Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002751.1 Hibiscus syriacus cultivar Beakdansim tig00005668_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 80728
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:3552 original size:20 final size:20
Alignment explanation
Indices: 3527--3568 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3517 CTTAAGATGT
3527 ATTTA-GGTACATAAAGTTGC
1 ATTTAGGGT-CATAAAGTTGC
*
3547 ATTTAGGGTCATATAGTTGC
1 ATTTAGGGTCATAAAGTTGC
3567 AT
1 AT
3569 GTAGTGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTTAGGGTCATAAAGTTGC
Found at i:7103 original size:23 final size:23
Alignment explanation
Indices: 7075--7119 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7065 AAATCCAACA
7075 AAGAAAATCAAAGCACTCAAAAG
1 AAGAAAATCAAAGCACTCAAAAG
* *
7098 AAGAAATTGAAAGCACTCAAAA
1 AAGAAAATCAAAGCACTCAAAA
7120 AGGAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.16, G:0.13, T:0.11
Consensus pattern (23 bp):
AAGAAAATCAAAGCACTCAAAAG
Found at i:9922 original size:11 final size:13
Alignment explanation
Indices: 9890--9919 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9880 TGGCCAAAGA
9890 TGAAAAGGTATGT
1 TGAAAAGGTATGT
9903 TGAAAAGGTATG-
1 TGAAAAGGTATGT
9915 TGAAA
1 TGAAA
9920 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:16777 original size:19 final size:18
Alignment explanation
Indices: 16753--16791 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
16743 GAATAATTTT
16753 ATCGAATATATAAT-TTAAA
1 ATCGAATA-A-AATCTTAAA
16772 ATCGAATAAAATCTTAAA
1 ATCGAATAAAATCTTAAA
16790 AT
1 AT
16792 TCAATAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 8 0.42
19 8 0.42
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (18 bp):
ATCGAATAAAATCTTAAA
Found at i:18633 original size:12 final size:13
Alignment explanation
Indices: 18616--18648 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18606 ATGGGCATAA
*
18616 TTTGAAAACTAT-
1 TTTGAAAACAATG
18628 TTTGAAAACAATG
1 TTTGAAAACAATG
18641 TTTGAAAA
1 TTTGAAAA
18649 ATCAGAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:22556 original size:19 final size:19
Alignment explanation
Indices: 22528--22564 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22518 CCTTTCCTTC
*
22528 AATATTTAAAAAATAAATA
1 AATATCTAAAAAATAAATA
*
22547 AATATCTAAAATATAAAT
1 AATATCTAAAAAATAAAT
22565 TAAACATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AATATCTAAAAAATAAATA
Found at i:24090 original size:14 final size:14
Alignment explanation
Indices: 24071--24144 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 14
24061 TTGGGCTTTG
*
24071 TAATATTTAATAAA
1 TAATATATAATAAA
24085 TAATATATAATAATTA
1 TAATATATAATAA--A
24101 TAATA-ATAATACTAA
1 TAATATATAATA--AA
*
24116 TAATA-ATAATTTTAA
1 TAATATATAA--TAAA
24131 TAATA-ATAATAAA
1 TAATATATAATAAA
24144 T
1 T
24145 TTAAATGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
13 4 0.08
14 12 0.24
15 27 0.53
16 6 0.12
17 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATATAATAAA
Found at i:24097 original size:3 final size:3
Alignment explanation
Indices: 24078--24142 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
24068 TTGTAATATT
* *
24078 TAA TAAA TAA TATA TAA TAA TTA TAA TAA TAA TAC TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
24125 TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
24143 ATTTAAATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:24147 original size:18 final size:18
Alignment explanation
Indices: 24113--24148 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24103 ATAATAATAC
*
24113 TAATAATAATAATTTTAA
1 TAATAATAATAAATTTAA
24131 TAATAATAATAAATTTAA
1 TAATAATAATAAATTTAA
24149 ATGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATAAATTTAA
Found at i:24441 original size:75 final size:75
Alignment explanation
Indices: 24270--25786 Score: 2754
Period size: 75 Copynumber: 20.2 Consensus size: 75
24260 GATGGAAATG
* * * *
24270 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATTAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
24335 CCTGAAGGCTT
65 CCCGAAGGCTT
24346 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
24411 CCGAAGGCTT
66 CCGAAGGCTT
24421 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
24486 CCGAAGGCTT
66 CCGAAGGCTT
24496 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
24561 CCGAAGGC-T
66 CCGAAGGCTT
24570 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
*
24635 CCAAAGGCTT
66 CCGAAGGCTT
* * * *
24645 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATTAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
24710 CCCGAAGGCTT
65 CCCGAAGGCTT
* * *
24721 TTTAGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
24786 CCGAAGGCTT
66 CCGAAGGCTT
24796 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATC-AAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
24860 CCGAAGGCTT
66 CCGAAGGCTT
24870 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
24935 CCTGAAGGC-T
65 CCCGAAGGCTT
24945 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25010 CCGAAGGCTT
66 CCGAAGGCTT
25020 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25085 CCGAAGGCTT
66 CCGAAGGCTT
25095 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
25159 CCTGAAGGCTT
65 CCCGAAGGCTT
*
25170 TTTCGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25235 CCGAAGGCTT
66 CCGAAGGCTT
25245 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
25310 CCTGAAGGCTT
65 CCCGAAGGCTT
25321 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
25386 CCTGAAGGCTT
65 CCCGAAGGCTT
25397 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25462 CCGAAGGCTT
66 CCGAAGGCTT
25472 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25537 CCGAAGGCTT
66 CCGAAGGCTT
25547 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
25612 CCTGAAGGCTT
65 CCCGAAGGCTT
25623 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25688 CCGAAGGCTT
66 CCGAAGGCTT
*
25698 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
25763 CCCGAAGGCTT
65 CCCGAAGGCTT
25774 TTTGGAAACATCA
1 TTTGGAAACATCA
25787 AAAAGCTCCC
Statistics
Matches: 1403, Mismatches: 28, Indels: 20
0.97 0.02 0.01
Matches are distributed among these distances:
74 170 0.12
75 832 0.59
76 401 0.29
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (75 bp):
TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
CCGAAGGCTT
Found at i:24547 original size:150 final size:151
Alignment explanation
Indices: 24270--25786 Score: 2764
Period size: 151 Copynumber: 10.1 Consensus size: 151
24260 GATGGAAATG
* * * *
24270 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATTAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
24335 CCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAAC
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAAC
24399 ATCAAAAAGCTCCCGAAGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
24421 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
24486 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
24550 TCAAAAAGCTCCCGAAGGC-T
131 TCAAAAAGCTCCCGAAGGCTT
24570 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
* * * *
24635 CCAAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
*
24700 TTAAAAAGCTCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
* * *
24721 TTTAGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
24786 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
24850 TC-AAAAGCTCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
24870 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
24935 CCTGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAAC
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAAC
24998 ATCAAAAAGCTCCCGAAGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
25020 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25085 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
*
25150 TC-AAAAGCTCCTGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
*
25170 TTTCGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25235 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
*
25300 TCAAAAAGCTCCTGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
25321 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCT
*
25386 CCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTG-AAAC
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAAC
25450 ATCAAAAAGCTCCCGAAGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
25472 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25537 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
*
25602 TCAAAAAGCTCCTGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
25623 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
25688 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
*
25753 TCAAAAAGATCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
25774 TTTGGAAACATCA
1 TTTGGAAACATCA
25787 AAAAGCTCCC
Statistics
Matches: 1325, Mismatches: 32, Indels: 18
0.96 0.02 0.01
Matches are distributed among these distances:
149 265 0.20
150 488 0.37
151 498 0.38
152 74 0.06
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (151 bp):
TTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGCTTTGAAAACA
TCAAAAAGCTCCCGAAGGCTT
Found at i:25786 original size:31 final size:31
Alignment explanation
Indices: 25734--25848 Score: 198
Period size: 31 Copynumber: 3.8 Consensus size: 31
25724 TTATAGATGA
* *
25734 CCCGAAGGC--TTTGAAAACATCAAAAAGAT
1 CCCGAAGGCTTTTTGGAAACATCAAAAAGCT
25763 CCCGAAGGCTTTTTGGAAACATCAAAAAGCT
1 CCCGAAGGCTTTTTGGAAACATCAAAAAGCT
25794 CCCGAAGGCTTTTTGGAAACATCAAAAAGCT
1 CCCGAAGGCTTTTTGGAAACATCAAAAAGCT
25825 CCCGAAGGCTTTTTGGAAACATCA
1 CCCGAAGGCTTTTTGGAAACATCA
25849 TGCACTGAAG
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 9 0.11
31 73 0.89
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (31 bp):
CCCGAAGGCTTTTTGGAAACATCAAAAAGCT
Found at i:25919 original size:138 final size:135
Alignment explanation
Indices: 25659--25924 Score: 496
Period size: 138 Copynumber: 1.9 Consensus size: 135
25649 TTATAGATGA
25659 CCCGAAGGCTTTGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
1 CCCGAAGGCTTTGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
25724 TTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCAAA
66 TTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCAAA
25789 AAGCT
131 AAGCT
25794 CCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
1 CCCGAAGGC--TTT-GAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
*
25859 GACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
63 GACTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATC
25924 A
128 A
25925 TGCACTGAAG
Statistics
Matches: 127, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
135 9 0.07
137 3 0.02
138 115 0.91
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (135 bp):
CCCGAAGGCTTTGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
TTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCAAA
AAGCT
Found at i:25922 original size:76 final size:77
Alignment explanation
Indices: 25794--25946 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 77
25784 TCAAAAAGCT
*
25794 CCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
1 CCCGAAGGC-TTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
*
25859 GACTTATAGATGA
65 GACTTACAGATGA
25872 CCCGAAGGC-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
1 CCCGAAGGCTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
*
25936 GCTTACAGATG
66 ACTTACAGATG
25947 TGAGAAATAG
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
76 63 0.88
78 9 0.12
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (77 bp):
CCCGAAGGCTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
ACTTACAGATGA
Found at i:29294 original size:83 final size:83
Alignment explanation
Indices: 29169--29387 Score: 402
Period size: 83 Copynumber: 2.6 Consensus size: 83
29159 GTTCCTACTG
*
29169 AACCAGATCAGATAACTCAAAGAACACTTCGAGAAGATGCTATGAGCACATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
29234 CAATGATTTGTTCTGCCA
66 CAATGATTTGTTCTGCCA
*
29252 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGTACATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
29317 CAATGATTTGTTCTGCCA
66 CAATGATTTGTTCTGCCA
*
29335 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGAGCACATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-GAGCACATT
29388 ACATTTGTTC
Statistics
Matches: 131, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 123 0.94
84 8 0.06
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
CAATGATTTGTTCTGCCA
Found at i:37039 original size:19 final size:19
Alignment explanation
Indices: 37011--37047 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37001 CCTTTCCTTC
*
37011 AATATTTAAAAAATAAATA
1 AATATCTAAAAAATAAATA
*
37030 AATATCTAAAATATAAAT
1 AATATCTAAAAAATAAAT
37048 TAAACATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AATATCTAAAAAATAAATA
Found at i:38587 original size:14 final size:14
Alignment explanation
Indices: 38568--38641 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 14
38558 TTGGGCTTTG
*
38568 TAATATTTAATAAA
1 TAATATATAATAAA
38582 TAATATATAATAATTA
1 TAATATATAATAA--A
38598 TAATA-ATAATACTAA
1 TAATATATAATA--AA
*
38613 TAATA-ATAATTTTAA
1 TAATATATAA--TAAA
38628 TAATA-ATAATAAA
1 TAATATATAATAAA
38641 T
1 T
38642 TTAAATGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
13 4 0.08
14 12 0.24
15 27 0.53
16 6 0.12
17 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATATAATAAA
Found at i:38594 original size:3 final size:3
Alignment explanation
Indices: 38575--38639 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
38565 TTGTAATATT
* *
38575 TAA TAAA TAA TATA TAA TAA TTA TAA TAA TAA TAC TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
38622 TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
38640 ATTTAAATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:38644 original size:18 final size:18
Alignment explanation
Indices: 38610--38645 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38600 ATAATAATAC
*
38610 TAATAATAATAATTTTAA
1 TAATAATAATAAATTTAA
38628 TAATAATAATAAATTTAA
1 TAATAATAATAAATTTAA
38646 ATGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATAAATTTAA
Found at i:42833 original size:11 final size:11
Alignment explanation
Indices: 42798--42859 Score: 89
Period size: 11 Copynumber: 6.1 Consensus size: 11
42788 GAACGCTGGA
42798 AACCGGTTTTG
1 AACCGGTTTTG
42809 -ACCGG-TTT-
1 AACCGGTTTTG
42817 AACCGGTTTTG
1 AACCGGTTTTG
42828 AACCGG-TTT-
1 AACCGGTTTTG
42837 AACCGGTTTTG
1 AACCGGTTTTG
42848 AACCGGTTTTG
1 AACCGGTTTTG
42859 A
1 A
42860 CTGGTTTGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
9 14 0.30
10 14 0.30
11 18 0.39
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:42834 original size:20 final size:20
Alignment explanation
Indices: 42798--42856 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
42788 GAACGCTGGA
42798 AACCGGTTTTG-ACCGGTTT
1 AACCGGTTTTGAACCGGTTT
42817 AACCGGTTTTGAACCGGTTT
1 AACCGGTTTTGAACCGGTTT
42837 AACCGGTTTTGAACCGGTTT
1 AACCGGTTTTGAACCGGTTT
42857 TGACTGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
19 11 0.28
20 28 0.72
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
AACCGGTTTTGAACCGGTTT
Found at i:42927 original size:18 final size:18
Alignment explanation
Indices: 42906--42940 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
42896 CCGACCCGTT
42906 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
42924 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
42941 GTTGACCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:42940 original size:13 final size:13
Alignment explanation
Indices: 42886--42929 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
42876 CGACCCGTTT
*
42886 ACCCGTTTACCCG
1 ACCCGTTGACCCG
42899 ACCCGTTGACCCG
1 ACCCGTTGACCCG
42912 ACCCGTTGACCCG
1 ACCCGTTGACCCG
42925 ACCCG
1 ACCCG
42930 ACCCGTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:42940 original size:26 final size:26
Alignment explanation
Indices: 42876--42947 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
42866 TGACCGGTCA
* *
42876 CGACCCGTTTACCCGTTTACCCGACC
1 CGACCCGTTGACCCGTTGACCCGACC
42902 CGTTGACCC---GACCCGTTGACCCGACC
1 C---GACCCGTTGACCCGTTGACCCGACC
42928 CGACCCGTTGA-CCGTTGACC
1 CGACCCGTTGACCCGTTGACC
42948 AGTGCTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
23 5 0.13
25 9 0.24
26 19 0.50
29 5 0.13
ACGTcount: A:0.15, C:0.44, G:0.21, T:0.19
Consensus pattern (26 bp):
CGACCCGTTGACCCGTTGACCCGACC
Found at i:43009 original size:29 final size:29
Alignment explanation
Indices: 42949--43014 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
42939 CCGTTGACCA
* *** *
42949 GTGCTATTATGGGAATTAATTCGGTTTTG
1 GTGCTATTATGAGAATTAATTCGAAATGG
42978 GTGCTATTATGAGAATTAATTCGAAATGG
1 GTGCTATTATGAGAATTAATTCGAAATGG
43007 GTGCTATT
1 GTGCTATT
43015 TTGGTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (29 bp):
GTGCTATTATGAGAATTAATTCGAAATGG
Found at i:43023 original size:29 final size:28
Alignment explanation
Indices: 42949--43023 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
42939 CCGTTGACCA
*** *
42949 GTGCTATTATGGGAATTAATTCGGTTTTG
1 GTGCTATTAT-GGAATTAATTCGAAATGG
42978 GTGCTATTATGAGAATTAATTCGAAATGG
1 GTGCTATTATG-GAATTAATTCGAAATGG
*
43007 GTGCTATTTTGGTAATT
1 GTGCTATTATGG-AATT
43024 TTTTAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 2 0.05
29 37 0.95
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (28 bp):
GTGCTATTATGGAATTAATTCGAAATGG
Found at i:50008 original size:10 final size:10
Alignment explanation
Indices: 49993--50022 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
49983 CGGAGGACGT
49993 CGCACGCGCC
1 CGCACGCGCC
50003 CGCACGCGCC
1 CGCACGCGCC
*
50013 CACACGCGCC
1 CGCACGCGCC
50023 GCCGCAGGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.13, C:0.60, G:0.27, T:0.00
Consensus pattern (10 bp):
CGCACGCGCC
Found at i:50062 original size:10 final size:10
Alignment explanation
Indices: 50047--50082 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
50037 AACGCTGGAA
50047 ACCGGTTTTG
1 ACCGGTTTTG
50057 ACCGGTTTTG
1 ACCGGTTTTG
50067 AACCGG-TTTG
1 -ACCGGTTTTG
50077 ACCGGT
1 ACCGGT
50083 CACGACCCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.21
10 14 0.58
11 5 0.21
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:50136 original size:18 final size:18
Alignment explanation
Indices: 50115--50149 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
50105 CCGACCCGTT
50115 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
50133 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
50150 GTTGACCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:50149 original size:13 final size:13
Alignment explanation
Indices: 50095--50138 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
50085 CGACCCGTTT
*
50095 ACCCGTTTACCCG
1 ACCCGTTGACCCG
50108 ACCCGTTGACCCG
1 ACCCGTTGACCCG
50121 ACCCGTTGACCCG
1 ACCCGTTGACCCG
50134 ACCCG
1 ACCCG
50139 ACCCGTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:50149 original size:26 final size:26
Alignment explanation
Indices: 50085--50156 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
50075 TGACCGGTCA
* *
50085 CGACCCGTTTACCCGTTTACCCGACC
1 CGACCCGTTGACCCGTTGACCCGACC
50111 CGTTGACCC---GACCCGTTGACCCGACC
1 C---GACCCGTTGACCCGTTGACCCGACC
50137 CGACCCGTTGA-CCGTTGACC
1 CGACCCGTTGACCCGTTGACC
50157 AGTGCTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
23 5 0.13
25 9 0.24
26 19 0.50
29 5 0.13
ACGTcount: A:0.15, C:0.44, G:0.21, T:0.19
Consensus pattern (26 bp):
CGACCCGTTGACCCGTTGACCCGACC
Found at i:50218 original size:29 final size:29
Alignment explanation
Indices: 50158--50223 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
50148 CCGTTGACCA
* *** *
50158 GTGCTATTATGGGAATTAATTCGGTTTTG
1 GTGCTATTATGAGAATTAATTCGAAATGG
50187 GTGCTATTATGAGAATTAATTCGAAATGG
1 GTGCTATTATGAGAATTAATTCGAAATGG
50216 GTGCTATT
1 GTGCTATT
50224 TTGGTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (29 bp):
GTGCTATTATGAGAATTAATTCGAAATGG
Found at i:50232 original size:29 final size:28
Alignment explanation
Indices: 50158--50232 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
50148 CCGTTGACCA
*** *
50158 GTGCTATTATGGGAATTAATTCGGTTTTG
1 GTGCTATTAT-GGAATTAATTCGAAATGG
50187 GTGCTATTATGAGAATTAATTCGAAATGG
1 GTGCTATTATG-GAATTAATTCGAAATGG
*
50216 GTGCTATTTTGGTAATT
1 GTGCTATTATGG-AATT
50233 TTTTAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 2 0.05
29 37 0.95
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (28 bp):
GTGCTATTATGGAATTAATTCGAAATGG
Found at i:50989 original size:24 final size:24
Alignment explanation
Indices: 50957--51025 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
50947 ATAGTTTATC
*
50957 TGATTTTTGACCTGGATTCTGATA
1 TGATATTTGACCTGGATTCTGATA
* * * *
50981 TGATATTTGATCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTGATA
* * *
51005 TGATACTTGACATGGACTCTG
1 TGATATTTGACCTGGATTCTG
51026 TTTTGTACTT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.45
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTGATA
Found at i:51946 original size:47 final size:45
Alignment explanation
Indices: 51876--52048 Score: 242
Period size: 47 Copynumber: 3.8 Consensus size: 45
51866 TATGAAATCT
* * *
51876 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTATCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCCATATA
51921 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCCATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTATCCATATA
*
51968 CTTGCCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCCATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTATCCATATA
* *
52015 CTTTCCA-TTATT-AATAAGCTCGTAAGCTTATTTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
52049 CATACTTACC
Statistics
Matches: 120, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
43 21 0.17
44 3 0.03
45 10 0.08
46 2 0.02
47 84 0.70
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCCATATA
Found at i:51963 original size:25 final size:25
Alignment explanation
Indices: 51935--52012 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
51925 CCATTTAAAT
51935 TCCATAAGCTCGTAAGCTTATTTTA
1 TCCATAAGCTCGTAAGCTTATTTTA
* *
51960 TCCATATA-CT--T--GC-CATTTAAA
1 TCCATA-AGCTCGTAAGCTTATTT-TA
51981 TTCCATAAGCTCGTAAGCTTATTTTA
1 -TCCATAAGCTCGTAAGCTTATTTTA
52007 TCCATA
1 TCCATA
52013 TACTTTCCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
20 4 0.10
21 4 0.10
22 8 0.20
23 1 0.03
24 1 0.03
25 14 0.35
26 4 0.10
27 4 0.10
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (25 bp):
TCCATAAGCTCGTAAGCTTATTTTA
Found at i:52074 original size:43 final size:45
Alignment explanation
Indices: 51876--52070 Score: 203
Period size: 47 Copynumber: 4.4 Consensus size: 45
51866 TATGAAATCT
* *
51876 CTTACCATTTAT-CCCATAAGCTCGTAAGCTTATTTTATCAAAATA
1 CTTACCATTTATAACCATAAGCTCGTAAGCTTATTTTATC-CAATA
51921 CTTACCATTTA-AATTCCATAAGCTCGTAAGCTTATTTTATCCATATA
1 CTTACCATTTATAA--CCATAAGCTCGTAAGCTTATTTTATCCA-ATA
*
51968 CTTGCCATTTA-AATTCCATAAGCTCGTAAGCTTATTTTATCCATATA
1 CTTACCATTTATAA--CCATAAGCTCGTAAGCTTATTTTATCCA-ATA
* *
52015 CTTTCCA-TTATTA--ATAAGCTCGTAAGCTTA-TTT-T-C-ATA
1 CTTACCATTTATAACCATAAGCTCGTAAGCTTATTTTATCCAATA
52053 CTTACCATTTATTAACCA
1 CTTACCATTTA-TAACCA
52071 ATAAACCGTA
Statistics
Matches: 134, Mismatches: 7, Indels: 21
0.83 0.04 0.13
Matches are distributed among these distances:
38 9 0.07
39 3 0.02
40 3 0.02
41 1 0.01
42 4 0.03
43 17 0.13
45 11 0.08
46 4 0.03
47 82 0.61
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATAACCATAAGCTCGTAAGCTTATTTTATCCAATA
Found at i:56006 original size:20 final size:20
Alignment explanation
Indices: 55981--56035 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
55971 AAGTTGGGTC
*
55981 TGTATCGATACATCCAAGAG
1 TGTATCGGTACATCCAAGAG
56001 TGTATCGGTACATCCAAGAG
1 TGTATCGGTACATCCAAGAG
56021 TGTATCGGTACATCC
1 TGTATCGGTACATCC
56036 CTTTGTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (20 bp):
TGTATCGGTACATCCAAGAG
Found at i:56238 original size:19 final size:19
Alignment explanation
Indices: 56195--56234 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
56185 CAAATAATTT
56195 AATCAAATATATAATTTAA
1 AATCAAATATATAATTTAA
56214 AATCAAATA-A-AATCTTAA
1 AATCAAATATATAAT-TTAA
56232 AAT
1 AAT
56235 TCAATAGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 8 0.40
19 9 0.45
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AATCAAATATATAATTTAA
Found at i:58197 original size:31 final size:31
Alignment explanation
Indices: 58162--58224 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
58152 TTATTTCGTT
* * *
58162 ACTAAATATTTTTTTATAACTTT-TTATTGTG
1 ACTAAATAATTTGTTACAA-TTTGTTATTGTG
58193 ACTAAATAATTTGTTACAATTTGTTATTGTG
1 ACTAAATAATTTGTTACAATTTGTTATTGTG
58224 A
1 A
58225 AAGAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (31 bp):
ACTAAATAATTTGTTACAATTTGTTATTGTG
Found at i:58483 original size:12 final size:12
Alignment explanation
Indices: 58466--58490 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58456 TTCATCCATT
58466 TATTTTTATTTA
1 TATTTTTATTTA
58478 TATTTTTATTTA
1 TATTTTTATTTA
58490 T
1 T
58491 GTTATTATTA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTATTTA
Found at i:58513 original size:16 final size:16
Alignment explanation
Indices: 58469--58518 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
58459 ATCCATTTAT
*
58469 TTTTATTTATATTTTTA
1 TTTTA-TTATATTATTA
58486 -TTTATGT-TATTATTA
1 TTTTAT-TATATTATTA
58501 TTTTATTATATTATTA
1 TTTTATTATATTATTA
58517 TT
1 TT
58519 AATAAATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 9 0.31
16 20 0.69
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTATTATATTATTA
Found at i:58514 original size:19 final size:20
Alignment explanation
Indices: 58481--58519 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
58471 TTATTTATAT
*
58481 TTTTATTTATGTTATTATTA
1 TTTTATTTATATTATTATTA
58501 TTTTA-TTATATTATTATTA
1 TTTTATTTATATTATTATTA
58520 ATAAATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTATTTATATTATTATTA
Found at i:58517 original size:11 final size:10
Alignment explanation
Indices: 58465--58519 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
58455 TTTCATCCAT
58465 TTAT-TTTTA
1 TTATATTTTA
58474 TTTATATTTTTA
1 -TTATA-TTTTA
*
58486 TT-TATGTTA
1 TTATATTTTA
58495 TTATTATTTTA
1 TTA-TATTTTA
58506 TTATATTATTA
1 TTATATT-TTA
58517 TTA
1 TTA
58520 ATAAATATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 6 0.16
10 10 0.26
11 17 0.45
12 5 0.13
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTATATTTTA
Found at i:58597 original size:17 final size:17
Alignment explanation
Indices: 58571--58610 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
58561 CAGTCCAGAT
*
58571 GACCCATTTACAAACCC
1 GACCCGTTTACAAACCC
*
58588 GACCCGTTTACAAGCCC
1 GACCCGTTTACAAACCC
*
58605 AACCCG
1 GACCCG
58611 GATCCAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.42, G:0.12, T:0.15
Consensus pattern (17 bp):
GACCCGTTTACAAACCC
Found at i:60396 original size:20 final size:22
Alignment explanation
Indices: 60371--60419 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
60361 CTGATATTTC
60371 TAAATA-AATAA-ATATTTTTA
1 TAAATATAATAATATATTTTTA
*
60391 TAAATATATTAATATATTTTCT-
1 TAAATATAATAATATATTTT-TA
60413 TAAATAT
1 TAAATAT
60420 TATATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 6 0.24
21 4 0.16
22 14 0.56
23 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATATAATAATATATTTTTA
Found at i:63285 original size:114 final size:114
Alignment explanation
Indices: 63076--63301 Score: 355
Period size: 114 Copynumber: 2.0 Consensus size: 114
63066 AAGTGCCATG
*
63076 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCCTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCCTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
63141 TGGTTTGGTATGAACCCCAAAACTATTCATTGGATTTGAAAGATGAATT
66 TGATTCGGTAGGAACCCCAAAACGATTCATTGGAATTGAAAGATGAATT
* *
63190 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCCTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
63255 TGATTCGGTAGGAACCCCAGAACCGA-TCATTGGAATTGAAAGATGAA
66 TGATTCGGTAGGAACCCCA-AAACGATTCATTGGAATTGAAAGATGAA
63302 CTGCATGATC
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 98 0.96
115 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCCTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTCGGTAGGAACCCCAAAACGATTCATTGGAATTGAAAGATGAATT
Found at i:65492 original size:50 final size:54
Alignment explanation
Indices: 65379--65517 Score: 171
Period size: 50 Copynumber: 2.6 Consensus size: 54
65369 ATAAGCCAAA
* * *
65379 AAAAGGATGAATGTATTGTCAAATGCTTTACGAACATCTGAGCAGAAGCCATAG
1 AAAAGGATGAATGTATTGTCAAATGTTTTACGAACATCTGAGCAGAAACCACAG
* * *
65433 AAAAGGATGAATGTGTTGTCAAGTGTTTTAC-ATC-TC-GA-CAGAAACCACAGG
1 AAAAGGATGAATGTATTGTCAAATGTTTTACGAACATCTGAGCAGAAACCACA-G
*
65484 AAAA-GATGAATGTATTGTCAAATGTTTTATGAAC
1 AAAAGGATGAATGTATTGTCAAATGTTTTACGAAC
65518 CAGTGATTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
50 32 0.44
51 9 0.12
52 2 0.03
53 2 0.03
54 28 0.38
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (54 bp):
AAAAGGATGAATGTATTGTCAAATGTTTTACGAACATCTGAGCAGAAACCACAG
Found at i:65908 original size:22 final size:22
Alignment explanation
Indices: 65882--65960 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
65872 ACATCTACAT
65882 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
65904 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* * *
65926 TTTTTAAAGATGACAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
65948 TTTTCAAAGATGA
1 TCTTCAAAGATGA
65961 AAGCTTTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:66608 original size:112 final size:112
Alignment explanation
Indices: 66397--66746 Score: 606
Period size: 112 Copynumber: 3.2 Consensus size: 112
66387 ATTTCCGGAA
*
66397 GAGTTCAAAATGAGAAGAACTCATCT---G-AAGAAG--AAGTTCATAATGAGAAGAATTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAGTTCATAATGAGAAGAATTTGTTC
66456 AACTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
66 AACTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
*
66503 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAACAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA-AAGTTCATAATGAGAAGAATTTGTT
66568 CAAC-TTTCGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
65 CAACTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
66615 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA-AAGTTCATAATGAGAAGAATTTGTT
*
66680 CAACTTTTCGCTCAAATTCATCATTCGATGGATCAGCATTGCCAGGTC
65 CAACTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
66728 GAGTTCATAATGAGAAGAA
1 GAGTTCATAATGAGAAGAA
66747 TTTGTTCAAC
Statistics
Matches: 231, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
106 25 0.11
109 1 0.00
110 6 0.03
112 110 0.48
113 89 0.39
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (112 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAGTTCATAATGAGAAGAATTTGTTC
AACTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGCCAGGTC
Found at i:66781 original size:73 final size:73
Alignment explanation
Indices: 66656--66819 Score: 310
Period size: 73 Copynumber: 2.2 Consensus size: 73
66646 AAGAAGAAGA
*
66656 AGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTCAAATTCATCATTCGATGGATCAGCATTG
1 AGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTG
66721 CCAGGTCG
66 CCAGGTCG
*
66729 AGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTCAAATTGATCACTCGATGGATCAGCATTG
1 AGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTG
66794 CCAGGTCG
66 CCAGGTCG
66802 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
66820 CTCATCTGAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 89 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (73 bp):
AGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGATCAGCATTG
CCAGGTCG
Found at i:66806 original size:186 final size:185
Alignment explanation
Indices: 66544--66888 Score: 663
Period size: 186 Copynumber: 1.9 Consensus size: 185
66534 AAGAAGAACA
66544 AGTTCATAATGAGAAGAACTTGTTCAACTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGC
1 AGTTCATAATGAGAAGAACTTGTTCAACTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGC
66609 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAA
66 CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAA
66674 TTTGTTCAACTTTTCGCTCAAATTCATCATTCGATGGATCAGCATTGCCAGGTCG
131 TTTGTTCAACTTTTCGCTCAAATTCATCATTCGATGGATCAGCATTGCCAGGTCG
* *
66729 AGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTCAAATTGATCACTCGATGGATCAGCATTG
1 AGTTCATAATGAGAAGAACTTGTTCAAC-TTTCGCTCAAATTCATCACTCGATGGATCAGCATTG
66794 CCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
65 CCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
66859 ATTTGTTCAACTTTTCGCTCAAATTCATCA
130 ATTTGTTCAACTTTTCGCTCAAATTCATCA
66889 AAAGTTGAAC
Statistics
Matches: 157, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
185 27 0.17
186 130 0.83
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (185 bp):
AGTTCATAATGAGAAGAACTTGTTCAACTTTCGCTCAAATTCATCACTCGATGGATCAGCATTGC
CAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAA
TTTGTTCAACTTTTCGCTCAAATTCATCATTCGATGGATCAGCATTGCCAGGTCG
Found at i:66968 original size:133 final size:132
Alignment explanation
Indices: 66765--67018 Score: 467
Period size: 130 Copynumber: 1.9 Consensus size: 132
66755 ACTTTTCGCT
*
66765 CAAATTGATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
1 CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
*
66830 GAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTCAAATTCATCAAAAGTT
66 GAAA-AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCAAAAGTT
66895 GAA
130 GAA
66898 CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAG-A-AACTCATCTGAA
1 CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
66961 GAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCA
66 GAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCA
67019 CTCGATGGAT
Statistics
Matches: 119, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
130 53 0.45
131 16 0.13
132 1 0.01
133 49 0.41
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (132 bp):
CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAA
GAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCAAAAGTTG
AA
Found at i:67112 original size:111 final size:110
Alignment explanation
Indices: 66898--67230 Score: 465
Period size: 111 Copynumber: 3.0 Consensus size: 110
66888 AAAAGTTGAA
*
66898 CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGA-AACTCATCTGAAG
1 CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAAAGAACTCATCTGAAG
* *
66962 AAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
66 AAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GCT
67008 CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAAAGAACTCATCTGAAG
1 CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAAAGAACTCATCTGAAG
*
67073 AAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGCGT
66 AAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGC-T
* * * * ****
67120 -GAATTCATCATTCGATGGATCAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
1 CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGA-AAGAACTCATCTGAA
* * *
67184 G-AGGATAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
65 GAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCT
67230 C
1 C
67231 GACTCTATCG
Statistics
Matches: 201, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
110 51 0.25
111 128 0.64
112 22 0.11
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (110 bp):
CAAATTCATCACTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAAAGAACTCATCTGAAG
AAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCT
Found at i:67582 original size:8 final size:7
Alignment explanation
Indices: 67563--67602 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
67553 TGTTCAACAT
67563 TAAAAAA
1 TAAAAAA
67570 TAAAAAA
1 TAAAAAA
67577 TAAAAAA
1 TAAAAAA
67584 TAAAAAA
1 TAAAAAA
*
67591 TTAAAAA
1 TAAAAAA
67598 -AAAAA
1 TAAAAA
67603 CTTATTATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.13
7 27 0.87
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:67712 original size:12 final size:12
Alignment explanation
Indices: 67695--67719 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67685 TTCATCCATT
67695 TATTTTTATTTA
1 TATTTTTATTTA
67707 TATTTTTATTTA
1 TATTTTTATTTA
67719 T
1 T
67720 GTTATTATTA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTATTTA
Found at i:67742 original size:16 final size:16
Alignment explanation
Indices: 67698--67747 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
67688 ATCCATTTAT
*
67698 TTTTATTTATATTTTTA
1 TTTTA-TTATATTATTA
67715 -TTTATGT-TATTATTA
1 TTTTAT-TATATTATTA
67730 TTTTATTATATTATTA
1 TTTTATTATATTATTA
67746 TT
1 TT
67748 AATAAATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 9 0.31
16 20 0.69
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTATTATATTATTA
Found at i:67743 original size:19 final size:20
Alignment explanation
Indices: 67710--67748 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
67700 TTATTTATAT
*
67710 TTTTATTTATGTTATTATTA
1 TTTTATTTATATTATTATTA
67730 TTTTA-TTATATTATTATTA
1 TTTTATTTATATTATTATTA
67749 ATAAATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTATTTATATTATTATTA
Found at i:67746 original size:11 final size:10
Alignment explanation
Indices: 67694--67748 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
67684 TTTCATCCAT
67694 TTAT-TTTTA
1 TTATATTTTA
67703 TTTATATTTTTA
1 -TTATA-TTTTA
*
67715 TT-TATGTTA
1 TTATATTTTA
67724 TTATTATTTTA
1 TTA-TATTTTA
67735 TTATATTATTA
1 TTATATT-TTA
67746 TTA
1 TTA
67749 ATAAATATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 6 0.16
10 10 0.26
11 17 0.45
12 5 0.13
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTATATTTTA
Found at i:70170 original size:20 final size:22
Alignment explanation
Indices: 70145--70184 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
70135 CTGATATTTC
70145 TAAATA-AATAA-ATATTTTTA
1 TAAATATAATAATATATTTTTA
*
70165 TAAATATATTAATATATTTT
1 TAAATATAATAATATATTTT
70185 CTTAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAATATAATAATATATTTTTA
Found at i:74565 original size:33 final size:33
Alignment explanation
Indices: 74523--74593 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
74513 AGCTTATAGT
*
74523 TACAAAACATGTCACTATATGATTTTGTTTTTG
1 TACAAAACATGTCACTATATGATTTTATTTTTG
74556 TACAAAACATGTCACTATATGATTTTATTTTTG
1 TACAAAACATGTCACTATATGATTTTATTTTTG
74589 TACAA
1 TACAA
74594 TAAAATTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (33 bp):
TACAAAACATGTCACTATATGATTTTATTTTTG
Found at i:78362 original size:30 final size:29
Alignment explanation
Indices: 78328--78392 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
78318 ATATAAACGG
78328 AATAATTTTTAAGTGTGTATATTAATACAA
1 AATAATTTTTAAGTGTGTATATT-ATACAA
* *
78358 AATAAATTTTAAGTGTGTATATTATACAG
1 AATAATTTTTAAGTGTGTATATTATACAA
78387 AATAAT
1 AATAAT
78393 ATTTCTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (29 bp):
AATAATTTTTAAGTGTGTATATTATACAA
Done.