TGATTTTTTT
*
10208350 TAATTTTTAAGTATTCA
1 TAATTTTTAAATATTCA
10208367 TAATCTTTTAAATATTTCA
1 TAAT-TTTTAAATA-TTCA
10208386 T--TTTTTATAATATTC
1 TAATTTTTA-AATATTC
10208401 CAGATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 8 0.27
17 9 0.30
18 8 0.27
19 5 0.17
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTTTTAAATATTCA
Found at i:10209191 original size:30 final size:30
Alignment explanation
Indices: 10209107--10209198 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 30
10209097 GGAACAAAAG
* * *
10209107 TGAATTTTGTCATCAT-ATTTTAATTTTGT
1 TGAAATTTGTCATTATAATTTTAATTTTAT
* * * * *
10209136 TAAAATTTGTTAATGTACTTTTAATTTTAT
1 TGAAATTTGTCATTATAATTTTAATTTTAT
* *
10209166 TGAAATTTGTCATTATAATTATAATTTCAT
1 TGAAATTTGTCATTATAATTTTAATTTTAT
10209196 TGA
1 TGA
10209199 TTATTGGATA
Statistics
Matches: 47, Mismatches: 15, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
29 10 0.21
30 37 0.79
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (30 bp):
TGAAATTTGTCATTATAATTTTAATTTTAT
Found at i:10211456 original size:29 final size:30
Alignment explanation
Indices: 10211399--10211453 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 30
10211389 TGAGTTTTCA
*
10211399 TTAGATTTTAGGTTTTGATTTAGAGAACAG
1 TTAGATTTTAGGTTTAGATTTAGAGAACAG
*
10211429 TTAGA-TTTAGG-TTAGATTTTGAGAA
1 TTAGATTTTAGGTTTAGATTTAGAGAA
10211454 ACAAAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 12 0.52
29 6 0.26
30 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.44
Consensus pattern (30 bp):
TTAGATTTTAGGTTTAGATTTAGAGAACAG
Found at i:10211935 original size:13 final size:13
Alignment explanation
Indices: 10211919--10211954 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
10211909 TTTTTTTTGG
*
10211919 ATTATTTATTTCT
1 ATTATTTATTTCA
*
10211932 ATTATTTATGTCA
1 ATTATTTATTTCA
10211945 ATTATTTATT
1 ATTATTTATT
10211955 GTATTTGCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (13 bp):
ATTATTTATTTCA
Found at i:10212847 original size:22 final size:21
Alignment explanation
Indices: 10212819--10212859 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
10212809 TATAATGCAT
10212819 ATAAATAAATATAAAAATAAAA
1 ATAAATAAATA-AAAAATAAAA
*
10212841 ATAAATAATTAAAAAATAA
1 ATAAATAAATAAAAAATAA
10212860 TTATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
ATAAATAAATAAAAAATAAAA
Found at i:10213452 original size:2 final size:2
Alignment explanation
Indices: 10213445--10213479 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10213435 CGACACGATG
10213445 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
10213480 GTAAATCACA
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:10213630 original size:29 final size:27
Alignment explanation
Indices: 10213576--10213652 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 27
10213566 AATAACATTT
10213576 TAATCATATAAATATAATATTTTTATTAA-A
1 TAAT-ATATAAATATAA-A--TTTATTAATA
10213606 TTAATATATTAAATAATAAATTTATTAATA
1 -TAATATA-TAAAT-ATAAATTTATTAATA
10213636 TAATATATAAATATAAA
1 TAATATATAAATATAAA
10213653 ATCAAATTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 15 0.35
30 4 0.09
31 10 0.23
32 4 0.09
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
TAATATATAAATATAAATTTATTAATA
Found at i:10214001 original size:19 final size:19
Alignment explanation
Indices: 10213983--10214023 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
10213973 AATTAGAAAT
10213983 TAAAATAAAAGG-AAAAAA
1 TAAAATAAAAGGCAAAAAA
* *
10214001 TGAAATTAAAGGCAAAAAA
1 TAAAATAAAAGGCAAAAAA
10214020 -AAAA
1 TAAAA
10214024 AAAGACAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (19 bp):
TAAAATAAAAGGCAAAAAA
Found at i:10214005 original size:24 final size:25
Alignment explanation
Indices: 10213964--10214010 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
10213954 TGTAGAGAAA
*
10213964 AAAAGGAAAAATTAGAAATTAAAAT
1 AAAAGGAAAAAATAGAAATTAAAAT
10213989 AAAAGGAAAAAAT-GAAATTAAA
1 AAAAGGAAAAAATAGAAATTAAA
10214011 GGCAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (25 bp):
AAAAGGAAAAAATAGAAATTAAAAT
Found at i:10215994 original size:20 final size:20
Alignment explanation
Indices: 10215948--10215994 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
10215938 TCATATTTAT
*
10215948 TATAT-TAATATATTGAAAA
1 TATATATAATATAATGAAAA
* * *
10215967 AATGTATAATATAATGAACA
1 TATATATAATATAATGAAAA
10215987 TATATATA
1 TATATATA
10215995 TTTTTTTGAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (20 bp):
TATATATAATATAATGAAAA
Found at i:10218469 original size:16 final size:16
Alignment explanation
Indices: 10218444--10218474 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10218434 TATTTATTAG
*
10218444 ATTAATGAATATATAT
1 ATTAAAGAATATATAT
10218460 ATTAAAGAATATATA
1 ATTAAAGAATATATA
10218475 GTTTATTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTAAAGAATATATAT
Found at i:10221833 original size:20 final size:20
Alignment explanation
Indices: 10221794--10221836 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10221784 TTTTGCATTT
* *
10221794 TTTTGCATGATTTATGATAA
1 TTTTGCATGAATAATGATAA
*
10221814 TTTTGCATGAATAATTATAA
1 TTTTGCATGAATAATGATAA
10221834 TTT
1 TTT
10221837 ATATATTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (20 bp):
TTTTGCATGAATAATGATAA
Found at i:10221877 original size:12 final size:12
Alignment explanation
Indices: 10221837--10221879 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10221827 ATTATAATTT
10221837 ATATATTTGCATG
1 ATAT-TTTGCATG
** *
10221850 ATACGTTGCATA
1 ATATTTTGCATG
10221862 ATATTTTGCATG
1 ATATTTTGCATG
10221874 ATATTT
1 ATATTT
10221880 ATTTGCTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 21 0.88
13 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (12 bp):
ATATTTTGCATG
Found at i:10221994 original size:37 final size:37
Alignment explanation
Indices: 10221910--10221995 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
10221900 GATCATAATA
*
10221910 TTTTGCATGGATTTTATTTGCATGATTTATTACCATAC
1 TTTTGCAT-GATTTAATTTGCATGATTTATTACCATAC
* * *
10221948 TCTTGCATGATTTAATTTGCATGATTTATTACTATAT
1 TTTTGCATGATTTAATTTGCATGATTTATTACCATAC
*
10221985 TTTTACATGAT
1 TTTTGCATGAT
10221996 GTGTTTTCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 35 0.83
38 7 0.17
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (37 bp):
TTTTGCATGATTTAATTTGCATGATTTATTACCATAC
Found at i:10229398 original size:15 final size:16
Alignment explanation
Indices: 10229378--10229407 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10229368 CTGATGCTTA
10229378 TTTAATTT-TATGTTG
1 TTTAATTTGTATGTTG
10229393 TTTAATTTGTATGTT
1 TTTAATTTGTATGTT
10229408 CCTTATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (16 bp):
TTTAATTTGTATGTTG
Found at i:10231739 original size:11 final size:11
Alignment explanation
Indices: 10231723--10231786 Score: 71
Period size: 11 Copynumber: 5.9 Consensus size: 11
10231713 GGATGGATGC
10231723 TATGGATGTTT
1 TATGGATGTTT
10231734 TATGGATG--T
1 TATGGATGTTT
10231743 TATGGATGTTT
1 TATGGATGTTT
* *
10231754 GATGGATATTT
1 TATGGATGTTT
10231765 TAT-GATGTATT
1 TATGGATGT-TT
10231776 TGATGGATGTT
1 T-ATGGATGTT
10231787 ATTTGCATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
9 9 0.20
10 4 0.09
11 23 0.52
12 3 0.07
13 5 0.11
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (11 bp):
TATGGATGTTT
Found at i:10231740 original size:20 final size:20
Alignment explanation
Indices: 10231714--10231760 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
10231704 GTATTTGATG
10231714 GATGGATGCTATGGATGTTT
1 GATGGATGCTATGGATGTTT
* *
10231734 TATGGATGTTATGGATGTTT
1 GATGGATGCTATGGATGTTT
10231754 GATGGAT
1 GATGGAT
10231761 ATTTTATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.43
Consensus pattern (20 bp):
GATGGATGCTATGGATGTTT
Found at i:10233595 original size:207 final size:207
Alignment explanation
Indices: 10233234--10233649 Score: 692
Period size: 207 Copynumber: 2.0 Consensus size: 207
10233224 ATGTCATTGA
* *
10233234 TATTAGAAAGTTATTCAAAAGATTAAGGAAGTTTCAATCAACCTTAATCTTTCCAAATGCACATT
1 TATTAGAAAGTTATTCAAAAGATTAAGGAAGTTTCAATCAACCTCAATATTTCCAAATGCACATT
**
10233299 TGGCACAAAATCTGGAAAACTATTGAGGTTCATAGTGAGTGAAAGAGGAATAAAGGTGAATCTAG
66 TGGCACAAAATCTAAAAAACTATTGAGGTTCATAGTGAGTGAAAGAGGAATAAAGGTGAATCTAG
* *
10233364 ATAAGGTGCATGCTATTTAAAACCTATCTCCTCTATGAACACAAGAAAAAATGATAGGTTTTATG
131 ATAAGGTGCATGCTATTCAAAACCTATATCCTCTATGAACACAAGAAAAAATGATAGGTTTTATG
10233429 AGACGATAGAAT
196 AGACGATAGAAT
* *
10233441 TATTAGAAAGTTTTTCAAAAGATTAAGGAAGTTTCTATCAACCTCAATATTTCCAAATGCACATT
1 TATTAGAAAGTTATTCAAAAGATTAAGGAAGTTTCAATCAACCTCAATATTTCCAAATGCACATT
* *
10233506 TGGCACAAAATCTAAAAAATTATT-AGGGTTCATAGTGAGTGAAAGAGGAATAAGGGTTG-ATCT
66 TGGCACAAAATCTAAAAAACTATTGA-GGTTCATAGTGAGTGAAAGAGGAATAAAGG-TGAATCT
**
10233569 AGATAAGGTGCATGCTATTCAAAACCTATATCCTCTATGAACACAAGAAAATGTGATAGGTTTTA
129 AGATAAGGTGCATGCTATTCAAAACCTATATCCTCTATGAACACAAGAAAAAATGATAGGTTTTA
10233634 TGAGACGATAGAAT
194 TGAGACGATAGAAT
10233648 TA
1 TA
10233650 CATTGCTTGC
Statistics
Matches: 195, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
206 1 0.01
207 192 0.98
208 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (207 bp):
TATTAGAAAGTTATTCAAAAGATTAAGGAAGTTTCAATCAACCTCAATATTTCCAAATGCACATT
TGGCACAAAATCTAAAAAACTATTGAGGTTCATAGTGAGTGAAAGAGGAATAAAGGTGAATCTAG
ATAAGGTGCATGCTATTCAAAACCTATATCCTCTATGAACACAAGAAAAAATGATAGGTTTTATG
AGACGATAGAAT
Found at i:10234039 original size:113 final size:113
Alignment explanation
Indices: 10233860--10234082 Score: 338
Period size: 113 Copynumber: 2.0 Consensus size: 113
10233850 ATGAGAGGTG
** * * * *
10233860 TATTAGGGCAGCATGATGAATCAGGCAAAAAGAATAAGGCATTTATTATTTAAGCAAGAAGTTTA
1 TATTAGGGCAAAATGATAAATCAAGCAAAAAGAACAAGGCATTTATTATTTAAGCAAGAAATTTA
* * *
10233925 CTGATTATGAATGAAGGTATACACTTGTGGAGAAAATTTATTGTGTAT
66 CTGATTATGAATGAAGGTATACACTTGTAGAAAAAATTGATTGTGTAT
10233973 TATTAGGGCAAAATGATAAATCAAGCAAAAAGAACAAGGCATTTATTATTTAAGCAAGAAATTTA
1 TATTAGGGCAAAATGATAAATCAAGCAAAAAGAACAAGGCATTTATTATTTAAGCAAGAAATTTA
* * *
10234038 CTGATTATGATTGAATGTATACACTTTTAGAAAAAATTGATTGTG
66 CTGATTATGAATGAAGGTATACACTTGTAGAAAAAATTGATTGTG
10234083 CACTAGGTTG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 98 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (113 bp):
TATTAGGGCAAAATGATAAATCAAGCAAAAAGAACAAGGCATTTATTATTTAAGCAAGAAATTTA
CTGATTATGAATGAAGGTATACACTTGTAGAAAAAATTGATTGTGTAT
Found at i:10236837 original size:9 final size:9
Alignment explanation
Indices: 10236825--10236917 Score: 56
Period size: 9 Copynumber: 11.0 Consensus size: 9
10236815 TCATTATCTG
10236825 CATTGCATT
1 CATTGCATT
10236834 CATTGCATT
1 CATTGCATT
*
10236843 CATTACATT
1 CATTGCATT
*
10236852 CATTACATT
1 CATTGCATT
*
10236861 --TTGCATC
1 CATTGCATT
10236868 CA-T-CA-T
1 CATTGCATT
* *
10236874 -ATTAG-GTA
1 CATT-GCATT
10236882 CATTGCATT
1 CATTGCATT
10236891 CATTGCATT
1 CATTGCATT
* *
10236900 CCTTACATT
1 CATTGCATT
*
10236909 CATTACATT
1 CATTGCATT
10236918 TTGCATCCAT
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 1 0.02
6 1 0.02
7 7 0.11
8 2 0.03
9 54 0.83
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.43
Consensus pattern (9 bp):
CATTGCATT
Found at i:10236884 original size:34 final size:34
Alignment explanation
Indices: 10236846--10236951 Score: 85
Period size: 34 Copynumber: 3.4 Consensus size: 34
10236836 TTGCATTCAT
10236846 TACATT-CATTACATTTTGCATCCATCATATTAGG
1 TACATTGCATT-CATTTTGCATCCATCATATTAGG
*
10236880 TACATTGCATTCA--TTGCATTCC-T--TA-CA--
1 TACATTGCATTCATTTTGCA-TCCATCATATTAGG
*
10236907 TTCATT--A--CATTTTGCATCCATCATATTAGG
1 TACATTGCATTCATTTTGCATCCATCATATTAGG
10236937 TACATTGCATTCATT
1 TACATTGCATTCATT
10236952 GTATTTCATT
Statistics
Matches: 54, Mismatches: 4, Indels: 28
0.63 0.05 0.33
Matches are distributed among these distances:
23 2 0.04
24 3 0.06
25 7 0.13
27 7 0.13
28 1 0.02
29 1 0.02
30 7 0.13
32 7 0.13
33 3 0.06
34 12 0.22
35 4 0.07
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.42
Consensus pattern (34 bp):
TACATTGCATTCATTTTGCATCCATCATATTAGG
Found at i:10236887 original size:57 final size:57
Alignment explanation
Indices: 10236825--10236965 Score: 248
Period size: 57 Copynumber: 2.5 Consensus size: 57
10236815 TCATTATCTG
10236825 CATTGCATTCATTGCATTCATTACATTCATTACATTTTGCATCCATCATATTAGGTA
1 CATTGCATTCATTGCATTCATTACATTCATTACATTTTGCATCCATCATATTAGGTA
*
10236882 CATTGCATTCATTGCATTCCTTACATTCATTACATTTTGCATCCATCATATTAGGTA
1 CATTGCATTCATTGCATTCATTACATTCATTACATTTTGCATCCATCATATTAGGTA
*
10236939 CATTGCATTCATTGTATTTCATT-CATT
1 CATTGCATTCATTGCA-TTCATTACATT
10236966 ATGCATGACT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
57 75 0.94
58 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (57 bp):
CATTGCATTCATTGCATTCATTACATTCATTACATTTTGCATCCATCATATTAGGTA
Found at i:10237425 original size:51 final size:50
Alignment explanation
Indices: 10237267--10237426 Score: 194
Period size: 51 Copynumber: 3.2 Consensus size: 50
10237257 CCTTTTTATT
* * * *
10237267 TTTTTAAAGTTTTAATGCATTTGTTGAGCATGAGCTTTTTTGGTTGCAAA
1 TTTTTAAAGTTTCAATGCCTTTGTTGAGAATGAGCTTTTTTGGTTGTAAA
** * ** * *
10237317 TTTTTAAAGTTTCAATTTCTTTATTGAGAAAAAGCCTTTTTTGGCTGTGAA
1 TTTTTAAAGTTTCAATGCCTTTGTTGAGAATGAG-CTTTTTTGGTTGTAAA
*
10237368 TATTTAAAGTTTCAATGCCTTTGTTGAGAATGAGCTTTTTTGGTTGTAAA
1 TTTTTAAAGTTTCAATGCCTTTGTTGAGAATGAGCTTTTTTGGTTGTAAA
10237418 TCTTTTAAA
1 T-TTTTAAA
10237427 TTTTTAAAGT
Statistics
Matches: 88, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
50 41 0.47
51 47 0.53
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.47
Consensus pattern (50 bp):
TTTTTAAAGTTTCAATGCCTTTGTTGAGAATGAGCTTTTTTGGTTGTAAA
Found at i:10237497 original size:43 final size:44
Alignment explanation
Indices: 10237420--10237521 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 44
10237410 GTTGTAAATC
* * *
10237420 TTTTAAATTTTT-AAAGTTTCAAAGCTTTTGTTGAGG-GGAGCA
1 TTTTAAATTTTTCAAAGTTTAAAAGCTTCTATTGAGGAGGAGCA
* * *
10237462 TTTTAAATTTTTCAAAGTTTAAAATCTTCTATTGAGGATGAGTA
1 TTTTAAATTTTTCAAAGTTTAAAAGCTTCTATTGAGGAGGAGCA
*
10237506 TTTTAAAATTTTCAAA
1 TTTTAAATTTTTCAAA
10237522 ATACAAAGGC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 12 0.24
43 20 0.39
44 19 0.37
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (44 bp):
TTTTAAATTTTTCAAAGTTTAAAAGCTTCTATTGAGGAGGAGCA
Found at i:10237840 original size:15 final size:14
Alignment explanation
Indices: 10237808--10237846 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
10237798 GTCTTTATAT
10237808 TTTTATTATTTTAG
1 TTTTATTATTTTAG
10237822 TTTTATTATTGTT-G
1 TTTTATTATT-TTAG
10237836 ATTTTATTATT
1 -TTTTATTATT
10237847 CGGTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (14 bp):
TTTTATTATTTTAG
Found at i:10238346 original size:22 final size:24
Alignment explanation
Indices: 10238321--10238364 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
10238311 GTTCTAGGAT
*
10238321 ATTTCT-AGTTTTTTT-TGTTTGA
1 ATTTCTGAATTTTTTTGTGTTTGA
*
10238343 ATTTTTGAATTTTTTTGTGTTT
1 ATTTCTGAATTTTTTTGTGTTT
10238365 TTCTTGAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 8 0.44
24 5 0.28
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (24 bp):
ATTTCTGAATTTTTTTGTGTTTGA
Found at i:10239042 original size:31 final size:32
Alignment explanation
Indices: 10238972--10239042 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 32
10238962 AATAATTATA
* *
10238972 ATTTATATATTTGCATGATACTTTGCATGGAT
1 ATTTATTTATTTGCATAATACTTTGCATGGAT
* * *
10239004 A-TGATTTATTTGCATAATATTTTGTAT-GAT
1 ATTTATTTATTTGCATAATACTTTGCATGGAT
10239034 ATTTATTTA
1 ATTTATTTA
10239043 ATGATTATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 4 0.12
31 27 0.84
32 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.52
Consensus pattern (32 bp):
ATTTATTTATTTGCATAATACTTTGCATGGAT
Found at i:10239053 original size:45 final size:44
Alignment explanation
Indices: 10239003--10239130 Score: 161
Period size: 45 Copynumber: 2.9 Consensus size: 44
10238993 TTTGCATGGA
*
10239003 TATGATTTATT-TGCATAATATTTTGTATGATATTTATTTAATGAT
1 TATGATTT-TTAT-CATAATATTTTGCATGATATTTATTTAATGAT
* * *
10239048 TATGATTTTTATCATAATATTTTACATGATATTCATTTTCATGAT
1 TATGATTTTTATCATAATATTTTGCATGATATTTA-TTTAATGAT
*
10239093 TATGATTTTTATTATAATATTTTGCATGGAT-TTTATTT
1 TATGATTTTTATCATAATATTTTGCAT-GATATTTATTT
10239131 GTACGATTTG
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
44 25 0.34
45 45 0.62
46 3 0.04
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (44 bp):
TATGATTTTTATCATAATATTTTGCATGATATTTATTTAATGAT
Found at i:10239100 original size:15 final size:15
Alignment explanation
Indices: 10239043--10239101 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
10239033 TATTTATTTA
*
10239043 ATGATTATGATTTTT
1 ATGATTATGATTTTC
* *
10239058 ATCATAAT-ATTTTAC
1 ATGATTATGATTTT-C
*
10239073 ATGA-TATTCATTTTC
1 ATGATTA-TGATTTTC
10239088 ATGATTATGATTTT
1 ATGATTATGATTTT
10239102 TATTATAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 6 0.18
15 21 0.62
16 7 0.21
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.54
Consensus pattern (15 bp):
ATGATTATGATTTTC
Found at i:10239185 original size:37 final size:36
Alignment explanation
Indices: 10239112--10239191 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 36
10239102 TATTATAATA
* * *
10239112 TTTTGCATGGATTTTATTTGTACGATTTGGTGCTATAT
1 TTTTG-AT-GATTTTATTTGCACGATTTAGTACTATAT
* *
10239150 TCTTTGATGATTTTATTTGCATGATTTATTACTATAT
1 T-TTTGATGATTTTATTTGCACGATTTAGTACTATAT
10239187 TTTTG
1 TTTTG
10239192 CAAAATGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
36 4 0.11
37 25 0.69
38 3 0.08
39 4 0.11
ACGTcount: A:0.20, C:0.07, G:0.16, T:0.56
Consensus pattern (36 bp):
TTTTGATGATTTTATTTGCACGATTTAGTACTATAT
Found at i:10239259 original size:27 final size:25
Alignment explanation
Indices: 10239214--10239269 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
10239204 GCACGATATC
10239214 TTTATATGATTTTTACATGATTT-T
1 TTTATATGATTTTTACATGATTTAT
*
10239238 TTTATTATGATCTATTTGCATGATTTAT
1 TTTA-TATGAT-T-TTTACATGATTTAT
10239266 TTTA
1 TTTA
10239270 CCTGTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 6 0.22
26 1 0.04
27 11 0.41
28 5 0.19
ACGTcount: A:0.25, C:0.05, G:0.09, T:0.61
Consensus pattern (25 bp):
TTTATATGATTTTTACATGATTTAT
Found at i:10248573 original size:31 final size:30
Alignment explanation
Indices: 10248486--10248581 Score: 138
Period size: 30 Copynumber: 3.2 Consensus size: 30
10248476 CTTTTGGCCT
*
10248486 AACAAGTGAATCAGAGTTATGGTGATCTCT
1 AACAAGTGAATCAGAGTTATGGTGATCTCC
10248516 AACAAGTGAATCAGAGTTATGGTGATCTCC
1 AACAAGTGAATCAGAGTTATGGTGATCTCC
* * * *
10248546 AACAAGTGATATCAAAGCTGTGGTGATCCCC
1 AACAAGTGA-ATCAGAGTTATGGTGATCTCC
10248577 AACAA
1 AACAA
10248582 TATAAGCACC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 38 0.63
31 22 0.37
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (30 bp):
AACAAGTGAATCAGAGTTATGGTGATCTCC
Found at i:10249127 original size:23 final size:23
Alignment explanation
Indices: 10249090--10249141 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
10249080 CTAATTGATT
* *
10249090 ATTTTTACTTTAATAATATCTTTA
1 ATTTTTACTTAAATAAAAT-TTTA
*
10249114 TTTTTTA-TTAAATAAAATTTTA
1 ATTTTTACTTAAATAAAATTTTA
10249136 ATTTTT
1 ATTTTT
10249142 GCACTTGACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 9 0.38
23 9 0.38
24 6 0.25
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTTTACTTAAATAAAATTTTA
Found at i:10251092 original size:10 final size:10
Alignment explanation
Indices: 10251079--10251119 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
10251069 ATAACTTTTT
10251079 AAAAATTAC-A
1 AAAAATT-CTA
10251089 AAAAATTCTA
1 AAAAATTCTA
10251099 AAAAATT-TA
1 AAAAATTCTA
*
10251108 TAAAATTCTA
1 AAAAATTCTA
10251118 AA
1 AA
10251120 TTTTTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:10251419 original size:26 final size:26
Alignment explanation
Indices: 10251362--10251419 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
10251352 AATTTTAAAA
* * * *
10251362 ATTTTTAAAATTTTTCATTTTTTTTT
1 ATTTTTAAAATTTATAATTTTTATAT
* *
10251388 AATTTTACAATTTATAATTTTTATAT
1 ATTTTTAAAATTTATAATTTTTATAT
10251414 ATTTTT
1 ATTTTT
10251420 TGAATTTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (26 bp):
ATTTTTAAAATTTATAATTTTTATAT
Found at i:10251446 original size:21 final size:21
Alignment explanation
Indices: 10251403--10251468 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 21
10251393 TACAATTTAT
* *
10251403 AATTTTTATATATTTTTTG--
1 AATTTTTAAATTTTTTTTGAA
10251422 AATTTTTAAATTTTTTTTGAA
1 AATTTTTAAATTTTTTTTGAA
** *
10251443 AATTTTTGGATTTTTATT-AA
1 AATTTTTAAATTTTTTTTGAA
10251463 AATTTT
1 AATTTT
10251469 AAGTATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
19 17 0.43
20 8 0.20
21 15 0.38
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (21 bp):
AATTTTTAAATTTTTTTTGAA
Found at i:10251448 original size:20 final size:20
Alignment explanation
Indices: 10251415--10251470 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 20
10251405 TTTTTATATA
*
10251415 TTTTTTG-AATTTTTAAATT
1 TTTTTTGAAAATTTTAAATT
**
10251434 TTTTTTGAAAATTTTTGGATT
1 TTTTTTGAAAA-TTTTAAATT
*
10251455 TTTATT-AAAATTTTAA
1 TTTTTTGAAAATTTTAA
10251471 GTATTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 11 0.38
20 6 0.21
21 12 0.41
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTTTTGAAAATTTTAAATT
Found at i:10251847 original size:19 final size:18
Alignment explanation
Indices: 10251824--10251872 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
10251814 TTTTTTTATT
*
10251824 TTTTTATAAATTTTAAAA
1 TTTTTAAAAATTTTAAAA
*
10251842 TATTTTAGAAATTTTAAAA
1 T-TTTTAAAAATTTTAAAA
10251861 TTTTTAAAAATT
1 TTTTTAAAAATT
10251873 ATTTTTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTTTAAAAATTTTAAAA
Found at i:10251869 original size:9 final size:9
Alignment explanation
Indices: 10251824--10251869 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
10251814 TTTTTTTATT
10251824 TTTTTATAAA
1 TTTTTA-AAA
10251834 -TTTTAAAA
1 TTTTTAAAA
10251842 TATTTTAGAAA
1 T-TTTTA-AAA
10251853 -TTTTAAAA
1 TTTTTAAAA
10251861 TTTTTAAAA
1 TTTTTAAAA
10251870 ATTATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 6 0.19
9 18 0.56
10 5 0.16
11 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:10252020 original size:12 final size:12
Alignment explanation
Indices: 10252003--10252027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10251993 AGAAATTTTT
10252003 AAACATTTTAAA
1 AAACATTTTAAA
10252015 AAACATTTTAAA
1 AAACATTTTAAA
10252027 A
1 A
10252028 TTATTTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAACATTTTAAA
Found at i:10255726 original size:24 final size:25
Alignment explanation
Indices: 10255694--10255740 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
10255684 ATGGAGCCTT
10255694 AATTTAATATTTAATAAA-AATAAA
1 AATTTAATATTTAATAAATAATAAA
10255718 AATTTAATATTTAATAAATAATA
1 AATTTAATATTTAATAAATAATA
10255741 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTTAATATTTAATAAATAATAAA
Found at i:10255741 original size:14 final size:14
Alignment explanation
Indices: 10255722--10255749 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10255712 AATAAAAATT
10255722 TAATATTTAATAAA
1 TAATATTTAATAAA
10255736 TAATATTTAATAAA
1 TAATATTTAATAAA
10255750 AAAATTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATATTTAATAAA
Found at i:10258628 original size:22 final size:22
Alignment explanation
Indices: 10258600--10258643 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10258590 CTAAATCTTC
*
10258600 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10258622 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10258644 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:10267201 original size:20 final size:21
Alignment explanation
Indices: 10267165--10267209 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
10267155 CTTAAAAAAA
*
10267165 AAATAATTTTGATTAATAAAT
1 AAATAATTTTGACTAATAAAT
10267186 AAATAA-TTTGACTAATAAAT
1 AAATAATTTTGACTAATAAAT
10267206 AAAT
1 AAAT
10267210 TAGAATATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
AAATAATTTTGACTAATAAAT
Found at i:10268176 original size:25 final size:24
Alignment explanation
Indices: 10268139--10268203 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
10268129 CAGACATGAT
10268139 TGTTTATTTTGAATAGATAAAAAC
1 TGTTTATTTTGAATAGATAAAAAC
**
10268163 T-TTCTATTTTTGAATAG-TTGAAAC
1 TGTT-TA-TTTTGAATAGATAAAAAC
10268187 TGTTTATTTTGAATAGA
1 TGTTTATTTTGAATAGA
10268204 CTTATCTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
23 12 0.34
24 11 0.31
25 12 0.34
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (24 bp):
TGTTTATTTTGAATAGATAAAAAC
Found at i:10279384 original size:11 final size:12
Alignment explanation
Indices: 10279368--10279399 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
10279358 TTGTTAAAAG
10279368 AAAATTTAAT-A
1 AAAATTTAATAA
10279379 AAAATTTAATAA
1 AAAATTTAATAA
10279391 AAAATTTAA
1 AAAATTTAA
10279400 ATTAATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTTAATAA
Found at i:10279625 original size:21 final size:19
Alignment explanation
Indices: 10279601--10279643 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
10279591 ATGTAACAAA
10279601 ATTTTTTAATTTATGATTTTT
1 ATTTTTTAATTTA--ATTTTT
*
10279622 ATTTTTTACTTTAATTTTT
1 ATTTTTTAATTTAATTTTT
10279641 ATT
1 ATT
10279644 AAATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
21 12 0.57
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTTTTTAATTTAATTTTT
Found at i:10280233 original size:32 final size:30
Alignment explanation
Indices: 10280192--10280252 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 30
10280182 AAAGTTGGCA
10280192 TTTGAATGAAA-ATTTTAAAATTTTAAAAAAT
1 TTTGAATGAAAGATTTT-AAA-TTTAAAAAAT
10280223 TTTGAAATGAAAGTATTTTAAATTTAAAAA
1 TTTG-AATGAAAG-ATTTTAAATTTAAAAA
10280253 TATTAGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 3 0.11
34 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (30 bp):
TTTGAATGAAAGATTTTAAATTTAAAAAAT
Found at i:10282683 original size:21 final size:22
Alignment explanation
Indices: 10282650--10282715 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
10282640 TCTAACTATA
*
10282650 CACATAAAAAAAAAAACTTAAAA-
1 CACA-AAAAAAAAAAA-ATAAAAG
*
10282673 CACAAATAAAAAAAAATAAAAG
1 CACAAAAAAAAAAAAATAAAAG
*
10282695 CACAAAAAAAAAAAAAAAAAA
1 CACAAAAAAAAAAAAATAAAA
10282716 AAAACAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 5 0.13
22 29 0.76
23 4 0.11
ACGTcount: A:0.80, C:0.11, G:0.02, T:0.08
Consensus pattern (22 bp):
CACAAAAAAAAAAAAATAAAAG
Found at i:10284491 original size:19 final size:20
Alignment explanation
Indices: 10284455--10284494 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
10284445 AGCAAACTCT
10284455 AAAATAGTAATGAAAATCCA
1 AAAATAGTAATGAAAATCCA
10284475 AAAATAG-AA-GAACAATCCA
1 AAAATAGTAATGAA-AATCCA
10284494 A
1 A
10284495 TTTGCATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 9 0.47
20 7 0.37
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15
Consensus pattern (20 bp):
AAAATAGTAATGAAAATCCA
Found at i:10284693 original size:17 final size:18
Alignment explanation
Indices: 10284673--10284717 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
10284663 AAATTTTACC
*
10284673 AATAAA-CAACATAAAAA
1 AATAAAGCAACACAAAAA
*
10284690 AATAAAGCAAGACAAAAA
1 AATAAAGCAACACAAAAA
10284708 AA-AAAG-AACA
1 AATAAAGCAACA
10284718 ATCACAGACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 11 0.46
ACGTcount: A:0.76, C:0.11, G:0.07, T:0.07
Consensus pattern (18 bp):
AATAAAGCAACACAAAAA
Found at i:10286625 original size:17 final size:17
Alignment explanation
Indices: 10286603--10286635 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10286593 CATCATTAAC
*
10286603 ATTTTATATTAAATTAT
1 ATTTTAGATTAAATTAT
10286620 ATTTTAGATTAAATTA
1 ATTTTAGATTAAATTA
10286636 AAAATAAATT
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTAGATTAAATTAT
Found at i:10287359 original size:476 final size:477
Alignment explanation
Indices: 10285987--10287414 Score: 2517
Period size: 473 Copynumber: 3.0 Consensus size: 477
10285977 ACACAACAGA
*
10285987 TCCTCTATTACAGGAAAAGATGTAATTTAATCCTTCCACTGTGATTTTGAATAATTTAGTTTTTT
1 TCCT-TATTATAGGAAAAGATGTAATTTAATCCTTCCACTGTGATTTTGAATAATTTAGTTTTTT
10286052 TAAGATATTGAGTAATTTAATCTTTGTATTATTAAATTGAAAGCAAAATAAGGACAATTATTAAC
65 TAAGATATTGAGTAATTTAATCTTTGTATTATTAAATTGAAAGCAAAATAAGGACAATTATTAAC
10286117 ATCATTAACATTTTTATATTAAATTATATTTTAGATTAAATTAAAAATAAATTTTATAAAAATTA
130 ATCATTAACA-TTTTATATTAAATTATATTTTAGATTAAATTAAAAATAAATTTTATAAAAATTA
*
10286182 TATATTAACTAAAAATTTTCAACATTTTTTCTCTATATTTTTCCTTTTTCTTTTTTTTTTTTAAT
194 TATATTAACTAAAAATTTTCAACATTTTTTCTCTATATTTTTCCTTTTTCATTTTTTTTTTTAAT
* * *
10286247 TTCTCCCATCTACCATCAACAGGTACTAGCATTATTTTGAGAGCTTTTAATTTAAGCTACCAACG
259 TTCTCCCATCTACCACCAATAGATACTAGCATTATTTTGAGAGCTTTTAATTTAAGCTACCAACG
10286312 ACCAGAGTTGTCACTAACATGCTAGATCAATGCTATCAACAACCATATCTGGACGTCTGTATATG
324 ACCAGAGTTGTCACTAACATGCTAGATCAATGCTATCAACAACCATATCTGGACGTCTGTATATG
* *
10286377 AGATTTGTGCTGCCAATGACCAAATTGAGCTGTCAACAAACTAGATCAAGATTGGTAACGACCAC
389 AGATTTGTGCTGCCAATGACTAAATTGAGCTGTCAACAAACTAGATCAAGATTGGTAACAACCAC
10286442 ATCTCGTCGTAATGGGCCAAATTG
454 ATCTCGTCGTAATGGGCCAAATTG
*
10286466 TCCTTATTATAAGAAAAGATGTAATTTAATCCTTCCACTGTGATTTTGAATAATTTAGTTTTTTT
1 TCCTTATTATAGGAAAAGATGTAATTTAATCCTTCCACTGTGATTTTGAATAATTTAGTTTTTTT
10286531 AAGATATTGAGTAATTTAATCTTTG-ATTATTAAATTGAAAGCAAAATAAGGACAATTATTAACA
66 AAGATATTGAGTAATTTAATCTTTGTATTATTAAATTGAAAGCAAAATAAGGACAATTATTAACA
10286595 TCATTAACATTTTATATTAAATTATATTTTAGATTAAATTAAAAATAAATTTTATAAAAATTATA
131 TCATTAACATTTTATATTAAATTATATTTTAGATTAAATTAAAAATAAATTTTATAAAAATTATA
* *
10286660 TATTAACTAAAAGTTTTCAACATTTTTTCTCTAT-TTTTT-C-TTGTCATTTTTTTTTTTAATTT
196 TATTAACTAAAAATTTTCAACATTTTTTCTCTATATTTTTCCTTTTTCATTTTTTTTTTTAATTT
10286722 CTCCCATCTACCACCAATAGATACTAGCATTATTTTGAGAGCTTTTAATTTAAGCTACCAACGAC
261 CTCCCATCTACCACCAATAGATACTAGCATTATTTTGAGAGCTTTTAATTTAAGCTACCAACGAC
* *
10286787 CGGAGTTGTCACTAACATGCTAGATCAATGCTATCAACAACCATATCTGGACGTTTGTATATGAG
326 CAGAGTTGTCACTAACATGCTAGATCAATGCTATCAACAACCATATCTGGACGTCTGTATATGAG
* *
10286852 ATTTGTGCTGCCAATGATTAAATTGAGCTGTCAATAAACTAGATCAAGATTGGTAACAACCACAT
391 ATTTGTGCTGCCAATGACTAAATTGAGCTGTCAACAAACTAGATCAAGATTGGTAACAACCACAT
*
10286917 CTTGTCGTAATGGGCCAAATTG
456 CTCGTCGTAATGGGCCAAATTG
10286939 TCCTTATTATAGGAAAAGATGTAATTTAATCCTTCCACTGTGATTTTGAATAATTTAGTTTTTTT
1 TCCTTATTATAGGAAAAGATGTAATTTAATCCTTCCACTGTGATTTTGAATAATTTAGTTTTTTT
*
10287004 AAGATATTGAGTAATTTAATCTTTGTATTATTAAATTGAAAGCAAAATAAAGACAATTATTAACA
66 AAGATATTGAGTAATTTAATCTTTGTATTATTAAATTGAAAGCAAAATAAGGACAATTATTAACA
* *
10287069 TCATTAACATTTTATATTAAATTATATTTTAGTTTAAATTAAAAATAAATTTTATAAAAATTGTA
131 TCATTAACATTTTATATTAAATTATATTTTAGATTAAATTAAAAATAAATTTTATAAAAATTATA
* *
10287134 TATTAACTAAAAATTTTCAACA-TTCTTCTATATATTTTTCCTTTTTTC-TTTTTTTTTTTAATT
196 TATTAACTAAAAATTTTCAACATTTTTTCTCTATATTTTTCC-TTTTTCATTTTTTTTTTTAATT
** *
10287197 TCTTTCATCTACCACCAATAGATACTAGCATTATTTTGAGAGCTTTTAATTTAAGCTACCAATGA
260 TCTCCCATCTACCACCAATAGATACTAGCATTATTTTGAGAGCTTTTAATTTAAGCTACCAACGA
* * *
10287262 CCAGAGTTGTCACTAATATGCTAGATCAATGTTATCAACAACCATATCTGGACGTCTATATATGA
325 CCAGAGTTGTCACTAACATGCTAGATCAATGCTATCAACAACCATATCTGGACGTCTGTATATGA
* * *
10287327 GATTTGTGCTGCCAATGACTAAATTAAGCTGTCAACAAACTAGATTAAGATTGGTAACAATCACA
390 GATTTGTGCTGCCAATGACTAAATTGAGCTGTCAACAAACTAGATCAAGATTGGTAACAACCACA
*
10287392 TCTCGTCGTAATGGGTCAAATTG
455 TCTCGTCGTAATGGGCCAAATTG
10287415 CTTTGCTAAT
Statistics
Matches: 906, Mismatches: 38, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
473 325 0.36
474 128 0.14
475 6 0.01
476 307 0.34
477 52 0.06
478 84 0.09
479 4 0.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (477 bp):
TCCTTATTATAGGAAAAGATGTAATTTAATCCTTCCACTGTGATTTTGAATAATTTAGTTTTTTT
AAGATATTGAGTAATTTAATCTTTGTATTATTAAATTGAAAGCAAAATAAGGACAATTATTAACA
TCATTAACATTTTATATTAAATTATATTTTAGATTAAATTAAAAATAAATTTTATAAAAATTATA
TATTAACTAAAAATTTTCAACATTTTTTCTCTATATTTTTCCTTTTTCATTTTTTTTTTTAATTT
CTCCCATCTACCACCAATAGATACTAGCATTATTTTGAGAGCTTTTAATTTAAGCTACCAACGAC
CAGAGTTGTCACTAACATGCTAGATCAATGCTATCAACAACCATATCTGGACGTCTGTATATGAG
ATTTGTGCTGCCAATGACTAAATTGAGCTGTCAACAAACTAGATCAAGATTGGTAACAACCACAT
CTCGTCGTAATGGGCCAAATTG
Found at i:10293671 original size:29 final size:29
Alignment explanation
Indices: 10293639--10293697 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
10293629 TACTTTGAAA
*
10293639 TGTTTA-ATATATTATTTATTTATTTATTT
1 TGTTTACATATATTATTTATAT-TTTATTT
* *
10293668 TGTTTACATTTATTTTTTATATTTTATTT
1 TGTTTACATATATTATTTATATTTTATTT
10293697 T
1 T
10293698 CCTTTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (29 bp):
TGTTTACATATATTATTTATATTTTATTT
Found at i:10294474 original size:24 final size:24
Alignment explanation
Indices: 10294447--10294495 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10294437 GCTACTCTTC
10294447 ACATTATACCTAATTAATATATAT
1 ACATTATACCTAATTAATATATAT
10294471 ACATTATACCTAATTAATATATAT
1 ACATTATACCTAATTAATATATAT
10294495 A
1 A
10294496 TATCCACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (24 bp):
ACATTATACCTAATTAATATATAT
Found at i:10297466 original size:61 final size:62
Alignment explanation
Indices: 10297392--10297521 Score: 226
Period size: 62 Copynumber: 2.1 Consensus size: 62
10297382 AGTATAACTT
* *
10297392 AATATTAAACCAATACCT-CAATGTACAAACTTAAATTTTTTATTCAATATGACATGTTAAA
1 AATATTAAACCAATACCTCCAATGTACAAACTTAAAATTTCTATTCAATATGACATGTTAAA
*
10297453 AATATTAAACCAATACCTCCAATGTACAAACTTAAAATTTCTATTCAATATGATATGTTAAA
1 AATATTAAACCAATACCTCCAATGTACAAACTTAAAATTTCTATTCAATATGACATGTTAAA
10297515 AATATTA
1 AATATTA
10297522 TAACAAATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
61 18 0.28
62 47 0.72
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (62 bp):
AATATTAAACCAATACCTCCAATGTACAAACTTAAAATTTCTATTCAATATGACATGTTAAA
Found at i:10297725 original size:19 final size:19
Alignment explanation
Indices: 10297703--10297753 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
10297693 TTGACATAAA
*
10297703 AATAATTAAATAATTTTTT
1 AATAATTAAATAATTTTAT
*
10297722 AATAAATT-ATTAATTTTAT
1 AAT-AATTAAATAATTTTAT
10297741 AGAT-ATTAAATAA
1 A-ATAATTAAATAA
10297754 CTTAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AATAATTAAATAATTTTAT
Found at i:10300299 original size:32 final size:33
Alignment explanation
Indices: 10300263--10300335 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
10300253 AATAATGACT
*
10300263 AAATCAATTTCT-ATAATCACCT-AATCAATATC
1 AAATCAATATCTAATAATC-CCTAAATCAATATC
* * *
10300295 AAATCAATATCTAATATTCTCTAAATTAATATC
1 AAATCAATATCTAATAATCCCTAAATCAATATC
10300328 AAATCAAT
1 AAATCAAT
10300336 CTAGAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 13 0.37
33 22 0.63
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.36
Consensus pattern (33 bp):
AAATCAATATCTAATAATCCCTAAATCAATATC
Found at i:10300301 original size:11 final size:11
Alignment explanation
Indices: 10300285--10300335 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
10300275 ATAATCACCT
10300285 AATCAATATCA
1 AATCAATATCA
*
10300296 AATCAATATCT
1 AATCAATATCA
* *
10300307 AAT-ATTCTCTA
1 AATCAATATC-A
*
10300318 AATTAATATCA
1 AATCAATATCA
10300329 AATCAAT
1 AATCAAT
10300336 CTAGAATATT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
10 4 0.13
11 23 0.74
12 4 0.13
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (11 bp):
AATCAATATCA
Found at i:10304797 original size:11 final size:11
Alignment explanation
Indices: 10304781--10304831 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
10304771 ATAATTACCT
10304781 AATCAATATCA
1 AATCAATATCA
*
10304792 AATCAATATCT
1 AATCAATATCA
* *
10304803 AAT-ATTTTCTA
1 AATCAATATC-A
*
10304814 AATTAATATCA
1 AATCAATATCA
10304825 AATCAAT
1 AATCAAT
10304832 CTAGAATATT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
10 4 0.13
11 23 0.74
12 4 0.13
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (11 bp):
AATCAATATCA
Found at i:10304910 original size:11 final size:11
Alignment explanation
Indices: 10304872--10304913 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
10304862 TATCATCAAT
10304872 CTAGAATATTA
1 CTAGAATATTA
*
10304883 -TCAAAATATTA
1 CT-AGAATATTA
*
10304894 CCAGAATATTA
1 CTAGAATATTA
10304905 CTAGAATAT
1 CTAGAATAT
10304914 CATTGATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 24 0.96
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (11 bp):
CTAGAATATTA
Found at i:10307740 original size:200 final size:200
Alignment explanation
Indices: 10307175--10307839 Score: 820
Period size: 207 Copynumber: 3.3 Consensus size: 200
10307165 TCACTGATGC
* * *
10307175 AAAGAACTAATCTGTCAACT-ATGTTTAGGTGTGACTTTGAAGAATTTGCTATACTTGTTTGGAT
1 AAAGAACTAATCTGTCAACTGA-GTTTAGGTGTGACTTTGAAGAATTTTCTGTACTTGTATGGAT
* **
10307239 GGAATTTGAAGCTAATTTGTTCCA-AAGTTAAAGATCTATGAGTTAGGAATCTAAAAAGCAAAAA
65 GGAATTTGAAGCTAATTTTTTATAGAA-TTAAAGATCTATGAGTTAGGAATCT---AA-CAAAAA
* * *
10307303 AA-ATTGTCTCAAAACAAGCTAGAATTCATCAAGAACTAATCCAAAAACCACAAAGAGGTCAAAA
125 AATTTTGGCTCAAAACAAGCTAGAATTCATCAAGAACTGATCCAAAAACCAC--AGAGGTCAAAA
*
10307367 TCACAAATTTAAAAA
188 CCACAAATTT--AAA
* * * *
10307382 AAAAAACTAATTTGTCAACTAAGTTTAGGTGTGACTTTGGAGAATTTTCTGTACTTGTATGGATG
1 AAAGAACTAATCTGTCAACTGAGTTTAGGTGTGACTTTGAAGAATTTTCTGTACTTGTATGGATG
* *
10307447 AAATTTGAAGCTAATTTTTTTTAGAATTAAAGATCTATGAGTT-GAGAATCTAACAAAAAAATTT
66 GAATTTGAAGCTAATTTTTTATAGAATTAAAGATCTATGAGTTAG-GAATCTAACAAAAAAATTT
* * * * **
10307511 TGGCTTAAAACATGCTAGAATTTATCAAGAACTGATCTAAAAACCACAGAGGTCAAAACCATGAA
130 TGGCTCAAAACAAGCTAGAATTCATCAAGAACTGATCCAAAAACCACAGAGGTCAAAACCACAAA
10307576 TTT-AA
195 TTTAAA
* ** * *
10307581 AAAGAACTAATCTATCAACTGAGTTTAGGCATGACTTTCG-AGAATTTTTTGTACTTGTGTGGAT
1 AAAGAACTAATCTGTCAACTGAGTTTAGGTGTGACTTT-GAAGAATTTTCTGTACTTGTATGGAT
* * *
10307645 GGGATTTGAAGCTATATTTTTTATAGAATAAAAGATATATGAGTTAGGAATCTAACAAAAAAATT
65 GGAATTTGAAGCTA-ATTTTTTATAGAATTAAAGATCTATGAGTTAGGAATCTAACAAAAAAATT
* * *
10307710 TTGGCTCAAAACAAGTTAGAATTCATCAAGAATTGATCCAAAAACTACAAAGAGGTCAAAACCAC
129 TTGGCTCAAAACAAGCTAGAATTCATCAAGAACTGATCCAAAAAC--CACAGAGGTCAAAACCAC
*
10307775 AAATTTCAA
192 AAATTTAAA
* * *
10307784 AAAGAACTAATCTGTCAACTGAGTCTAGGTGTAACTTTGAAGAATTTTTTGTACTT
1 AAAGAACTAATCTGTCAACTGAGTTTAGGTGTGACTTTGAAGAATTTTCTGTACTT
10307840 TTTTTTCATC
Statistics
Matches: 400, Mismatches: 47, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
199 68 0.17
200 85 0.21
201 1 0.00
202 40 0.10
203 59 0.15
204 44 0.11
206 1 0.00
207 99 0.25
208 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (200 bp):
AAAGAACTAATCTGTCAACTGAGTTTAGGTGTGACTTTGAAGAATTTTCTGTACTTGTATGGATG
GAATTTGAAGCTAATTTTTTATAGAATTAAAGATCTATGAGTTAGGAATCTAACAAAAAAATTTT
GGCTCAAAACAAGCTAGAATTCATCAAGAACTGATCCAAAAACCACAGAGGTCAAAACCACAAAT
TTAAA
Found at i:10309639 original size:42 final size:42
Alignment explanation
Indices: 10309559--10309639 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
10309549 ACAAACATCA
* * * * *
10309559 CTAAATGATGCTATATAGTGGCATTTGTAATAACAAATGCCC
1 CTAAATGATACTAAATAGCGGCATTTGCAAAAACAAATGCCC
* *
10309601 CTAAATGATATTAAATAGCGGCATTTGCAAAAATAAATG
1 CTAAATGATACTAAATAGCGGCATTTGCAAAAACAAATG
10309640 TTATTAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (42 bp):
CTAAATGATACTAAATAGCGGCATTTGCAAAAACAAATGCCC
Found at i:10310401 original size:7 final size:7
Alignment explanation
Indices: 10310359--10310385 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10310349 GGTTCATAAA
10310359 TATTTTT
1 TATTTTT
10310366 TATTTTT
1 TATTTTT
10310373 TATTTTT
1 TATTTTT
10310380 TATTTT
1 TATTTT
10310386 CAGTCTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:10316917 original size:18 final size:18
Alignment explanation
Indices: 10316896--10316930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10316886 GATATTTTTT
*
10316896 TTTTAATTTTTGTTTTAC
1 TTTTAATTTTTATTTTAC
*
10316914 TTTTTATTTTTATTTTA
1 TTTTAATTTTTATTTTA
10316931 TATTTATTTA
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:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTAATTTTTATTTTAC
Found at i:10316929 original size:11 final size:11
Alignment explanation
Indices: 10316888--10316956 Score: 52
Period size: 12 Copynumber: 6.0 Consensus size: 11
10316878 ACCAATTTGA
*
10316888 TATTTTTTTTT
1 TATTTTATTTT
10316899 TAATTTT-TGTTT
1 T-ATTTTAT-TTT
10316911 TACTTTTTATTTT
1 TA--TTTTATTTT
*
10316924 TATTTTATATT
1 TATTTTATTTT
10316935 TA-TTTATTTT
1 TATTTTATTTT
*
10316945 ATATATTATTTT
1 -TATTTTATTTT
10316957 GATCGTAACG
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 7 0.15
11 15 0.31
12 16 0.33
13 9 0.19
14 1 0.02
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:10316936 original size:17 final size:17
Alignment explanation
Indices: 10316901--10316956 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
10316891 TTTTTTTTTA
* *
10316901 ATTTTTGTTTTACTTTTT
1 ATTTTTATTTTA-TATTT
10316919 ATTTTTATTTTATATTT
1 ATTTTTATTTTATATTT
10316936 A--TTTATTTTATATATT
1 ATTTTTATTTTATAT-TT
10316952 ATTTT
1 ATTTT
10316957 GATCGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 12 0.36
16 3 0.09
17 5 0.15
18 13 0.39
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (17 bp):
ATTTTTATTTTATATTT
Found at i:10316942 original size:15 final size:16
Alignment explanation
Indices: 10316918--10316955 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
10316908 TTTTACTTTT
10316918 TATT-TTTATTTTATA
1 TATTATTTATTTTATA
10316933 T-TTATTTATTTTATA
1 TATTATTTATTTTATA
10316948 TATTATTT
1 TATTATTT
10316956 TGATCGTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 13 0.62
16 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTATTTATTTTATA
Found at i:10317063 original size:10 final size:10
Alignment explanation
Indices: 10317048--10317103 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
10317038 ATAATTGATT
10317048 ATTTATTAAA
1 ATTTATTAAA
10317058 ATTTATT---
1 ATTTATTAAA
* *
10317065 TTTTAATAAA
1 ATTTATTAAA
10317075 A-TT-TTAAA
1 ATTTATTAAA
*
10317083 ATTAATTAAA
1 ATTTATTAAA
10317093 ATTTATTAAA
1 ATTTATTAAA
10317103 A
1 A
10317104 ATATAATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
7 5 0.14
8 5 0.14
9 3 0.09
10 22 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:10318441 original size:16 final size:17
Alignment explanation
Indices: 10318422--10318463 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
10318412 TATTACCCCT
*
10318422 TTTTATTATTT-TTATA
1 TTTTATTATTTATCATA
*
10318438 TTTTA-TATTTATCATT
1 TTTTATTATTTATCATA
10318454 TTTTATTATT
1 TTTTATTATT
10318464 ATTGTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTATTTATCATA
Done.