Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 92 of 328
Found at i:25778638 original size:4 final size:4
Alignment explanation
Indices: 25778629--25778655 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
25778619 TAGTTTCCAT
25778629 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
25778656 TCTTCTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:25779946 original size:18 final size:20
Alignment explanation
Indices: 25779905--25779946 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
25779895 ATGAATAATT
*
25779905 TAAAATAAAAATTTTAAAGA
1 TAAAATAAAAATATTAAAGA
25779925 -AAAAT-AAAATATTAAA-A
1 TAAAATAAAAATATTAAAGA
25779942 TAAAA
1 TAAAA
25779947 AATATTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 1 0.05
18 14 0.70
19 5 0.25
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAAATAAAAATATTAAAGA
Found at i:25779946 original size:19 final size:19
Alignment explanation
Indices: 25779906--25779947 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
25779896 TGAATAATTT
*
25779906 AAAATAAAAATTTTAAAGA
1 AAAATAAAAATTTAAAAGA
*
25779925 AAAAT-AAAATATTAAAATA
1 AAAATAAAAAT-TTAAAAGA
25779944 AAAA
1 AAAA
25779948 ATATTAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAAAATTTAAAAGA
Found at i:25780104 original size:31 final size:30
Alignment explanation
Indices: 25780069--25780148 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
25780059 AATGTTTTAG
25780069 TTTTTTATTTTTCATTTTAAC-TTTT-CTCT
1 TTTTTTATTTTTCATTTTAACGTTTTACT-T
*
25780098 TCTTTTT-TTTTTCATTTTAACGTTTTAGTT
1 T-TTTTTATTTTTCATTTTAACGTTTTACTT
*
25780128 TTCTTTATATTTTCATTTTAA
1 TTTTTTAT-TTTTCATTTTAA
25780149 ATTAAGAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 19 0.43
30 12 0.27
31 13 0.30
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.70
Consensus pattern (30 bp):
TTTTTTATTTTTCATTTTAACGTTTTACTT
Found at i:25780109 original size:29 final size:31
Alignment explanation
Indices: 25780070--25780148 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
25780060 ATGTTTTAGT
25780070 TTTTTATTTTTCATTTTAAC-TTTT-CTCTTC
1 TTTTT-TTTTTCATTTTAACGTTTTACTCTTC
* *
25780100 TTTTTTTTTTCATTTTAACGTTTTAGTTTTC
1 TTTTTTTTTTCATTTTAACGTTTTACTCTTC
* *
25780131 TTTATATTTTCATTTTAA
1 TTTTTTTTTTCATTTTAA
25780149 ATTAAGAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 14 0.33
30 9 0.21
31 20 0.47
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.70
Consensus pattern (31 bp):
TTTTTTTTTTCATTTTAACGTTTTACTCTTC
Found at i:25789949 original size:23 final size:23
Alignment explanation
Indices: 25789919--25789966 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
25789909 ACATATGGTT
25789919 TTTCATTGAAATTCTTTGAATCA
1 TTTCATTGAAATTCTTTGAATCA
25789942 TTTCATTGAAATTCTTTGAATCA
1 TTTCATTGAAATTCTTTGAATCA
25789965 TT
1 TT
25789967 CTTTAGGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (23 bp):
TTTCATTGAAATTCTTTGAATCA
Found at i:25790810 original size:15 final size:15
Alignment explanation
Indices: 25790790--25790828 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
25790780 AGGAAAAGTG
25790790 TAATTTTATTTTTAT
1 TAATTTTATTTTTAT
*
25790805 TAATTTAAATTTTTAT
1 TAATTT-TATTTTTAT
*
25790821 AAATTTTA
1 TAATTTTA
25790829 AAGGGGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TAATTTTATTTTTAT
Found at i:25803648 original size:7 final size:7
Alignment explanation
Indices: 25803626--25803662 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
25803616 TCTCTTATGG
25803626 AGTT-TT
1 AGTTATT
25803632 AGTT-TT
1 AGTTATT
25803638 AGTTATT
1 AGTTATT
25803645 AGTTATT
1 AGTTATT
*
25803652 AGTTATC
1 AGTTATT
25803659 AGTT
1 AGTT
25803663 TCAGGTACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (7 bp):
AGTTATT
Found at i:25803694 original size:33 final size:32
Alignment explanation
Indices: 25803596--25803695 Score: 79
Period size: 33 Copynumber: 3.2 Consensus size: 32
25803586 CATTTTAATA
25803596 TTCAGTTTCAGGTACCTAAATCTCTTATGGAGT
1 TTCAGTTTCAGGTACCTAAATCTCTTAT-GAGT
* * * *
25803629 TTTAGTTTTA-GT---T--AT-TAGTTATTAGT
1 TTCAGTTTCAGGTACCTAAATCT-CTTATGAGT
25803655 TATCAGTTTCAGGTACCTAAATCTCTTATAGAGT
1 T-TCAGTTTCAGGTACCTAAATCTCTTAT-GAGT
25803689 TTCAGTT
1 TTCAGTT
25803696 ATTAGTTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 20
0.64 0.10 0.26
Matches are distributed among these distances:
26 5 0.10
27 13 0.27
28 2 0.04
29 1 0.02
31 1 0.02
32 2 0.04
33 20 0.41
34 5 0.10
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (32 bp):
TTCAGTTTCAGGTACCTAAATCTCTTATGAGT
Found at i:25809461 original size:16 final size:17
Alignment explanation
Indices: 25809431--25809464 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25809421 TATATATATA
25809431 AAAAAGAAAAGAAAATT
1 AAAAAGAAAAGAAAATT
*
25809448 AAAAATAAAA-AAAATT
1 AAAAAGAAAAGAAAATT
25809464 A
1 A
25809465 TACTACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAGAAAAGAAAATT
Found at i:25810621 original size:17 final size:18
Alignment explanation
Indices: 25810599--25810632 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
25810589 TCTAGGCATG
25810599 TTTTAAAT-AATTTTTAC
1 TTTTAAATAAATTTTTAC
25810616 TTTTAAATAAATTTTTA
1 TTTTAAATAAATTTTTA
25810633 TAATTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTAAATAAATTTTTAC
Found at i:25812308 original size:22 final size:22
Alignment explanation
Indices: 25812279--25812337 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
25812269 TGCACTAATG
25812279 AACAGAGAGCACTAAA-GTGCT
1 AACAGAGAGCACTAAATGTGCT
25812300 ATACAGAGAGCAC-AAATGTGCT
1 A-ACAGAGAGCACTAAATGTGCT
*
25812322 AATCAAAGAGCACTAA
1 AA-CAGAGAGCACTAA
25812338 CGTGATAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.15
22 26 0.79
23 2 0.06
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACTAAATGTGCT
Found at i:25812331 original size:24 final size:23
Alignment explanation
Indices: 25812273--25812348 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
25812263 TTATTATGCA
25812273 CTAATGAACAGAGAGCACTAAAGTG
1 CTAAT-AA-AGAGAGCACTAAAGTG
*
25812298 CT-ATACAGAGAGCAC-AAATGTG
1 CTAATAAAGAGAGCACTAAA-GTG
* *
25812320 CTAATCAA-AGAGCACTAACGTG
1 CTAATAAAGAGAGCACTAAAGTG
*
25812342 ATAATAA
1 CTAATAA
25812349 TCAAATAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
21 3 0.07
22 29 0.69
23 6 0.14
24 2 0.05
25 2 0.05
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (23 bp):
CTAATAAAGAGAGCACTAAAGTG
Found at i:25812346 original size:22 final size:23
Alignment explanation
Indices: 25812284--25812372 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 23
25812274 TAATGAACAG
*
25812284 AGAGCACTAAAGTGCT-ATACAG
1 AGAGCACTAAAGTGCTAATACAA
25812306 AGAGCAC-AAATGTGCTAAT-CAA
1 AGAGCACTAAA-GTGCTAATACAA
* *
25812328 AGAGCACTAACGTGATAATAATCAA
1 AGAGCACTAAAGTGCTAAT-A-CAA
* * *
25812353 ATAGCACTGACGTGCTAATA
1 AGAGCACTAAAGTGCTAATA
25812373 ATCAGAGCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
21 3 0.05
22 28 0.51
23 4 0.07
24 1 0.02
25 19 0.35
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (23 bp):
AGAGCACTAAAGTGCTAATACAA
Found at i:25812358 original size:25 final size:25
Alignment explanation
Indices: 25812321--25812376 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
25812311 ACAAATGTGC
25812321 TAATCAAAGAGCACTAACGTGATAA
1 TAATCAAAGAGCACTAACGTGATAA
* * *
25812346 TAATCAAATAGCACTGACGTGCTAA
1 TAATCAAAGAGCACTAACGTGATAA
25812371 TAATCA
1 TAATCA
25812377 GAGCACGCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (25 bp):
TAATCAAAGAGCACTAACGTGATAA
Found at i:25812688 original size:5 final size:5
Alignment explanation
Indices: 25812674--25812710 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
25812664 CAATAATCTA
*
25812674 TTATT TTATT ATATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
25812711 TTATTCACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:25813530 original size:5 final size:5
Alignment explanation
Indices: 25813512--25813678 Score: 180
Period size: 5 Copynumber: 33.0 Consensus size: 5
25813502 CTTTTGTTTT
* *
25813512 ATATA TATAAA ATATA ATATA ATACA ATATA ATATA ATATA ATATA ATATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* *
25813563 ATATA ATATT ATAATA ATATA ATATA ATATA ATATA ATATA ATATA ATATT
1 ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * * *
25813614 ATATT ATATT ATATT ATAATA ATATA ATA-A CATACTT AT-TA AT-TA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA -ATA-TA ATATA ATATA
25813659 A-ATAA ATATA ATATA ATATA
1 ATAT-A ATATA ATATA ATATA
25813679 TATTTTAAAT
Statistics
Matches: 143, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
4 8 0.06
5 119 0.83
6 16 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:25813639 original size:31 final size:30
Alignment explanation
Indices: 25813510--25813682 Score: 160
Period size: 31 Copynumber: 6.1 Consensus size: 30
25813500 TTCTTTTGTT
*
25813510 TTATATATATAA-AATATAATATAATACA-A
1 TTATAT-TATAATAATATAATATAATATATA
25813539 -TATA--AT-ATAATATAATATAATATAATA
1 TTATATTATAATAATATAATATAATAT-ATA
*
25813566 TAATATTATAATAATATAATATAATATA-A
1 TTATATTATAATAATATAATATAATATATA
*
25813595 -TATA--AT-ATAATATAATATTATATTATA
1 TTATATTATAATAATATAATATAATA-TATA
25813622 TTATATTATAATAATATAATA-ACATACT-TA
1 TTATATTATAATAATATAATATA-ATA-TATA
25813652 TTA-ATTA-AATAAATATAATATAATATATA
1 TTATATTATAAT-AATATAATATAATATATA
25813681 TT
1 TT
25813683 TTAAATTAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 34
0.75 0.04 0.21
Matches are distributed among these distances:
24 1 0.01
25 31 0.26
26 5 0.04
27 2 0.02
28 18 0.15
29 21 0.17
30 11 0.09
31 32 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
TTATATTATAATAATATAATATAATATATA
Found at i:25813680 original size:41 final size:41
Alignment explanation
Indices: 25813512--25813678 Score: 172
Period size: 41 Copynumber: 4.1 Consensus size: 41
25813502 CTTTTGTTTT
*
25813512 ATATATATAAAATATAATA-TAA-TACAATATAATATAATATA
1 ATATA-ATATAATATAATATTAATTA-AATATAATATAATATA
*
25813553 ATATAATATAATATAATATT-ATAATAATATAATATAATATA
1 ATATAATATAATATAATATTAATTA-AATATAATATAATATA
* *
25813594 ATATAATATAATATAATATTATATT--ATATTATATTATAATA
1 ATATAATATAATATAATATTA-ATTAAATATAATATAAT-ATA
25813635 ATATAATA-ACATACT--TATTAATTAAATA-AATATAATATA
1 ATATAATATA-ATA-TAATATTAATTAAATATAATATAATATA
25813674 ATATA
1 ATATA
25813679 TATTTTAAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 20
0.80 0.06 0.15
Matches are distributed among these distances:
39 11 0.10
40 35 0.32
41 60 0.55
42 1 0.01
43 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (41 bp):
ATATAATATAATATAATATTAATTAAATATAATATAATATA
Found at i:25816168 original size:18 final size:18
Alignment explanation
Indices: 25816141--25816179 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25816131 TTTAAAATTT
* *
25816141 TGGGCTCACATGCCCATG
1 TGGGCCCACACGCCCATG
*
25816159 TGGGCCCACACGCCTATG
1 TGGGCCCACACGCCCATG
25816177 TGG
1 TGG
25816180 CATGCCCGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (18 bp):
TGGGCCCACACGCCCATG
Found at i:25820789 original size:33 final size:33
Alignment explanation
Indices: 25820698--25820808 Score: 89
Period size: 33 Copynumber: 3.4 Consensus size: 33
25820688 TTAGAAGTTC
* ** *
25820698 ATGGAAAGGGTGATGAT-GAAGGGGTAGAATCTA
1 ATGGAGAGGGTGAT-ATAGAAAAGGTAGAATCTG
* *
25820731 ATGGTGAAGGTGATATAGAAAAGGTAGAATCTG
1 ATGGAGAGGGTGATATAGAAAAGGTAGAATCTG
* * * * * * *
25820764 GTGGGGAGGGTGATGTAGGAGAGGTACAAGCTG
1 ATGGAGAGGGTGATATAGAAAAGGTAGAATCTG
25820797 ATGGAGAGGGTG
1 ATGGAGAGGGTG
25820809 TGTCTACTAC
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
32 2 0.03
33 59 0.97
ACGTcount: A:0.32, C:0.04, G:0.43, T:0.21
Consensus pattern (33 bp):
ATGGAGAGGGTGATATAGAAAAGGTAGAATCTG
Found at i:25820987 original size:51 final size:51
Alignment explanation
Indices: 25820918--25821069 Score: 207
Period size: 51 Copynumber: 3.0 Consensus size: 51
25820908 TTGCTGCTAG
* *
25820918 TGAATATGCTAGTGATTTTGCAACATCAGATGGAGTGGATAATATTGCTGA
1 TGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATATTACTGA
* * *
25820969 TGAATATGTTGGTGATTTTGCAACATCAGATGGAGTAGATAATGTTACTGA
1 TGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATATTACTGA
* * * *
25821020 TAAATATGCTGGTGATTTTACAACATCTA-ATGGACTGGATAATGTTACTG
1 TGAATATGCTGGTGATTTTGCAACATC-AGATGGAGTGGATAATATTACTG
25821070 CTGCATGTAG
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 89 0.99
52 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.35
Consensus pattern (51 bp):
TGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATATTACTGA
Found at i:25826050 original size:14 final size:14
Alignment explanation
Indices: 25826028--25826057 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25826018 AAATATTAAG
*
25826028 TAAATTTTTTATTT
1 TAAACTTTTTATTT
25826042 TAAACTTTTTATTT
1 TAAACTTTTTATTT
25826056 TA
1 TA
25826058 TTTTGTCCAA
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:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TAAACTTTTTATTT
Found at i:25827811 original size:22 final size:23
Alignment explanation
Indices: 25827785--25827829 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25827775 CTGGAAAGAT
*
25827785 TAAA-GATTTCACGATTTGGTTC
1 TAAAGGATTTCACGATTTCGTTC
25827807 TAAAGGATTTCACGATTTCGTTC
1 TAAAGGATTTCACGATTTCGTTC
25827830 CTAATAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (23 bp):
TAAAGGATTTCACGATTTCGTTC
Found at i:25828184 original size:16 final size:16
Alignment explanation
Indices: 25828163--25828199 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25828153 GAATGCTAAC
*
25828163 GATTTAGGTATTTCAA
1 GATTTAGGGATTTCAA
*
25828179 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
25828195 GATTT
1 GATTT
25828200 CTAGGGATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:25828641 original size:20 final size:20
Alignment explanation
Indices: 25828616--25828654 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
25828606 CGTTGGAGCT
25828616 AAAATATCT-ATACCATATAG
1 AAAATAT-TGATACCATATAG
25828636 AAAATATTGATACCATATA
1 AAAATATTGATACCATATA
25828655 AAAGGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAATATTGATACCATATAG
Found at i:25828663 original size:20 final size:20
Alignment explanation
Indices: 25828616--25828669 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
25828606 CGTTGGAGCT
25828616 AAAATATCT-ATACCATATAG
1 AAAATAT-TAATACCATATAG
*
25828636 AAAATATTGATACCATATA-
1 AAAATATTAATACCATATAG
*
25828655 AAAGGTATTAATACC
1 AAA-ATATTAATACC
25828670 GGACCGATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATATTAATACCATATAG
Found at i:25832154 original size:2 final size:2
Alignment explanation
Indices: 25832110--25832140 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25832100 ATACTTATGG
25832110 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 T
25832141 CATTAAAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25832347 original size:143 final size:140
Alignment explanation
Indices: 25832175--25832446 Score: 355
Period size: 143 Copynumber: 1.9 Consensus size: 140
25832165 GTTAATAATA
* * * *
25832175 AAAATTAGGATAGACTATTGATTACTAATTAAGGATAAAAAGTATATGTTAATAATTAAGGAAAT
1 AAAATTAGGATAAACTATTGATTACTAATTAAGGATAAAAAATATAAGGTAATAATTAAGGAAAT
* * * *
25832240 ATTTTGGAACTTAAAAAGAATTAACCTAAAACTCAAAGCTTCCTAAAATACTCGTGTTTCTTATT
66 ATTTTAGAAC-T-AAAAGAACTAACCTAAAACTCAAAG-TTCCTAAAATACTCATGTTCCTTATT
25832305 TTGTATTAGGGAT
128 TTGTATTAGGGAT
* * * *
25832318 AAAATTAGGATAAATTATTGATTATTAATTAAGGATAAAAAATATAAGGTAATAATTAGGGAAGT
1 AAAATTAGGATAAACTATTGATTACTAATTAAGGATAAAAAATATAAGGTAATAATTAAGGAAAT
* * * ** *
25832383 ATTTTAGAACTCAAATAACTAACCTAGAACTCAAAGTTTTTAAAATGCTCATGTTCCTTATTTT
66 ATTTTAGAACTAAAAGAACTAACCTAAAACTCAAAGTTCCTAAAATACTCATGTTCCTTATTTT
25832447 AGATATATAA
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
140 23 0.21
141 21 0.19
142 1 0.01
143 66 0.59
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (140 bp):
AAAATTAGGATAAACTATTGATTACTAATTAAGGATAAAAAATATAAGGTAATAATTAAGGAAAT
ATTTTAGAACTAAAAGAACTAACCTAAAACTCAAAGTTCCTAAAATACTCATGTTCCTTATTTTG
TATTAGGGAT
Found at i:25832704 original size:16 final size:15
Alignment explanation
Indices: 25832675--25832721 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
25832665 TTATGCTTTC
25832675 TTTTAAATTTTTTAT
1 TTTTAAATTTTTTAT
25832690 TTTTAAATATTTTTATAAT
1 TTTT-AA-ATTTTT-T-AT
25832709 TTTTAAATTTTTT
1 TTTTAAATTTTTT
25832722 TTGTGCAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 12 0.43
18 3 0.11
19 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAATTTTTTAT
Found at i:25840804 original size:20 final size:18
Alignment explanation
Indices: 25840779--25840815 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
25840769 ATTGCTAAGT
25840779 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
25840799 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
25840816 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:25844172 original size:46 final size:45
Alignment explanation
Indices: 25844014--25844230 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 45
25844004 ACATGAGATT
* ** *
25844014 TGTATGCCAGTGTAAGACCATGTATGGGACATGGCATCGGTATTGAGA
1 TGTA-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA
* * * * *
25844062 CG-AGGGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-AGTA
1 TGTA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-A
25844108 TG-AGATCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
1 TGTAG--CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
* * * *
25844154 TGTTAGCCAATGTCAGACATGTCTGGGACATGCGTTGG-CTACGAGA
1 TG-TAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA
*
25844200 TGT-GCTAGTGTAAGACATGTCTGGGACATGC
1 TGTAGCCAGTGTAAGACATGTCTGGGACATGC
25844231 GTCAGCACGG
Statistics
Matches: 140, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 26 0.19
45 5 0.04
46 79 0.56
47 16 0.11
48 14 0.10
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
TGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
Found at i:25847067 original size:20 final size:18
Alignment explanation
Indices: 25847042--25847078 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
25847032 ATTGCTAAGT
25847042 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
25847062 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
25847079 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:25847546 original size:22 final size:22
Alignment explanation
Indices: 25847518--25847566 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
25847508 AGGAATAGAA
25847518 TAGGATACGAGTGACATGTCAC
1 TAGGATACGAGTGACATGTCAC
25847540 TAGGATACGAGTGACATGTCAC
1 TAGGATACGAGTGACATGTCAC
25847562 TAGGA
1 TAGGA
25847567 ATTATGAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (22 bp):
TAGGATACGAGTGACATGTCAC
Found at i:25850885 original size:3 final size:3
Alignment explanation
Indices: 25850877--25850917 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
25850867 GAATACTCTC
* * *
25850877 CAT CAT CAT CAT CAT CAT CAT CTT CTT CTT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
25850918 ATTCGGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.34, G:0.00, T:0.39
Consensus pattern (3 bp):
CAT
Found at i:25851036 original size:45 final size:45
Alignment explanation
Indices: 25850972--25851066 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
25850962 TTCTTCTTCA
*
25850972 TCTTCGTTTTCTTCTGCTGGATGTAATGATTCCATCAATGGATAT
1 TCTTCGTTTTCTTCTGCTGGATGTAATGATTCCATCAAAGGATAT
25851017 TCTTCGTTTTCTTCTGCTGGATGTAATGATTCCATCAAAGGATAT
1 TCTTCGTTTTCTTCTGCTGGATGTAATGATTCCATCAAAGGATAT
25851062 TCTTC
1 TCTTC
25851067 ATCATCTTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (45 bp):
TCTTCGTTTTCTTCTGCTGGATGTAATGATTCCATCAAAGGATAT
Found at i:25851075 original size:45 final size:45
Alignment explanation
Indices: 25850981--25851076 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
25850971 ATCTTCGTTT
* * **
25850981 TCTTCTGCTGGATGTAATGATTCCATCAATGGATATTCTTCGTTT
1 TCTTCTGCTGGATGTAATGATTCCATCAAAGGATATTCTTCATCA
25851026 TCTTCTGCTGGATGTAATGATTCCATCAAAGGATATTCTTCATCA
1 TCTTCTGCTGGATGTAATGATTCCATCAAAGGATATTCTTCATCA
25851071 TCTTCT
1 TCTTCT
25851077 TCCCCTGCTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (45 bp):
TCTTCTGCTGGATGTAATGATTCCATCAAAGGATATTCTTCATCA
Found at i:25853519 original size:7 final size:7
Alignment explanation
Indices: 25853507--25853534 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
25853497 GTCTGTAAAT
25853507 TTTAATA
1 TTTAATA
25853514 TTTAATA
1 TTTAATA
25853521 TTTAATA
1 TTTAATA
25853528 TTTAATA
1 TTTAATA
25853535 ACTACTAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTAATA
Found at i:25853760 original size:15 final size:15
Alignment explanation
Indices: 25853740--25853778 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
25853730 CCTAATTAAG
25853740 ATTAAAAACTAATTA
1 ATTAAAAACTAATTA
* *
25853755 ATTAAAGATTAATTA
1 ATTAAAAACTAATTA
25853770 AGTTAAAAA
1 A-TTAAAAA
25853779 GTTAAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (15 bp):
ATTAAAAACTAATTA
Found at i:25859431 original size:47 final size:47
Alignment explanation
Indices: 25859363--25859492 Score: 179
Period size: 47 Copynumber: 2.8 Consensus size: 47
25859353 GTGCGAATAA
* * ** *
25859363 TACCTTGATTTGGCTATGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * *
25859410 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
*
25859457 TACCTTGATTTGGCTATGGGCCATGGTATAAGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
25859493 TATCGATTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:25864792 original size:59 final size:59
Alignment explanation
Indices: 25864700--25864823 Score: 230
Period size: 59 Copynumber: 2.1 Consensus size: 59
25864690 ATTGATTTAG
25864700 TTTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
* *
25864759 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATGGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
25864818 TTTTGA
1 TTTTGA
25864824 TTTGGACATG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
Found at i:25867609 original size:26 final size:26
Alignment explanation
Indices: 25867559--25867664 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
25867549 ATGAAATTCC
*
25867559 ATCATGGAA-ATTTA-CTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25867583 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
25867609 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25867635 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25867661 ATCA
1 ATCA
25867665 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
24 9 0.12
25 5 0.07
26 61 0.81
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25874807 original size:26 final size:26
Alignment explanation
Indices: 25874771--25874878 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25874761 TGAAATTCCA
*
25874771 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25874797 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
25874823 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25874849 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25874875 ATCA
1 ATCA
25874879 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25881063 original size:2 final size:2
Alignment explanation
Indices: 25881056--25881080 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25881046 CCGTATATTA
25881056 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
25881081 ATGAAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25881107 original size:3 final size:3
Alignment explanation
Indices: 25881101--25881187 Score: 174
Period size: 3 Copynumber: 29.0 Consensus size: 3
25881091 ACACTACTAT
25881101 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25881149 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25881188 TAGAAATACA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25885077 original size:2 final size:2
Alignment explanation
Indices: 25885070--25885094 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25885060 AGCTCCTAAA
25885070 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
25885095 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25889069 original size:15 final size:15
Alignment explanation
Indices: 25889051--25889162 Score: 73
Period size: 15 Copynumber: 7.5 Consensus size: 15
25889041 AAACCAAAGA
*
25889051 ATATCATAACAAAAC
1 ATATCATAACATAAC
* * *
25889066 ATATTATAACGTATC
1 ATATCATAACATAAC
* *
25889081 ATATCATATCCTAAC
1 ATATCATAACATAAC
* * *
25889096 ATAACATAGCATATC
1 ATATCATAACATAAC
**
25889111 ATATCATAACATATT
1 ATATCATAACATAAC
* * *
25889126 ATAAT-GTATCATATC
1 AT-ATCATAACATAAC
*
25889141 ATATCGTAACATAAC
1 ATATCATAACATAAC
25889156 ATATCAT
1 ATATCAT
25889163 GTCCTACCCC
Statistics
Matches: 74, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
14 2 0.03
15 70 0.95
16 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.33
Consensus pattern (15 bp):
ATATCATAACATAAC
Found at i:25889085 original size:5 final size:5
Alignment explanation
Indices: 25889077--25889162 Score: 66
Period size: 5 Copynumber: 17.2 Consensus size: 5
25889067 TATTATAACG
* * * * * *
25889077 TATCA TATCA TATCC TAACA TAACA TAGCA TATCA TATCA TAACA TATTA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * *
25889127 TAAT-G TATCA TATCA TATCG TAACA TAACA TATCA T
1 T-ATCA TATCA TATCA TATCA TATCA TATCA TATCA T
25889163 GTCCTACCCC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
4 2 0.03
5 61 0.94
6 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.35
Consensus pattern (5 bp):
TATCA
Found at i:25889095 original size:20 final size:20
Alignment explanation
Indices: 25889072--25889168 Score: 60
Period size: 20 Copynumber: 5.1 Consensus size: 20
25889062 AAACATATTA
*
25889072 TAACGTATCATATCATATCC
1 TAACATATCATATCATATCC
* *
25889092 TAACATAACATAGCATA---
1 TAACATATCATATCATATCC
* **
25889109 T--CATATCATAACATATTA
1 TAACATATCATATCATATCC
** *
25889127 TAATGTATCATATCATATCG
1 TAACATATCATATCATATCC
* *
25889147 TAACATAACATATCATGTCC
1 TAACATATCATATCATATCC
25889167 TA
1 TA
25889169 CCCCCATCCG
Statistics
Matches: 57, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
15 12 0.21
17 1 0.02
18 1 0.02
20 43 0.75
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (20 bp):
TAACATATCATATCATATCC
Found at i:25889099 original size:25 final size:25
Alignment explanation
Indices: 25889071--25889162 Score: 94
Period size: 25 Copynumber: 3.5 Consensus size: 25
25889061 AAAACATATT
* *
25889071 ATAACGTATCATATCATATCCTAAC
1 ATAACATATCATATCATATCATAAC
*
25889096 ATAACATAGCATATCATATCATAAC
1 ATAACATATCATATCATATCATAAC
* *
25889121 ATATTATAATGTATCATATCATATCGTAAC
1 ATA--A-CA--TATCATATCATATCATAAC
25889151 ATAACATATCAT
1 ATAACATATCAT
25889163 GTCCTACCCC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
25 31 0.56
27 2 0.04
28 2 0.04
30 20 0.36
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.34
Consensus pattern (25 bp):
ATAACATATCATATCATATCATAAC
Found at i:25889125 original size:55 final size:55
Alignment explanation
Indices: 25889051--25889158 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 55
25889041 AAACCAAAGA
25889051 ATATCATAACAAAACATATTATAACGTATCATATCATATCCTAACATAACATAGC
1 ATATCATAACAAAACATATTATAACGTATCATATCATATCCTAACATAACATAGC
* * * *
25889106 ATATCATATCATAACATATTATAATGTATCATATCATATCGTAACATAACATA
1 ATATCATAACAAAACATATTATAACGTATCATATCATATCCTAACATAACATA
25889159 TCATGTCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (55 bp):
ATATCATAACAAAACATATTATAACGTATCATATCATATCCTAACATAACATAGC
Found at i:25889144 original size:30 final size:29
Alignment explanation
Indices: 25889051--25889153 Score: 106
Period size: 30 Copynumber: 3.6 Consensus size: 29
25889041 AAACCAAAGA
* *
25889051 ATATCATAACAAAACATATTATAACGTATC
1 ATATCATATCATAACATATTATAA-GTATC
* * *
25889081 ATATCATATCCTAACATA--A-CA-TAGC
1 ATATCATATCATAACATATTATAAGTATC
25889106 ATATCATATCATAACATATTATAATGTATC
1 ATATCATATCATAACATATTATAA-GTATC
*
25889136 ATATCATATCGTAACATA
1 ATATCATATCATAACATA
25889154 ACATATCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
25 20 0.34
27 2 0.03
28 2 0.03
30 35 0.59
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (29 bp):
ATATCATATCATAACATATTATAAGTATC
Found at i:25892918 original size:27 final size:25
Alignment explanation
Indices: 25892887--25893023 Score: 114
Period size: 27 Copynumber: 5.1 Consensus size: 25
25892877 AATAGATTAC
*
25892887 CCCGTGTTTATTGTCCCGATGGACTA
1 CCCGTGTTTACTGTCCC-ATGGACTA
25892913 CTCCGTGTTTACTGTCCCA-GCAGACTA
1 C-CCGTGTTTACTGTCCCATG--GACTA
* *
25892940 CCCGGTGTCTACTGTCTCAGTGGACTA
1 CCC-GTGTTTACTGTCCCA-TGGACTA
* *
25892967 CCTCGTGTTTACTGCCCCGATAGACTA
1 CC-CGTGTTTACTGTCCC-ATGGACTA
* *
25892994 CCCCGTGTTTACTGTCTCAATAGACTA
1 -CCCGTGTTTACTGTC-CCATGGACTA
25893021 CCC
1 CCC
25893024 TATATTTATA
Statistics
Matches: 92, Mismatches: 9, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.01
26 7 0.08
27 78 0.85
28 5 0.05
29 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.20, T:0.31
Consensus pattern (25 bp):
CCCGTGTTTACTGTCCCATGGACTA
Found at i:25893010 original size:54 final size:54
Alignment explanation
Indices: 25892878--25893022 Score: 161
Period size: 54 Copynumber: 2.7 Consensus size: 54
25892868 TATTATCCCA
* * * *
25892878 ATAGATTACCCCGTGTTTATTGTC-CCGATGGACTA-CTCCGTGTTTACTGTCCC
1 ATAGACTACCCCGTGTTTACTGTCTCAG-TGGACTACCTCCGTGTTTACTGCCCC
* * *
25892931 AGCAGACTACCCGGTGTCTACTGTCTCAGTGGACTACCT-CGTGTTTACTGCCCC
1 A-TAGACTACCCCGTGTTTACTGTCTCAGTGGACTACCTCCGTGTTTACTGCCCC
* *
25892985 GATAGACTACCCCGTGTTTACTGTCTCAATAGACTACC
1 -ATAGACTACCCCGTGTTTACTGTCTCAGTGGACTACC
25893023 CTATATTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
53 1 0.01
54 70 0.92
55 5 0.07
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.31
Consensus pattern (54 bp):
ATAGACTACCCCGTGTTTACTGTCTCAGTGGACTACCTCCGTGTTTACTGCCCC
Found at i:25893462 original size:15 final size:15
Alignment explanation
Indices: 25893442--25893487 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
25893432 TCATTCCCAA
25893442 ATCCTAACTTCATAT
1 ATCCTAACTTCATAT
25893457 ATCCT-A--TCA-A-
1 ATCCTAACTTCATAT
25893467 ATCCTAACTTCATAT
1 ATCCTAACTTCATAT
25893482 ATCCTA
1 ATCCTA
25893488 TCAATTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
10 5 0.19
11 2 0.08
12 3 0.12
13 3 0.12
14 2 0.08
15 11 0.42
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.37
Consensus pattern (15 bp):
ATCCTAACTTCATAT
Found at i:25893473 original size:25 final size:25
Alignment explanation
Indices: 25893439--25893491 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
25893429 TTCTCATTCC
25893439 CAAATCCTAACTTCATATATCCTAT
1 CAAATCCTAACTTCATATATCCTAT
25893464 CAAATCCTAACTTCATATATCCTAT
1 CAAATCCTAACTTCATATATCCTAT
25893489 CAA
1 CAA
25893492 TTATTTTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (25 bp):
CAAATCCTAACTTCATATATCCTAT
Found at i:25896086 original size:2 final size:2
Alignment explanation
Indices: 25896079--25896117 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
25896069 AGATAAACTT
25896079 TA TA 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 TA TA T
25896118 TAAAATTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25896287 original size:21 final size:22
Alignment explanation
Indices: 25896261--25896303 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
25896251 TTGTCTAAGT
*
25896261 AATTTAGGGTTT-ATGGTTTAA
1 AATTTAGGGTTTAAGGGTTTAA
25896282 AATTTAGGGTTTAAGGGTTTAA
1 AATTTAGGGTTTAAGGGTTTAA
25896304 GGTTTATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (22 bp):
AATTTAGGGTTTAAGGGTTTAA
Found at i:25896322 original size:14 final size:15
Alignment explanation
Indices: 25896303--25896340 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
25896293 TAAGGGTTTA
25896303 AGGTTTATAG-TTTTG
1 AGGTTTAT-GTTTTTG
25896318 A-GTTTATGTTTTTG
1 AGGTTTATGTTTTTG
25896332 AGGTTTATG
1 AGGTTTATG
25896341 CATTTAGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.05
14 12 0.57
15 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
AGGTTTATGTTTTTG
Found at i:25896322 original size:29 final size:29
Alignment explanation
Indices: 25896266--25896323 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
25896256 TAAGTAATTT
* *
25896266 AGGGTTTATGGTTTAAAATTTAGGGTTTA
1 AGGGTTTAAGGTTTAAAATTTAGAGTTTA
* * *
25896295 AGGGTTTAAGGTTTATAGTTTTGAGTTTA
1 AGGGTTTAAGGTTTAAAATTTAGAGTTTA
25896324 TGTTTTTGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (29 bp):
AGGGTTTAAGGTTTAAAATTTAGAGTTTA
Found at i:25896397 original size:35 final size:35
Alignment explanation
Indices: 25896349--25896417 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
25896339 TGCATTTAGG
25896349 GATTGGGATTTAGGGTCTTGAGGTTTGGGTTTAAT
1 GATTGGGATTTAGGGTCTTGAGGTTTGGGTTTAAT
*
25896384 GATTGGGGA-TTAGGGTCTTGATGTTTGGGTTTAA
1 GATT-GGGATTTAGGGTCTTGAGGTTTGGGTTTAA
25896418 GGTTTATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (35 bp):
GATTGGGATTTAGGGTCTTGAGGTTTGGGTTTAAT
Found at i:25896432 original size:35 final size:35
Alignment explanation
Indices: 25896343--25896470 Score: 100
Period size: 35 Copynumber: 3.6 Consensus size: 35
25896333 GGTTTATGCA
*
25896343 TTTAGGGATT-GGGATTTAGGGTCTTGAGGTTTGGG
1 TTTAAGGATTAGGG-TTTAGGGTCTTGAGGTTTGGG
* * * *
25896378 TTTAATGATTGGGGATTAGGGTCTTGATGTTTGGG
1 TTTAAGGATTAGGGTTTAGGGTCTTGAGGTTTGGG
* ** *
25896413 TTTAAGGTTTATTGTTTAGGAT-TT-AGGGTTTAAGGG
1 TTTAAGGATTAGGGTTTAGGGTCTTGA-GGTTT--GGG
* *
25896449 GTTAAGGTTTAGGGTTTAGGGT
1 TTTAAGGATTAGGGTTTAGGGT
25896471 TTAGGGAAGA
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
33 1 0.01
34 6 0.08
35 42 0.58
36 24 0.33
ACGTcount: A:0.18, C:0.02, G:0.38, T:0.43
Consensus pattern (35 bp):
TTTAAGGATTAGGGTTTAGGGTCTTGAGGTTTGGG
Found at i:25896474 original size:7 final size:7
Alignment explanation
Indices: 25896406--25896476 Score: 72
Period size: 7 Copynumber: 10.1 Consensus size: 7
25896396 GGGTCTTGAT
25896406 GTTT-GG
1 GTTTAGG
*
25896412 GTTTAAG
1 GTTTAGG
**
25896419 GTTTATT
1 GTTTAGG
25896426 GTTTAGG
1 GTTTAGG
*
25896433 ATTTAGG
1 GTTTAGG
25896440 GTTTAAGG
1 GTTT-AGG
* *
25896448 GGTTAAG
1 GTTTAGG
25896455 GTTTAGG
1 GTTTAGG
25896462 GTTTAGG
1 GTTTAGG
25896469 GTTTAGG
1 GTTTAGG
25896476 G
1 G
25896477 AAGATCAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
6 4 0.08
7 42 0.81
8 6 0.12
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:25897138 original size:36 final size:36
Alignment explanation
Indices: 25897084--25897187 Score: 100
Period size: 43 Copynumber: 2.7 Consensus size: 36
25897074 ATTTTCCCCC
* * *
25897084 TTTTCCCTAATCCAAAATCCCTAAAGTAATCACCTT
1 TTTTCCCCAATTCAAAATCCCTAAAGTAATCACCCT
*
25897120 TTTTCCCCAATTCGAAATCCGAAACCCCTAAAGTAATCACCCT
1 TTTTCCCCAATTC---A----AAATCCCTAAAGTAATCACCCT
*
25897163 TTTTCTCCAATTCAAAATCCCTAAA
1 TTTTCCCCAATTCAAAATCCCTAAA
25897188 ATTCACCCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
36 21 0.38
39 1 0.02
40 1 0.02
43 32 0.58
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.31
Consensus pattern (36 bp):
TTTTCCCCAATTCAAAATCCCTAAAGTAATCACCCT
Found at i:25897149 original size:43 final size:43
Alignment explanation
Indices: 25897092--25897182 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
25897082 CCTTTTCCCT
* * *
25897092 AATCCAAAATCCCTAAAGTAATCACCTTTTTTCCCCAATTCGA
1 AATCCAAAACCCCTAAAGTAATCACCCTTTTTCCCCAATTCAA
* *
25897135 AATCCGAAACCCCTAAAGTAATCACCCTTTTTCTCCAATTCAA
1 AATCCAAAACCCCTAAAGTAATCACCCTTTTTCCCCAATTCAA
25897178 AATCC
1 AATCC
25897183 CTAAAATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.29
Consensus pattern (43 bp):
AATCCAAAACCCCTAAAGTAATCACCCTTTTTCCCCAATTCAA
Found at i:25899330 original size:158 final size:159
Alignment explanation
Indices: 25898760--25899530 Score: 1239
Period size: 158 Copynumber: 4.8 Consensus size: 159
25898750 AGATTCAATC
25898760 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
1 TTATTTTTA-TTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
* *
25898825 ACACAATTTTTTAAATTATATAATTTGGATTAGTTTTTTTTAAATATTATTTAATTAAAATAATT
65 ACACAATTTTTTAAATTATATAATTTGGATTA-ATTTATTTAAATATTATTTAATTAAAATAATT
* *
25898890 TTTTT-ATGTGA-TTTTCTTCATCATCAAATT
129 TTTTTCATGTGATTTTTC-GCATCGTCAAATT
*
25898920 TTATTTTTATTTTTTTCCATGGAAAAAAGTTGACATTTCATCTTATACGG-TTTCAACTTTTTAT
1 TTATTTTTATTTTTTT-CATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
*
25898984 ACACAATTTTTTAAATTATATGATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
65 ACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
25899049 TTTTCCATGTGATTTTTCGCATCGTCAAATT
130 TTTT-CATGTGATTTTTCGCATCGTCAAATT
25899080 TTATTTTTATTATTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTA--TTT-TTATTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* * **
25899145 ATACACATTTTTTTAAATTATATAATTTGAATTAATTTATTTAAATATTATTTAATTAGCATAAT
63 ATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAT
*
25899210 TTTTTTCCATGTGATTTTTCGCATCTTCAAATT
128 TTTTTT-CATGTGATTTTTCGCATCGTCAAATT
* * *
25899243 TTA-TTTTA-TTTTTTCATAGAACAAAGTTGACATTTCATCTTATATGGTTTTTAACTTTTTATA
1 TTATTTTTATTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTATA
* *
25899306 CACAATTTTTAAAATTATATAATTTGGATTAATTTATCTAAATATTATTTAATTAAAATAATTTT
66 CACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTT
25899371 TTTCATGTGATTTTTCGCATCGTCAAATT
131 TTTCATGTGATTTTTCGCATCGTCAAATT
25899400 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTA--TTT-TTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
*
25899465 ACACACAA-TTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAT
63 ATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAT
25899529 TT
128 TT
25899531 ATTTAAATAT
Statistics
Matches: 569, Mismatches: 29, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
157 28 0.05
158 154 0.27
159 55 0.10
160 63 0.11
161 63 0.11
162 89 0.16
163 117 0.21
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (159 bp):
TTATTTTTATTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTATA
CACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTT
TTTCATGTGATTTTTCGCATCGTCAAATT
Found at i:25899350 original size:321 final size:318
Alignment explanation
Indices: 25898760--25899535 Score: 1274
Period size: 320 Copynumber: 2.4 Consensus size: 318
25898750 AGATTCAATC
25898760 TTATTTTTA-TTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
1 TTATTTTTATTTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
* *
25898824 TACACAATTTTTTAAATTATATAATTTGGATTAGTTTTTTTTAAATATTATTTAATTAAAATAAT
66 TACAC-ATTTTTTAAATTATATAATTTGGATTA-ATTTATTTAAATATTATTTAATTAAAATAAT
* *
25898889 TTTTTTATGTGATTTTCTTCATCATCAAATTTTATTTTTATTTTTTTCCATGGAAAAAAGTTGAC
129 TTTTTTATGTGATTTTCTGCATCATCAAATTTTATTTTTATTTTTTTCCATAGAAAAAAGTTGAC
* *
25898954 ATTTCATCTTATACGGTTTCAACTTTTTATACACAATTTTTTAAATTATATGATTTGGATTAATT
194 ATTTCATCTTATACGGTTTCAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATTAATT
*
25899019 TATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
259 TATCTAAATATTATTTAATTAAAATAATTTTTTT-CATGTGATTTTTCGCATCGTCAAATT
25899080 TTATTTTTATTATTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTATT-TTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* **
25899145 ATACACATTTTTTTAAATTATATAATTTGAATTAATTTATTTAAATATTATTTAATTAGCATAAT
65 ATACACA-TTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAT
* *
25899210 TTTTTTCCATGTGATTTT-TCGCATCTTCAAATTTTA-TTTTA-TTTTTT-CATAGAACAAAGTT
129 TTTTTT--ATGTGATTTTCT-GCATCATCAAATTTTATTTTTATTTTTTTCCATAGAAAAAAGTT
* *
25899271 GACATTTCATCTTATATGGTTTTTAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATT
191 GACATTTCATCTTATACGG-TTTCAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATT
25899336 AATTTATCTAAATATTATTTAATTAAAATAATTTTTTTCATGTGATTTTTCGCATCGTCAAATT
255 AATTTATCTAAATATTATTTAATTAAAATAATTTTTTTCATGTGATTTTTCGCATCGTCAAATT
25899400 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTATTTTT-TTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* *
25899465 ACACACAATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
65 ATACACATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
*
25899530 TATTTA
130 TTTTTA
25899536 AATATTATTT
Statistics
Matches: 428, Mismatches: 20, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
317 1 0.00
319 61 0.14
320 132 0.31
321 120 0.28
322 90 0.21
323 24 0.06
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (318 bp):
TTATTTTTATTTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
TACACATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
TTTTATGTGATTTTCTGCATCATCAAATTTTATTTTTATTTTTTTCCATAGAAAAAAGTTGACAT
TTCATCTTATACGGTTTCAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATTAATTTA
TCTAAATATTATTTAATTAAAATAATTTTTTTCATGTGATTTTTCGCATCGTCAAATT
Found at i:25899522 original size:15 final size:15
Alignment explanation
Indices: 25899498--25899552 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
25899488 ATTTGGATTA
*
25899498 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
25899513 ATTTAATTAAA-ATA
1 ATTTAATTAAATATT
*
25899527 ATTTATTTAAATATT
1 ATTTAATTAAATATT
25899542 ATTTAATTAAA
1 ATTTAATTAAA
25899553 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:25899534 original size:29 final size:29
Alignment explanation
Indices: 25899496--25899559 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
25899486 TAATTTGGAT
25899496 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
25899525 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
25899554 TAATTT
1 TAATTT
25899560 TTTTCTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAAAA
Found at i:25899664 original size:191 final size:191
Alignment explanation
Indices: 25899335--25899709 Score: 689
Period size: 191 Copynumber: 2.0 Consensus size: 191
25899325 TAATTTGGAT
*
25899335 TAATTTATCTAAATATTATTTAATTAAAATAATTTTTTTCATGTGATTTTTCGCATCGTCAAATT
1 TAATTTATCTAAATATTATTTAATTAAAATAATTTTTTTCATGTGATTTTCCGCATCGTCAAATT
*
25899400 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
66 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTTT
*
25899465 ACACACAA-TTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAA
131 ACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTAATTAAAA
*
25899525 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCTATGTGATTTTCCGCATCGTCAAAT
1 TAATTTATCTAAATATTATTTAATTAAAATAATTTTTTTC-ATGTGATTTTCCGCATCGTCAAAT
25899590 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
65 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
*
25899655 TATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTA
130 TACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTA
25899710 TCTTAATGTT
Statistics
Matches: 178, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
190 39 0.22
191 95 0.53
192 44 0.25
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (191 bp):
TAATTTATCTAAATATTATTTAATTAAAATAATTTTTTTCATGTGATTTTCCGCATCGTCAAATT
TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTTT
ACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTAATTAAAA
Found at i:25899763 original size:27 final size:27
Alignment explanation
Indices: 25899724--25899777 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
25899714 AATGTTAAAT
*
25899724 ATATATATTATATAATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
*
25899751 ATATATATCATATCATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
25899778 CTTACAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATATATCATATAATAACTTACATAA
Found at i:25899776 original size:9 final size:9
Alignment explanation
Indices: 25899764--25899799 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
25899754 TATATCATAT
25899764 CATAACTTA
1 CATAACTTA
25899773 CATAACTTA
1 CATAACTTA
*
25899782 CAAAACTTA
1 CATAACTTA
*
25899791 CTTAACTTA
1 CATAACTTA
25899800 TGTAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:25901834 original size:18 final size:18
Alignment explanation
Indices: 25901813--25902095 Score: 171
Period size: 18 Copynumber: 15.3 Consensus size: 18
25901803 GAACAATTAT
25901813 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
25901831 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
25901849 TTATTCAATAATAATCAG
1 TTATTCAGTAACAGTCAG
*
25901867 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
25901893 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
25901911 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
25901928 GTATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
25901947 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
25901964 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
25901983 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
25902001 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
25902019 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
25902037 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
25902055 TTA-TCCGATAACAGTTAA
1 TTATTCAG-TAACAGTCAG
* *
25902073 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
25902091 TTATT
1 TTATT
25902096 TTATACCTTT
Statistics
Matches: 202, Mismatches: 45, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
17 19 0.09
18 144 0.71
19 22 0.11
21 2 0.01
22 1 0.00
23 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:25901853 original size:36 final size:36
Alignment explanation
Indices: 25901800--25902095 Score: 206
Period size: 36 Copynumber: 8.0 Consensus size: 36
25901790 TCATTAACAA
* * *
25901800 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * *
25901835 TCGGTAACAATCAATTATTCAATAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
25901871 TCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAATCAGTTAT
** *
25901915 TCAGTAA-AATCAGGTATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAA-TCAGTTAT
* *
25901951 TCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAATCAGTTAT
** * *
25901987 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
25902023 TCAGTAACAGTCTAA-TATCCAGTAACAGTCAATTA-
1 TCAGTAACAATC-AATTATTCAGTAACAATCAGTTAT
* * * *
25902058 TCCGATAACAGTTAATTATTCAGTAATAATCAGTTAT
1 TCAG-TAACAATCAATTATTCAGTAACAATCAGTTAT
25902095 T
1 T
25902096 TTATACCTTT
Statistics
Matches: 200, Mismatches: 44, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
35 16 0.08
36 135 0.68
37 22 0.11
42 2 0.01
43 6 0.03
44 19 0.09
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:25901950 original size:54 final size:55
Alignment explanation
Indices: 25901813--25902095 Score: 211
Period size: 54 Copynumber: 5.1 Consensus size: 55
25901803 GAACAATTAT
* * * * *
25901813 TTATTCAGTAAC-AGTCAGTTATTCGGTAACAATCAATTATTCAATAATAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
* *
25901867 TTATTCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAG
1 TTATTCAGTA---A-CAATT-A--AGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
* * *
25901928 GTATTCAGTAACAATTAAGTTATTCAGTAACAGTC-ATTCATTCAGTGACAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATT-ATTCAGTAATAATCAG
** * * * * * *
25901983 TTATTCAGTAATGATCAA-TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATC-AG
* * * * * *
25902037 ATATCCAGTAACAGTCAA-TTA-TCCGATAACAGTTAATTATTCAGTAATAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAG-TAACAGTCAATTATTCAGTAATAATCAG
25902091 TTATT
1 TTATT
25902096 TTATACCTTT
Statistics
Matches: 181, Mismatches: 34, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
53 7 0.04
54 99 0.55
55 23 0.13
56 1 0.01
57 6 0.03
58 2 0.01
59 2 0.01
61 15 0.08
62 26 0.14
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (55 bp):
TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
Found at i:25902259 original size:47 final size:47
Alignment explanation
Indices: 25902206--25902313 Score: 162
Period size: 47 Copynumber: 2.3 Consensus size: 47
25902196 CCGGAATAGT
** *
25902206 AACAGTAGTAGTAAGGCACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAAGGCACACAGAGTACCTCATCGGAACAAATCCGA
* * *
25902253 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTAAGGCACACAGAGTACCTCATCGGAACAAATCCGA
25902300 AACAGTAACAGTAA
1 AACAGTAACAGTAA
25902314 CGATAAAAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (47 bp):
AACAGTAACAGTAAGGCACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:25903972 original size:21 final size:22
Alignment explanation
Indices: 25903948--25903997 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
25903938 TTTCATTCTG
25903948 TTTCTTTTCTATCTCTTTT-TT
1 TTTCTTTTCTATCTCTTTTGTT
* * *
25903969 TTTCATTTCTTTTTCTTTTGTT
1 TTTCTTTTCTATCTCTTTTGTT
*
25903991 TTACTTT
1 TTTCTTT
25903998 ATATATATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTCTTTTCTATCTCTTTTGTT
Found at i:25904004 original size:2 final size:2
Alignment explanation
Indices: 25903997--25904040 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
25903987 TGTTTTACTT
25903997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25904038 TA T
1 TA T
25904041 GTTAACTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25904173 original size:31 final size:32
Alignment explanation
Indices: 25904117--25904179 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
25904107 CACACTTGTC
*
25904117 ATAATTTAATGTATTTATTACATAAAAATCTT
1 ATAATATAATGTATTTATTACATAAAAATCTT
*
25904149 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATGTATTT-ATTACATAAAAATCTT
25904180 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (32 bp):
ATAATATAATGTATTTATTACATAAAAATCTT
Found at i:25909056 original size:21 final size:21
Alignment explanation
Indices: 25909030--25909074 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
25909020 ACTTAGAGCG
25909030 GAGGCAACAGCGAAG-GAAGCA
1 GAGGCAACAGC-AAGAGAAGCA
*
25909051 GAGGCAGCAGCAAGAGAAGCA
1 GAGGCAACAGCAAGAGAAGCA
25909072 GAG
1 GAG
25909075 AAGAGCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.42, C:0.18, G:0.40, T:0.00
Consensus pattern (21 bp):
GAGGCAACAGCAAGAGAAGCA
Found at i:25909671 original size:43 final size:43
Alignment explanation
Indices: 25909584--25909697 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
25909574 TGTCTATAGA
* * *
25909584 AAAAGCGCCGCTAAAGCTCATG-TCTATAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCAGCGTTTATGGT
* * *
25909626 AAAAGCGCTGCTAAGGGTCATGTTCTATAGCAGCGTTTATTGT
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCAGCGTTTATGGT
* *
25909669 AAAAACGCCGCTAAATGTCATGTTCTATA
1 AAAAGCGCCGCTAAAGGTCATGTTCTATA
25909698 ACAGTATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 19 0.31
43 42 0.69
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTATAGCAGCGTTTATGGT
Found at i:25913081 original size:17 final size:16
Alignment explanation
Indices: 25913048--25913081 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25913038 AGAGTGAAAG
*
25913048 AAAATATTTTTTTTTT
1 AAAATATTTTTTATTT
25913064 AAAATATTTTTTAATTT
1 AAAATATTTTTT-ATTT
25913081 A
1 A
25913082 TTTAATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AAAATATTTTTTATTT
Found at i:25913672 original size:26 final size:26
Alignment explanation
Indices: 25913643--25913698 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
25913633 GATAGATTTG
25913643 AGTAAGTAAAATACTAGTTTTGACTA
1 AGTAAGTAAAATACTAGTTTTGACTA
25913669 AGTAAGTAAAATACTAGTTTTGACTA
1 AGTAAGTAAAATACTAGTTTTGACTA
25913695 AGTA
1 AGTA
25913699 TAGAATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (26 bp):
AGTAAGTAAAATACTAGTTTTGACTA
Found at i:25915127 original size:27 final size:27
Alignment explanation
Indices: 25915092--25915145 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
25915082 AATTATTGCA
25915092 TTCTATTTAATGAAGTTATTATATTTG
1 TTCTATTTAATGAAGTTATTATATTTG
*
25915119 TTCTGTTTAATGAAGTTATTATATTTG
1 TTCTATTTAATGAAGTTATTATATTTG
25915146 AACTTGTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTATTTAATGAAGTTATTATATTTG
Found at i:25919917 original size:18 final size:18
Alignment explanation
Indices: 25919894--25919929 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25919884 TTAAAATAAG
25919894 AATAAAGTTAAATGAATA
1 AATAAAGTTAAATGAATA
*
25919912 AATAAAGTTAAATTAATA
1 AATAAAGTTAAATGAATA
25919930 CCAAAAAGAC
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:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AATAAAGTTAAATGAATA
Found at i:25924086 original size:18 final size:18
Alignment explanation
Indices: 25924047--25924093 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
25924037 AACTGTATCT
* **
25924047 ACTGCCCCTTCTTCCTTG
1 ACTGCACCTTCTTCCTCA
*
25924065 ACTGCATCTTCTTCCTCA
1 ACTGCACCTTCTTCCTCA
25924083 ACTGCACCTTC
1 ACTGCACCTTC
25924094 ATTGTCATCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.43, G:0.09, T:0.36
Consensus pattern (18 bp):
ACTGCACCTTCTTCCTCA
Found at i:25930781 original size:28 final size:28
Alignment explanation
Indices: 25930738--25930793 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
25930728 TGACAAAAGA
*
25930738 AAACAAATATTTATGTGTCTAGGGATCC
1 AAACAAATATTCATGTGTCTAGGGATCC
25930766 AAACAAATATTCATGTGTCTAGGGATCC
1 AAACAAATATTCATGTGTCTAGGGATCC
25930794 CAAATGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (28 bp):
AAACAAATATTCATGTGTCTAGGGATCC
Found at i:25933879 original size:82 final size:83
Alignment explanation
Indices: 25933737--25933899 Score: 274
Period size: 82 Copynumber: 2.0 Consensus size: 83
25933727 AGTAAAGGAA
25933737 TAGTTTTACAAAATAGGGGAGGATAGTGGATGAGAAGTAACTTAGAGAAAAAATTCAAACCCACT
1 TAGTTTTACAAAATAGGGGAGGATAGTGGATGAGAAGTAACTTAGAGAAAAAATTCAAACCCACT
25933802 TGAAT-CCCCTCTTAGAC
66 TGAATGCCCCTCTTAGAC
* * * * *
25933819 TAGTTTTACAAAATATGGGAGGATCGTGGATGAGAAGTAACTTGGAGAAAAATTTTAAACCCACT
1 TAGTTTTACAAAATAGGGGAGGATAGTGGATGAGAAGTAACTTAGAGAAAAAATTCAAACCCACT
25933884 TGAATGCCCCTCTTAG
66 TGAATGCCCCTCTTAG
25933900 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 65 0.87
83 10 0.13
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (83 bp):
TAGTTTTACAAAATAGGGGAGGATAGTGGATGAGAAGTAACTTAGAGAAAAAATTCAAACCCACT
TGAATGCCCCTCTTAGAC
Found at i:25937418 original size:14 final size:14
Alignment explanation
Indices: 25937399--25937425 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25937389 TGAATAAAGT
25937399 TATTTATGCTTATG
1 TATTTATGCTTATG
25937413 TATTTATGCTTAT
1 TATTTATGCTTAT
25937426 ATGCTATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TATTTATGCTTATG
Found at i:25938597 original size:20 final size:21
Alignment explanation
Indices: 25938568--25938616 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
25938558 ATATTTTATG
*
25938568 ATTA-TTTAATTAGAT-ATAT
1 ATTATTTTAATAAGATCATAT
* *
25938587 ATTATTTTAATAAGATCTTTT
1 ATTATTTTAATAAGATCATAT
25938608 ATTATTTTA
1 ATTATTTTA
25938617 TTATTATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 10 0.40
21 11 0.44
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTATTTTAATAAGATCATAT
Found at i:25938622 original size:11 final size:11
Alignment explanation
Indices: 25938606--25938644 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
25938596 ATAAGATCTT
25938606 TTATTATTTTA
1 TTATTATTTTA
*
25938617 TTATTATTTCA
1 TTATTATTTTA
*
25938628 TTATTATTTTT
1 TTATTATTTTA
25938639 TTATTA
1 TTATTA
25938645 ATTATTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:25940892 original size:25 final size:25
Alignment explanation
Indices: 25940783--25940916 Score: 86
Period size: 23 Copynumber: 5.6 Consensus size: 25
25940773 TAGCTCTTAA
* *
25940783 GAGCGTCCCGATATATGGCTCTTCGT
1 GAGCTTCCCGATATA-GGCTATTCGT
* *
25940809 GAGCTTCCCG--ATAGGCTCTTTGT
1 GAGCTTCCCGATATAGGCTATTCGT
* ** *
25940832 AAGCTTCCCG--ATAGTGCT-CGCTT
1 GAGCTTCCCGATATAG-GCTATTCGT
*
25940855 GAACTTCCCGATATATGGCTATTCG-
1 GAGCTTCCCGATATA-GGCTATTCGT
*
25940880 GAGCTTCCCG--ATAGGCTCTTCGT
1 GAGCTTCCCGATATAGGCTATTCGT
*
25940903 GAGCTTCGCGATAT
1 GAGCTTCCCGATAT
25940917 GGTTCTTTGT
Statistics
Matches: 85, Mismatches: 15, Indels: 17
0.73 0.13 0.15
Matches are distributed among these distances:
22 8 0.09
23 43 0.51
24 6 0.07
25 17 0.20
26 11 0.13
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGATATAGGCTATTCGT
Found at i:25940915 original size:48 final size:48
Alignment explanation
Indices: 25940799--25940916 Score: 127
Period size: 48 Copynumber: 2.5 Consensus size: 48
25940789 CCCGATATAT
* *
25940799 GGCTCTTCGTGAGCTTCCCG--ATAGGCTCTTTGTAAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATATAGGCTATTCGTAAGCTTCCCGATA
* * * *
25940845 GTGCTC-GCTTGAACTTCCCGATATATGGCTATTCG-GAGCTTCCCGATA
1 G-GCTCTTCGTGAGCTTCCCGATATA-GGCTATTCGTAAGCTTCCCGATA
*
25940893 GGCTCTTCGTGAGCTTCGCGATAT
1 GGCTCTTCGTGAGCTTCCCGATAT
25940917 GGTTCTTTGT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
46 12 0.21
47 8 0.14
48 30 0.53
49 7 0.12
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.32
Consensus pattern (48 bp):
GGCTCTTCGTGAGCTTCCCGATATAGGCTATTCGTAAGCTTCCCGATA
Found at i:25940928 original size:24 final size:23
Alignment explanation
Indices: 25940799--25940915 Score: 121
Period size: 23 Copynumber: 5.0 Consensus size: 23
25940789 CCCGATATAT
25940799 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* *
25940822 GGCTCTTTGTAAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * *
25940845 GTGCTC-GCTTGAACTTCCCGATATA
1 G-GCTCTTCGTGAGCTTCCCG--ATA
*
25940870 TGGCTATTCG-GAGCTTCCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
*
25940893 GGCTCTTCGTGAGCTTCGCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
25940916 TGGTTCTTTG
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
22 8 0.11
23 46 0.61
24 4 0.05
25 15 0.20
26 2 0.03
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.32
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:25942543 original size:18 final size:18
Alignment explanation
Indices: 25942516--25942799 Score: 171
Period size: 18 Copynumber: 15.4 Consensus size: 18
25942506 TCATTAACAA
* *
25942516 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
*
25942533 TCAGTAACAATCACTTAT
1 TCAGTAACAATCAATTAT
*
25942551 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
25942569 TCAATAATAACCAGA-TAT
1 TCAGTAACAATCA-ATTAT
*
25942587 TCAGTATCGATCAATTGATCAGTTAT
1 TCAGTA---A-C-A---ATCAATTAT
* * *
25942613 CCAGTAATAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
25942631 TTAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
* *
25942648 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
25942667 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAATTAT
* *
25942685 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
25942703 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
25942721 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* * *
25942739 TAAGTAACAGTCTATTAT
1 TCAGTAACAATCAATTAT
* *
25942757 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
25942775 TCGGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
25942793 TCAGTAA
1 TCAGTAA
25942800 GAATTAGTTA
Statistics
Matches: 205, Mismatches: 47, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
17 17 0.08
18 159 0.78
19 14 0.07
21 2 0.01
23 2 0.01
26 11 0.05
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:25942809 original size:72 final size:72
Alignment explanation
Indices: 25942609--25942811 Score: 218
Period size: 72 Copynumber: 2.8 Consensus size: 72
25942599 AATTGATCAG
* * * *
25942609 TTATCCAGTAATAGTCAATTATTTAGTAAAATCAGA-TATTCAGT-AGCAATTAAGTTATTCAGT
1 TTATCCAGTAACAGTCAATTATTCAGTAAAGTCA-ATTATTCAGTAAG-AATTAAGTTATTAAGT
25942672 AACAGTCAT
64 AACAGTCAT
* * * * * * *
25942681 TTATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAA-TATTCAGTTATTAAGTA
1 TTATCCAGTAACAGTCAATTATTCAGTAAAG-TCAATTATTCAGTAAGAATTAAGTTATTAAGTA
25942745 ACAGTC-T
65 ACAGTCAT
*
25942752 ATTATCCAGTAACAGTCAATTATTCGGTAACAGTCAATTATTCAGTAAGAATT-AGTTATT
1 -TTATCCAGTAACAGTCAATTATTCAGTAA-AGTCAATTATTCAGTAAGAATTAAGTTATT
25942812 TTATACTTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
71 1 0.01
72 90 0.84
73 15 0.14
74 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (72 bp):
TTATCCAGTAACAGTCAATTATTCAGTAAAGTCAATTATTCAGTAAGAATTAAGTTATTAAGTAA
CAGTCAT
Found at i:25944807 original size:5 final size:5
Alignment explanation
Indices: 25944797--25944829 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
25944787 TTACTTATTT
25944797 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
25944830 ACAATTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:25944961 original size:21 final size:22
Alignment explanation
Indices: 25944922--25944974 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
25944912 CATACAATTG
*
25944922 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
25944944 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
25944964 ATAAAATAATA
1 TTAAAATAATA
25944975 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:25949602 original size:22 final size:22
Alignment explanation
Indices: 25949577--25949620 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25949567 AGCTACTAAA
*
25949577 AGACTACTAGCTTGTTATTGAC
1 AGACTACGAGCTTGTTATTGAC
25949599 AGACTACGAGCTTGTTATTGAC
1 AGACTACGAGCTTGTTATTGAC
25949621 TACCATTCGG
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:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (22 bp):
AGACTACGAGCTTGTTATTGAC
Found at i:25953827 original size:16 final size:17
Alignment explanation
Indices: 25953796--25953828 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25953786 TTCATAAGCA
*
25953796 TATATCATTCATTTTAT
1 TATATCAATCATTTTAT
25953813 TATATCAAT-ATTTTAT
1 TATATCAATCATTTTAT
25953829 GCACTGTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATCAATCATTTTAT
Found at i:25954232 original size:46 final size:45
Alignment explanation
Indices: 25954165--25954369 Score: 266
Period size: 46 Copynumber: 4.5 Consensus size: 45
25954155 TATTCATTTC
*
25954165 TATCTTTCAACCATGGTCTTATTTATTTCCTGTCATGTTGTCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTT-TCATGG
* *
25954211 TATCTTTCAACCATGGTCTTATTAATTTCCTGTCATGTTTCCATGA
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTT-CATGG
* *
25954257 TATCTTACAACCATGGTCTTATTCATTTTCTGTCATGTTTCAATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTTC-ATGG
* * * * *
25954303 TATCTTTCAACCATGGTCTTATTCATTTCTTATCATATTGCCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTT-TCATGG
* *
25954349 TATCTTTCAACTATAGTCTTA
1 TATCTTTCAACCATGGTCTTA
25954370 CATATCTGAA
Statistics
Matches: 141, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
45 2 0.01
46 138 0.98
47 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.46
Consensus pattern (45 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTTCATGG
Found at i:25958282 original size:22 final size:22
Alignment explanation
Indices: 25958239--25958283 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
25958229 TTTTTTTATC
*
25958239 TTTTCCTTCTTTATCTTTTTTT
1 TTTTCCTTCTTTATCTTCTTTT
*
25958261 TTTTCC-TCATTTCTCTTCTTTT
1 TTTTCCTTC-TTTATCTTCTTTT
25958283 T
1 T
25958284 GCCATCCCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTCCTTCTTTATCTTCTTTT
Found at i:25964276 original size:165 final size:160
Alignment explanation
Indices: 25963999--25964324 Score: 424
Period size: 165 Copynumber: 2.0 Consensus size: 160
25963989 TCAAGTCAAG
** * * *
25963999 TCAAGCATATGATTGTCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCGCATAATTCTT
1 TCAAGCATACAATTGTCAAATCGCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCAT
* * *
25964064 ATGTATAATTTTTATAGTCTTAGGAAATAAAGAGATTTGGCCTTTCAAATGAGTAGTGCAGAAAA
66 ATGTATAATTTTTATAATCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAA
*
25964129 TTTACAGATTCAAATTTTG-AAGCGTTGAAA
131 TTTACACATTC-AATTTTGTAAGCGTTGAAA
* * *
25964159 TCAAGCATACAATTTTCAAATCGCAAATTCTAAGAATATTTTTCATTGCAAAAACTCACATAATT
1 TCAAGCATACAATTGTCAAATCGCAAAATCTAA-AATA-TCTTCATTGC-AAAACTCACATAATT
* *
25964224 CATACT-TATAA-TTTTAGTGAAATCATATGAAATAAAGAGAATTGGCCTTTCAAATGATTAGTG
63 CATA-TGTATAATTTTTA-T--AATCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTG
*
25964287 CAGAAAATTTACACATTCAATTTTGTAAGTGTTGAAA
124 CAGAAAATTTACACATTCAATTTTGTAAGCGTTGAAA
25964324 T
1 T
25964325 TAAATGAATG
Statistics
Matches: 143, Mismatches: 15, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
160 28 0.20
161 4 0.03
162 14 0.10
163 23 0.16
164 8 0.06
165 66 0.46
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (160 bp):
TCAAGCATACAATTGTCAAATCGCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCAT
ATGTATAATTTTTATAATCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAA
TTTACACATTCAATTTTGTAAGCGTTGAAA
Found at i:25967115 original size:15 final size:15
Alignment explanation
Indices: 25967097--25967127 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25967087 TAATGAATAC
25967097 AAAAAAGTTGAAAAG
1 AAAAAAGTTGAAAAG
*
25967112 AAAAAAGTTGCAAAG
1 AAAAAAGTTGAAAAG
25967127 A
1 A
25967128 CCTCATTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.19, T:0.13
Consensus pattern (15 bp):
AAAAAAGTTGAAAAG
Found at i:25980504 original size:13 final size:13
Alignment explanation
Indices: 25980486--25980510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25980476 ACTTTAAGCC
25980486 AAAATATTTATAA
1 AAAATATTTATAA
25980499 AAAATATTTATA
1 AAAATATTTATA
25980511 TTCATCTTAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATTTATAA
Found at i:25985242 original size:24 final size:24
Alignment explanation
Indices: 25985209--25985259 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
25985199 TAATAAGTAA
*
25985209 TAATACTTAAAAAATGTAGATTTT
1 TAATACTTAAAAAATGTAGATTAT
* *
25985233 TAATAGTTAAAAGATGTAGATTAT
1 TAATACTTAAAAAATGTAGATTAT
25985257 TAA
1 TAA
25985260 CCTTGGTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (24 bp):
TAATACTTAAAAAATGTAGATTAT
Found at i:25989189 original size:21 final size:21
Alignment explanation
Indices: 25989165--25989212 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
25989155 TTCTGTTCTG
**
25989165 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCGAGCTGCTGC
25989186 CTCCGCCTCCCGAGCTGCTGC
1 CTCCGCCTCCCGAGCTGCTGC
25989207 CTCCGC
1 CTCCGC
25989213 TCTAAGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.56, G:0.21, T:0.21
Consensus pattern (21 bp):
CTCCGCCTCCCGAGCTGCTGC
Found at i:25994520 original size:9 final size:9
Alignment explanation
Indices: 25994506--25994576 Score: 70
Period size: 9 Copynumber: 7.6 Consensus size: 9
25994496 ATGTATTAGT
25994506 TAAGTTATG
1 TAAGTTATG
25994515 TAAGTTGTTATG
1 TAA---GTTATG
*
25994527 TACGTTATG
1 TAAGTTATG
*
25994536 TGAGTTATG
1 TAAGTTATG
*
25994545 TAAATTATG
1 TAAGTTATG
25994554 TAAGTTATG
1 TAAGTTATG
* *
25994563 TAATTTATT
1 TAAGTTATG
25994572 TAAGT
1 TAAGT
25994577 AATGATCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 42 0.84
12 8 0.16
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:25995437 original size:240 final size:241
Alignment explanation
Indices: 25994757--25995724 Score: 1812
Period size: 241 Copynumber: 4.0 Consensus size: 241
25994747 TTAAGGTTAT
* *
25994757 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
25994822 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
* *
25994887 ACTCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
25994952 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACTTGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
*
25994998 ATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
25995063 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
* *
25995128 ACCCGTCAGGTTTCTAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAAAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
25995193 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTCCATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
25995239 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA-TTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
25995303 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
25995368 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
25995433 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
*
25995479 ATAAATATTCAATAATAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
*
25995544 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTATAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
25995609 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
25995674 GGTCAGCTATTGTTGTAATTTTAATGGATAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
25995720 ATAAA
1 ATAAA
25995725 ATTAATTCAT
Statistics
Matches: 709, Mismatches: 17, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
240 236 0.33
241 473 0.67
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:25995719 original size:481 final size:482
Alignment explanation
Indices: 25994757--25995724 Score: 1812
Period size: 481 Copynumber: 2.0 Consensus size: 482
25994747 TTAAGGTTAT
25994757 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
25994822 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
25994887 ACTCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
* *
25994952 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACTTGGTAATAAATATTCAATAGTAAA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATTCAATAATAAA
25995017 TAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGT
261 TAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGT
*
25995082 TACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCTAGCC
326 TACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCC
*
25995147 TATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAAAAGGTCAGCTATTGTTGTAAT
391 TATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAGAAAAGGTCAGCTATTGTTGTAAT
*
25995212 TTTAATGGACAAGCAAGCTCCATGGTA
456 TTTAATGGACAAGCAAGCTACATGGTA
* *
25995239 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA-TTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
25995303 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
25995368 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
25995433 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATTCAATAATAAA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATTCAATAATAAA
*
25995498 TGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGT
261 TAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGT
*
25995563 TACACCTAGGGAGGATCCATTATATCTTATAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCC
326 TACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCC
*
25995628 TATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAGAGAAGGTCAGCTATTGTTGTAAT
391 TATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAGAAAAGGTCAGCTATTGTTGTAAT
*
25995693 TTTAATGGATAAGCAAGCTACATGGTA
456 TTTAATGGACAAGCAAGCTACATGGTA
25995720 ATAAA
1 ATAAA
25995725 ATTAATTCAT
Statistics
Matches: 473, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
481 421 0.89
482 52 0.11
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (482 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATATTCAATAATAAA
TAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGT
TACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCC
TATATACTTTGAATCTTTAAAATATTTAAAATAAAGTTGGAGAAAAGGTCAGCTATTGTTGTAAT
TTTAATGGACAAGCAAGCTACATGGTA
Found at i:25995884 original size:27 final size:23
Alignment explanation
Indices: 25995857--25995906 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
25995847 GTTCAAGTTT
*
25995857 ATTTAAACGGCTGCAATTCATAC
1 ATTTAAAAGGCTGCAATTCATAC
25995880 ATTTAAAAGGCTGCAATTCATAC
1 ATTTAAAAGGCTGCAATTCATAC
25995903 ATTT
1 ATTT
25995907 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (23 bp):
ATTTAAAAGGCTGCAATTCATAC
Found at i:25996316 original size:2 final size:2
Alignment explanation
Indices: 25996309--25996339 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25996299 ATACAATAAC
25996309 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
25996340 ACAATTTGAC
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:25997458 original size:6 final size:6
Alignment explanation
Indices: 25997447--25997475 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
25997437 TAAATTTTAT
25997447 ATAAAA ATAAAA ATAAAA AT-AAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
25997476 TACACTCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:25999824 original size:7 final size:7
Alignment explanation
Indices: 25999765--25999894 Score: 63
Period size: 7 Copynumber: 18.6 Consensus size: 7
25999755 ATTCCAAAAT
25999765 TAAACCC
1 TAAACCC
25999772 TAAACTCC
1 TAAAC-CC
25999780 -AAACTCC
1 TAAAC-CC
*
25999787 -AAACTC
1 TAAACCC
25999793 TAAACCC
1 TAAACCC
*
25999800 CAAA-CC
1 TAAACCC
***
25999806 TCAAATTT
1 T-AAACCC
25999814 TAAACCC
1 TAAACCC
25999821 TAAACCC
1 TAAACCC
*
25999828 TAAGCCC
1 TAAACCC
* * *
25999835 CAAATCA
1 TAAACCC
25999842 TAAACCAC
1 TAAACC-C
*
25999850 AAAACCC
1 TAAACCC
*
25999857 -AATCCAC
1 TAAACC-C
*
25999864 -AAACTC
1 TAAACCC
*
25999870 TAAACTC
1 TAAACCC
25999877 TAAACCC
1 TAAACCC
25999884 TAAACCC
1 TAAACCC
25999891 TAAA
1 TAAA
25999895 ACTCTAAAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
6 8 0.09
7 78 0.83
8 8 0.09
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:25999881 original size:14 final size:15
Alignment explanation
Indices: 25999864--25999902 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
25999854 CCCAATCCAC
*
25999864 AAACTCTAAACTCT-
1 AAACTCTAAACCCTA
*
25999878 AAACCCTAAACCCTA
1 AAACTCTAAACCCTA
25999893 AAACTCTAAA
1 AAACTCTAAA
25999903 AGTCCCTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACTCTAAACCCTA
Found at i:26000185 original size:7 final size:7
Alignment explanation
Indices: 26000108--26000188 Score: 65
Period size: 7 Copynumber: 11.6 Consensus size: 7
26000098 TTGAACAATG
26000108 CTAAGACC
1 CTAA-ACC
26000116 CT-AACC
1 CTAAACC
*
26000122 CTATACC
1 CTAAACC
*
26000129 ATAAACC
1 CTAAACC
*
26000136 ATAAACC
1 CTAAACC
*
26000143 ATAAACC
1 CTAAACC
*
26000150 CCAAACC
1 CTAAACC
26000157 CTAAACC
1 CTAAACC
* **
26000164 ATAAATA
1 CTAAACC
*
26000171 CTAGACC
1 CTAAACC
26000178 CTAAACC
1 CTAAACC
26000185 CTAA
1 CTAA
26000189 TTAACCCCTA
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
6 5 0.09
7 51 0.88
8 2 0.03
ACGTcount: A:0.46, C:0.36, G:0.02, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:26000588 original size:14 final size:13
Alignment explanation
Indices: 26000554--26000617 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
26000544 AAACCTCAAG
26000554 CCCTAAATCATAGA
1 CCCTAAATCATA-A
* *
26000568 ACATAAATCATCAA
1 CCCTAAATCAT-AA
26000582 CCCTAAATCATAA
1 CCCTAAATCATAA
*
26000595 CCCTTAAACCCATAA
1 CCC-TAAA-TCATAA
26000610 CCCCTAAA
1 -CCCTAAA
26000618 CCTATAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
13 5 0.12
14 23 0.56
15 10 0.24
16 3 0.07
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (13 bp):
CCCTAAATCATAA
Found at i:26000610 original size:15 final size:15
Alignment explanation
Indices: 26000590--26000624 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26000580 AACCCTAAAT
*
26000590 CATAACCCTTAAACC
1 CATAACCCCTAAACC
26000605 CATAACCCCTAAACC
1 CATAACCCCTAAACC
*
26000620 TATAA
1 CATAA
26000625 AAATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAACCCCTAAACC
Found at i:26006796 original size:10 final size:10
Alignment explanation
Indices: 26006781--26006832 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
26006771 TAAATTTAGG
26006781 ATTTATTTTT
1 ATTTATTTTT
*
26006791 ATTTATCTTT
1 ATTTATTTTT
* *
26006801 AATTATCTTT
1 ATTTATTTTT
*
26006811 ATTTATTTGT
1 ATTTATTTTT
26006821 ATTTATCTTTT
1 ATTTAT-TTTT
26006832 A
1 A
26006833 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:26010529 original size:5 final size:5
Alignment explanation
Indices: 26010521--26010626 Score: 81
Period size: 5 Copynumber: 20.6 Consensus size: 5
26010511 CAACCCAACC
* * * * *
26010521 TTTAT TTTAT TTTAC TTTAC TTAATT TTTAT TATT-T ATTAT TTTAT TTCAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT T-TTAT TTTAT TTTAT TTTAT
* * *
26010572 TTTAT TAGTATT TTTAT TTTAT TTTAC TTTAT TTTAT TATT-T ATTAT
1 TTTAT T-TTA-T TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT
26010619 TTTAT TTT
1 TTTAT TTT
26010627 GGATATTAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
4 4 0.05
5 63 0.79
6 11 0.14
7 2 0.03
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTAT
Done.