Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 407 of 433
Found at i:125780308 original size:3 final size:3
Alignment explanation
Indices: 125780300--125780369 Score: 97
Period size: 3 Copynumber: 22.7 Consensus size: 3
125780290 GTATTTTTGC
125780300 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
125780346 TAT TA- TAT CTAT ATAA TAT TAT TA
1 TAT TAT TAT -TAT -TAT TAT TAT TA
125780370 ATAGGTACTT
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.84
4 8 0.13
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:125780760 original size:17 final size:17
Alignment explanation
Indices: 125780738--125780770 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
125780728 TTATTATACG
125780738 TATATA-TATATATTTTT
1 TATATAGTAT-TATTTTT
125780755 TATATAGTATTATTTT
1 TATATAGTATTATTTT
125780771 CATATTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TATATAGTATTATTTTT
Found at i:125780846 original size:3 final size:3
Alignment explanation
Indices: 125780838--125780867 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
125780828 TACATACATT
125780838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
125780868 GTATATAAAT
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:125782909 original size:27 final size:27
Alignment explanation
Indices: 125782876--125782990 Score: 203
Period size: 27 Copynumber: 4.3 Consensus size: 27
125782866 TTTGGTCTAC
125782876 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
125782903 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
125782930 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
125782957 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
125782984 GAAATTA
1 AAAATTA
125782991 TTGAAATACC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:125783012 original size:54 final size:54
Alignment explanation
Indices: 125782876--125783055 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 54
125782866 TTTGGTCTAC
* * ** *
125782876 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTATCAAAATACCCCGAGCCTGTAAAATTACCAAAATACCCCTAATTTGT
* **
125782930 AAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTATCAAAATACCCCGAGCCTGTAAAATTACCAAAATACCCCTAATTTGT
* ** *** *
125782984 GAAATTATTGAAATACCCTCGA-CCTGTAAAATTATTGAAATA-CCCTCAACTTGT
1 AAAATTATCAAAATACCC-CGAGCCTGTAAAATTACCAAAATACCCCT-AATTTGT
* *
125783038 AAAATTACCAAAGTACCC
1 AAAATTATCAAAATACCC
125783056 TCGATTTATA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.04
54 101 0.94
55 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AAAATTATCAAAATACCCCGAGCCTGTAAAATTACCAAAATACCCCTAATTTGT
Found at i:125783012 original size:81 final size:81
Alignment explanation
Indices: 125782876--125783055 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
125782866 TTTGGTCTAC
* * **
125782876 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAA
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAA
**
125782941 AATACCC-CTAGTTTGT
66 AATACCCTC-AACTTGT
* *** **
125782957 AAAATTACCAAAATACCCCTAATTTGTGAAATTATTGAAATACCCTCGA-CCTGTAAAATTATTG
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCC-CGAGCCTGTAAAATTATCA
125783021 AAATACCCTCAACTTGT
65 AAATACCCTCAACTTGT
*
125783038 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
125783056 TCGATTTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 81 0.96
82 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAA
AATACCCTCAACTTGT
Found at i:125783015 original size:27 final size:27
Alignment explanation
Indices: 125782985--125783044 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
125782975 CTAATTTGTG
*
125782985 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTATTGAAATACCCTCAACCTGTA
*
125783012 AAATTATTGAAATACCCTCAACTTGTA
1 AAATTATTGAAATACCCTCAACCTGTA
125783039 AAATTA
1 AAATTA
125783045 CCAAAGTACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCAACCTGTA
Found at i:125783369 original size:27 final size:27
Alignment explanation
Indices: 125783051--125783368 Score: 406
Period size: 27 Copynumber: 11.8 Consensus size: 27
125783041 ATTACCAAAG
*
125783051 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** * *
125783078 TACCCTCGATTTGTAAAATTATCG-TT
1 TACCCTCGATTTACAGAATTACCGTTT
125783104 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
125783131 TACCCTC-AGTTTATAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
125783158 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
125783185 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
125783212 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
125783239 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
125783266 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
125783293 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
125783320 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
125783347 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
125783369 TAAAATACCC
Statistics
Matches: 257, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.09
27 233 0.91
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:125784718 original size:20 final size:20
Alignment explanation
Indices: 125784693--125784755 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
125784683 ATTTTGATAA
125784693 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
125784713 ACATGACATGTGTGATATGC
1 ACATGATATGTATGATATGC
*
125784733 ACGTGATATGTATGATATGC
1 ACATGATATGTATGATATGC
125784753 ACA
1 ACA
125784756 CGAGATGTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:125784865 original size:24 final size:24
Alignment explanation
Indices: 125784809--125784997 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
125784799 GAGGAAGTGA
125784809 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
125784832 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
125784856 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
125784880 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
125784903 AAAAGGGCTTACGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
125784926 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
125784950 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
125784974 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
125784998 ATGATAAAGC
Statistics
Matches: 149, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
23 65 0.44
24 73 0.49
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:125784878 original size:47 final size:47
Alignment explanation
Indices: 125784809--125784976 Score: 291
Period size: 47 Copynumber: 3.6 Consensus size: 47
125784799 GAGGAAGTGA
125784809 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
125784856 AAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* * *
125784903 AAAAGGGCTTACGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
125784950 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
125784977 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:125785226 original size:31 final size:31
Alignment explanation
Indices: 125785191--125785254 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
125785181 CGTTTACCGT
*
125785191 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
125785222 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
125785253 AA
1 AA
125785255 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:125787073 original size:2 final size:2
Alignment explanation
Indices: 125787066--125787097 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
125787056 GTCAAGCCAA
125787066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125787098 GTTATAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125789706 original size:23 final size:22
Alignment explanation
Indices: 125789680--125789727 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
125789670 TAGAAATAGC
*
125789680 AAAATTAAAATTAAAATATATAA
1 AAAATTAAAATTAAAAAAT-TAA
125789703 AAAATTAAAATTAAAAAATTAA
1 AAAATTAAAATTAAAAAATTAA
125789725 AAA
1 AAA
125789728 TATAAGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAATTAAAATTAAAAAATTAA
Found at i:125789720 original size:8 final size:8
Alignment explanation
Indices: 125789686--125789727 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
125789676 TAGCAAAATT
125789686 AAAATTAA
1 AAAATTAA
*
125789694 AATATATAA
1 AAAAT-TAA
125789703 AAAATT--
1 AAAATTAA
125789709 AAAATTAA
1 AAAATTAA
125789717 AAAATTAA
1 AAAATTAA
125789725 AAA
1 AAA
125789728 TATAAGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 6 0.21
8 16 0.55
9 7 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAATTAA
Found at i:125790179 original size:30 final size:30
Alignment explanation
Indices: 125790138--125790195 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
125790128 ATGTGAGATC
* * * *
125790138 CCACACGCCCGTGTGGCCAGGCCGTGTGCT
1 CCACACACCCGTATGGCCAAGCCATGTGCT
125790168 CCACACACCCGTATGGCCAAGCCATGTG
1 CCACACACCCGTATGGCCAAGCCATGTG
125790196 GGTCAAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.40, G:0.28, T:0.16
Consensus pattern (30 bp):
CCACACACCCGTATGGCCAAGCCATGTGCT
Found at i:125790297 original size:33 final size:33
Alignment explanation
Indices: 125790259--125790325 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
125790249 TTTTAAAAAA
125790259 TTCATGAAATAATGTTAAGAAAATTAACAGTGT
1 TTCATGAAATAATGTTAAGAAAATTAACAGTGT
125790292 TTCATGAAATAATGTTAAGAAAATTAACAGTGT
1 TTCATGAAATAATGTTAAGAAAATTAACAGTGT
125790325 T
1 T
125790326 AACACTTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (33 bp):
TTCATGAAATAATGTTAAGAAAATTAACAGTGT
Found at i:125790327 original size:18 final size:18
Alignment explanation
Indices: 125790271--125790327 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
125790261 CATGAAATAA
125790271 TGTTAAGAAAATTAACAG
1 TGTTAAGAAAATTAACAG
*
125790289 TGTTTCATG-AAA-T-A-A-
1 TG-TT-AAGAAAATTAACAG
125790304 TGTTAAGAAAATTAACAG
1 TGTTAAGAAAATTAACAG
125790322 TGTTAA
1 TGTTAA
125790328 CACTTGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 3 0.10
16 2 0.07
17 2 0.07
18 9 0.30
19 5 0.17
20 2 0.07
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (18 bp):
TGTTAAGAAAATTAACAG
Found at i:125794502 original size:3 final size:3
Alignment explanation
Indices: 125794494--125794536 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
125794484 GAAAAAGATG
125794494 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
125794537 GATTCAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:125796561 original size:23 final size:23
Alignment explanation
Indices: 125796535--125796590 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
125796525 ATCAATTTTC
125796535 TTTTATTTTCTTTT-ATAATTAAT
1 TTTTATTTTCTTTTAAT-ATTAAT
* * *
125796558 TTTTACTTTGTTTTAATTTTAAT
1 TTTTATTTTCTTTTAATATTAAT
125796581 TTTTAATTTT
1 TTTT-ATTTT
125796591 AAACTCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTATTTTCTTTTAATATTAAT
Found at i:125796586 original size:13 final size:13
Alignment explanation
Indices: 125796568--125796592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125796558 TTTTACTTTG
125796568 TTTTAATTTTAAT
1 TTTTAATTTTAAT
125796581 TTTTAATTTTAA
1 TTTTAATTTTAA
125796593 ACTCTTTTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:125798879 original size:14 final size:14
Alignment explanation
Indices: 125798838--125798879 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
125798828 AGTAATGAAA
125798838 TAAAAAAAGTATTA-
1 TAAAAAAA-TATTAT
*
125798852 TAAATAAA-ATTAT
1 TAAAAAAATATTAT
125798865 TAAAAAAATATTAT
1 TAAAAAAATATTAT
125798879 T
1 T
125798880 TGTAATAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.17
13 7 0.29
14 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TAAAAAAATATTAT
Found at i:125800308 original size:11 final size:11
Alignment explanation
Indices: 125800294--125800318 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
125800284 TTACAAAGAT
125800294 TCTCCAAAGTC
1 TCTCCAAAGTC
125800305 TCTCCAAAGTC
1 TCTCCAAAGTC
125800316 TCT
1 TCT
125800319 ATTTATAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (11 bp):
TCTCCAAAGTC
Found at i:125801648 original size:27 final size:27
Alignment explanation
Indices: 125801617--125801722 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
125801607 CTGCCAGAAT
* *
125801617 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
125801644 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
125801671 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
* *
125801698 AGATATTTGTGGCATAGCCACCAGA
1 AGATA-ATGTGGCAGAGCCACCAGA
125801723 ACGCTTCCTC
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
27 55 0.76
28 17 0.24
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:125801669 original size:54 final size:54
Alignment explanation
Indices: 125801610--125801724 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
125801600 AGCATGGCTG
* *
125801610 CCAGAATAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
125801664 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
125801718 CCAGAAC
1 CCAGAAC
125801725 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:125803378 original size:26 final size:26
Alignment explanation
Indices: 125803342--125803451 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
125803332 CATGAAATTC
*
125803342 TTATCATGAAACATTTAACTAACACA
1 TTATCATGAAACATTTACCTAACACA
*
125803368 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACACA
125803394 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACACA
125803420 TTATCATGAAACATTTACCTAAC-CTA
1 TTATCATGAAACATTTACCTAACAC-A
125803446 TTATCA
1 TTATCA
125803452 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 1 0.01
26 79 0.99
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACACA
Found at i:125803381 original size:13 final size:13
Alignment explanation
Indices: 125803342--125803434 Score: 54
Period size: 13 Copynumber: 7.2 Consensus size: 13
125803332 CATGAAATTC
125803342 TTATCATGAAACA
1 TTATCATGAAACA
*
125803355 TT-TAACT-AACACA
1 TTATCA-TGAA-ACA
125803368 TTATCATGAAACA
1 TTATCATGAAACA
* *
125803381 TT-TACCT-AACCCA
1 TTAT-CATGAA-ACA
125803394 TTATCATGAAACA
1 TTATCATGAAACA
*
125803407 TT-TACCT-AACACA
1 TTAT-CATGAA-ACA
125803420 TTATCATGAAACA
1 TTATCATGAAACA
125803433 TT
1 TT
125803435 TACCTAACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 24
0.65 0.09 0.26
Matches are distributed among these distances:
12 10 0.17
13 40 0.67
14 10 0.17
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.32
Consensus pattern (13 bp):
TTATCATGAAACA
Found at i:125806592 original size:62 final size:61
Alignment explanation
Indices: 125806515--125806651 Score: 193
Period size: 62 Copynumber: 2.2 Consensus size: 61
125806505 CGACCTGGGT
* * * *
125806515 ACATGCCCGTGTCCCTGGTCGTGTGGTTTTGTACCACAAACAGTAAGTTACACTGCCTAGAC
1 ACATGCCCGTGTCCCTGGCCATGTGGTCTTGTACCACAAACAGTAAGTTACACTGCC-AAAC
* * *
125806577 ACATGCCTGTGTCCCTGGCCATGTGGTCTTGTACCACAAACAGTGAGTTACACTTCCAAAC
1 ACATGCCCGTGTCCCTGGCCATGTGGTCTTGTACCACAAACAGTAAGTTACACTGCCAAAC
*
125806638 ACATGCCCATGTCC
1 ACATGCCCGTGTCC
125806652 GTTGCCTGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 15 0.23
62 51 0.77
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (61 bp):
ACATGCCCGTGTCCCTGGCCATGTGGTCTTGTACCACAAACAGTAAGTTACACTGCCAAAC
Found at i:125814014 original size:15 final size:16
Alignment explanation
Indices: 125813994--125814026 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
125813984 TTGTACAAAT
125813994 TAATTTAT-TAAATTA
1 TAATTTATATAAATTA
*
125814009 TAATTTATATTAATTA
1 TAATTTATATAAATTA
125814025 TA
1 TA
125814027 TTATGAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTTATATAAATTA
Found at i:125814594 original size:26 final size:26
Alignment explanation
Indices: 125814556--125814611 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
125814546 TGATACAAAT
125814556 TGATAATGAGTTAGGTAAATATTCCA
1 TGATAATGAGTTAGGTAAATATTCCA
* *
125814582 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATATTCCA
125814608 TGAT
1 TGAT
125814612 GGGAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATATTCCA
Found at i:125820334 original size:26 final size:26
Alignment explanation
Indices: 125820296--125820403 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
125820286 TGATACAAAT
*
125820296 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125820322 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
125820348 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125820374 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125820400 TGAT
1 TGAT
125820404 GGGAATTTCA
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:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:125823399 original size:26 final size:26
Alignment explanation
Indices: 125823363--125823446 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
125823353 CATGAAATTC
125823363 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
125823389 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
125823415 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
125823441 TTATCA
1 TTATCA
125823447 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:125827282 original size:21 final size:21
Alignment explanation
Indices: 125827256--125827314 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
125827246 CGTAATTAAA
*
125827256 GCACCTCGTGTGTCGTATCAG
1 GCACCTTGTGTGTCGTATCAG
*
125827277 GCACCTTGTGTGTCGTTTCAG
1 GCACCTTGTGTGTCGTATCAG
*
125827298 GCA-CTTATGTGTCGTAT
1 GCACCTTGTGTGTCGTAT
125827315 ACTGATCAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.35
21 22 0.65
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.36
Consensus pattern (21 bp):
GCACCTTGTGTGTCGTATCAG
Found at i:125827310 original size:20 final size:21
Alignment explanation
Indices: 125827228--125827314 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
125827218 GGTTTTGCTG
* *
125827228 ATCAGGCACTTTATGTATCGT
1 ATCAGGCACCTTATGTGTCGT
* * **
125827249 AATTAAAGCACCTCGTGTGTCGT
1 -A-TCAGGCACCTTATGTGTCGT
*
125827272 ATCAGGCACCTTGTGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
125827293 TTCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
125827313 AT
1 AT
125827315 ACTGATCAGG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
20 12 0.23
21 24 0.46
22 2 0.04
23 14 0.27
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:125828750 original size:24 final size:24
Alignment explanation
Indices: 125828718--125828765 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
125828708 AAATCTCAAA
125828718 TATCCTGCAACAACTATACTTAAG
1 TATCCTGCAACAACTATACTTAAG
125828742 TATCCTGCAACAACTATACTTAAG
1 TATCCTGCAACAACTATACTTAAG
125828766 ATTCATGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (24 bp):
TATCCTGCAACAACTATACTTAAG
Found at i:125830416 original size:166 final size:165
Alignment explanation
Indices: 125830112--125830462 Score: 388
Period size: 166 Copynumber: 2.1 Consensus size: 165
125830102 TACTGCAAAT
* * * * *
125830112 CATACTCACCAACATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGATTGGTATCTAAGC
1 CATACTCACCTAGATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGATAGATATCTAAAC
** * * *
125830177 TAGCAATCAAAAACAATAATAAGACTTTACTTACCAGTAAGAATAATTTAATCATAGGTACAAGC
66 TAGCAATCAAAAACAATAATAAGACTCCACTTACCAGTAAGAACAATTTAACCATAGGTAAAAGC
* **
125830242 TTAAGCTTTAATA-TAAGTATG-AGACTACATTTAAC
131 TTAAGCTTTAATACT-AGTATGCA-ACCACATCGAAC
* * * *
125830277 CATACTCACCTAGATGAGCATACAATGCAAGCA-TATGAAACATAAATCAAGA-AGCCATATTTA
1 CATACTCACCTAGATGAACACACAAAGCAAGCACT-TGAAACATAAATCAAGATAG--ATATCTA
* ** * * *
125830340 AACTAGTAATCAAAAACAATAATACTACTCCACTTACTAGTAATAGCAATGTT-ACCATAGGTAA
63 AACTAGCAATCAAAAACAATAATAAGACTCCACTTACCAGTAAGAACAAT-TTAACCATAGGTAA
*
125830404 AAGTTTAAGCTTTAATACTAGTATGCAACCACATCGAAC
127 AAGCTTAAGCTTTAATACTAGTATGCAACCACATCGAAC
*
125830443 CATACTCACCTAGACGAACA
1 CATACTCACCTAGATGAACA
125830463 TGTATTTTTT
Statistics
Matches: 154, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
164 2 0.01
165 45 0.29
166 103 0.67
167 4 0.03
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (165 bp):
CATACTCACCTAGATGAACACACAAAGCAAGCACTTGAAACATAAATCAAGATAGATATCTAAAC
TAGCAATCAAAAACAATAATAAGACTCCACTTACCAGTAAGAACAATTTAACCATAGGTAAAAGC
TTAAGCTTTAATACTAGTATGCAACCACATCGAAC
Found at i:125831583 original size:12 final size:12
Alignment explanation
Indices: 125831566--125831599 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
125831556 CTAGTCCGCC
125831566 TATATTAATTTT
1 TATATTAATTTT
125831578 TATATT-ATTTT
1 TATATTAATTTT
125831589 TATA-TAATTTT
1 TATATTAATTTT
125831600 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:125831840 original size:22 final size:22
Alignment explanation
Indices: 125831815--125831857 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
125831805 TATCCAAACA
125831815 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
125831837 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
125831858 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:125831861 original size:11 final size:11
Alignment explanation
Indices: 125831822--125831862 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
125831812 ACAATAACAA
125831822 CAAAATAGTAG
1 CAAAATAGTAG
* *
125831833 CAACATAATAG
1 CAAAATAGTAG
*
125831844 TAAAATAGTAG
1 CAAAATAGTAG
125831855 CAAAATAG
1 CAAAATAG
125831863 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:125839241 original size:28 final size:29
Alignment explanation
Indices: 125839210--125839269 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
125839200 AAAGTGATTT
*
125839210 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* * *
125839238 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
125839267 TTG
1 TTG
125839270 TGAAAATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:125839269 original size:29 final size:28
Alignment explanation
Indices: 125839210--125839275 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
125839200 AAAGTGATTT
* *
125839210 TTGACAAAAATGTCAATTAGGGATTAAA
1 TTGAGAAAAATGTAAATTAGGGATTAAA
* *
125839238 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGATTAAA
*
125839267 TTGTGAAAA
1 TTGAGAAAA
125839276 TATGAAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGATTAAA
Found at i:125839854 original size:43 final size:43
Alignment explanation
Indices: 125839757--125839855 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
125839747 ATCGAGATGT
* * * *
125839757 GATTACATGTAAAACCATGTCTGGGACATCGGCATTGTATTGA
1 GATTACATGTAAGACCAAGTCTGGGACATCGGCATCGTAATGA
* * *
125839800 GATTACGTGTAAGACCAAGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCAAGTCTGGGACATCGGCATCG-TAATGA
*
125839843 GATTTCATGTAAG
1 GATTACATGTAAG
125839856 GCCCTATCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 43 0.93
44 3 0.07
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCAAGTCTGGGACATCGGCATCGTAATGA
Found at i:125842505 original size:12 final size:13
Alignment explanation
Indices: 125842490--125842531 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
125842480 TAAAAAAATC
125842490 AAGATTTTATT-A
1 AAGATTTTATTGA
125842502 AAGAATTTTATTGA
1 AAG-ATTTTATTGA
*
125842516 AGGATTTTATTCGA
1 AAGATTTTATT-GA
125842530 AA
1 AA
125842532 TACCTGCAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 3 0.12
13 16 0.64
14 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (13 bp):
AAGATTTTATTGA
Found at i:125842606 original size:12 final size:12
Alignment explanation
Indices: 125842589--125842615 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
125842579 TCATATGCAT
125842589 TCTCAAGATCAA
1 TCTCAAGATCAA
125842601 TCTCAAGATCAA
1 TCTCAAGATCAA
125842613 TCT
1 TCT
125842616 TGGCAGCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (12 bp):
TCTCAAGATCAA
Found at i:125844141 original size:66 final size:67
Alignment explanation
Indices: 125844044--125844186 Score: 184
Period size: 66 Copynumber: 2.1 Consensus size: 67
125844034 ATTTAAATAG
* * * *
125844044 AATTAAAATTCCATCACTTTTTTTTATCTTCTTATCCTAATTT-AGGATCATATCTTATCCTTGT
1 AATTAAAATTCCATCAC-TATTTTTATCTTCTTATCCTAATTTGA-AATCATAACTTATCATTGT
125844108 TTAA
64 TTAA
*
125844112 ATATTAAAATTCCAT-A-TATTTTTATCTTCTTATCCTAATTTGAAATTATAACTTATCATTGTT
1 A-ATTAAAATTCCATCACTATTTTTATCTTCTTATCCTAATTTGAAATCATAACTTATCATTGTT
125844175 TAA
65 TAA
*
125844178 AATTTAAAT
1 AATTAAAAT
125844187 ATAAATAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
65 7 0.10
66 44 0.66
67 1 0.01
68 2 0.03
69 13 0.19
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (67 bp):
AATTAAAATTCCATCACTATTTTTATCTTCTTATCCTAATTTGAAATCATAACTTATCATTGTTT
AA
Found at i:125844623 original size:21 final size:20
Alignment explanation
Indices: 125844597--125844650 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
125844587 AGGAATTGTA
*
125844597 ATGTGAACACGTAGAAGTTAT
1 ATGTGAAC-CGTAGAAATTAT
*
125844618 ATGTGAACCCATAGAAATTAT
1 ATGTGAA-CCGTAGAAATTAT
*
125844639 ATGCGAACCGTA
1 ATGTGAACCGTA
125844651 ATTGCTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.14
21 23 0.82
22 1 0.04
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (20 bp):
ATGTGAACCGTAGAAATTAT
Found at i:125845802 original size:13 final size:13
Alignment explanation
Indices: 125845784--125845809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
125845774 CGTGTTTCCA
125845784 AAAACCATTTGTT
1 AAAACCATTTGTT
125845797 AAAACCATTTGTT
1 AAAACCATTTGTT
125845810 TGCGTAAGAT
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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:125847235 original size:31 final size:31
Alignment explanation
Indices: 125847200--125847262 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
125847190 AAATTTGAGA
125847200 GAAAACAAAAAAAAGTTGAGAAGGAAGAAAG
1 GAAAACAAAAAAAAGTTGAGAAGGAAGAAAG
125847231 GAAAACAAAAAAAAGTTGAGAAGGAAGAAAG
1 GAAAACAAAAAAAAGTTGAGAAGGAAGAAAG
125847262 G
1 G
125847263 GAATGTCAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.63, C:0.03, G:0.27, T:0.06
Consensus pattern (31 bp):
GAAAACAAAAAAAAGTTGAGAAGGAAGAAAG
Found at i:125847322 original size:16 final size:18
Alignment explanation
Indices: 125847301--125847335 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
125847291 AAGAGAGAGG
125847301 AAAAAATAA-A-AATAAA
1 AAAAAATAAGATAATAAA
125847317 AAAAAATAAGATAATAAA
1 AAAAAATAAGATAATAAA
125847335 A
1 A
125847336 CAATATCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAAATAAGATAATAAA
Found at i:125848562 original size:26 final size:26
Alignment explanation
Indices: 125848500--125848608 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
125848490 TGATACAAAT
125848500 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
125848525 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
125848551 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
125848577 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
125848603 TGATAA
1 TGATAA
125848609 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:125850252 original size:27 final size:27
Alignment explanation
Indices: 125850222--125850361 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
125850212 GAGAAAGCGT
*
125850222 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
125850249 TCTGGTGACTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
125850276 TCTGGTGGCTCTGTCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
125850303 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
125850331 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
125850357 TCTGG
1 TCTGG
125850362 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 78 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:125850307 original size:54 final size:55
Alignment explanation
Indices: 125850222--125850361 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
125850212 GAGAAAGCGT
* * * *
125850222 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGTCACATATATCTGTTCTGGTGACTCTGCCACAAATATCTGTA
* * *
125850276 TCTGGTGGCTCTGTCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGTCACATATATCTGTTCTGGTGACTCTGCCACAAATATCTGTA
*
125850331 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGTCACATATATCTGTTCTGG
125850362 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 58 0.75
55 19 0.25
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGTCACATATATCTGTTCTGGTGACTCTGCCACAAATATCTGTA
Found at i:125852086 original size:33 final size:33
Alignment explanation
Indices: 125852014--125852086 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
125852004 AAATCTACAC
* *
125852014 AAAACAAACCATTGATGTCAATGATATGTACGG
1 AAAATAAACCATTGATGTCAATGATATGTACCG
* *
125852047 AAAATAAACCATTGATGTCAATGATGTGTGCCG
1 AAAATAAACCATTGATGTCAATGATATGTACCG
*
125852080 ATAATAA
1 AAAATAA
125852087 TAATGTGAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (33 bp):
AAAATAAACCATTGATGTCAATGATATGTACCG
Found at i:125852339 original size:33 final size:33
Alignment explanation
Indices: 125852302--125852364 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
125852292 AAAATAAGTT
*
125852302 ATTGATGTCAACGATCTATACGGAAAATAAACC
1 ATTGATGCCAACGATCTATACGGAAAATAAACC
* * * *
125852335 ATTGATGCCCATGATGTGTACGGAAAATAA
1 ATTGATGCCAACGATCTATACGGAAAATAA
125852365 CAATAATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (33 bp):
ATTGATGCCAACGATCTATACGGAAAATAAACC
Found at i:125852374 original size:3 final size:3
Alignment explanation
Indices: 125852360--125852406 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
125852350 GTGTACGGAA
*
125852360 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
125852407 ATTTAATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:125852614 original size:17 final size:17
Alignment explanation
Indices: 125852587--125852625 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
125852577 ATTTTAATTG
*
125852587 AATAA-ATAATATAAAA
1 AATAATATAATACAAAA
*
125852603 TATAATATAATACAAAA
1 AATAATATAATACAAAA
125852620 AATAAT
1 AATAAT
125852626 TTAAACACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATATAATACAAAA
Found at i:125852622 original size:29 final size:29
Alignment explanation
Indices: 125852530--125852630 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 29
125852520 AATTATTATG
* *
125852530 AAAAATTATATAAAATATAATACAATAC-
1 AAAAATAATATAAAATATAATATAATACA
* * * * **
125852558 GAATATAACATAAAA-ATAAATTTTAATTGA
1 AAAAATAATATAAAATAT-AA-TATAATACA
*
125852588 ATAAATAATATAAAATATAATATAATACA
1 AAAAATAATATAAAATATAATATAATACA
*
125852617 AAAAATAATTTAAA
1 AAAAATAATATAAA
125852631 CACAGCACAC
Statistics
Matches: 52, Mismatches: 17, Indels: 7
0.68 0.22 0.09
Matches are distributed among these distances:
27 2 0.04
28 13 0.25
29 22 0.42
30 13 0.25
31 2 0.04
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAAATAATATAAAATATAATATAATACA
Found at i:125854605 original size:22 final size:23
Alignment explanation
Indices: 125854566--125854616 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
125854556 TGTCATATAA
*
125854566 AAAATAAATTAGTCCTTT-T-ATT
1 AAAA-AAATTAGTACTTTATGATT
125854588 AAAAAAATTATGTACTTTATGATT
1 AAAAAAATTA-GTACTTTATGATT
125854612 AAAAA
1 AAAAA
125854617 CTAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 1 0.04
24 8 0.32
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (23 bp):
AAAAAAATTAGTACTTTATGATT
Found at i:125857077 original size:29 final size:29
Alignment explanation
Indices: 125857042--125857118 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
125857032 AAGCTTTGGA
*
125857042 TTTAGTCCTTATACTTT-AATTTGATCATT
1 TTTAGTCCTTATACTTTGAA-TTGATCAAT
* * *
125857071 TTTAGTCTTTGTACTTTTTGAATTGGTCAAT
1 TTTAGTCCTTATAC--TTTGAATTGATCAAT
*
125857102 TTTATTCCTTATACTTT
1 TTTAGTCCTTATACTTT
125857119 TTGAAGTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
29 15 0.39
31 21 0.55
32 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (29 bp):
TTTAGTCCTTATACTTTGAATTGATCAAT
Found at i:125857134 original size:31 final size:31
Alignment explanation
Indices: 125857070--125857141 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
125857060 ATTTGATCAT
* * *
125857070 TTTTAGTCTTTGTACTTTTTGAATTGGTCAA
1 TTTTAGTCCTTATACTTTTTGAATTGGTAAA
* *
125857101 TTTTATTCCTTATACTTTTTGAAGTTTG-AAA
1 TTTTAGTCCTTATACTTTTTGAA-TTGGTAAA
125857132 TTTTAGTCCT
1 TTTTAGTCCT
125857142 GTACCAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.21, C:0.11, G:0.12, T:0.56
Consensus pattern (31 bp):
TTTTAGTCCTTATACTTTTTGAATTGGTAAA
Found at i:125857829 original size:170 final size:170
Alignment explanation
Indices: 125857558--125857865 Score: 442
Period size: 170 Copynumber: 1.8 Consensus size: 170
125857548 TATTTGGATT
* * ** * *
125857558 AGGACTAAATTTTCAAAATTTTAAAAGTACAGGGGCTAAAAGTGACCAATTCAAAAAGCATAGGA
1 AGGACTAAAATTTCAAAATTTGAAAAGTACAGGAACTAAAAGTGACCAATTCAAAAAGCACAGAA
*
125857623 ATTAAAATTGATCAAATTAAAGTATATGGACTAAATTCACAACTTTTACAAAGTAAGAGACTAAT
66 ACTAAAATTGATCAAATTAAAGTATATGGACTAAATTCACAACTTTTACAAAGTAAGAGACTAAT
125857688 AGCATAGTTCAAATTTAACAAAATAGATTTAACTATTACTC
131 AGC-TAGTTCAAATTTAACAAAATAGATTTAACTATTACTC
* *
125857729 AGGACTAAAATTTCAAAATTTGAAAAGTA-AGTAACTAAAAGTGACCAATTCAAAAAGCACATAA
1 AGGACTAAAATTTCAAAATTTGAAAAGTACAGGAACTAAAAGTGACCAATTCAAAAAGCACAGAA
* * * * *
125857793 ACTAAAATTTATCAAATTGAAA-TATATAGG-CTAAATTCATAATTTTTGCAAAGTAAGGGACTA
66 ACTAAAATTGATCAAATT-AAAGTATAT-GGACTAAATTCACAACTTTTACAAAGTAAGAGACTA
125857856 ATAGCTAGTT
129 ATAGCTAGTT
125857866 TAACCTTAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
169 5 0.04
170 84 0.69
171 32 0.26
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.29
Consensus pattern (170 bp):
AGGACTAAAATTTCAAAATTTGAAAAGTACAGGAACTAAAAGTGACCAATTCAAAAAGCACAGAA
ACTAAAATTGATCAAATTAAAGTATATGGACTAAATTCACAACTTTTACAAAGTAAGAGACTAAT
AGCTAGTTCAAATTTAACAAAATAGATTTAACTATTACTC
Found at i:125860524 original size:12 final size:12
Alignment explanation
Indices: 125860492--125860525 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
125860482 TGACGACGAG
*
125860492 GAAGATGACGAT
1 GAAGATGATGAT
*
125860504 GACGATGATGAT
1 GAAGATGATGAT
125860516 GAAGATGATG
1 GAAGATGATG
125860526 CCGAAGGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (12 bp):
GAAGATGATGAT
Found at i:125869369 original size:11 final size:11
Alignment explanation
Indices: 125869353--125869386 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
125869343 ATGTCAAATC
*
125869353 ATCAAAAATAA
1 ATCAAAAACAA
125869364 ATCAAAAACAA
1 ATCAAAAACAA
*
125869375 ATCAAGAACAA
1 ATCAAAAACAA
125869386 A
1 A
125869387 ACTAGATGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (11 bp):
ATCAAAAACAA
Found at i:125870162 original size:22 final size:22
Alignment explanation
Indices: 125870134--125870188 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
125870124 GTGAATAAAC
125870134 CAAATAAACTTTAGTTCTGCAG
1 CAAATAAACTTTAGTTCTGCAG
*
125870156 CAAATAAACTTTATTTCTGCAG
1 CAAATAAACTTTAGTTCTGCAG
*
125870178 AAAATAAACTT
1 CAAATAAACTT
125870189 AATATCTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (22 bp):
CAAATAAACTTTAGTTCTGCAG
Found at i:125872486 original size:24 final size:26
Alignment explanation
Indices: 125872454--125872503 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
125872444 TTTTTCTTAT
*
125872454 TTTATTAAAT-AAA-AAATTTAAAAA
1 TTTAATAAATCAAATAAATTTAAAAA
*
125872478 TTTAATAAATCAAATATATTTAAAAA
1 TTTAATAAATCAAATAAATTTAAAAA
125872504 CATAAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 3 0.14
26 10 0.45
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TTTAATAAATCAAATAAATTTAAAAA
Found at i:125872538 original size:21 final size:21
Alignment explanation
Indices: 125872489--125872547 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
125872479 TTAATAAATC
*
125872489 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
125872509 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
125872531 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
125872548 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:125872612 original size:10 final size:10
Alignment explanation
Indices: 125872597--125872622 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
125872587 TAGTTATATT
125872597 AAAAATTTAA
1 AAAAATTTAA
125872607 AAAAATTTAA
1 AAAAATTTAA
125872617 AAAAAT
1 AAAAAT
125872623 AAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:125874736 original size:24 final size:24
Alignment explanation
Indices: 125874691--125874737 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
125874681 CATAAAAAAA
*
125874691 ATTAATGATTAATAACCGATCACC
1 ATTAATGATTAATAACCAATCACC
* *
125874715 ATTAATGATTAATTATCAATCAC
1 ATTAATGATTAATAACCAATCAC
125874738 GTTTTAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (24 bp):
ATTAATGATTAATAACCAATCACC
Found at i:125877269 original size:126 final size:127
Alignment explanation
Indices: 125877033--125877295 Score: 298
Period size: 126 Copynumber: 2.1 Consensus size: 127
125877023 GAGTATGAGC
* * * * *
125877033 TTGCCTTCTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAATGTTATTCGGATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACCCATGTATTTAAATTTTAAAAAGGATAATCGGATACTTAGAT
* * *
125877098 CAAACGAAAAATCGAAACCCAGTACATTAGGGCACGACTAGTCGAA-TTTCTAAATACGGACTA
65 CAAACAAAAAATCGAAACCCAGTACATTAGGACACGACTACTCGAATTTTC-AAATACGGACTA
* * *
125877161 TTGCCTTTATTTTATTTAAAACCCATGTATTTTAA-TTT-AAAAGGATAATCGGTTACTTAGATC
1 TTGCCTTTATTTCATTTAAAACCCATGTATTTAAATTTTAAAAAGGATAATCGGATACTTAGATC
* ** * * * * * *
125877224 AAACAAAAAAATTGAAACCCAGTATGTTAGGACACTATTTCTCGAATTTTCAAGTACTGAGTA
66 AAAC-AAAAAATCGAAACCCAGTACATTAGGACACGACTACTCGAATTTTCAAATACGGACTA
125877287 TTGCCTTTA
1 TTGCCTTTA
125877296 CTTGAAAAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
125 24 0.21
126 53 0.47
127 29 0.26
128 7 0.06
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACCCATGTATTTAAATTTTAAAAAGGATAATCGGATACTTAGATC
AAACAAAAAATCGAAACCCAGTACATTAGGACACGACTACTCGAATTTTCAAATACGGACTA
Found at i:125877470 original size:3 final size:3
Alignment explanation
Indices: 125877456--125877807 Score: 72
Period size: 3 Copynumber: 118.3 Consensus size: 3
125877446 AATAGGACGG
* * ** * * **
125877456 ATA ATA AAA ATA ATA GTA ATA ATA ATA GGA AAA AT- ATA ATG GCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
125877503 ATA TTA A-A AAA AGTA A-A ATA ATG ATG ATA ATA ATG TTA AAA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
125877547 ATA ATA ATA ATA A-A CA-A ACA A-C ATA TTA ATG ATA ATA GAAA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
** * ** * *
125877591 ACG ATA ATA ATA ATG GCA GTA ATGA A-A ATA ATA ATA ATA GA-A ACA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA
* * *
125877636 ATA GTA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ATA ATG ATA CATTA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA
* * * * *
125877683 ATA ATA ATA A-A ATA CGTG CTA ATA ATA ACA AT- ATA A-A A-A AGA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
125877725 A-A ATA ATA CT- ATA TTA ATA AAA ATA ATA ATA GTA GGTTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA
* * *
125877770 ATA GTA ATA AAA AGGTA AAA ATA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA A
125877808 AAACACTATT
Statistics
Matches: 247, Mismatches: 73, Indels: 58
0.65 0.19 0.15
Matches are distributed among these distances:
2 29 0.12
3 198 0.80
4 14 0.06
5 6 0.02
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:125877601 original size:25 final size:25
Alignment explanation
Indices: 125877544--125877604 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
125877534 AATGTTAAAA
125877544 ATAATAATAATAATAAACAAACAAC
1 ATAATAATAATAATAAACAAACAAC
* * * *
125877569 ATATTAATGATAATAGA-AAATAAC
1 ATAATAATAATAATAAACAAACAAC
125877593 GATAATAATAAT
1 -ATAATAATAAT
125877605 GGCAGTAATG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (25 bp):
ATAATAATAATAATAAACAAACAAC
Found at i:125877642 original size:30 final size:28
Alignment explanation
Indices: 125877608--125877691 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 28
125877598 TAATAATGGC
125877608 AGTAATGAAAATAATAATAATAGAAACAAT
1 AGTAATGAAAATAATAATAATAG-AA-AAT
125877638 AGTAAT-AAAAGTAATAATAAAATAGAAAAT
1 AGTAATGAAAA-TAATAAT--AATAGAAAAT
* *
125877668 AATAATGATACATTAATAATAATA
1 AGTAATGA-A-AATAATAATAATA
125877692 AAATACGTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
29 4 0.09
30 25 0.54
31 3 0.07
32 13 0.28
33 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.26
Consensus pattern (28 bp):
AGTAATGAAAATAATAATAATAGAAAAT
Found at i:125877752 original size:23 final size:23
Alignment explanation
Indices: 125877726--125877778 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
125877716 TAAAAAAGAA
*
125877726 AATAATACTATATTAATAAAAAT
1 AATAATACTAGATTAATAAAAAT
* * *
125877749 AATAATAGTAGGTTAATAATAAT
1 AATAATACTAGATTAATAAAAAT
*
125877772 AGTAATA
1 AATAATA
125877779 AAAAGGTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (23 bp):
AATAATACTAGATTAATAAAAAT
Found at i:125877808 original size:20 final size:20
Alignment explanation
Indices: 125877724--125877810 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
125877714 TATAAAAAAG
* * *
125877724 AAAATAATACTATATTAATA
1 AAAATAATAATAAAATAATA
**
125877744 AAAATAATAATAGTAGGTTAATA
1 AAAATAATAATA--A-AATAATA
* * *
125877767 ATAATAGTAATAAAA-AGGTA
1 AAAATAATAATAAAATA-ATA
125877787 AAAATAATAATAAAATAATA
1 AAAATAATAATAAAATAATA
125877807 AAAA
1 AAAA
125877811 CACTATTACC
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
19 1 0.02
20 32 0.63
21 2 0.04
23 16 0.31
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAATAATAATAAAATAATA
Found at i:125877919 original size:3 final size:3
Alignment explanation
Indices: 125877881--125877966 Score: 111
Period size: 3 Copynumber: 29.0 Consensus size: 3
125877871 ATAGTAAAAC
* * * * * *
125877881 TAA TAA AAA TAA AAA TAA -AA TAG TAG TAG TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
125877928 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
125877967 CACTCTTCCC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 74 0.97
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:125878435 original size:12 final size:12
Alignment explanation
Indices: 125878420--125878446 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
125878410 TTAGTGGTTG
125878420 GTTTAGTGGGGT
1 GTTTAGTGGGGT
125878432 GTTTAGTGGGGT
1 GTTTAGTGGGGT
125878444 GTT
1 GTT
125878447 AATTGGACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.48, T:0.44
Consensus pattern (12 bp):
GTTTAGTGGGGT
Found at i:125880696 original size:14 final size:14
Alignment explanation
Indices: 125880668--125880718 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
125880658 ACATAGAAAG
125880668 ATATAAAACAAATAA
1 ATATAAAA-AAATAA
125880683 ATATAAAAAAATAA
1 ATATAAAAAAATAA
*
125880697 AAATAAAAATAA-AA
1 ATATAAAAA-AATAA
125880711 ATA-AAAAA
1 ATATAAAAA
125880719 CTTACCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 5 0.15
14 18 0.55
15 10 0.30
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (14 bp):
ATATAAAAAAATAA
Found at i:125880698 original size:6 final size:6
Alignment explanation
Indices: 125880689--125880717 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
125880679 ATAAATATAA
125880689 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
125880718 ACTTACCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:125887491 original size:40 final size:41
Alignment explanation
Indices: 125887423--125887511 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 41
125887413 ATTTGAGCTG
*
125887423 TTGATTTTTACTAATAAATTTACATATAAATTGA-TGAACTA
1 TTGATTTTTACTAATAAACTTACATATAAATT-ATTGAACTA
* * * *
125887464 TTGATTTTTGCTAA-ATACTTACATATAAATTATTGAATTG
1 TTGATTTTTACTAATAAACTTACATATAAATTATTGAACTA
125887504 TTGATTTT
1 TTGATTTT
125887512 ATGTATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.02
40 28 0.67
41 13 0.31
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (41 bp):
TTGATTTTTACTAATAAACTTACATATAAATTATTGAACTA
Found at i:125888529 original size:15 final size:15
Alignment explanation
Indices: 125888509--125888542 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
125888499 TTAATTAAAG
125888509 ATTATGGTTTAATTA
1 ATTATGGTTTAATTA
125888524 ATTATGGTTTAATTA
1 ATTATGGTTTAATTA
125888539 ATTA
1 ATTA
125888543 ATATTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTATGGTTTAATTA
Found at i:125889623 original size:12 final size:12
Alignment explanation
Indices: 125889606--125889630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
125889596 CAGGATGCAC
125889606 TTCGTGCGCCAG
1 TTCGTGCGCCAG
125889618 TTCGTGCGCCAG
1 TTCGTGCGCCAG
125889630 T
1 T
125889631 ATGCACTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.32, G:0.32, T:0.28
Consensus pattern (12 bp):
TTCGTGCGCCAG
Found at i:125891195 original size:6 final size:7
Alignment explanation
Indices: 125891178--125891207 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
125891168 GAGAACATGA
125891178 AAAAAAG
1 AAAAAAG
125891185 AAAAAAG
1 AAAAAAG
125891192 -AAAAAG
1 AAAAAAG
125891198 AAAAAAG
1 AAAAAAG
125891205 AAA
1 AAA
125891208 TAAAAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:125891214 original size:13 final size:13
Alignment explanation
Indices: 125891179--125891207 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
125891169 AGAACATGAA
125891179 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
125891192 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
125891205 AAA
1 AAA
125891208 TAAAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:125892482 original size:16 final size:17
Alignment explanation
Indices: 125892448--125892499 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
125892438 TGTGATCCGA
*
125892448 TTGAAAA-ACGAGAATT
1 TTGAAAACACGAAAATT
*
125892464 TTTAAAACACGAAAATT
1 TTGAAAACACGAAAATT
*
125892481 TTGAAAACAGGAAAATT
1 TTGAAAACACGAAAATT
125892498 TT
1 TT
125892500 TGGGATCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 6 0.19
17 25 0.81
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (17 bp):
TTGAAAACACGAAAATT
Found at i:125892550 original size:17 final size:18
Alignment explanation
Indices: 125892516--125892550 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
125892506 CCGAATTTTT
*
125892516 TTTTTAAAACACGAAAAA
1 TTTTGAAAACACGAAAAA
*
125892534 TTTTGAAAACGCGAAAA
1 TTTTGAAAACACGAAAA
125892551 GTTTACAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAA
Found at i:125893074 original size:26 final size:27
Alignment explanation
Indices: 125893031--125893084 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
125893021 TATGTATACC
*
125893031 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
125893057 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
125893084 A
1 A
125893085 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:125893119 original size:18 final size:17
Alignment explanation
Indices: 125893093--125893146 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
125893083 AATAAGCATA
125893093 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
125893112 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
125893130 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
125893146 A
1 A
125893147 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:125893484 original size:24 final size:24
Alignment explanation
Indices: 125893455--125893500 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
125893445 TAAAGTAAAA
*
125893455 GGAAAATA-ATGAAAGGGAAATACG
1 GGAAAATATAT-AAAAGGAAATACG
125893479 GGAAAATATATAAAAGGAAATA
1 GGAAAATATATAAAAGGAAATA
125893501 AATAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.59, C:0.02, G:0.24, T:0.15
Consensus pattern (24 bp):
GGAAAATATATAAAAGGAAATACG
Found at i:125893573 original size:29 final size:30
Alignment explanation
Indices: 125893541--125893597 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
125893531 ATTAGCAGCG
* *
125893541 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
*
125893570 TGAAGATAATAAGAACAACAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
125893598 GAAAGTAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:125894988 original size:21 final size:21
Alignment explanation
Indices: 125894963--125895012 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
125894953 GGATAGGATC
125894963 TGCAACTTCAAT-ACGCTCCAT
1 TGCAACTTCAATCA-GCTCCAT
*
125894984 TGCAACTTCGATCAGCTCCAT
1 TGCAACTTCAATCAGCTCCAT
*
125895005 TGTAACTT
1 TGCAACTT
125895013 TAAGTGTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (21 bp):
TGCAACTTCAATCAGCTCCAT
Found at i:125895325 original size:26 final size:26
Alignment explanation
Indices: 125895288--125895423 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
125895278 TGATACAAAT
* * *
125895288 TGATAATAGGTTAGGTCAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125895314 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
125895340 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125895366 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125895392 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
125895418 TGATAA
1 TGATAA
125895424 GAATATCATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:125897007 original size:21 final size:21
Alignment explanation
Indices: 125896968--125897007 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
125896958 CATGTTTGAC
*
125896968 TGTTGTTTTTACTGCATGCCA
1 TGTTGTTATTACTGCATGCCA
125896989 TGTTGTTATTATCTG-ATGC
1 TGTTGTTATTA-CTGCATGC
125897008 ATGGGACTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (21 bp):
TGTTGTTATTACTGCATGCCA
Found at i:125898347 original size:88 final size:88
Alignment explanation
Indices: 125898193--125898410 Score: 280
Period size: 88 Copynumber: 2.5 Consensus size: 88
125898183 ATGTGACCTG
* *
125898193 AGGCTCAACTCATTTCTCGCAATATGAATTGATTCTTT-AAAACTAGACATTAAAAACAGAAATT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATT-TTTGAAAACTAGACATTAAAAACAGAAATT
* *
125898257 GAAAATAGCTCAGCACGTGAGCCA
65 GAAAATACCTCAGCACGTGACCCA
* **
125898281 AGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTGAAAAC-AGA-ATTTACAAAACAGATTT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACTAGACA-TTA-AAAACAGAAAT
* * *
125898344 TGAAAATACCTCGGCATGTGACCCG
64 TGAAAATACCTCAGCACGTGACCCA
* *
125898369 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAA
125898411 GCATAATTGA
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
86 1 0.01
87 9 0.08
88 104 0.91
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (88 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACTAGACATTAAAAACAGAAATTG
AAAATACCTCAGCACGTGACCCA
Found at i:125898516 original size:75 final size:73
Alignment explanation
Indices: 125898343--125898936 Score: 596
Period size: 75 Copynumber: 8.1 Consensus size: 73
125898333 AAAACAGATT
* *
125898343 TTGAAAATACCTCGGCATGTGACCC-GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
1 TTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
125898407 AAAAGCA-TAA
63 AAAATCAGAAA
* * * * *
125898417 TTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCACAATGTAAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
*
125898482 AAATCAAAAA
64 AAATCAGAAA
* * * *
125898492 TTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATGTAAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
*
125898557 AAATCAGAGA
64 AAATCAGAAA
* * * *
125898567 TTGAAAATACCTCAGTGTGCCCTAAGACTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACA
1 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-A
125898632 AA-CAGAAA
65 AATCAGAAA
* **
125898640 TTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
*
125898705 AAACCAGAAA
64 AAATCAGAAA
* * ** *
125898715 TTGAAAACACCTCAACGTGTGAAAC-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-
1 TTGAAAATACCTC-A-GCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*** * *
125898778 TTTATGATAAA
63 AAAATCAGAAA
*** * *
125898789 TTGAAAATACCTCAATATGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TT-AAA
1 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
125898850 ACACAAAAA
66 A-TCAGAAA
* * * *
125898859 TTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAATTTTGAAA
1 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
125898924 AT-AGAAA
66 ATCAGAAA
125898931 TTGAAA
1 TTGAAA
125898937 TTACATTAAA
Statistics
Matches: 438, Mismatches: 65, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
69 3 0.01
70 52 0.12
71 3 0.01
72 75 0.17
73 64 0.15
74 54 0.12
75 151 0.34
76 1 0.00
77 34 0.08
78 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (73 bp):
TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
ATCAGAAA
Found at i:125898619 original size:150 final size:146
Alignment explanation
Indices: 125898368--125898940 Score: 606
Period size: 148 Copynumber: 3.9 Consensus size: 146
125898358 CATGTGACCC
* * *
125898368 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCA-TAATTGAAAATACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
* * * *
125898432 CGTGTCCTGAGGCCCAACTCACCTCTCACAATGTAAGTTGATTTTTTTGAAAATCAAAAATTGAA
66 CGTGCCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGA--TTTTTGAAAATCAGAAATTGAA
125898497 ATTACCTCAGCGTGCCCT
129 ATTACCTCAGCGTGCCCT
* * * * *
125898515 GAGGCTCAACTCACCTCTCACAATGTAAGTTGATTTTTTTGAAAATCAGAGATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTC
* * * *
125898580 AGTGTGCCCTAAGACTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACAAA-CAGAAATTGA
64 AGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTGA-AAATCAGAAATTGA
125898644 AATTACCTCAGCGTGCCCT
128 AATTACCTCAGCGTGCCCT
** * *
125898663 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACCAGAAATTGAAAACACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTC
* ** * *** * *
125898728 AACGTGTGAAAC-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-TTTATGATAAATT
64 -A-GCGTG-CCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTGAAAATCAGAAATT
* *** * *
125898791 GAAAATACCTCAATATGACTT
126 GAAATTACCTCAGCGTGCCCT
* *
125898812 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TT-AAAACACAAAAATTGACAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACAGAAATTGAAAATACCTCA
* ** * *
125898873 GCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAATTTTGAAAAT-AGAAATTGAAA
65 GCGTGCCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTGAAAATCAGAAATTGAAA
125898937 TTAC
130 TTAC
125898941 ATTAAAATAC
Statistics
Matches: 358, Mismatches: 57, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
141 1 0.00
142 52 0.15
143 7 0.02
144 18 0.05
147 29 0.08
148 93 0.26
149 68 0.19
150 89 0.25
151 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (146 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
CGTGCCCTGAGGCTCAACTCACCTCTCACAATATAAGTTGATTTTTGAAAATCAGAAATTGAAAT
TACCTCAGCGTGCCCT
Found at i:125908372 original size:12 final size:11
Alignment explanation
Indices: 125908339--125908368 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
125908329 AATGATATTT
125908339 AAATATATATA
1 AAATATATATA
125908350 ATAATATATATA
1 A-AATATATATA
125908362 AAATATA
1 AAATATA
125908369 ATATTAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATATATATA
Found at i:125908582 original size:12 final size:12
Alignment explanation
Indices: 125908565--125908590 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
125908555 AAATGTACGA
125908565 ATATATACATAT
1 ATATATACATAT
125908577 ATATATACATAT
1 ATATATACATAT
125908589 AT
1 AT
125908591 TAATATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATACATAT
Found at i:125910438 original size:13 final size:13
Alignment explanation
Indices: 125910420--125910444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125910410 TTTGAAACAT
125910420 AGAAATTAAAAGC
1 AGAAATTAAAAGC
125910433 AGAAATTAAAAG
1 AGAAATTAAAAG
125910445 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:125910687 original size:67 final size:68
Alignment explanation
Indices: 125910435--125910675 Score: 439
Period size: 68 Copynumber: 3.5 Consensus size: 68
125910425 TTAAAAGCAG
125910435 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
125910500 ACGA
65 ACGA
*
125910504 AAATTAAAAGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
125910569 CGA
66 CGA
*
125910572 AAATTAAA-GCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGGGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
125910636 CGA
66 CGA
*
125910639 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTT
125910676 GATCTTTGAA
Statistics
Matches: 168, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
67 66 0.39
68 97 0.58
69 5 0.03
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (68 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
CGA
Found at i:125910882 original size:71 final size:71
Alignment explanation
Indices: 125910646--125910898 Score: 310
Period size: 74 Copynumber: 3.5 Consensus size: 71
125910636 CGAAAATTAA
* * * *
125910646 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAATATAATTTGAAAATACCTTAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA-TTGAAATTACCTCAGCG
* *
125910711 TGCCGCA
65 TGCCTCG
* * *
125910718 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
125910783 CGTGCCTCG
63 CGTGCCTCG
* * * *
125910792 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* *
125910856 TGTCTTG
65 TGCCTCG
*
125910863 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
125910899 CTTGGAAAAC
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
71 55 0.35
72 37 0.24
73 3 0.02
74 60 0.38
75 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGT
GCCTCG
Found at i:125911031 original size:161 final size:161
Alignment explanation
Indices: 125910766--125911313 Score: 994
Period size: 161 Copynumber: 3.4 Consensus size: 161
125910756 ATTTAATAGG
* * *
125910766 AATTGAAATTACCTCAGCGTG-CCTCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCT-GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
125910830 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
65 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
125910895 TTTTCTTGGAAAACATGAATTTAAAAAGCAGA
130 TTTTCTTGGAAAACATGAATTTAAAAAGCAGA
*
125910927 AATTGAAAATACCTCAGCGTGCCCTGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
125910992 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
125911057 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
* *
125911088 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
125911153 GACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCG-AATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
125911217 TTTCTTGGAAAACATGAA-TTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
125911247 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
125911312 AA
66 AA
125911314 AAACAAAATT
Statistics
Matches: 376, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
159 76 0.20
160 31 0.08
161 266 0.71
162 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (161 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTTAAAAAGCAGA
Found at i:125911042 original size:71 final size:71
Alignment explanation
Indices: 125910926--125911059 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
125910916 TAAAAAGCAG
* * * *
125910926 AAATTGAAAATACCTCAGCGTGCCCTGAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
125910991 AAACAT
66 AAACAT
* * *
125910997 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
125911060 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:125911203 original size:71 final size:70
Alignment explanation
Indices: 125911087--125911219 Score: 194
Period size: 71 Copynumber: 1.9 Consensus size: 70
125911077 TAAAAAGCAG
* * *
125911087 AAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACTTCTCG-AATATGAGCTGATTTTTG
125911152 AGACAT
65 AGACAT
* ** *
125911158 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACTTCTCGAATATGAGCTGATTTT
125911220 CTTGGAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
70 15 0.27
71 40 0.73
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (70 bp):
AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACTTCTCGAATATGAGCTGATTTTTGA
GACAT
Found at i:125924152 original size:41 final size:42
Alignment explanation
Indices: 125924086--125924171 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 42
125924076 GAGCAGCTAA
* * *
125924086 AAGCCACAGCAGATTTCTTTTAAGTTTCAGTGG-ATTAATTG
1 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTAATTG
* *
125924127 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATTG
1 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTAATTG
125924169 AAG
1 AAG
125924172 TCACGTGCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 29 0.74
42 10 0.26
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (42 bp):
AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTAATTG
Found at i:125925660 original size:22 final size:22
Alignment explanation
Indices: 125925635--125925676 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
125925625 TAACGTCCTA
* *
125925635 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
125925657 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
125925677 GTAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:125929227 original size:75 final size:75
Alignment explanation
Indices: 125929100--125929309 Score: 325
Period size: 75 Copynumber: 2.8 Consensus size: 75
125929090 AGTATGCTGA
* * * * *
125929100 TATTTTTTATTTCAGTTATTTC--AATAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAAG
1 TATTTTTAATTTCTGTT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
125929163 ACACGCTGAGG
65 ACACGCTAAGG
* *
125929174 TATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
1 TATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
125929239 CACGCTAAGG
66 CACGCTAAGG
125929249 TATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
125929310 GAATTACATG
Statistics
Matches: 126, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
73 4 0.03
74 15 0.12
75 107 0.85
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (75 bp):
TATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGCTAAGG
Found at i:125930282 original size:27 final size:26
Alignment explanation
Indices: 125930245--125930359 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 26
125930235 AGCATGGCTG
* *
125930245 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
125930271 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
125930299 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
125930326 CCAGATTC-GATATTTGTGGCATAGCCA
1 CCAGA-ACAGATA-ATGTGGCAGAGCCA
125930353 CCAGAAC
1 CCAGAAC
125930360 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.08
27 55 0.70
28 18 0.23
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:125930304 original size:54 final size:54
Alignment explanation
Indices: 125930245--125930359 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
125930235 AGCATGGCTG
*
125930245 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATAC-GATAATCGTGGCAGAGCCA
* * * * *
125930299 CCAGAACAGATATATGTGGCAGAGCCACCAGATTCGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATACGATAATCGTGGCAGAGCCA
125930353 CCAGAAC
1 CCAGAAC
125930360 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.65
55 19 0.35
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATACGATAATCGTGGCAGAGCCA
Found at i:125931995 original size:26 final size:26
Alignment explanation
Indices: 125931959--125932066 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
125931949 CATGAAATTC
125931959 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
125931985 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
125932011 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
125932037 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
125932063 TTAT
1 TTAT
125932067 TAATTTGTAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:125932570 original size:77 final size:76
Alignment explanation
Indices: 125932429--125932586 Score: 181
Period size: 77 Copynumber: 2.1 Consensus size: 76
125932419 TTTTCAATTT
* * * * ** * *
125932429 TTTTTTCAAGAATCAACTCATATTGCGAGAGATTAGTTGAGCCTCGAATTACGTGTTGAGGTATT
1 TTTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAATCACACGCTGACGTATT
125932494 TTCAAATTTATG
66 TTC-AATTTATG
* * * **
125932506 TTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCACACGCTGACGTATT
1 TTTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAATCACACGCTGACGTATT
*
125932571 TTCAATTTCTG
66 TTCAATTTATG
125932582 TTTTT
1 TTTTT
125932587 CAAGTTCTGT
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
76 12 0.18
77 55 0.82
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (76 bp):
TTTTTTAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAATCACACGCTGACGTATT
TTCAATTTATG
Found at i:125932588 original size:14 final size:14
Alignment explanation
Indices: 125932569--125932603 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
125932559 CGCTGACGTA
*
125932569 TTTTCAATTTCTGT
1 TTTTCAAGTTCTGT
125932583 TTTTCAAGTTCTGT
1 TTTTCAAGTTCTGT
*
125932597 CTTTCAA
1 TTTTCAA
125932604 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (14 bp):
TTTTCAAGTTCTGT
Found at i:125934664 original size:17 final size:17
Alignment explanation
Indices: 125934631--125934683 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
125934621 CATATACTTT
*
125934631 TATATAT-TATGTGTATA
1 TATATATATAT-TTTATA
125934648 TATATATATATTTTATA
1 TATATATATATTTTATA
* *
125934665 CATGTATATACTTTTATA
1 TATATATATA-TTTTATA
125934683 T
1 T
125934684 CACCCTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 20 0.67
18 10 0.33
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.55
Consensus pattern (17 bp):
TATATATATATTTTATA
Found at i:125934682 original size:25 final size:23
Alignment explanation
Indices: 125934622--125934683 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
125934612 TATATATGCC
*
125934622 ATATACTTTTATATATTATGTGT
1 ATATACTTTTATATATTATATGT
* *
125934645 ATATA-TATATATATTTTATACATGT
1 ATATACT-TTTATATATTAT--ATGT
125934670 ATATACTTTTATAT
1 ATATACTTTTATAT
125934684 CACCCTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
22 1 0.03
23 15 0.48
25 14 0.45
26 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
ATATACTTTTATATATTATATGT
Found at i:125935221 original size:3 final size:3
Alignment explanation
Indices: 125935207--125935279 Score: 51
Period size: 3 Copynumber: 23.7 Consensus size: 3
125935197 ATTGCCCTTT
* * *
125935207 TTA TTA TCA TTA TTA -TA TTA TTA TTA TTT TTCA TGTA CATA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA -TTA TTA TTA
* *
125935253 TATA TTA TTT TTA TGA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TTA TT
125935280 GTATTTATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
2 3 0.06
3 45 0.83
4 5 0.09
5 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:125935276 original size:27 final size:27
Alignment explanation
Indices: 125935204--125935292 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 27
125935194 CATATTGCCC
* *
125935204 TTTTTATTATCATTATTATATTATTATTA
1 TTTTTATGATTATTATTAT-TTA-TATTA
*
125935233 TTTTTCATG--TACATATTATTTATATTA
1 TTTTT-ATGATTA-TTATTATTTATATTA
125935260 TTTTTATGATTATTATTATTGTAT-TTA
1 TTTTTATGATTATTATTATT-TATATTA
125935287 TTTTTA
1 TTTTTA
125935293 CCACTATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
26 3 0.06
27 26 0.51
28 9 0.18
29 11 0.22
30 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (27 bp):
TTTTTATGATTATTATTATTTATATTA
Found at i:125935300 original size:27 final size:26
Alignment explanation
Indices: 125935246--125935309 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
125935236 TTCATGTACA
** *
125935246 TATTATTTATATTATTTTTATGATTAT
1 TATTATTTAT-TTATTTTTACCACTAT
125935273 TATTATTGTATTTATTTTTACCACTAT
1 TATTATT-TATTTATTTTTACCACTAT
125935300 TA-TATTTATT
1 TATTATTTATT
125935310 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.12
26 4 0.12
27 22 0.67
28 3 0.09
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (26 bp):
TATTATTTATTTATTTTTACCACTAT
Found at i:125935352 original size:2 final size:2
Alignment explanation
Indices: 125935345--125935378 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
125935335 GTATTACACT
125935345 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125935379 GTAAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:125935788 original size:14 final size:14
Alignment explanation
Indices: 125935769--125935795 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
125935759 CATCATGTTT
125935769 TTTTAATACTATAC
1 TTTTAATACTATAC
125935783 TTTTAATACTATA
1 TTTTAATACTATA
125935796 TTATGTATAT
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:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTAATACTATAC
Found at i:125935876 original size:64 final size:58
Alignment explanation
Indices: 125935792--125935924 Score: 144
Period size: 64 Copynumber: 2.2 Consensus size: 58
125935782 CTTTTAATAC
* *
125935792 TATA-TTATGTATATATTTTTACAT-GTATTATGTACATATTTTCAATAACTATATCATATGTA
1 TATATTTATGTACATACTTTTA-ATAGTATTATGTACATATTTT---TAA-TATAT-ATATGTA
* **
125935854 TATATTTTATGTACATACTTTTAATATTATTATGTATTTATTTTTAATATATATATGTA
1 TATA-TTTATGTACATACTTTTAATAGTATTATGTACATATTTTTAATATATATATGTA
125935913 TATATTTATGTA
1 TATATTTATGTA
125935925 GTATTATTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
58 8 0.13
59 11 0.17
60 5 0.08
61 3 0.05
62 4 0.06
63 2 0.03
64 30 0.48
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (58 bp):
TATATTTATGTACATACTTTTAATAGTATTATGTACATATTTTTAATATATATATGTA
Found at i:125935919 original size:23 final size:23
Alignment explanation
Indices: 125935778--125935861 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
125935768 TTTTTAATAC
*
125935778 TATACTTTTAATACTATATTATGTA
1 TATATTTTTAATA-TATA-TATGTA
*
125935803 TATATTTTTACATGTAT-TATGTA
1 TATATTTTTA-ATATATATATGTA
*
125935826 CATATTTTCAATAACTATATCATATGTA
1 TATATTTT---TAA-TATAT-ATATGTA
125935854 TATATTTT
1 TATATTTT
125935862 ATGTACATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
23 13 0.28
25 13 0.28
26 8 0.17
28 13 0.28
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATTTTTAATATATATATGTA
Done.