Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 412 of 427
Found at i:119745764 original size:9 final size:9
Alignment explanation
Indices: 119745740--119745770 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
119745730 TATTTGTGAA
119745740 AAATAAAAT
1 AAATAAAAT
119745749 AAAATAAAAT
1 -AAATAAAAT
119745759 AAATAAAAT
1 AAATAAAAT
119745768 AAA
1 AAA
119745771 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:119747941 original size:44 final size:45
Alignment explanation
Indices: 119747851--119747979 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
119747841 GACAGAACGA
*
119747851 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
119747897 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
119747941 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
119747980 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:119755328 original size:44 final size:45
Alignment explanation
Indices: 119755238--119755366 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
119755228 GACAGAACGA
*
119755238 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
119755284 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
119755328 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
119755367 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:119760180 original size:5 final size:5
Alignment explanation
Indices: 119760170--119760201 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
119760160 CAAATTGTGA
119760170 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
119760202 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:119762788 original size:24 final size:24
Alignment explanation
Indices: 119762756--119762806 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
119762746 TAGTACAAAG
119762756 ACAAATGTATAG-TAAATAAAATAT
1 ACAAATGTATAGATAAA-AAAATAT
* * *
119762780 ACAAGTGTATGGATAAAAATATAT
1 ACAAATGTATAGATAAAAAAATAT
119762804 ACA
1 ACA
119762807 TTTGTAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (24 bp):
ACAAATGTATAGATAAAAAAATAT
Found at i:119762861 original size:21 final size:20
Alignment explanation
Indices: 119762826--119762873 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
119762816 CATGTATTAG
*
119762826 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
119762846 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
119762867 A-ATTAAA
1 ATATTAAA
119762874 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:119763016 original size:2 final size:2
Alignment explanation
Indices: 119763009--119763059 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
119762999 AATACATGTG
119763009 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119763051 TA TA TA TA T
1 TA TA TA TA T
119763060 GAAAAAAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:119765134 original size:46 final size:46
Alignment explanation
Indices: 119765091--119765294 Score: 320
Period size: 46 Copynumber: 4.4 Consensus size: 46
119765081 ATGAAATGTG
*
119765091 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* *
119765137 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATG-AAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
*
119765183 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAATGAA
* *
119765230 TAAGAACATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
*
119765276 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
119765295 CACTATGACA
Statistics
Matches: 144, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
46 101 0.70
47 43 0.30
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:119765262 original size:24 final size:24
Alignment explanation
Indices: 119765189--119765263 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
119765179 TGAATAAGAC
119765189 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
* *
119765213 CATGACG-GGAAA-ATGA--ATAAG-AA
1 CATG--GTTGAAAGAT-ACCAT-GGCAA
119765236 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
119765260 CATG
1 CATG
119765264 ACAGAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 11 0.29
24 15 0.39
25 5 0.13
26 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:119765273 original size:93 final size:92
Alignment explanation
Indices: 119765081--119765294 Score: 322
Period size: 93 Copynumber: 2.3 Consensus size: 92
119765071 GCTCTCTGAT
** * *
119765081 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGAAAATGAATAAGAACAT
* *
119765146 GGTTGAAAGATACCATGGCAGCGTGAC
66 GGTTGAAAGATACCATGGCAACATGAC
*
119765173 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGAACA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-GAGAAAATGAATAAGAACA
119765238 TGGTTGAAAGATACCATGGCAACATGAC
65 TGGTTGAAAGATACCATGGCAACATGAC
* *
119765266 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
119765295 CACTATGACA
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
92 44 0.40
93 67 0.60
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.19
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGAAAATGAATAAGAACAT
GGTTGAAAGATACCATGGCAACATGAC
Found at i:119765611 original size:16 final size:17
Alignment explanation
Indices: 119765590--119765622 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
119765580 ATAATAGAGC
119765590 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
119765606 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
119765623 TATACTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:119774223 original size:2 final size:2
Alignment explanation
Indices: 119774207--119774244 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
119774197 CTATAGCATC
* *
119774207 TA TA TA TT TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119774245 AAGTGTCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 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):
TA
Found at i:119779296 original size:16 final size:18
Alignment explanation
Indices: 119779257--119779297 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
119779247 TTAACTATTC
119779257 TATTATATTATTATAATA
1 TATTATATTATTATAATA
119779275 TATTATA-TATTA-AATA
1 TATTATATTATTATAATA
*
119779291 TCTTATA
1 TATTATA
119779298 CTTAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 5 0.23
18 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATATTATTATAATA
Found at i:119780428 original size:11 final size:11
Alignment explanation
Indices: 119780412--119780447 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
119780402 TTTGATGTTT
119780412 GACTCGAATAA
1 GACTCGAATAA
119780423 GACTCG--TAA
1 GACTCGAATAA
119780432 G-CTCGAATAA
1 GACTCGAATAA
119780442 GACTCG
1 GACTCG
119780448 TGAATGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.18
9 4 0.18
10 4 0.18
11 10 0.45
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (11 bp):
GACTCGAATAA
Found at i:119781627 original size:3 final size:3
Alignment explanation
Indices: 119781602--119781671 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
119781592 TTTTTCTTAG
* *
119781602 ATT ATAT ATT ATAT ATA ATT ATT ATT ATT ATT AATT ATT ATT ATG ATT
1 ATT AT-T ATT AT-T ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
* *
119781650 -TT A-T ATT A-A ATC ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
119781672 AATAAATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 5 0.09
3 40 0.74
4 9 0.17
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:119781629 original size:16 final size:16
Alignment explanation
Indices: 119781602--119781645 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
119781592 TTTTTCTTAG
119781602 ATTATATATTA-TATATA
1 ATTAT-TATTATTAT-TA
119781619 ATTATTATTATTATTA
1 ATTATTATTATTATTA
119781635 ATTATTATTAT
1 ATTATTATTAT
119781646 GATTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTATTATTATTA
Found at i:119789045 original size:16 final size:13
Alignment explanation
Indices: 119789009--119789034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119788999 GTGTCGCTTG
119789009 TTATTGTACAAGT
1 TTATTGTACAAGT
119789022 TTATTGTACAAGT
1 TTATTGTACAAGT
119789035 GTTTGATTGT
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTATTGTACAAGT
Found at i:119789871 original size:17 final size:17
Alignment explanation
Indices: 119789849--119789883 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
119789839 ATTCACACAG
119789849 AGCCTAAATTGAGCCCA
1 AGCCTAAATTGAGCCCA
119789866 AGCCTAAATTGAGCCCA
1 AGCCTAAATTGAGCCCA
119789883 A
1 A
119789884 CCAGGCCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (17 bp):
AGCCTAAATTGAGCCCA
Found at i:119790703 original size:46 final size:46
Alignment explanation
Indices: 119790651--119790741 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
119790641 TAACCATACA
119790651 TAGAATCATAAAAATGGAATTACAACTATCTAAATAACTGGGCTTT
1 TAGAATCATAAAAATGGAATTACAACTATCTAAATAACTGGGCTTT
119790697 TAGAATCATAAAAATGGAATTACAACTATCTAAATAACTGGGCTT
1 TAGAATCATAAAAATGGAATTACAACTATCTAAATAACTGGGCTT
119790742 ATGGATGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (46 bp):
TAGAATCATAAAAATGGAATTACAACTATCTAAATAACTGGGCTTT
Found at i:119795538 original size:11 final size:11
Alignment explanation
Indices: 119795521--119795589 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 11
119795511 AATTTATTAA
119795521 TTTTTTAAATT
1 TTTTTTAAATT
* *
119795532 TTCTTTATATT
1 TTTTTTAAATT
*
119795543 TTTTTTGGAATT
1 TTTTTT-AAATT
*
119795555 TTGTTTGAAA-T
1 TT-TTTTAAATT
*
119795566 TTTTGT-AATT
1 TTTTTTAAATT
119795576 TTTTTATAAATT
1 TTTTT-TAAATT
119795588 TT
1 TT
119795590 GAAATTTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
9 2 0.05
10 7 0.16
11 18 0.42
12 13 0.30
13 3 0.07
ACGTcount: A:0.23, C:0.01, G:0.07, T:0.68
Consensus pattern (11 bp):
TTTTTTAAATT
Found at i:119795595 original size:20 final size:19
Alignment explanation
Indices: 119795562--119795634 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
119795552 ATTTTGTTTG
*
119795562 AAAT-TTTTGTAATTTTTTT
1 AAATATTTTG-AATTTTTAT
119795581 ATAA-ATTTTGAAATTTTTAT
1 A-AATATTTTG-AATTTTTAT
*
119795601 AAATATTTTGAA-TTTTAA
1 AAATATTTTGAATTTTTAT
119795619 AAATTATTTTGAATTT
1 AAA-TATTTTGAATTT
119795635 ATGAAAATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 8 0.17
19 14 0.30
20 24 0.52
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
AAATATTTTGAATTTTTAT
Found at i:119795616 original size:18 final size:18
Alignment explanation
Indices: 119795577--119795634 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
119795567 TTTGTAATTT
119795577 TTTTAT-AA-ATTTTGAAA
1 TTTTATAAATATTTTG-AA
119795594 TTTTTATAAATATTTTGAA
1 -TTTTATAAATATTTTGAA
*
119795613 TTTTAAAAATTATTTTGAA
1 TTTTATAAA-TATTTTGAA
119795632 TTT
1 TTT
119795635 ATGAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 14 0.39
19 16 0.44
20 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTATAAATATTTTGAA
Found at i:119795643 original size:20 final size:19
Alignment explanation
Indices: 119795585--119795650 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
119795575 TTTTTTATAA
*
119795585 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTAAAAATT
119795605 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
*
119795624 ATTTTGAATTTATGAAAATT
1 ATTTTGAATTT-TAAAAATT
*
119795644 ATCTTGA
1 ATTTTGA
119795651 TTTGTTTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
18 8 0.20
19 14 0.34
20 19 0.46
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:119799080 original size:3 final size:3
Alignment explanation
Indices: 119799074--119799115 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
119799064 TGAGTAGTAG
119799074 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
119799116 AACAAAGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:119800381 original size:20 final size:20
Alignment explanation
Indices: 119800344--119800382 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
119800334 TATTTTATTA
* * *
119800344 TTTTAATTTAATTTAAATAT
1 TTTTAAATTAAATAAAATAT
119800364 TTTTAAATTAAATAAAATA
1 TTTTAAATTAAATAAAATA
119800383 AAATAAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAAATTAAATAAAATAT
Found at i:119802185 original size:17 final size:18
Alignment explanation
Indices: 119802163--119802197 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
119802153 ATTAAAGTAA
*
119802163 TTTTAT-ATTTATATTTT
1 TTTTATAATTAATATTTT
119802180 TTTTATAATTAATATTTT
1 TTTTATAATTAATATTTT
119802198 AATAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATAATTAATATTTT
Found at i:119803182 original size:11 final size:11
Alignment explanation
Indices: 119803140--119803184 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
119803130 GGAAAAAACA
119803140 TATAATTTAAG
1 TATAATTTAAG
*
119803151 TATCACTTT-AG
1 TAT-AATTTAAG
119803162 -ATAA-TTAAG
1 TATAATTTAAG
119803171 TATAATTTAAG
1 TATAATTTAAG
119803182 TAT
1 TAT
119803185 TGTTTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
8 2 0.07
9 3 0.11
10 6 0.21
11 13 0.46
12 4 0.14
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (11 bp):
TATAATTTAAG
Found at i:119804099 original size:46 final size:46
Alignment explanation
Indices: 119803918--119804099 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
119803908 TTTGACATGA
* * * * * *
119803918 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
119803964 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
119804010 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
119804056 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
119804100 AGAGCACACT
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:119806709 original size:26 final size:26
Alignment explanation
Indices: 119806670--119806779 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
119806660 TGATACAAAT
119806670 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
119806696 TGATAATAGTTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
119806722 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
119806748 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
119806774 TGATAA
1 TGATAA
119806780 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:119808802 original size:137 final size:137
Alignment explanation
Indices: 119808556--119808842 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
119808546 GAGTAGTCTC
119808556 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
119808621 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
119808686 ACTGTTA
131 ACTGTTA
119808693 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
119808758 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
119808823 ACTGTTA
131 ACTGTTA
**
119808830 CCTGAATGGGCTT
1 CCCAAATGGGCTT
119808843 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:119812695 original size:27 final size:26
Alignment explanation
Indices: 119812598--119812705 Score: 150
Period size: 26 Copynumber: 4.2 Consensus size: 26
119812588 TGATACAAAT
*
119812598 TGATAATAGGTTAGGT-AATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
** *
119812622 TGATAAT-ATTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
119812647 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
119812673 TGATAATGGGTTTAGGTAAATGTTTCA
1 TGATAATGGG-TTAGGTAAATGTTTCA
119812700 TGATAA
1 TGATAA
119812706 GAATTCCATG
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 6 0.08
24 11 0.15
25 10 0.14
26 25 0.34
27 22 0.30
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:119812702 original size:53 final size:49
Alignment explanation
Indices: 119812598--119812705 Score: 153
Period size: 53 Copynumber: 2.1 Consensus size: 49
119812588 TGATACAAAT
119812598 TGATAATAGGTTAGGTAATGTTCATGATAATATTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAATGTTCATGATAATATTTAGGTAAATGTTCCA
* * *
119812647 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGT-AATG-TTCATGATAAT--ATTTAGGTAAATGTTCCA
119812700 TGATAA
1 TGATAA
119812706 GAATTCCATG
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
49 15 0.29
50 4 0.08
51 11 0.21
53 22 0.42
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (49 bp):
TGATAATAGGTTAGGTAATGTTCATGATAATATTTAGGTAAATGTTCCA
Found at i:119815937 original size:15 final size:16
Alignment explanation
Indices: 119815917--119815949 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
119815907 TTTAATTAAA
119815917 TTTTT-ATTTTAATAT
1 TTTTTAATTTTAATAT
119815932 TTTTTACATTTTAATAT
1 TTTTTA-ATTTTAATAT
119815949 T
1 T
119815950 ATTATACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
17 11 0.69
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTAATTTTAATAT
Found at i:119817458 original size:10 final size:9
Alignment explanation
Indices: 119817415--119817470 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
119817405 GAATATTAAG
119817415 TATAAAAA-
1 TATAAAAAT
*
119817423 TATATAAAT
1 TATAAAAAT
*
119817432 TATTATAAAT
1 TA-TAAAAAT
* *
119817442 GACAAAAAT
1 TATAAAAAT
119817451 TATAAAAAT
1 TATAAAAAT
119817460 TATAATAAAT
1 TATAA-AAAT
119817470 T
1 T
119817471 TCAAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 7 0.18
9 19 0.49
10 13 0.33
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (9 bp):
TATAAAAAT
Found at i:119817485 original size:28 final size:28
Alignment explanation
Indices: 119817418--119817478 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
119817408 TATTAAGTAT
* *
119817418 AAAAATATATAAATTATTATAAATGACA
1 AAAAATATAAAAATTATAATAAATGACA
* **
119817446 AAAATTATAAAAATTATAATAAATTTCA
1 AAAAATATAAAAATTATAATAAATGACA
119817474 AAAAA
1 AAAAA
119817479 ATTAAAACTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAATATAAAAATTATAATAAATGACA
Found at i:119817690 original size:9 final size:9
Alignment explanation
Indices: 119817676--119817757 Score: 50
Period size: 10 Copynumber: 9.4 Consensus size: 9
119817666 AAAAAACCAT
119817676 TTTTTATAA
1 TTTTTATAA
119817685 TTTTTAT-A
1 TTTTTATAA
119817693 --TTT-TAA
1 TTTTTATAA
* *
119817699 TTTTTTTGCA
1 TTTTTAT-AA
*
119817709 TTTTAAT-A
1 TTTTTATAA
119817717 TTTTTGATAA
1 TTTTT-ATAA
119817727 TTTTTAT-A
1 TTTTTATAA
*
119817735 TTATTATAA
1 TTTTTATAA
*
119817744 TATTTAATAA
1 T-TTTTATAA
119817754 TTTT
1 TTTT
119817758 AAATATAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
5 1 0.02
6 4 0.07
8 16 0.28
9 17 0.30
10 19 0.33
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:119817722 original size:16 final size:16
Alignment explanation
Indices: 119817692--119817722 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
119817682 TAATTTTTAT
*
119817692 ATTTTAATTTTTTTGC
1 ATTTTAATATTTTTGC
119817708 ATTTTAATATTTTTG
1 ATTTTAATATTTTTG
119817723 ATAATTTTTA
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:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTTTAATATTTTTGC
Found at i:119817729 original size:18 final size:17
Alignment explanation
Indices: 119817684--119817758 Score: 66
Period size: 18 Copynumber: 4.4 Consensus size: 17
119817674 ATTTTTTATA
119817684 ATTTTTAT-ATTTTAAT
1 ATTTTTATAATTTTAAT
*
119817700 -TTTTT-TGCATTTTAAT
1 ATTTTTAT-AATTTTAAT
*
119817716 ATTTTTGATAATTTTTAT
1 ATTTTT-ATAATTTTAAT
*
119817734 ATTATTATAATATTTAAT
1 ATTTTTATAAT-TTTAAT
*
119817752 AATTTTA
1 ATTTTTA
119817759 AATATAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
14 1 0.02
15 5 0.11
16 8 0.17
17 10 0.21
18 22 0.47
19 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTTTTATAATTTTAAT
Found at i:119819025 original size:13 final size:13
Alignment explanation
Indices: 119818972--119819023 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
119818962 TTTAAACCAA
*
119818972 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
* *
119818985 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
119818998 ACTTTTC-ATAGC
1 ACTTTTCAAAAGC
*
119819010 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
119819023 A
1 A
119819024 TTGCCAAACT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
12 9 0.30
13 21 0.70
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:119822350 original size:26 final size:26
Alignment explanation
Indices: 119822314--119822423 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
119822304 TGATACAAAT
119822314 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
119822340 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
119822366 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
119822392 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
119822418 TGATAA
1 TGATAA
119822424 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:119824449 original size:137 final size:137
Alignment explanation
Indices: 119824203--119824489 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
119824193 GAGTAGTCTC
119824203 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
119824268 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
119824333 ACTGTTA
131 ACTGTTA
119824340 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
119824405 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
119824470 ACTGTTA
131 ACTGTTA
**
119824477 CCTGAATGGGCTT
1 CCCAAATGGGCTT
119824490 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:119827188 original size:28 final size:29
Alignment explanation
Indices: 119827157--119827233 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
119827147 ATTAAAGTAT
119827157 AAAAATATATAAAATTATTAT-AAATGAC
1 AAAAATATATAAAATTATTATAAAATGAC
* **
119827185 AAAAAT-TATAAAAATTATAATAAAATTTC
1 AAAAATATAT-AAAATTATTATAAAATGAC
119827214 AAAAA-AT-TAAAACTTATTAT
1 AAAAATATATAAAA-TTATTAT
119827234 CATAATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 7 0.17
28 23 0.56
29 11 0.27
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAAATATATAAAATTATTATAAAATGAC
Found at i:119827211 original size:11 final size:9
Alignment explanation
Indices: 119827154--119827204 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
119827144 AATATTAAAG
119827154 TATAAAAA-
1 TATAAAAAT
119827162 TATATAAAAT
1 TATA-AAAAT
*
119827172 TATTATAAAT
1 TA-TAAAAAT
* *
119827182 GACAAAAAT
1 TATAAAAAT
119827191 TATAAAAAT
1 TATAAAAAT
119827200 TATAA
1 TATAA
119827205 TAAAATTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
8 4 0.12
9 21 0.62
10 7 0.21
11 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:119827372 original size:20 final size:21
Alignment explanation
Indices: 119827339--119827380 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
119827329 TAATTTTATG
*
119827339 TTTTTGTAATATTTTAAAACA
1 TTTTTGTAAAATTTTAAAACA
*
119827360 TTTTT-TAAAATTTTAATACA
1 TTTTTGTAAAATTTTAAAACA
119827380 T
1 T
119827381 CTTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTTGTAAAATTTTAAAACA
Found at i:119827392 original size:56 final size:55
Alignment explanation
Indices: 119827332--119827462 Score: 128
Period size: 56 Copynumber: 2.4 Consensus size: 55
119827322 TATCTTGTAA
*
119827332 TTTTATGTTTTTGTAATATTTTAAAA-CATTTTTTAAAATTTTAATACATCTTAATT
1 TTTTATGATTTT-TAATATTTTAAAACCATTTTTTAAAATTTT-ATACATCTTAATT
** * * *
119827388 TTTTAAT-ATTTTCTAA-ATTAAAAAACCATTTTTTATAATTTTATATATTTTAATT
1 TTTT-ATGATTTT-TAATATTTTAAAACCATTTTTTAAAATTTTATACATCTTAATT
119827443 TTTT-TGCA-TTTTAATATTTT
1 TTTTATG-ATTTTTAATATTTT
119827463 TGATAATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
53 4 0.07
54 6 0.10
55 23 0.38
56 26 0.43
57 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (55 bp):
TTTTATGATTTTTAATATTTTAAAACCATTTTTTAAAATTTTATACATCTTAATT
Found at i:119827443 original size:25 final size:24
Alignment explanation
Indices: 119827415--119827462 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
119827405 TTAAAAAACC
119827415 ATTTTTTAT-AATTTTATATATTTTA
1 ATTTTTT-TGAATTTTA-ATATTTTA
*
119827440 ATTTTTTTGCATTTTAATATTTT
1 ATTTTTTTGAATTTTAATATTTT
119827463 TGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (24 bp):
ATTTTTTTGAATTTTAATATTTTA
Found at i:119827453 original size:16 final size:16
Alignment explanation
Indices: 119827434--119827464 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
119827424 AATTTTATAT
*
119827434 ATTTTAATTTTTTTGC
1 ATTTTAATATTTTTGC
119827450 ATTTTAATATTTTTG
1 ATTTTAATATTTTTG
119827465 ATAATTTTTA
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:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTTTAATATTTTTGC
Found at i:119827471 original size:18 final size:17
Alignment explanation
Indices: 119827426--119827500 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 17
119827416 TTTTTTATAA
119827426 TTTTATATATTTTAAT-T
1 TTTTATA-ATTTTAATAT
*
119827443 TTTT-TGCATTTTAATAT
1 TTTTAT-AATTTTAATAT
*
119827460 TTTTGATAATTTTTATAT
1 TTTT-ATAATTTTAATAT
* *
119827478 TATTATAATATTTAATAA
1 TTTTATAAT-TTTAATAT
119827496 TTTTA
1 TTTTA
119827501 AATATAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.20
17 14 0.30
18 22 0.48
19 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTATAATTTTAATAT
Found at i:119832436 original size:19 final size:19
Alignment explanation
Indices: 119832414--119832450 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
119832404 CAATATATAT
119832414 TTACATTAGTTTGTTTATG
1 TTACATTAGTTTGTTTATG
119832433 TTACATTAGTTTGTTTAT
1 TTACATTAGTTTGTTTAT
119832451 CTCATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
TTACATTAGTTTGTTTATG
Found at i:119841364 original size:6 final size:6
Alignment explanation
Indices: 119841353--119841398 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
119841343 ACACGGCCAA
119841353 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT TATG
1 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT TATG
119841399 CGAAAGGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.65
Consensus pattern (6 bp):
TATGTT
Found at i:119852367 original size:27 final size:27
Alignment explanation
Indices: 119852309--119852368 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
119852299 CTTTTGATCA
*
119852309 ATTAAAGAAAAGTTTTTATATTATGTT
1 ATTATAGAAAAGTTTTTATATTATGTT
119852336 ATTATAGAAAAGTTTTTATATTATGTT
1 ATTATAGAAAAGTTTTTATATTATGTT
119852363 ATTATA
1 ATTATA
119852369 CGTATAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
ATTATAGAAAAGTTTTTATATTATGTT
Found at i:119855758 original size:21 final size:21
Alignment explanation
Indices: 119855734--119855778 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
119855724 CTTTCACATA
119855734 TTTTTATGAATAAAATTTAAG
1 TTTTTATGAATAAAATTTAAG
119855755 TTTTTATGAATAAAATTTAAG
1 TTTTTATGAATAAAATTTAAG
119855776 TTT
1 TTT
119855779 GAATAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTTTATGAATAAAATTTAAG
Found at i:119857538 original size:140 final size:140
Alignment explanation
Indices: 119857286--119857557 Score: 535
Period size: 140 Copynumber: 1.9 Consensus size: 140
119857276 ATAAAGGATT
119857286 CCTTTCCAGTAACACATGTCAATGTTATTTAATTAAAATTTTAAAATAAATTTACGTTTGTTGTA
1 CCTTTCCAGTAACACATGTCAATGTTATTTAATTAAAATTTTAAAATAAATTTACGTTTGTTGTA
119857351 ATATTTTTTAGTATTAAATGTATCATATTTCTATATTTATATTTGACTGTGCCAAAAATAACTAT
66 ATATTTTTTAGTATTAAATGTATCATATTTCTATATTTATATTTGACTGTGCCAAAAATAACTAT
119857416 TGTACAATTG
131 TGTACAATTG
*
119857426 CCTTTCCAGTAACACATGTCCATGTTATTTAATTAAAATTTTAAAATAAATTTACGTTTGTTGTA
1 CCTTTCCAGTAACACATGTCAATGTTATTTAATTAAAATTTTAAAATAAATTTACGTTTGTTGTA
119857491 ATATTTTTTAGTATTAAATGTATCATATTTCTATATTTATATTTGACTGTGCCAAAAATAACTAT
66 ATATTTTTTAGTATTAAATGTATCATATTTCTATATTTATATTTGACTGTGCCAAAAATAACTAT
119857556 TG
131 TG
119857558 GATATGAATA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 131 1.00
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (140 bp):
CCTTTCCAGTAACACATGTCAATGTTATTTAATTAAAATTTTAAAATAAATTTACGTTTGTTGTA
ATATTTTTTAGTATTAAATGTATCATATTTCTATATTTATATTTGACTGTGCCAAAAATAACTAT
TGTACAATTG
Found at i:119859733 original size:2 final size:2
Alignment explanation
Indices: 119859726--119859755 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
119859716 CATTGTTTGC
*
119859726 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119859756 TAATAATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119859989 original size:13 final size:12
Alignment explanation
Indices: 119859965--119859994 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
119859955 AAATCTTACA
119859965 TTTTATTATTAT
1 TTTTATTATTAT
119859977 TTTTATATATTAT
1 TTTTAT-TATTAT
119859990 TTTTA
1 TTTTA
119859995 AATGTTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:119861309 original size:28 final size:28
Alignment explanation
Indices: 119861257--119861311 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
119861247 TATTAATAAT
*
119861257 TTTTAAAGAATTAAAATAATTTTTATTA
1 TTTTAAAGAATTAAAATAAATTTTATTA
*
119861285 TTTTAAGGAA-TAAAATATAATTTTATT
1 TTTTAAAGAATTAAAATA-AATTTTATT
119861312 TTTACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (28 bp):
TTTTAAAGAATTAAAATAAATTTTATTA
Found at i:119870276 original size:6 final size:6
Alignment explanation
Indices: 119870257--119870308 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
119870247 TCAACCTCTC
* * * * * *
119870257 TATCTT TATTTT TATCTT TATCTT TGTTTT TTTCTT TGTCTT TGTCTT
1 TATCTT TATCTT TATCTT TATCTT TATCTT TATCTT TATCTT TATCTT
119870305 TATC
1 TATC
119870309 CTTTTGGATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (6 bp):
TATCTT
Found at i:119870300 original size:18 final size:18
Alignment explanation
Indices: 119870257--119870308 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
119870247 TCAACCTCTC
*
119870257 TATCTTTATTTTTATCTT
1 TATCTTTGTTTTTATCTT
*
119870275 TATCTTTGTTTTTTTCTT
1 TATCTTTGTTTTTATCTT
* *
119870293 TGTCTTTGTCTTTATC
1 TATCTTTGTTTTTATC
119870309 CTTTTGGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (18 bp):
TATCTTTGTTTTTATCTT
Found at i:119873317 original size:27 final size:27
Alignment explanation
Indices: 119873271--119873323 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
119873261 TTATTAATAT
119873271 TTTTTTATGATTTTAATAAATTTTAAA
1 TTTTTTATGATTTTAATAAATTTTAAA
*
119873298 TTTTTTAT-ATTCTTATTAAATTTTAA
1 TTTTTTATGATT-TTAATAAATTTTAA
119873324 TAATTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTTTATGATTTTAATAAATTTTAAA
Found at i:119873335 original size:18 final size:17
Alignment explanation
Indices: 119873280--119873378 Score: 65
Period size: 18 Copynumber: 5.6 Consensus size: 17
119873270 TTTTTTTATG
*
119873280 ATTTTAATAAATTTTAA
1 ATTTTAATAATTTTTAA
* *
119873297 ATTTTTTATATTCTTATTAA
1 A-TTTTAATAAT-TT-TTAA
119873317 ATTTTAATAATTTTCTAA
1 ATTTTAATAATTTT-TAA
* * *
119873335 AATTT-ATTATTTTTCA
1 ATTTTAATAATTTTTAA
* *
119873351 TTTTTTATAATTTTTTAA
1 ATTTTAATAA-TTTTTAA
*
119873369 TTTTTAATAA
1 ATTTTAATAA
119873379 GAGCATGGGC
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
16 5 0.08
17 12 0.19
18 31 0.49
19 10 0.16
20 5 0.08
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTAATAATTTTTAA
Found at i:119873362 original size:24 final size:25
Alignment explanation
Indices: 119873326--119873373 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
119873316 AATTTTAATA
119873326 ATTTTCTAAAATTTATT-ATTTTTC
1 ATTTTCTAAAATTTATTAATTTTTC
* * *
119873350 ATTTTTTATAATTTTTTAATTTTT
1 ATTTTCTAAAATTTATTAATTTTT
119873374 AATAAGAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTTTCTAAAATTTATTAATTTTTC
Found at i:119873372 original size:17 final size:17
Alignment explanation
Indices: 119873280--119873374 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
119873270 TTTTTTTATG
* * *
119873280 ATTTTAATAAATTTTAA
1 ATTTTTATAATTTTTTA
119873297 ATTTTT-TATATTCTTATTAA
1 ATTTTTATA-ATT-TT-TT-A
* *
119873317 ATTTTAATAATTTTCTA
1 ATTTTTATAATTTTTTA
** * *
119873334 AAATTTATTATTTTTCA
1 ATTTTTATAATTTTTTA
*
119873351 TTTTTTATAATTTTTTA
1 ATTTTTATAATTTTTTA
119873368 ATTTTTA
1 ATTTTTA
119873375 ATAAGAGCAT
Statistics
Matches: 56, Mismatches: 17, Indels: 10
0.67 0.20 0.12
Matches are distributed among these distances:
16 2 0.04
17 37 0.66
18 3 0.05
19 3 0.05
20 9 0.16
21 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTTATAATTTTTTA
Found at i:119881822 original size:16 final size:16
Alignment explanation
Indices: 119881801--119881832 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
119881791 TTAAGAGGTG
*
119881801 ATTAATTAACTAATCA
1 ATTAATTAAATAATCA
119881817 ATTAATTAAATAATCA
1 ATTAATTAAATAATCA
119881833 TGACTAAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAATTAAATAATCA
Found at i:119889275 original size:47 final size:48
Alignment explanation
Indices: 119889172--119889355 Score: 158
Period size: 47 Copynumber: 3.8 Consensus size: 48
119889162 ACACGCCGAA
* ** * * * * *
119889172 GCCATAGCCCAGCCATGGTCTTACA-TGAATCACAAATCA-CATTGAT
1 GCCATATCCCAGATATGGTCTTACACAGAAGCACATATAATCATCGAT
119889218 GCCATATCCCAGATATGGTCTTACACAGAAGCACATAT-ATCATCGAT
1 GCCATATCCCAGATATGGTCTTACACAGAAGCACATATAATCATCGAT
* * *
119889265 GCCATATCCCAGATATTGTCTTATACAGAAGCACATAATCAAATCTCACCGAT
1 GCCATATCCCAGATATGGTCTTACACAGAAGCACAT-AT--AA--TCATCGAT
* * * * *
119889318 GCCATAACCCAGCTACGGTCTTATACGGAAGCACATAT
1 GCCATATCCCAGATATGGTCTTACACAGAAGCACATAT
119889356 CTCATCACAC
Statistics
Matches: 115, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
46 23 0.20
47 49 0.43
48 2 0.02
51 1 0.01
52 2 0.02
53 38 0.33
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACAGAAGCACATATAATCATCGAT
Found at i:119889341 original size:53 final size:50
Alignment explanation
Indices: 119889215--119889375 Score: 184
Period size: 53 Copynumber: 3.2 Consensus size: 50
119889205 AAATCACATT
* *
119889215 GATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAT-A--TCATC
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCATCTCACC
*
119889262 GATGCCATATCCCAGATATTGTCTTATACAGAAGCACATAATCAAATCTCACC
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACAT-ATC--ATCTCACC
* * * * *
119889315 GATGCCATAACCCAGCTACGGTCTTATACGGAAGCACATATCTCATCACACC
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATA--TCATCTCACC
119889367 GATGCCATA
1 GATGCCATA
119889376 GTCTAGCTAT
Statistics
Matches: 97, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
47 37 0.38
48 2 0.02
51 1 0.01
52 17 0.18
53 38 0.39
54 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (50 bp):
GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCATCTCACC
Found at i:119889391 original size:52 final size:53
Alignment explanation
Indices: 119889261--119889405 Score: 157
Period size: 52 Copynumber: 2.8 Consensus size: 53
119889251 CATATATCAT
* * ** * *
119889261 CGATGCCATATCCCAGATATTGTCTTATACAGAAGCACATAATCAAATCTCAC
1 CGATGCCATAACCCAGCTACAGTCTTATACGGAAGCACATAATCAAATCACAC
* **
119889314 CGATGCCATAACCCAGCTACGGTCTTATACGGAAGCACAT-ATCTCATCACAC
1 CGATGCCATAACCCAGCTACAGTCTTATACGGAAGCACATAATCAAATCACAC
** * * *
119889366 CGATGCCATAGTCTAGCTATAGTCTTATACGGGAGCACAT
1 CGATGCCATAACCCAGCTACAGTCTTATACGGAAGCACAT
119889406 GTCACATGTT
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
52 43 0.55
53 35 0.45
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (53 bp):
CGATGCCATAACCCAGCTACAGTCTTATACGGAAGCACATAATCAAATCACAC
Found at i:119892610 original size:17 final size:16
Alignment explanation
Indices: 119892588--119892630 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
119892578 GTGTACTTTG
*
119892588 TATGTATATATTATTAT
1 TATGTATATATT-TTAA
119892605 TATGTATAT-TTTTAA
1 TATGTATATATTTTAA
*
119892620 TACGTATATAT
1 TATGTATATAT
119892631 ATATATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (16 bp):
TATGTATATATTTTAA
Found at i:119895096 original size:22 final size:21
Alignment explanation
Indices: 119895067--119895112 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
119895057 GAGATTAATG
* *
119895067 TTAAAATATATATATATTCTT
1 TTAAAATAAAAATATATTCTT
*
119895088 TTAATAATAAAAATATATTTTT
1 TTAA-AATAAAAATATATTCTT
119895110 TTA
1 TTA
119895113 TATTTTTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAAATAAAAATATATTCTT
Found at i:119895287 original size:17 final size:17
Alignment explanation
Indices: 119895256--119895294 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
119895246 TTGGTAAGTT
119895256 TTAAA-AAATCAAAT-A
1 TTAAATAAATCAAATAA
119895271 TTAAATAAATACAAATAA
1 TTAAATAAAT-CAAATAA
119895289 TTAAAT
1 TTAAAT
119895295 TCAAGTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 5 0.24
18 7 0.33
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAATAAATCAAATAA
Found at i:119905866 original size:22 final size:22
Alignment explanation
Indices: 119905819--119905885 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
119905809 ATTTTGTTAG
*
119905819 AAATATGTCAAAA-ATATTAAC-
1 AAATAT-TAAAAATATATTAACT
* *
119905840 -AATATTAAAAATATTTTAATT
1 AAATATTAAAAATATATTAACT
**
119905861 AAATATTTTAAATATATTAACT
1 AAATATTAAAAATATATTAACT
119905883 AAA
1 AAA
119905886 AATATTTTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.14
20 11 0.31
22 20 0.56
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (22 bp):
AAATATTAAAAATATATTAACT
Found at i:119913327 original size:11 final size:11
Alignment explanation
Indices: 119913306--119913341 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
119913296 GTATAATAAT
119913306 ATAATAA-AAA
1 ATAATAACAAA
119913316 ATAATAACAAA
1 ATAATAACAAA
*
119913327 ACAATAACAAA
1 ATAATAACAAA
119913338 ATAA
1 ATAA
119913342 CAATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (11 bp):
ATAATAACAAA
Found at i:119913341 original size:22 final size:21
Alignment explanation
Indices: 119913308--119913352 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
119913298 ATAATAATAT
*
119913308 AATAAAAAATAATAACAAAAC
1 AATAAAAAATAACAACAAAAC
*
119913329 AATAACAAAATAACAATAAAAC
1 AATAA-AAAATAACAACAAAAC
119913351 AA
1 AA
119913353 CTTATTCAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (21 bp):
AATAAAAAATAACAACAAAAC
Found at i:119929872 original size:28 final size:29
Alignment explanation
Indices: 119929814--119929875 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
119929804 AAAAATGTAA
*
119929814 TTTTTAAAAGATCAAATTAAAATTTAATAT
1 TTTTTAAAAGATCAAAATAAAATTT-ATAT
* * *
119929844 TTTTTAAGAGGTCAAAATATAATTT-TAT
1 TTTTTAAAAGATCAAAATAAAATTTATAT
119929872 TTTT
1 TTTT
119929876 ATTAATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 7 0.25
30 21 0.75
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (29 bp):
TTTTTAAAAGATCAAAATAAAATTTATAT
Found at i:119930953 original size:24 final size:24
Alignment explanation
Indices: 119930905--119930947 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
119930895 AAAATTAAAT
119930905 ATTTTTAATAAAATTAATTTTTGA
1 ATTTTTAATAAAATTAATTTTTGA
119930929 ATTTTT-A-AAAATT-ATTTTT
1 ATTTTTAATAAAATTAATTTTT
119930948 AATGAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 1 0.05
24 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTTTTAATAAAATTAATTTTTGA
Found at i:119931292 original size:19 final size:20
Alignment explanation
Indices: 119931268--119931305 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
119931258 TGACACTTTT
*
119931268 TTTATTTTTTA-TATTTATA
1 TTTATTTTTAATTATTTATA
119931287 TTTATTTTTAATTATTTAT
1 TTTATTTTTAATTATTTAT
119931306 TAAATTCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTTTTAATTATTTATA
Found at i:119941350 original size:13 final size:13
Alignment explanation
Indices: 119941332--119941357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119941322 TTGAGTATGA
119941332 AAATATTAAATTT
1 AAATATTAAATTT
119941345 AAATATTAAATTT
1 AAATATTAAATTT
119941358 GTTATTAATA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTAAATTT
Found at i:119942565 original size:20 final size:19
Alignment explanation
Indices: 119942540--119942614 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 19
119942530 ACAACCGCTC
119942540 TTTTTTACATTAAAATATTA
1 TTTTTTA-ATTAAAATATTA
***
119942560 TTTTTTATATTTTTATATTTA
1 TTTTTTA-ATTAAAATA-TTA
119942581 TTTATTTTAATTAAAATATTA
1 -TT-TTTTAATTAAAATATTA
119942602 TTTTTATAATTAA
1 TTTTT-TAATTAA
119942615 TATCGCCTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
19 3 0.07
20 22 0.50
21 6 0.14
22 8 0.18
23 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTTAATTAAAATATTA
Found at i:119943325 original size:2 final size:2
Alignment explanation
Indices: 119943315--119943349 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
119943305 TTTTTTATGA
119943315 AT AT CAT 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
119943350 GATCAAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:119944517 original size:31 final size:31
Alignment explanation
Indices: 119944419--119944503 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
119944409 GGTACTTAAG
* * *
119944419 CTTTTTTGT-CTAATTTAGTACTTGAACTTCA
1 CTTTTTT-TCCTAATTTGGTACCTGAACTTGA
**
119944450 CACTTTTTCCTAATTTGGTACCTGAACTTGA
1 CTTTTTTTCCTAATTTGGTACCTGAACTTGA
119944481 CTTTTTTTCCTAATTTGGTACCT
1 CTTTTTTTCCTAATTTGGTACCT
119944504 AAGCATTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
30 1 0.02
31 45 0.98
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (31 bp):
CTTTTTTTCCTAATTTGGTACCTGAACTTGA
Found at i:119949438 original size:46 final size:46
Alignment explanation
Indices: 119949371--119949599 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
119949361 GAGTGTGCTC
119949371 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
119949417 CCTGATATAAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *
119949463 GCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * ***
119949509 CGTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * * *
119949555 CATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
119949600 TCATGTCAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 165 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:119952228 original size:35 final size:35
Alignment explanation
Indices: 119952176--119952282 Score: 178
Period size: 35 Copynumber: 3.1 Consensus size: 35
119952166 AGTTCTAAGT
119952176 AAATGAGGCATTGGCTATATAGGCAAATGAAAAAC
1 AAATGAGGCATTGGCTATATAGGCAAATGAAAAAC
* * *
119952211 AAATGAGGCGTTAGCTATATATGCAAATGAAAAAC
1 AAATGAGGCATTGGCTATATAGGCAAATGAAAAAC
*
119952246 AAATGAGGCATTGGCTATATAGGCAAATGAAAGAC
1 AAATGAGGCATTGGCTATATAGGCAAATGAAAAAC
119952281 AA
1 AA
119952283 TTATCAAGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (35 bp):
AAATGAGGCATTGGCTATATAGGCAAATGAAAAAC
Found at i:119956095 original size:37 final size:37
Alignment explanation
Indices: 119956054--119956130 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
119956044 CAGGTATGTG
*
119956054 ATATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATATTAATTATGTGAGATTGATCTGACGAGA
119956091 ATATATATATTAATTATGTGAGATTGATCTGACGAGA
1 ATATATATATTAATTATGTGAGATTGATCTGACGAGA
119956128 ATA
1 ATA
119956131 AAGAATGTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (37 bp):
ATATATATATTAATTATGTGAGATTGATCTGACGAGA
Found at i:119957575 original size:43 final size:43
Alignment explanation
Indices: 119957527--119957765 Score: 401
Period size: 43 Copynumber: 5.6 Consensus size: 43
119957517 CATGAAACTC
119957527 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
119957570 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
*
119957613 ATGATGTGTATT-GGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* *
119957655 ATGATGTGTATT-TGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* *
119957697 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* *
119957740 GTGATGTGTATTCAGGCTTTCGTGCC
1 GTGATGTGTATTCGGGCCTTCGTGCC
119957766 GGTGATGTGT
Statistics
Matches: 186, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
42 81 0.44
43 105 0.56
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
Found at i:119957635 original size:85 final size:86
Alignment explanation
Indices: 119957528--119957765 Score: 399
Period size: 85 Copynumber: 2.8 Consensus size: 86
119957518 ATGAAACTCG
*
119957528 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGT
1 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGT
119957593 GCCTAGCAGGCTTCGTGCCGA
66 GCCTAGCAGGCTTCGTGCCGA
* *
119957614 TGATGTGTATT-GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTGTATT-TGGCCTTCGT
1 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGT
*
119957677 GCCTAGCAGGCTTCGTGCCGG
66 GCCTAGCAGGCTTCGTGCCGA
* * *
119957698 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTGTATTCAGGCTTTCGT
1 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGT
119957763 GCC
66 GCC
119957766 GGTGATGTGT
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
84 39 0.27
85 81 0.57
86 22 0.15
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (86 bp):
TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGT
GCCTAGCAGGCTTCGTGCCGA
Found at i:119957755 original size:26 final size:27
Alignment explanation
Indices: 119957726--119957778 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
119957716 TCGTGCCTAG
*
119957726 CAGGC-TTCGTGTCGGTGATGTGTATT
1 CAGGCTTTCGTGCCGGTGATGTGTATT
119957752 CAGGCTTTCGTGCCGGTGATGTGTATT
1 CAGGCTTTCGTGCCGGTGATGTGTATT
119957779 TGGGTCTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.11, C:0.17, G:0.34, T:0.38
Consensus pattern (27 bp):
CAGGCTTTCGTGCCGGTGATGTGTATT
Found at i:119957768 original size:27 final size:26
Alignment explanation
Indices: 119957726--119957792 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
119957716 TCGTGCCTAG
*
119957726 CAGGCTTCGTGTCGGTGATGTGTATT
1 CAGGCTTCGTGCCGGTGATGTGTATT
119957752 CAGGCTTTCGTGCCGGTGATGTGTATT
1 CAGGC-TTCGTGCCGGTGATGTGTATT
**
119957779 TGGGTCTTCGTGCC
1 CAGG-CTTCGTGCC
119957793 TAGCAGGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.14
27 30 0.83
28 1 0.03
ACGTcount: A:0.09, C:0.19, G:0.34, T:0.37
Consensus pattern (26 bp):
CAGGCTTCGTGCCGGTGATGTGTATT
Found at i:119957812 original size:70 final size:69
Alignment explanation
Indices: 119957683--119957814 Score: 201
Period size: 70 Copynumber: 1.9 Consensus size: 69
119957673 TCGTGCCTAG
** *
119957683 CAGGCTTCGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 CAGGCTTCGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
119957748 TATT
66 TATT
* * *
119957752 CAGGCTTTCGTGCCGGTGATGTGTATTTGGGTCTTCGTGCCTAGCAGGCTTAATGCCGGTGAT
1 CAGGC-TTCGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGAT
119957815 TCGAGTAAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
69 5 0.09
70 51 0.91
ACGTcount: A:0.12, C:0.21, G:0.33, T:0.33
Consensus pattern (69 bp):
CAGGCTTCGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
TATT
Found at i:119958071 original size:29 final size:28
Alignment explanation
Indices: 119957971--119958129 Score: 124
Period size: 29 Copynumber: 5.5 Consensus size: 28
119957961 ATGATTAGAG
* *
119957971 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATT-CTTTAACCGA
** **
119958000 GCACTATGTGTGCGAGA-TCAGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
119958028 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATT-CTTTAACCGA
** **
119958058 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* * *
119958086 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCGAATTCTTTAACCGA
119958115 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
119958130 GATCGGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
28 27 0.27
29 64 0.65
30 8 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:119958146 original size:28 final size:28
Alignment explanation
Indices: 119958000--119958154 Score: 89
Period size: 29 Copynumber: 5.4 Consensus size: 28
119957990 CTTTAACCGA
* * *
119958000 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* ** * * *
119958029 GCACTGTGTGTGCGA-ATTCCTTTAACCGA
1 GCACTATGTGTGCGAGA-T-CGGTCACTGG
* *
119958058 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * * *
119958087 GCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
119958115 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
*
119958143 GCACTAAGTGTG
1 GCACTATGTGTG
119958155 TGAAATGAGA
Statistics
Matches: 94, Mismatches: 26, Indels: 13
0.71 0.20 0.10
Matches are distributed among these distances:
28 37 0.39
29 51 0.54
30 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:119958156 original size:58 final size:58
Alignment explanation
Indices: 119957968--119958136 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
119957958 CGAATGATTA
* *
119957968 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
119958026 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
119958084 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
119958137 CAGTGGGCAC
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
57 31 0.29
58 76 0.71
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:119962117 original size:35 final size:35
Alignment explanation
Indices: 119962078--119962150 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
119962068 GGTATGTGAT
119962078 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
119962113 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
119962148 ATA
1 ATA
119962151 AAGAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:119964565 original size:21 final size:21
Alignment explanation
Indices: 119964540--119964608 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
119964530 TATAATGATT
119964540 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
119964561 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
119964581 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
119964601 ATTATTAT
1 ATTATTAT
119964609 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:119964621 original size:15 final size:14
Alignment explanation
Indices: 119964595--119964625 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
119964585 TATGGTTTTA
119964595 TATTAGATTATTAT
1 TATTAGATTATTAT
119964609 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
119964624 TA
1 TA
119964626 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:119970605 original size:21 final size:21
Alignment explanation
Indices: 119970580--119970648 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
119970570 TATAATGATT
119970580 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
119970601 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
119970621 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
119970641 ATTATTAT
1 ATTATTAT
119970649 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:119970661 original size:15 final size:14
Alignment explanation
Indices: 119970635--119970665 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
119970625 TATGGTTTTA
119970635 TATTAGATTATTAT
1 TATTAGATTATTAT
119970649 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
119970664 TA
1 TA
119970666 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:119974001 original size:14 final size:16
Alignment explanation
Indices: 119973958--119974003 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
119973948 AAATATGAAA
119973958 ATTATATGTAAATTTTG
1 ATTATATG-AAATTTTG
* *
119973975 ATTTTATGTAATTTT-
1 ATTATATGAAATTTTG
119973990 A-TATATGAAATTTT
1 ATTATATGAAATTTT
119974004 CGTTTAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 11 0.44
15 1 0.04
16 6 0.24
17 7 0.28
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (16 bp):
ATTATATGAAATTTTG
Found at i:119975456 original size:27 final size:27
Alignment explanation
Indices: 119975418--119975469 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
119975408 TTATTCTTTT
*
119975418 AATAAATCATAATATT-GATTAATTTAA
1 AATAAATCATAA-ATTAAATTAATTTAA
119975445 AATAACAT-ATAAATTAAATTAATTT
1 AATAA-ATCATAAATTAAATTAATTT
119975470 TTTATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 3 0.14
27 17 0.77
28 2 0.09
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (27 bp):
AATAAATCATAAATTAAATTAATTTAA
Found at i:119975538 original size:3 final size:3
Alignment explanation
Indices: 119975530--119975559 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
119975520 CCAATGGCTT
119975530 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
119975560 CAATAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:119981511 original size:121 final size:121
Alignment explanation
Indices: 119981381--119981622 Score: 430
Period size: 121 Copynumber: 2.0 Consensus size: 121
119981371 ATCAAACTAT
* *
119981381 AAAATTTTTAATTTTATTATTAAAATTTTCGATTGTTTTTGTTTTAATCACTTTCTATTAAATGA
1 AAAATTTTTAATTTCATTATTAAAATTTTCGATTGTTTTTGTTTTAATCACTTTCCATTAAATGA
* *
119981446 GTAATAGAAATGCTGAGGTGGCTTTTTTTGTTCTAACAGGTATAATAACATATTTA
66 ATAATAGAAATGATGAGGTGGCTTTTTTTGTTCTAACAGGTATAATAACATATTTA
*
119981502 AAAATTTTTAATTTCATTATTAACATTTTCGATTGTTTTTGTTTTAATCACTTTCCATTAAATGA
1 AAAATTTTTAATTTCATTATTAAAATTTTCGATTGTTTTTGTTTTAATCACTTTCCATTAAATGA
*
119981567 ATAATAGAAATGATGAGGTGGCTTTTTTTGTTCTAACAGGTATAATAATATATTTA
66 ATAATAGAAATGATGAGGTGGCTTTTTTTGTTCTAACAGGTATAATAACATATTTA
119981623 GTCCTCAATA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 115 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (121 bp):
AAAATTTTTAATTTCATTATTAAAATTTTCGATTGTTTTTGTTTTAATCACTTTCCATTAAATGA
ATAATAGAAATGATGAGGTGGCTTTTTTTGTTCTAACAGGTATAATAACATATTTA
Found at i:119983266 original size:31 final size:31
Alignment explanation
Indices: 119983217--119983277 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
119983207 GGAATGTGTT
*
119983217 TAATTATTTTTATATATAT-TTAATAAACAA
1 TAATTATTTTTATATATATATAAATAAACAA
*
119983247 TAATTATTTTTTATTTATATATAAATAAACA
1 TAATTA-TTTTTATATATATATAAATAAACA
119983278 CGCATCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 6 0.22
31 12 0.44
32 9 0.33
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
TAATTATTTTTATATATATATAAATAAACAA
Found at i:119990281 original size:2 final size:2
Alignment explanation
Indices: 119990274--119990307 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
119990264 GTAGCTAAAT
119990274 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119990308 CATAAACAGA
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):
TA
Found at i:119991218 original size:13 final size:13
Alignment explanation
Indices: 119991193--119991230 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
119991183 AGATTGAGTT
*
119991193 TTTTTTCTTTTTC
1 TTTTTTATTTTTC
119991206 TTTATTT-TTTTTC
1 TTT-TTTATTTTTC
119991219 TTTTTTATTTTT
1 TTTTTTATTTTT
119991231 TATTTTAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTC
Found at i:119991225 original size:16 final size:18
Alignment explanation
Indices: 119991191--119991231 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 18
119991181 AGAGATTGAG
119991191 TTTTTTTTCTTTTTCTTTA
1 TTTTTTTTC-TTTTCTTTA
119991210 TTTTTTTTC-TTT-TTTA
1 TTTTTTTTCTTTTCTTTA
119991226 TTTTTT
1 TTTTTT
119991232 ATTTTAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.45
17 3 0.14
19 9 0.41
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTTTCTTTTCTTTA
Found at i:120000110 original size:7 final size:7
Alignment explanation
Indices: 120000098--120000122 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
120000088 GATTGGATAG
120000098 TTTTGTT
1 TTTTGTT
120000105 TTTTGTT
1 TTTTGTT
120000112 TTTTGTT
1 TTTTGTT
120000119 TTTT
1 TTTT
120000123 TTTAATCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:120002122 original size:1 final size:1
Alignment explanation
Indices: 120002116--120002140 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
120002106 GCTATCTCAG
120002116 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
120002141 GGCATAGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:120010478 original size:15 final size:16
Alignment explanation
Indices: 120010458--120010490 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
120010448 TATATATTTT
120010458 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
120010473 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
120010490 T
1 T
120010491 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:120010576 original size:22 final size:22
Alignment explanation
Indices: 120010537--120010595 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
120010527 GTTTTAAGAA
*
120010537 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
120010558 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
120010580 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
120010596 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:120010610 original size:25 final size:24
Alignment explanation
Indices: 120010566--120010613 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
120010556 ATTTGTTTTA
*
120010566 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATGATTTTAAAT
120010590 ATATTTGATTTATTAT-ATTTTAAA
1 ATATTT-ATTT-TTATGATTTTAAA
120010614 CTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 11 0.52
26 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
ATATTTATTTTTATGATTTTAAAT
Found at i:120010660 original size:5 final size:5
Alignment explanation
Indices: 120010650--120010679 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
120010640 ATTTTAATAT
120010650 GGGCC GGGCC GGGCC GGGCC GGGCTC GGGC
1 GGGCC GGGCC GGGCC GGGCC GGGC-C GGGC
120010680 TTAGTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.37, G:0.60, T:0.03
Consensus pattern (5 bp):
GGGCC
Found at i:120011678 original size:14 final size:14
Alignment explanation
Indices: 120011659--120011689 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
120011649 TTGAATTTAA
120011659 AAATTCAATTAATT
1 AAATTCAATTAATT
*
120011673 AAATTCATTTAATT
1 AAATTCAATTAATT
120011687 AAA
1 AAA
120011690 ACATCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTCAATTAATT
Found at i:120011832 original size:15 final size:15
Alignment explanation
Indices: 120011787--120011836 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
120011777 AAAAACGATT
*
120011787 ATATAAATAACTAAA
1 ATATAAATAATTAAA
* * *
120011802 ACATAAAT-TTTTAA
1 ATATAAATAATTAAA
120011816 ATATAAATAATTAAA
1 ATATAAATAATTAAA
120011831 ATATAA
1 ATATAA
120011837 TTTAAGTCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAAATAATTAAA
Found at i:120013590 original size:2 final size:2
Alignment explanation
Indices: 120013585--120013622 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
120013575 ATAAAAAACA
* *
120013585 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120013623 TTATCTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120018964 original size:33 final size:34
Alignment explanation
Indices: 120018927--120018995 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
120018917 AAACATTTGT
120018927 AATTTAAG-CACTCACAT-AAAAATTACAAACAAC
1 AATTT-AGTCACTCACATAAAAAATTACAAACAAC
*
120018960 AATTTGGTCACTCACATAAAAAATTACAAACAAC
1 AATTTAGTCACTCACATAAAAAATTACAAACAAC
120018994 AA
1 AA
120018996 GCTAATGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 1 0.03
33 14 0.42
34 18 0.55
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (34 bp):
AATTTAGTCACTCACATAAAAAATTACAAACAAC
Found at i:120019693 original size:23 final size:22
Alignment explanation
Indices: 120019655--120019709 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
120019645 GATAATGGCC
*
120019655 AAGGAGGGGAGAGGTC-TGGTG
1 AAGGAGGGGAGAGGTCGAGGTG
120019676 AAGGAGAGGGAGATGGTCGAGGTG
1 AAGGAG-GGGAGA-GGTCGAGGTG
120019700 -AGGAGGGGAG
1 AAGGAGGGGAG
120019710 GGGAGGGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.20
22 11 0.37
23 9 0.30
24 4 0.13
ACGTcount: A:0.27, C:0.04, G:0.58, T:0.11
Consensus pattern (22 bp):
AAGGAGGGGAGAGGTCGAGGTG
Found at i:120026169 original size:18 final size:19
Alignment explanation
Indices: 120026132--120026170 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
120026122 ATATATTAAA
120026132 TTAAAATTTATATACAATT
1 TTAAAATTTATATACAATT
* *
120026151 TTAAGATTTATCT-CAATT
1 TTAAAATTTATATACAATT
120026169 TT
1 TT
120026171 TTTAACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (19 bp):
TTAAAATTTATATACAATT
Found at i:120031733 original size:14 final size:14
Alignment explanation
Indices: 120031714--120031740 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
120031704 ACCATCTATG
120031714 AAAATAAAAATAAT
1 AAAATAAAAATAAT
120031728 AAAATAAAAATAA
1 AAAATAAAAATAA
120031741 AATAAAGAAC
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAAATAAT
Found at i:120034775 original size:35 final size:35
Alignment explanation
Indices: 120034748--120034913 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
120034738 CATGGCAAAG
*
120034748 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
120034783 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
120034818 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
120034858 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
120034893 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
120034914 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:120034867 original size:75 final size:75
Alignment explanation
Indices: 120034748--120034918 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
120034738 CATGGCAAAG
** *
120034748 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
120034807 CCATACTGAGC
65 CCATACCGAGC
120034818 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
120034883 CATACCGAGT
66 CATACCGAGC
**
120034893 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
120034919 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:120042263 original size:35 final size:35
Alignment explanation
Indices: 120042236--120042401 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
120042226 CATGGCAAAG
*
120042236 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
120042271 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
120042306 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
120042346 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
120042381 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
120042402 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:120042355 original size:75 final size:75
Alignment explanation
Indices: 120042236--120042406 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
120042226 CATGGCAAAG
** *
120042236 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
120042295 CCATACTGAGC
65 CCATACCGAGC
120042306 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
120042371 CATACCGAGT
66 CATACCGAGC
**
120042381 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
120042407 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Done.