Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006440.1 Hibiscus syriacus cultivar Beakdansim tig00015556_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: 287540
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:5196 original size:24 final size:24
Alignment explanation
Indices: 5156--5203 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5146 CGATTCCCCT
*
5156 AAAGGGGGAATTAGTTCCCATTCA
1 AAAGGGGGAATCAGTTCCCATTCA
* *
5180 AAAGGGGGAATCGGTTCCCCTTCA
1 AAAGGGGGAATCAGTTCCCATTCA
5204 TGGGGGTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (24 bp):
AAAGGGGGAATCAGTTCCCATTCA
Found at i:7615 original size:17 final size:18
Alignment explanation
Indices: 7588--7623 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
7578 TGATTTAACA
7588 AAAAGGGGGAGAAATGTT
1 AAAAGGGGGAGAAATGTT
7606 AAAA-GGGGAGAAATGTT
1 AAAAGGGGGAGAAATGTT
7623 A
1 A
7624 GAGTAAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.17
Consensus pattern (18 bp):
AAAAGGGGGAGAAATGTT
Found at i:8040 original size:21 final size:21
Alignment explanation
Indices: 8016--8068 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
8006 CTCGGAGGGA
8016 ACCGATTCCCCCCCAAGGGGT
1 ACCGATTCCCCCCCAAGGGGT
*
8037 ACCGATT-CCCCCCAAGGTGT
1 ACCGATTCCCCCCCAAGGGGT
*
8057 ACTGATTCCCCC
1 ACCGATTCCCCC
8069 TGTTTAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.19, C:0.43, G:0.19, T:0.19
Consensus pattern (21 bp):
ACCGATTCCCCCCCAAGGGGT
Found at i:14957 original size:45 final size:45
Alignment explanation
Indices: 14805--14958 Score: 197
Period size: 45 Copynumber: 3.5 Consensus size: 45
14795 GACTTTTAAC
** * *
14805 TATTGGGTTATCAAAAGTAAAATCAAAGGA-T--TTCCTTTTGAT
1 TATTGGGTTGCCAAAATTAAAATCAAACGATTAGTTCCTTTTGAT
* * *
14847 TATTGTGTTGCCAAAAATAAAATCAAATGATTAGTTCCTTTTGAT
1 TATTGGGTTGCCAAAATTAAAATCAAACGATTAGTTCCTTTTGAT
* *
14892 TATTGGGTTGCAAAAATTAAAATCAAACGATTAGTTCTTTTTGAT
1 TATTGGGTTGCCAAAATTAAAATCAAACGATTAGTTCCTTTTGAT
*
14937 TATTGGGTTGCCAAAGTTAAAA
1 TATTGGGTTGCCAAAATTAAAA
14959 GACTTATTCT
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
42 25 0.26
43 1 0.01
45 71 0.73
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (45 bp):
TATTGGGTTGCCAAAATTAAAATCAAACGATTAGTTCCTTTTGAT
Found at i:15193 original size:58 final size:58
Alignment explanation
Indices: 15117--15299 Score: 223
Period size: 58 Copynumber: 3.2 Consensus size: 58
15107 AATCTTGCGT
*
15117 TGATTTTAACTTTGTAAGGAAAAT-AATGTGATGAATTTATTTTCTTGAGAATCTTGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATGTG-TGAATTTATTTTCTTGAGAATCTTGAA
* * * *
15175 TGATTCTAATTTTATAAGGAAAATAAATCGTCG-G-ATTTATCTAT-TTGAGAATCTTAAA
1 TGATTCTAACTTTGTAAGGAAAATAAAT-GT-GTGAATTTAT-TTTCTTGAGAATCTTGAA
* *
15233 TGATTTTAACTTTGTAAGGAAAATAAAT-TGTCGAATTTATTTTCTTGAGAATCTTGGA
1 TGATTCTAACTTTGTAAGGAAAATAAATGTGT-GAATTTATTTTCTTGAGAATCTTGAA
15291 TGATTCTAA
1 TGATTCTAA
15300 TGTTTCTTAC
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
55 1 0.01
56 1 0.01
57 3 0.03
58 91 0.87
59 6 0.06
60 2 0.02
61 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAGGAAAATAAATGTGTGAATTTATTTTCTTGAGAATCTTGAA
Found at i:23571 original size:103 final size:103
Alignment explanation
Indices: 23392--23593 Score: 350
Period size: 103 Copynumber: 2.0 Consensus size: 103
23382 TTCTATAGCC
* * *
23392 TTCTTATCTCTTAAAAGTTTAAAGAGTTTTGTGGGTGGACCGTGTCTCACTCTAATTTTTTTATT
1 TTCTTATCTCTTAAAAGTTTAAAGAGTTTTGTAGGTGGACCGTGTCCCACTCTAATTTTTTAATT
*
23457 TTTTTATATAATTTTTAAAATATAATTTTAAAGGAGTT
66 TCTTTATATAATTTTTAAAATATAATTTTAAAGGAGTT
**
23495 TTCTTATCTCTTAAAAGTTTAAAGAGTTTTGTAGGTGGGTCGTGTCCCACTCTAATTTTTTAATT
1 TTCTTATCTCTTAAAAGTTTAAAGAGTTTTGTAGGTGGACCGTGTCCCACTCTAATTTTTTAATT
23560 TCTTTATATAATTTTTAAAATATAATTTTAAAGG
66 TCTTTATATAATTTTTAAAATATAATTTTAAAGG
23594 GATATTAATT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (103 bp):
TTCTTATCTCTTAAAAGTTTAAAGAGTTTTGTAGGTGGACCGTGTCCCACTCTAATTTTTTAATT
TCTTTATATAATTTTTAAAATATAATTTTAAAGGAGTT
Found at i:30629 original size:21 final size:21
Alignment explanation
Indices: 30603--30642 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30593 CAGAACCCCA
*
30603 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
30624 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
30643 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:48561 original size:14 final size:14
Alignment explanation
Indices: 48544--48589 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
48534 TGAAGAGAAA
48544 AGATCTTGTCAATG
1 AGATCTTGTCAATG
*
48558 AGATGC-T-TCAGACG
1 AGAT-CTTGTCA-ATG
48572 AGATCTTGTCAATG
1 AGATCTTGTCAATG
48586 AGAT
1 AGAT
48590 TCAACCTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 4 0.15
14 18 0.69
15 4 0.15
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (14 bp):
AGATCTTGTCAATG
Found at i:51512 original size:14 final size:15
Alignment explanation
Indices: 51493--51521 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51483 AGTTTGAACG
51493 TTTTGAATT-TTTTT
1 TTTTGAATTATTTTT
51507 TTTTGAATTATTTTT
1 TTTTGAATTATTTTT
51522 AAATGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTTGAATTATTTTT
Found at i:54817 original size:17 final size:19
Alignment explanation
Indices: 54769--54815 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
54759 TTTAAATGTT
54769 TTTATATATATTTCGATAC
1 TTTATATATATTTCGATAC
54788 TTTATATATATTTCGATAC
1 TTTATATATATTTCGATAC
54807 TTTATATAT
1 TTTATATAT
54816 TTAGTCTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (19 bp):
TTTATATATATTTCGATAC
Found at i:66999 original size:20 final size:19
Alignment explanation
Indices: 66957--67006 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
66947 TACATTTTTT
*
66957 GTATCGATACTCATGGGGA
1 GTATCGATACTCAGGGGGA
66976 GTATCGATAC-CAGGGGTAGA
1 GTATCGATACTCAGGGG--GA
*
66996 GTATCAATACT
1 GTATCGATACT
67007 TCCCATAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 11 0.42
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (19 bp):
GTATCGATACTCAGGGGGA
Found at i:70810 original size:16 final size:16
Alignment explanation
Indices: 70789--70826 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
70779 AAAAATTATT
70789 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
70805 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
70821 T-ATAAA
1 TAATAAA
70827 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:70997 original size:47 final size:47
Alignment explanation
Indices: 70946--71046 Score: 202
Period size: 47 Copynumber: 2.1 Consensus size: 47
70936 ATATAATGAT
70946 AATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTA
1 AATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTA
70993 AATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTA
1 AATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTA
71040 AATAATA
1 AATAATA
71047 ATAATATAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (47 bp):
AATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTA
Found at i:71083 original size:28 final size:25
Alignment explanation
Indices: 71014--71083 Score: 58
Period size: 24 Copynumber: 2.8 Consensus size: 25
71004 CAAAAGAGAA
* * *
71014 AAATATATTTATATACGTTAATAGT
1 AAATATATATATATATGATAATAGT
71039 AAATA-ATA-ATA-AT-ATAATAGTTAT
1 AAATATATATATATATGATAATAG---T
71063 AAATATATATATATATGATAA
1 AAATATATATATATATGATAA
71084 CTTTAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
21 6 0.17
22 1 0.03
23 3 0.09
24 8 0.23
25 8 0.23
26 3 0.09
27 2 0.06
28 4 0.11
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (25 bp):
AAATATATATATATATGATAATAGT
Found at i:71632 original size:35 final size:36
Alignment explanation
Indices: 71562--71661 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
71552 GTGCTTGTGG
* * *
71562 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
71599 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
71634 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
71662 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:72420 original size:106 final size:103
Alignment explanation
Indices: 72122--72845 Score: 669
Period size: 109 Copynumber: 6.9 Consensus size: 103
72112 ATATTGTTCT
* * * * * *
72122 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAAT-TGAAAAT-TTTGTTGACAA
* * * * *
72187 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTC
63 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * * * *
72228 CAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AA-CG-AAATCTTGTTGACAATCA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATTTTGTTGACAACCA
72290 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
*
72328 GAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTG-AAAAT-TTTGTTGACAA
72393 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
63 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * * ** *
72434 GAGTGGCACGATATCCTCCG-TCGTGGAGTT-AAAATCGCGGATGAAACTGAAAAGTTATTCGTT
1 GAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-TCTGAAATTGAAAA-TT-TT-GTT
72497 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
58 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * ** * * *
72543 GGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCAGCTCTGGAATTGGGAAATTGTTTGTTT
1 GAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATT--GAAAAT-TTTGTTG
* *
72607 ACAACCAGCCATCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTC
59 ACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * * **
72652 GAGTCCAATATCCTTCACTGTGAAGTTGAGATTGGCTCCGAAATT-----TCTTGTCGACAGTCA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATTTTGTTGACAACCA
* * * * *
72712 GCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
* * * * *
72750 GGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAATTATTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGAAAATT-TTGTTGACAAC
72815 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
64 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
72846 ACTCTAGCTA
Statistics
Matches: 513, Mismatches: 79, Indels: 53
0.80 0.12 0.08
Matches are distributed among these distances:
98 79 0.15
99 2 0.00
100 81 0.16
101 5 0.01
102 1 0.00
103 1 0.00
104 2 0.00
105 41 0.08
106 116 0.23
107 7 0.01
108 13 0.03
109 152 0.30
110 8 0.02
111 5 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (103 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATTTTGTTGACAACCA
GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
Found at i:73479 original size:65 final size:65
Alignment explanation
Indices: 73375--73555 Score: 290
Period size: 65 Copynumber: 2.8 Consensus size: 65
73365 GACAAAATTT
73375 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * *
73440 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTTAAGAGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
73505 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
73556 CTATCTCAAG
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
65 93 0.89
66 12 0.11
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:73546 original size:102 final size:100
Alignment explanation
Indices: 73440--73776 Score: 523
Period size: 102 Copynumber: 3.3 Consensus size: 100
73430 TCAATGTTTA
* * *
73440 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTTAAGAGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAG-GAAATGTTTTCAATGTTTA
73505 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
65 TGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAATTT
73542 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGCAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGG-AAATGTTTTCAATGTTTA
* * **
73607 TGTTTTAAGAGAAATTGTCTCAATGGAGACGGAATTT
65 TGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAATTT
* *
73644 TTTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAA-GGAAATGTTTTCAATGTTTA
*
73709 TGTTTCAAGAGAAACTGTCTCAAGGAGA-AAAAATT
65 TGTTTCAAGAGAAACTGTCTCAAGGAGACAAAATTT
*
73744 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAA
73777 GTTTGTTTTA
Statistics
Matches: 216, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
100 35 0.16
101 6 0.03
102 173 0.80
103 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (100 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGAAATGTTTTCAATGTTTAT
GTTTCAAGAGAAACTGTCTCAAGGAGACAAAATTT
Found at i:73790 original size:36 final size:36
Alignment explanation
Indices: 73709--73811 Score: 163
Period size: 36 Copynumber: 2.9 Consensus size: 36
73699 TCAATGTTTA
* *
73709 TGTTTCAAGAGAAACTGTCTCAAG-GAGAAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
73744 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
73780 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
73812 TGGTGAGCAC
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 23 0.37
36 40 0.63
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:74696 original size:22 final size:22
Alignment explanation
Indices: 74671--74721 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
74661 TTGTGTTTGG
74671 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
74693 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
74715 TCAAAGG
1 TCAAAGG
74722 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:75356 original size:20 final size:21
Alignment explanation
Indices: 75331--75377 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
75321 TTTTGTCCCT
*
75331 TTTTTTATTTTTGTTATTT-C
1 TTTTTTATTCTTGTTATTTCC
* *
75351 TTTTTTGTTCTTGTTTTTTCC
1 TTTTTTATTCTTGTTATTTCC
75372 TTTTTT
1 TTTTTT
75378 GCTTCTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.04, C:0.09, G:0.06, T:0.81
Consensus pattern (21 bp):
TTTTTTATTCTTGTTATTTCC
Found at i:75401 original size:22 final size:22
Alignment explanation
Indices: 75347--75399 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
75337 ATTTTTGTTA
75347 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
* *
75368 TTCCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGT-TTT
75391 TTTCTTTTT
1 TTTCTTTTT
75400 GCCCTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:80229 original size:21 final size:20
Alignment explanation
Indices: 80197--80236 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
80187 ATAATAAATA
*
80197 TAATAACGAAAAAAATAATT
1 TAATAAAGAAAAAAATAATT
*
80217 TAATAAAGTAAAATAATAAT
1 TAATAAAG-AAAAAAATAAT
80237 AATGTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
TAATAAAGAAAAAAATAATT
Found at i:80238 original size:16 final size:16
Alignment explanation
Indices: 80217--80254 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
80207 AAAAATAATT
80217 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
80233 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
80249 T-ATAAA
1 TAATAAA
80255 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:80433 original size:51 final size:51
Alignment explanation
Indices: 80376--80486 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
80366 ACATATAATG
* *
80376 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
1 ATAATAATAGTACCAAAAGAGAAAAATATATTTATACACGTTAATAGTAAA
80427 ATAATAATAGTACCAAAAGAGAAAAATATATTTATACACGTTAATAGTAAA
1 ATAATAATAGTACCAAAAGAGAAAAATATATTTATACACGTTAATAGTAAA
80478 ATAATAATA
1 ATAATAATA
80487 AATATAATAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (51 bp):
ATAATAATAGTACCAAAAGAGAAAAATATATTTATACACGTTAATAGTAAA
Found at i:81072 original size:35 final size:37
Alignment explanation
Indices: 80997--81096 Score: 116
Period size: 35 Copynumber: 2.8 Consensus size: 37
80987 GTGCTTGTGG
* * * * *
80997 ATCCTATCTTTAG-GAGTTTAAAACATAGAAAAATTCT
1 ATCCTAT-TTTAGAGAGTTTGAATCCTAGCAGAATTCT
81034 ATCCTATTTTAG-GAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGAGAGTTTGAATCCTAGCAGAATTCT
*
81069 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAGAGAGTTTGAATCCTAG
81097 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.47
36 11 0.20
37 18 0.33
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (37 bp):
ATCCTATTTTAGAGAGTTTGAATCCTAGCAGAATTCT
Found at i:84749 original size:10 final size:10
Alignment explanation
Indices: 84734--84758 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
84724 CAAATATAAC
84734 CTAAATGCAA
1 CTAAATGCAA
84744 CTAAATGCAA
1 CTAAATGCAA
84754 CTAAA
1 CTAAA
84759 ATGTTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:105752 original size:33 final size:33
Alignment explanation
Indices: 105714--105777 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
105704 AGGAAAGTTT
* *
105714 GTATGTGACTTTCCAGATGCTTTAGTCTCTCGC
1 GTATGTGACTTTCCAGACGCTATAGTCTCTCGC
105747 GTATGTGACTTTCCAGACGCTATAGTCTCTC
1 GTATGTGACTTTCCAGACGCTATAGTCTCTC
105778 ACGCATCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (33 bp):
GTATGTGACTTTCCAGACGCTATAGTCTCTCGC
Found at i:113556 original size:54 final size:54
Alignment explanation
Indices: 113461--113703 Score: 296
Period size: 54 Copynumber: 4.5 Consensus size: 54
113451 GAGTCACTGT
* * **
113461 ATGAATTTCGT-GGTT-CACACATATAGTGCCTACACAATTGTTCATCAACATATG
1 ATGAATTTCGTGGGTTGCACAC-T-TAGTACCTATACGGTTGTTCATCAACATATG
* * *
113515 ATGAA-TTCTGTGGGTTGCACACTTAGTTCCTATACGGTTGTTCATCAATATATA
1 ATGAATTTC-GTGGGTTGCACACTTAGTACCTATACGGTTGTTCATCAACATATG
* * *
113569 ATGAATTTCGTGGGCTGCACACTTAGTGCCTATATGGTTGTTCATCAACATATG
1 ATGAATTTCGTGGGTTGCACACTTAGTACCTATACGGTTGTTCATCAACATATG
* *
113623 ATGAA-TTCTGTGGGTTGCACACTTAGTACGTATACGATTGTTCATCAACATATG
1 ATGAATTTC-GTGGGTTGCACACTTAGTACCTATACGGTTGTTCATCAACATATG
* *
113677 ATGTATTTCGTGGGTTGCACTCTTAGT
1 ATGAATTTCGTGGGTTGCACACTTAGT
113704 GCATATAGTA
Statistics
Matches: 165, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
53 6 0.04
54 143 0.87
55 11 0.07
56 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (54 bp):
ATGAATTTCGTGGGTTGCACACTTAGTACCTATACGGTTGTTCATCAACATATG
Found at i:113657 original size:108 final size:108
Alignment explanation
Indices: 113498--113710 Score: 345
Period size: 108 Copynumber: 2.0 Consensus size: 108
113488 GCCTACACAA
* *
113498 TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTTCCTATACGGTTGTTCATCAA
1 TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTACCTATACGATTGTTCATCAA
* *
113563 TATATAATGAATTTCGTGGGCTGCACACTTAGTGCCTATATGG
66 CATATAATGAATTTCGTGGGCTGCACACTTAGTGCATATATGG
*
113606 TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTACGTATACGATTGTTCATCAA
1 TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTACCTATACGATTGTTCATCAA
* * * *
113671 CATATGATGTATTTCGTGGGTTGCACTCTTAGTGCATATA
66 CATATAATGAATTTCGTGGGCTGCACACTTAGTGCATATA
113711 GTACACATAG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 96 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (108 bp):
TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTACCTATACGATTGTTCATCAA
CATATAATGAATTTCGTGGGCTGCACACTTAGTGCATATATGG
Found at i:120245 original size:54 final size:54
Alignment explanation
Indices: 120156--120627 Score: 536
Period size: 54 Copynumber: 8.8 Consensus size: 54
120146 GTAGTGCATA
* *
120156 AACATATTATGAATTAT-GT-GGTT-CACACATATAGTGTCTATAAGGTTGTTCATC
1 AACATATGATGAATT-TCGTGGGTTGCACAC-T-TAGTGCCTATAAGGTTGTTCATC
* ** *
120210 AACATATGATGAATTTCGTGGGTTGCACACTTAGTGTCTATTTGGTTGTTCGTC
1 AACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATAAGGTTGTTCATC
* *
120264 AACATATGATGAATTAT-GTGGGTTGCACACTTAGTACCTATACGGTTGTTCATC
1 AACATATGATGAATT-TCGTGGGTTGCACACTTAGTGCCTATAAGGTTGTTCATC
* * * *
120318 AACATATGATGAATTACGTGGGTT-AAAACTTAGTGCTTATACA-GTTGTTCATC
1 AACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATA-AGGTTGTTCATC
* *** *
120371 AACATATGATGAATTTCATGCACTGCACACTTAGTGCC-ATACGGTTGTTCATC
1 AACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATAAGGTTGTTCATC
* * *
120424 AACATATGATGGA-TTCTGTGGGATGTACACTTAGTGCCTATACA-GTTGTTCATC
1 AACATATGATGAATTTC-GTGGGTTGCACACTTAGTGCCTATA-AGGTTGTTCATC
*
120478 AACATATGATGAATTTTGTGGGTTGCACACTTAGTGCCTATACA-GTTGTTCATC
1 AACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATA-AGGTTGTTCATC
* * *
120532 AACATAAGGA-GAATCAT-GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATC
1 AACAT-ATGATGAAT-TTCGTGGGTTGCACACTTAGTGCCTATAAGGTTGTTCATC
* *
120586 AATATATGATGAATTTCGTGGGTTGCACACTTAGTGCTTATA
1 AACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATA
120628 GTACACATAG
Statistics
Matches: 359, Mismatches: 42, Indels: 34
0.83 0.10 0.08
Matches are distributed among these distances:
52 3 0.01
53 88 0.25
54 251 0.70
55 12 0.03
56 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (54 bp):
AACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATAAGGTTGTTCATC
Found at i:121774 original size:8 final size:8
Alignment explanation
Indices: 121761--121787 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
121751 CAAAATAATC
121761 CTTTCATT
1 CTTTCATT
121769 CTTTCATT
1 CTTTCATT
121777 CTTTCATT
1 CTTTCATT
121785 CTT
1 CTT
121788 ATAAATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (8 bp):
CTTTCATT
Found at i:123003 original size:25 final size:25
Alignment explanation
Indices: 122974--123064 Score: 84
Period size: 26 Copynumber: 3.7 Consensus size: 25
122964 TATTTTTTTT
122974 ATTTTGTTTAAAAAAATATTATTGA
1 ATTTTGTTTAAAAAAATATTATTGA
* *
122999 ATTTTTTTTTAAATATAAT-TT-TTG-
1 A-TTTTGTTTAAA-AAAATATTATTGA
*
123023 ATTTTGTTT-AAAAAATATTATTTAA
1 ATTTTGTTTAAAAAAATATTA-TTGA
123048 ATTATT-TTTAAAAAAAT
1 ATT-TTGTTTAAAAAAAT
123065 CTTAACGTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
21 4 0.08
22 4 0.08
23 7 0.13
24 3 0.06
25 10 0.19
26 21 0.40
27 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
ATTTTGTTTAAAAAAATATTATTGA
Found at i:126406 original size:17 final size:18
Alignment explanation
Indices: 126384--126421 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
126374 CGGATTCAAA
126384 TTCAGGTTCGGGTGT-GG
1 TTCAGGTTCGGGTGTAGG
*
126401 TTCAGGTTTGGGTGTAGG
1 TTCAGGTTCGGGTGTAGG
126419 TTC
1 TTC
126422 GGGTGTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.08, C:0.11, G:0.42, T:0.39
Consensus pattern (18 bp):
TTCAGGTTCGGGTGTAGG
Found at i:126430 original size:18 final size:17
Alignment explanation
Indices: 126384--126431 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
126374 CGGATTCAAA
126384 TTCAGGT-TCGGGTGTGG
1 TTCAGGTGT-GGGTGTGG
*
126401 TTCAGGTTTGGGTGTAGG
1 TTCAGGTGTGGGTGT-GG
*
126419 TTCGGGTGTGGGT
1 TTCAGGTGTGGGT
126432 TTGGGTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.06, C:0.08, G:0.48, T:0.38
Consensus pattern (17 bp):
TTCAGGTGTGGGTGTGG
Found at i:126436 original size:6 final size:6
Alignment explanation
Indices: 126405--126474 Score: 86
Period size: 6 Copynumber: 11.7 Consensus size: 6
126395 GTGTGGTTCA
* * * * *
126405 GGTTTG GGTGTA GGTTCG GGTGTG GGTTTG GGTTTG GGTTTG GGTATG
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG
*
126453 GGTCTG GGTTTG GGTTTG GGTT
1 GGTTTG GGTTTG GGTTTG GGTT
126475 CGAGGTTGAG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.03, C:0.03, G:0.51, T:0.43
Consensus pattern (6 bp):
GGTTTG
Found at i:126438 original size:18 final size:18
Alignment explanation
Indices: 126399--126481 Score: 87
Period size: 18 Copynumber: 4.6 Consensus size: 18
126389 GTTCGGGTGT
* * *
126399 GGTTCAGGTTTGGGTGTA
1 GGTTCGGGTTTGGGTTTG
*
126417 GGTTCGGGTGTGGGTTTG
1 GGTTCGGGTTTGGGTTTG
* *
126435 GGTTTGGGTTTGGGTATG
1 GGTTCGGGTTTGGGTTTG
126453 GG-TCTGGGTTTGGGTTTG
1 GGTTC-GGGTTTGGGTTTG
126471 GGTTCGAGGTT
1 GGTTCG-GGTT
126482 GAGGTTGAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
17 1 0.02
18 46 0.87
19 6 0.11
ACGTcount: A:0.05, C:0.05, G:0.49, T:0.41
Consensus pattern (18 bp):
GGTTCGGGTTTGGGTTTG
Found at i:126887 original size:23 final size:21
Alignment explanation
Indices: 126852--126896 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
126842 TTTGGGATTT
* *
126852 GGTTTTTTGAAGATCAAATGAA
1 GGTTTTTTAAAGAAC-AATGAA
126874 GGTTTTTTCAAAGAACAATGAA
1 GGTTTTTT-AAAGAACAATGAA
126896 G
1 G
126897 AACACGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (21 bp):
GGTTTTTTAAAGAACAATGAA
Found at i:127248 original size:34 final size:35
Alignment explanation
Indices: 127200--127270 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 35
127190 TTAATAAACT
*
127200 ATTTATAATTAATATTAATAT-AATATAGTTTATA
1 ATTTATAATTAATATTAATATAAATATAGTCTATA
*
127234 ATTTGTAATTAATATTAATATAAAATATAGTCTATA
1 ATTTATAATTAATATTAATAT-AAATATAGTCTATA
127270 A
1 A
127271 AATTGATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 20 0.61
36 13 0.39
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (35 bp):
ATTTATAATTAATATTAATATAAATATAGTCTATA
Found at i:127283 original size:31 final size:31
Alignment explanation
Indices: 127240--127302 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
127230 TATAATTTGT
127240 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAAATATAGTCTATAA
* * * *
127271 AATTGATATTAATATAAACTATATTTTATAA
1 AATTAATATTAATATAAAATATAGTCTATAA
127302 A
1 A
127303 TTATATAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (31 bp):
AATTAATATTAATATAAAATATAGTCTATAA
Found at i:127320 original size:14 final size:14
Alignment explanation
Indices: 127305--127427 Score: 52
Period size: 14 Copynumber: 8.4 Consensus size: 14
127295 TTTATAAATT
* *
127305 ATATAGTATAGTTT
1 ATATACTATAGTTA
*
127319 ATAAACTATAGTTA
1 ATATACTATAGTTA
*
127333 ATATAATTTATA-TTA
1 ATAT-A-CTATAGTTA
* *
127348 ATATAGTATATGGTTT
1 ATATACTATA--GTTA
*
127364 ATAGACTATAGTTA
1 ATATACTATAGTTA
*
127378 ATATAATTTATA-TTA
1 ATAT-A-CTATAGTTA
* *
127393 ATATAGTATATGGTTT
1 ATATACTATA--GTTA
* *
127409 ATAGACTATAATTA
1 ATATACTATAGTTA
127423 ATATA
1 ATATA
127428 ATACTATATA
Statistics
Matches: 80, Mismatches: 19, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
13 8 0.10
14 28 0.35
15 16 0.20
16 28 0.35
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (14 bp):
ATATACTATAGTTA
Found at i:127364 original size:22 final size:22
Alignment explanation
Indices: 127339--127411 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
127329 GTTAATATAA
127339 TTTATATTAATATAGTATATGG
1 TTTATATTAATATAGTATATGG
* * **
127361 TTTATA-GACTATAGTTAATATAA
1 TTTATATTAATATAG-T-ATATGG
127384 TTTATATTAATATAGTATATGG
1 TTTATATTAATATAGTATATGG
127406 TTTATA
1 TTTATA
127412 GACTATAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
21 6 0.15
22 17 0.43
23 11 0.28
24 6 0.15
ACGTcount: A:0.38, C:0.01, G:0.11, T:0.49
Consensus pattern (22 bp):
TTTATATTAATATAGTATATGG
Found at i:127372 original size:45 final size:45
Alignment explanation
Indices: 127305--127429 Score: 218
Period size: 45 Copynumber: 2.8 Consensus size: 45
127295 TTTATAAATT
*
127305 ATATAGTATA--GTTTATAAACTATAGTTAATATAATTTATATTA
1 ATATAGTATATGGTTTATAGACTATAGTTAATATAATTTATATTA
127348 ATATAGTATATGGTTTATAGACTATAGTTAATATAATTTATATTA
1 ATATAGTATATGGTTTATAGACTATAGTTAATATAATTTATATTA
*
127393 ATATAGTATATGGTTTATAGACTATAATTAATATAAT
1 ATATAGTATATGGTTTATAGACTATAGTTAATATAAT
127430 ACTATATAGT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
43 10 0.13
45 68 0.87
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (45 bp):
ATATAGTATATGGTTTATAGACTATAGTTAATATAATTTATATTA
Found at i:127485 original size:20 final size:20
Alignment explanation
Indices: 127462--127502 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
127452 ACGTATTATG
* *
127462 CTATATATAGTTTATATATA
1 CTATACATAGTTTATACATA
127482 CTATACATAGTTTATACATA
1 CTATACATAGTTTATACATA
127502 C
1 C
127503 ATGTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (20 bp):
CTATACATAGTTTATACATA
Found at i:127528 original size:35 final size:36
Alignment explanation
Indices: 127488--127561 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
127478 TATACTATAC
*
127488 ATAGTTT-ATACATACATGTACTATAAGTTACATAT
1 ATAGTTTAATACATACATATACTATAAGTTACATAT
** *
127523 ATAGTTTACATGTATACATATACTATAGGTTACATAT
1 ATAGTTTA-ATACATACATATACTATAAGTTACATAT
127560 AT
1 AT
127562 TAACTATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 7 0.21
37 26 0.79
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (36 bp):
ATAGTTTAATACATACATATACTATAAGTTACATAT
Found at i:127764 original size:2 final size:2
Alignment explanation
Indices: 127757--127928 Score: 114
Period size: 2 Copynumber: 89.0 Consensus size: 2
127747 TTCTATAAAC
127757 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
127799 TA TA TA TA TA -A TC TA TA GA T- TA CT- TG TA T- TA GT- TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA
* * *
127838 TA CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA -A TT TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
127877 AA T- TA TA TA CTT TA TA TA GTT TA TA CA TA TA TA -A TT TA TA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
127919 TA TA TA TA TA
1 TA TA TA TA TA
127929 AATTATAGTT
Statistics
Matches: 131, Mismatches: 23, Indels: 32
0.70 0.12 0.17
Matches are distributed among these distances:
1 11 0.08
2 114 0.87
3 6 0.05
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:127905 original size:66 final size:66
Alignment explanation
Indices: 127774--127991 Score: 216
Period size: 66 Copynumber: 3.3 Consensus size: 66
127764 ATATATATAT
* * *
127774 ATATATATATATATATATATATATATATATATATAATCTATAGATTACTTGTAT-TAG-TTATAC
1 ATATATATATATATATATAAAT-TATA-ATTTATAA-C-ATATA-TACTT-TATATAGTTTATAC
127837 ATACAT-
60 ATACATA
127843 ATATATACTATAT-TAATATAAATTATAATTTATAA-ATTATATACTTTATATAGTTTATACATA
1 ATATATA-TATATAT-ATATAAATTATAATTTATAACA-TATATACTTTATATAGTTTATACATA
*
127906 TATA
63 CATA
* * * *
127910 ATTTATATATATATATATAAATTATAGTTTATAACATATATACTTTTTATAGTTTATA-ATATA-
1 ATATATATATATATATATAAATTATAATTTATAACATATATACTTTATATAGTTTATACATACAT
127973 A
66 A
*
127974 ATATAGTTTATATATATA
1 ATATA-TATATATATATA
127992 GTTCATACAA
Statistics
Matches: 131, Mismatches: 9, Indels: 22
0.81 0.06 0.14
Matches are distributed among these distances:
64 8 0.06
65 25 0.19
66 59 0.45
67 8 0.06
68 7 0.05
69 12 0.09
70 12 0.09
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (66 bp):
ATATATATATATATATATAAATTATAATTTATAACATATATACTTTATATAGTTTATACATACAT
A
Found at i:127909 original size:15 final size:15
Alignment explanation
Indices: 127889--127951 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
127879 TTATATACTT
127889 TATATAGTTTATACA
1 TATATAGTTTATACA
*
127904 TATATAATTTAT--A
1 TATATAGTTTATACA
* *
127917 TATATA-TATATAAA
1 TATATAGTTTATACA
127931 T-TATAGTTTATAACA
1 TATATAGTTTAT-ACA
127946 TATATA
1 TATATA
127952 CTTTTTATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 4 0.10
13 11 0.28
14 6 0.15
15 14 0.36
16 4 0.10
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:127916 original size:9 final size:9
Alignment explanation
Indices: 127866--127935 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
127856 TAATATAAAT
127866 TATAATTTA
1 TATAATTTA
127875 TA-AA-TTA
1 TATAATTTA
*
127882 TATACTTTA
1 TATAATTTA
*
127891 TATAGTTTA
1 TATAATTTA
*
127900 TA-CA--TA
1 TATAATTTA
127906 TATAATTTA
1 TATAATTTA
*
127915 TATATATATA
1 TATA-ATTTA
*
127925 TATAAATTA
1 TATAATTTA
127934 TA
1 TA
127936 GTTTATAACA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
6 4 0.09
7 6 0.13
8 3 0.06
9 26 0.55
10 8 0.17
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (9 bp):
TATAATTTA
Found at i:127919 original size:13 final size:14
Alignment explanation
Indices: 127889--128049 Score: 50
Period size: 13 Copynumber: 11.3 Consensus size: 14
127879 TTATATACTT
*
127889 TATATAGTTTATACA
1 TATATAATTTATA-A
127904 TATATAATTTAT-A
1 TATATAATTTATAA
*
127917 TATAT-ATATATAA
1 TATATAATTTATAA
*
127930 -ATTATAGTTTATAACA
1 TA-TATAATTTAT-A-A
* *
127946 TATATACTTTTTATAG
1 TATATA--ATTTATAA
*
127962 TTTATAA--TATAA
1 TATATAATTTATAA
*
127974 -ATATAGTTTAT-A
1 TATATAATTTATAA
* *
127986 TATATAGTTCATACA
1 TATATAATTTATA-A
* *
128001 AACATAATTTAT-A
1 TATATAATTTATAA
*
128014 TATATAGCTTATAATAA
1 TATATA-ATT-T-ATAA
*
128031 TTATATAGTTTATAA
1 -TATATAATTTATAA
128046 TATA
1 TATA
128050 AATATAGTTT
Statistics
Matches: 108, Mismatches: 20, Indels: 37
0.65 0.12 0.22
Matches are distributed among these distances:
11 4 0.04
12 11 0.10
13 28 0.26
14 10 0.09
15 26 0.24
16 13 0.12
17 5 0.05
18 11 0.10
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (14 bp):
TATATAATTTATAA
Found at i:127948 original size:25 final size:25
Alignment explanation
Indices: 127906--127978 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
127896 TTTATACATA
*
127906 TATAATTTATATATATATATATAAAT
1 TATAGTTTATA-ATATATATATAAAT
* **
127932 TATAGTTTATAACATATATACT-TTT
1 TATAGTTTATAATATATATA-TAAAT
*
127957 TATAGTTTATAATATAAATATA
1 TATAGTTTATAATATATATATA
127979 GTTTATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 27 0.69
26 11 0.28
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (25 bp):
TATAGTTTATAATATATATATAAAT
Found at i:127978 original size:18 final size:18
Alignment explanation
Indices: 127957--128066 Score: 78
Period size: 18 Copynumber: 5.8 Consensus size: 18
127947 ATATACTTTT
127957 TATAGTTTATAATATAAA
1 TATAGTTTATAATATAAA
**
127975 TATAGTTTATATATATAGT
1 TATAGTTTATA-ATATAAA
**** *
127994 TCATACAAACATAATTTATATA
1 T-ATA-GTTTATAA--TATAAA
* *
128016 TATAGCTTATAATA-ATTA
1 TATAGTTTATAATATA-AA
128034 TATAGTTTATAATATAAA
1 TATAGTTTATAATATAAA
128052 TATAGTTTATAATAT
1 TATAGTTTATAATAT
128067 GGACATAGTA
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
17 1 0.01
18 44 0.62
19 7 0.10
20 8 0.11
21 6 0.08
22 5 0.07
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (18 bp):
TATAGTTTATAATATAAA
Found at i:128074 original size:18 final size:18
Alignment explanation
Indices: 128035--128086 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
128025 TAATAATTAT
*
128035 ATAGTTTATAATATAAAT
1 ATAGTTTATAATATAAAC
**
128053 ATAGTTTATAATATGGAC
1 ATAGTTTATAATATAAAC
*
128071 ATAGTATATATATATA
1 ATAGTTTATA-ATATA
128087 GTATAGTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (18 bp):
ATAGTTTATAATATAAAC
Found at i:128269 original size:13 final size:14
Alignment explanation
Indices: 128195--128270 Score: 78
Period size: 13 Copynumber: 5.9 Consensus size: 14
128185 TATTAAATAA
128195 TAATTGCATGTTAT
1 TAATTGCATGTTAT
*
128209 TAATT-CATGTGA-
1 TAATTGCATGTTAT
128221 T-ATTGCATGTTAT
1 TAATTGCATGTTAT
128234 TAATT-CA--TT-T
1 TAATTGCATGTTAT
128244 TACATTGCATGTTAT
1 TA-ATTGCATGTTAT
128259 TAATT-CATGTTA
1 TAATTGCATGTTA
128271 CATTAGGTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
10 3 0.06
11 8 0.15
12 9 0.17
13 16 0.31
14 13 0.25
15 3 0.06
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (14 bp):
TAATTGCATGTTAT
Found at i:128282 original size:25 final size:25
Alignment explanation
Indices: 128197--128274 Score: 129
Period size: 25 Copynumber: 3.1 Consensus size: 25
128187 TTAAATAATA
* *
128197 ATTGCATGTTATTAATTCATGTGAT
1 ATTGCATGTTATTAATTCATGTTAC
*
128222 ATTGCATGTTATTAATTCATTTTAC
1 ATTGCATGTTATTAATTCATGTTAC
128247 ATTGCATGTTATTAATTCATGTTAC
1 ATTGCATGTTATTAATTCATGTTAC
128272 ATT
1 ATT
128275 AGGTGTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (25 bp):
ATTGCATGTTATTAATTCATGTTAC
Found at i:128964 original size:6 final size:6
Alignment explanation
Indices: 128953--129016 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
128943 ACTATTTATA
128953 ATTAAT ATTAAT A-TAA- ATTATAT ATT-AT AATTAAT ATTAAT ATTAA-
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT
*
128999 CTT-AT ATTAAT A-TAAT AT
1 ATTAAT ATTAAT ATTAAT AT
129017 AGTTTATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
4 2 0.04
5 16 0.33
6 25 0.52
7 5 0.10
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTAAT
Found at i:128981 original size:29 final size:31
Alignment explanation
Indices: 128948--129014 Score: 102
Period size: 29 Copynumber: 2.2 Consensus size: 31
128938 GATAAACTAT
128948 TTATAATTAATATTAATA-TAAATTATA-TA
1 TTATAATTAATATTAATATTAAATTATATTA
*
128977 TTATAATTAATATTAATATTAACTTATATTA
1 TTATAATTAATATTAATATTAAATTATATTA
*
129008 ATATAAT
1 TTATAAT
129015 ATAGTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 18 0.53
30 8 0.24
31 8 0.24
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
TTATAATTAATATTAATATTAAATTATATTA
Found at i:128985 original size:23 final size:21
Alignment explanation
Indices: 128952--129016 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 21
128942 AACTATTTAT
128952 AATTAATATTAATATAA-ATTA
1 AATT-ATATTAATATAATATTA
128973 TATATTATAATTAATATTAATATTA
1 -A-ATTAT-ATTAATA-TAATATTA
*
128998 ACTTATATTAATATAATAT
1 AATTATATTAATATAATAT
129017 AGTTTATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 6 0.16
22 10 0.26
23 14 0.37
24 4 0.11
25 4 0.11
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTATATTAATATAATATTA
Found at i:129017 original size:50 final size:52
Alignment explanation
Indices: 128948--129045 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 52
128938 GATAAACTAT
128948 TTATAATTAATATTAATATAAATTAT-ATATTATAATTAATATTAATATTAAC
1 TTATAATTAATATTAATATAAATTATAAT-TTATAATTAATATTAATATTAAC
** *
129000 TTAT-ATTAATA-TAATATAGTTTATAATTTGTAATTAATATTAATAT
1 TTATAATTAATATTAATATAAATTATAATTTATAATTAATATTAATAT
129046 AAAATATAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 29 0.69
51 9 0.21
52 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (52 bp):
TTATAATTAATATTAATATAAATTATAATTTATAATTAATATTAATATTAAC
Found at i:129074 original size:31 final size:31
Alignment explanation
Indices: 129031--129143 Score: 95
Period size: 31 Copynumber: 3.5 Consensus size: 31
129021 TATAATTTGT
129031 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAAATATAGTCTATAA
* * * *
129062 AATTAATTTTAATATAAACTATATTTTAT-A
1 AATTAATATTAATATAAAATATAGTCTATAA
* * *
129092 AATTATATAGTATAGTTTATAAACTATAGT-TAATAT
1 AATTA-ATA-T-TA--ATATAAAATATAGTCT-ATAA
129128 AATTAATATTAATATA
1 AATTAATATTAATATA
129144 GTATAATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
30 6 0.09
31 31 0.47
32 1 0.02
33 4 0.06
34 2 0.03
35 17 0.26
36 5 0.08
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.44
Consensus pattern (31 bp):
AATTAATATTAATATAAAATATAGTCTATAA
Found at i:129145 original size:43 final size:40
Alignment explanation
Indices: 129096--129186 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 40
129086 TTTATAAATT
* *
129096 ATATAGTATAGTTTATAAACTATAGTTAATATAATTAATATTA
1 ATATAGTATAATTTATAAACTATA--TAATAT-ATTAATATAA
*
129139 ATATAGTATAATTTATAAACTATATACTATATTAATATAA
1 ATATAGTATAATTTATAAACTATATAATATATTAATATAA
129179 ATTATAGT
1 A-TATAGT
129187 TAAGATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 10 0.23
41 11 0.25
43 23 0.52
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (40 bp):
ATATAGTATAATTTATAAACTATATAATATATTAATATAA
Found at i:129189 original size:65 final size:66
Alignment explanation
Indices: 128989--129229 Score: 244
Period size: 65 Copynumber: 3.7 Consensus size: 66
128979 ATAATTAATA
* * * *
128989 TTAATATTAACTT-ATATTAATATAA-TATAGTTTATAATTTGTA-ATTAATATTAATATAAAAT
1 TTAATA-TAA-TTAATATTAATATAACTATAATTTATAAATTATATACT-ATATTAATATAAAAT
129051 ATAG
63 ATAG
* * * * *
129055 TCT-ATAAAATTAATTTTAATATAAACTATATTTTATAAATTATATAGTATAGTT--TATAAACT
1 T-TAATATAATTAATATTAATAT-AACTATAATTTATAAATTATATACTATA-TTAATATAAAAT
129117 ATAG
63 ATAG
* * *
129121 TTAATATAATTAATATTAATAT-AGTATAATTTATAAACTATATACTATATTAATATAAATTATA
1 TTAATATAATTAATATTAATATAACTATAATTTATAAATTATATACTATATTAATATAAAATATA
129185 G
66 G
* *
129186 TTAAGATAATTAACATTAATATAAACTATAATTTATAAATTATA
1 TTAATATAATTAATATTAATAT-AACTATAATTTATAAATTATA
129230 AATTATATAT
Statistics
Matches: 146, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
63 2 0.01
64 25 0.17
65 43 0.29
66 35 0.24
67 37 0.25
68 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (66 bp):
TTAATATAATTAATATTAATATAACTATAATTTATAAATTATATACTATATTAATATAAAATATA
G
Found at i:129222 original size:7 final size:7
Alignment explanation
Indices: 129205--129264 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
129195 TTAACATTAA
*
129205 TATAAAC
1 TATAAAT
*
129212 TATAATT
1 TATAAAT
129219 TATAAAT
1 TATAAAT
129226 TATAAAT
1 TATAAAT
*
129233 TATATAT
1 TATAAAT
**
129240 TATATGT
1 TATAAAT
*
129247 TATAAAG
1 TATAAAT
*
129254 TATAAAC
1 TATAAAT
129261 TATA
1 TATA
129265 TGGTACACTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (7 bp):
TATAAAT
Found at i:129231 original size:21 final size:21
Alignment explanation
Indices: 129074--129258 Score: 60
Period size: 21 Copynumber: 8.6 Consensus size: 21
129064 TTAATTTTAA
*
129074 TATAAACTATATTTTATAAAT
1 TATAAACTATAATTTATAAAT
* * *
129095 TATATAGTATAGTTTATAAACT
1 TATAAACTATAATTTATAAA-T
* *
129117 ATAGTTAA-TATAA-TTA-ATAT
1 -TA-TAAACTATAATTTATAAAT
* * *
129137 TAATATAGTATAATTTATAAAC
1 T-ATAAACTATAATTTATAAAT
*
129159 TATATACTAT-ATTAATATAAAT
1 TATAAACTATAATT--TATAAAT
* * *
129181 TATAGTTAA-GATAATTAACATTAA-
1 TATA---AACTATAATT--TATAAAT
129205 TATAAACTATAATTTATAAAT
1 TATAAACTATAATTTATAAAT
* **
129226 TATAAATTAT-ATATTATATGT
1 TATAAACTATAAT-TTATAAAT
*
129247 TATAAAGTATAA
1 TATAAACTATAA
129259 ACTATATGGT
Statistics
Matches: 123, Mismatches: 24, Indels: 33
0.68 0.13 0.18
Matches are distributed among these distances:
19 3 0.02
20 16 0.13
21 56 0.46
22 24 0.20
23 6 0.05
24 8 0.07
25 10 0.08
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (21 bp):
TATAAACTATAATTTATAAAT
Found at i:129243 original size:131 final size:132
Alignment explanation
Indices: 128964--129243 Score: 331
Period size: 131 Copynumber: 2.1 Consensus size: 132
128954 TTAATATTAA
* * * **
128964 TATAAATTATATATTAT-AATTAATATTAATATTAACTTATATTAATATAATATAGTTTATAATT
1 TATAAATTATATATTATAAACTAATATTAATATTAACTAATATTAATATAATATAATTTATAAAC
* * ** *
129028 TGTAATTAATATTAATATAAAATATAGTCTATAAAATTAATTTTAATATAAACTATATTTTATAA
66 TATAACTAATATTAATATAAAATATAGTCTATAAAATTAACATTAATATAAACTATAATTTATAA
129093 AT
131 AT
* * * *
129095 TATATAGTATAGT-TTATAAACT-ATAGTTAATA-TAATTAATATTAATATAGTATAATTTATAA
1 TATAAATTATA-TATTATAAACTAATA-TTAATATTAACTAATATTAATATAATATAATTTATAA
*
129157 ACTATATACT-ATATTAATATAAATTATAGT-TA-AGATAATTAACATTAATATAAACTATAATT
64 ACTATA-ACTAATATTAATATAAAATATAGTCTATA-A-AATTAACATTAATATAAACTATAATT
129219 TATAAAT
126 TATAAAT
129226 TATAAATTATATATTATA
1 TATAAATTATATATTATA
129244 TGTTATAAAG
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
129 1 0.01
130 4 0.03
131 108 0.86
132 12 0.10
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (132 bp):
TATAAATTATATATTATAAACTAATATTAATATTAACTAATATTAATATAATATAATTTATAAAC
TATAACTAATATTAATATAAAATATAGTCTATAAAATTAACATTAATATAAACTATAATTTATAA
AT
Found at i:129264 original size:21 final size:20
Alignment explanation
Indices: 129225--129300 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 20
129215 AATTTATAAA
* *
129225 TTATAAATTATATATTATATG
1 TTATAAA-TATAAACTATATG
129246 TTATAAAGTATAAACTATATG
1 TTATAAA-TATAAACTATATG
* *
129267 GTACACTAATATAAACTAT-TG
1 TTATA--AATATAAACTATATG
129288 TTTATAAACTATA
1 -TTATAAA-TATA
129301 GGTTATATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 2 0.05
21 27 0.61
22 13 0.30
23 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (20 bp):
TTATAAATATAAACTATATG
Found at i:129306 original size:14 final size:14
Alignment explanation
Indices: 129276--129320 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
129266 GGTACACTAA
*
129276 TATAAACTATTGTT
1 TATAAACTATAGTT
*
129290 TATAAACTATAGGT
1 TATAAACTATAGTT
*
129304 TATATA-TATAGTT
1 TATAAACTATAGTT
129317 TATA
1 TATA
129321 TAACATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (14 bp):
TATAAACTATAGTT
Found at i:129358 original size:57 final size:55
Alignment explanation
Indices: 129295--129432 Score: 161
Period size: 59 Copynumber: 2.4 Consensus size: 55
129285 TTGTTTATAA
*
129295 ACTATAGGTTATATATATAGTTTATATA-ACATATAAATAGATTGTATATATACATAT
1 ACTATAGGTTATATATATAGTTTATATATAC-TATAAATAG-TT-TATACATACATAT
* * *
129352 ACTATAGGTTATATATATATAGTTTATATATACTATACATAGTTTATACATATATGT
1 ACTATAGG-T-TATATATATAGTTTATATATACTATAAATAGTTTATACATACATAT
* * *
129409 ATTATAAGTTACATATATAGTTTA
1 ACTATAGGTTATATATATAGTTTA
129433 GGGTTTAAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
55 14 0.20
56 1 0.01
57 24 0.34
58 3 0.04
59 27 0.38
60 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (55 bp):
ACTATAGGTTATATATATAGTTTATATATACTATAAATAGTTTATACATACATAT
Found at i:129369 original size:24 final size:22
Alignment explanation
Indices: 129305--129370 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 22
129295 ACTATAGGTT
129305 ATATATATA-GTTTATATA-AC
1 ATATATATAGGTTTATATATAC
* *
129325 ATATAAATAGATTGTATATATAC
1 ATATATATAGGTT-TATATATAC
129348 ATATACTATAGGTTATATATATA
1 ATATA-TATAGGTT-TATATATA
129371 TAGTTTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 8 0.22
21 2 0.05
22 6 0.16
23 7 0.19
24 14 0.38
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (22 bp):
ATATATATAGGTTTATATATAC
Found at i:129372 original size:15 final size:16
Alignment explanation
Indices: 129348--129388 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
129338 GTATATATAC
129348 ATATACTATAGGTTAT
1 ATATACTATAGGTTAT
*
129364 ATATA-TATAGTTTAT
1 ATATACTATAGGTTAT
129379 ATATACTATA
1 ATATACTATA
129389 CATAGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (16 bp):
ATATACTATAGGTTAT
Found at i:129380 original size:35 final size:35
Alignment explanation
Indices: 129337--129414 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
129327 ATAAATAGAT
*
129337 TGTA-TATATACA-TATACTATAGGTTATATATATA
1 TGTATTATATACACTATAC-ATAGGTTATACATATA
* *
129371 TAGT-TTATATATACTATACATAGTTTATACATATA
1 T-GTATTATATACACTATACATAGGTTATACATATA
129406 TGTATTATA
1 TGTATTATA
129415 AGTTACATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
34 3 0.08
35 29 0.78
36 5 0.14
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (35 bp):
TGTATTATATACACTATACATAGGTTATACATATA
Found at i:129388 original size:20 final size:21
Alignment explanation
Indices: 129305--129368 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
129295 ACTATAGGTT
129305 ATATATATAGTTTATATA-AC
1 ATATATATAGTTTATATATAC
*
129325 ATATAAATAGATTGTATATATAC
1 ATATATATAG-TT-TATATATAC
*
129348 ATATACTATAGGTTATATATA
1 ATATA-TATAGTTTATATATA
129369 TATAGTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 14 0.38
23 8 0.22
24 4 0.11
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (21 bp):
ATATATATAGTTTATATATAC
Found at i:129393 original size:20 final size:21
Alignment explanation
Indices: 129305--129399 Score: 80
Period size: 20 Copynumber: 4.8 Consensus size: 21
129295 ACTATAGGTT
*
129305 ATATATATAGTTTATATA-AC
1 ATATACATAGTTTATATATAC
*
129325 ATATAAATAGATTGTATATATAC
1 ATATACATAG-TT-TATATATAC
*
129348 ATATACTATAG-GT-TATAT--
1 ATATAC-ATAGTTTATATATAC
129366 ATAT--ATAGTTTATATATAC
1 ATATACATAGTTTATATATAC
129385 -TATACATAGTTTATA
1 ATATACATAGTTTATA
129400 CATATATGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
15 4 0.07
16 1 0.02
17 5 0.08
18 7 0.11
20 24 0.39
21 3 0.05
22 6 0.10
23 7 0.11
24 4 0.07
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
ATATACATAGTTTATATATAC
Found at i:129453 original size:21 final size:21
Alignment explanation
Indices: 129427--129473 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
129417 TTACATATAT
129427 AGTTTAGGGTTTA-AGATTTAG
1 AGTTTAGGGTTTATAG-TTTAG
129448 AGTTTAGGGTTTATAGTTTAG
1 AGTTTAGGGTTTATAGTTTAG
*
129469 GGTTT
1 AGTTT
129474 CTATAAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (21 bp):
AGTTTAGGGTTTATAGTTTAG
Found at i:129468 original size:14 final size:14
Alignment explanation
Indices: 129428--129473 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
129418 TACATATATA
* *
129428 GTTTAGGGTTTAAG
1 GTTTAGAGTTTAGG
*
129442 ATTTAGAGTTTAGG
1 GTTTAGAGTTTAGG
*
129456 GTTTATAGTTTAGG
1 GTTTAGAGTTTAGG
129470 GTTT
1 GTTT
129474 CTATAAACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
GTTTAGAGTTTAGG
Found at i:129665 original size:2 final size:2
Alignment explanation
Indices: 129530--129647 Score: 72
Period size: 2 Copynumber: 61.5 Consensus size: 2
129520 TTCTATAAAC
* * *
129530 TA TA TA TA TA TA TA -A TC TA TA GA T- TA TT TA TA T- TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
129569 CA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA -A TT
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
*
129608 TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
129648 TAGTTTATAA
Statistics
Matches: 89, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
1 8 0.09
2 77 0.87
3 4 0.04
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:129723 original size:13 final size:13
Alignment explanation
Indices: 129615--129743 Score: 68
Period size: 13 Copynumber: 9.8 Consensus size: 13
129605 ATTTATAAAC
*
129615 TATATATATA-TA
1 TATATATATAGTT
*
129627 TATATATATA-TA
1 TATATATATAGTT
129639 TATATATATTAGTT
1 TATATATA-TAGTT
* *
129653 TATA-AAATA-TA
1 TATATATATAGTT
* *
129664 TACTTTTTATAGTT
1 TA-TATATATAGTT
129678 TATACATATATAGTT
1 TAT--ATATATAGTT
** *
129693 TATATACGTAATT
1 TATATATATAGTT
129706 TATATATATAGTT
1 TATATATATAGTT
* * *
129719 AATATAAACATAATT
1 --TATATATATAGTT
129734 TATATATATA
1 TATATATATA
129744 ACTTATAATA
Statistics
Matches: 88, Mismatches: 20, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
11 3 0.03
12 23 0.26
13 33 0.38
14 8 0.09
15 21 0.24
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (13 bp):
TATATATATAGTT
Found at i:129723 original size:26 final size:27
Alignment explanation
Indices: 129683--129743 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 27
129673 TAGTTTATAC
* *
129683 ATATATAGTTTATAT-ACGTAATTTAT
1 ATATATAGTTAATATAACATAATTTAT
129709 ATATATAGTTAATATAAACATAATTTAT
1 ATATATAGTTAATAT-AACATAATTTAT
129737 ATATATA
1 ATATATA
129744 ACTTATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 14 0.45
28 17 0.55
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (27 bp):
ATATATAGTTAATATAACATAATTTAT
Found at i:129787 original size:15 final size:15
Alignment explanation
Indices: 129671--129788 Score: 59
Period size: 15 Copynumber: 7.9 Consensus size: 15
129661 ATATACTTTT
* *
129671 TATAGTTTATACATA
1 TATAGTTTATATAAA
**
129686 TATAGTTTATATACG
1 TATAGTTTATATAAA
129701 TA-A-TTTATAT--A
1 TATAGTTTATATAAA
*
129712 TATAGTTAATATAAA
1 TATAGTTTATATAAA
* *
129727 CATAATTTATAT--A
1 TATAGTTTATATAAA
**
129740 TATAACTTATAATAATTA
1 TATAGTTTAT-ATAA--A
129758 TATAGTTTATAATATAAA
1 TATAG-TT-T-ATATAAA
129776 TATAGTTTATATA
1 TATAGTTTATATA
129789 TAAAATTATA
Statistics
Matches: 79, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
11 2 0.03
12 1 0.01
13 22 0.28
14 3 0.04
15 29 0.37
16 1 0.01
17 2 0.03
18 11 0.14
19 1 0.01
20 5 0.06
21 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (15 bp):
TATAGTTTATATAAA
Found at i:129794 original size:18 final size:19
Alignment explanation
Indices: 129757--129809 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
129747 TATAATAATT
129757 ATATAGTTTATA-ATATAA
1 ATATAGTTTATATATATAA
129775 ATATAGTTTATATATA-AA
1 ATATAGTTTATATATATAA
129793 AT-TA-TATTATATATATA
1 ATATAGT-TTATATATATA
129810 CTATAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.03
17 11 0.34
18 17 0.53
19 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
ATATAGTTTATATATATAA
Found at i:131318 original size:3 final size:3
Alignment explanation
Indices: 131307--131349 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
131297 TTTTTTATCG
131307 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T
131350 GTTTATTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:131446 original size:25 final size:25
Alignment explanation
Indices: 131417--131541 Score: 250
Period size: 25 Copynumber: 5.0 Consensus size: 25
131407 CAATCAACCC
131417 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
131442 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
131467 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
131492 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
131517 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
131542 TCCCCTAAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 100 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:135219 original size:32 final size:31
Alignment explanation
Indices: 135160--135253 Score: 170
Period size: 32 Copynumber: 3.0 Consensus size: 31
135150 ATTTTACATG
135160 TACTAACTTATTTTTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTTTCTCTTTTGTTTGTGTA
135191 TACTAACTTATTTTTCTCTTTTTGTTTGTGTA
1 TACTAACTTATTTTTCTC-TTTTGTTTGTGTA
135223 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTT-TTCTCTTTTGTTTGTGT
135254 CATTTTGTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
31 18 0.30
32 38 0.62
33 5 0.08
ACGTcount: A:0.15, C:0.14, G:0.10, T:0.62
Consensus pattern (31 bp):
TACTAACTTATTTTTCTCTTTTGTTTGTGTA
Found at i:136691 original size:26 final size:25
Alignment explanation
Indices: 136662--136739 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
136652 AATTTTTGAC
136662 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
136688 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
136708 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
136734 ATTCTT
1 ATTCTT
136740 TCCACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:136700 original size:20 final size:20
Alignment explanation
Indices: 136677--136751 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
136667 ATCTCTTTGA
136677 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
136697 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
136723 GACCTTGAAATATTC-TTTC
1 GACCTTGAAATATTCTTTTC
*
136742 CACCTTGAAA
1 GACCTTGAAA
136752 CACTGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.20
20 14 0.32
21 1 0.02
22 2 0.05
24 3 0.07
25 4 0.09
26 11 0.25
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Found at i:137386 original size:11 final size:11
Alignment explanation
Indices: 137358--137395 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
137348 AAGAGCAAAG
137358 AGAAAAATCAA
1 AGAAAAATCAA
137369 AGCAAAAATCAA
1 AG-AAAAATCAA
*
137381 AGAAAAAGCAA
1 AGAAAAATCAA
137392 AGAA
1 AGAA
137396 CAAAAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:139211 original size:36 final size:36
Alignment explanation
Indices: 139159--139276 Score: 159
Period size: 36 Copynumber: 3.3 Consensus size: 36
139149 TGAGAATTTT
*
139159 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGCTTGAGACAATTTCTTTA
* *
139196 AAAGCAAATTTTGTCTCGCTTGAGACAGCTTTC--TA
1 AAAACAAATTTTGTCTCGCTTGAGACA-ATTTCTTTA
* *
139231 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTA
139267 AAAACAAATT
1 AAAACAAATT
139277 CCGTCTCACT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
34 4 0.06
35 26 0.37
36 30 0.42
37 11 0.15
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTA
Found at i:139283 original size:71 final size:72
Alignment explanation
Indices: 139159--139293 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 72
139149 TGAGAATTTT
** * ** * *
139159 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTCAAAGCAAATTTTGTCTCGCTTGAGACAG
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACAG
139224 CTTTCTA
66 CTTTCTA
*
139231 AAAACAAA-TTTTGTCTCGTTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACA
139294 TTTTTCCTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
71 47 0.85
72 8 0.15
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACAG
CTTTCTA
Found at i:139460 original size:36 final size:36
Alignment explanation
Indices: 139379--139460 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 36
139369 ATTTTGTTTT
* * *
139379 GCTTGAGACAATTTCTTTAAAAACAAAGTTTATATC
1 GCTTGAGACAAATTCTTTAAAAACAAACTTCATATC
* * * *
139415 ACTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAACTTCATATC
139451 GCTTGAGACA
1 GCTTGAGACA
139461 TTTTTCCTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAACTTCATATC
Found at i:139560 original size:105 final size:105
Alignment explanation
Indices: 139434--139672 Score: 292
Period size: 105 Copynumber: 2.3 Consensus size: 105
139424 AAATTCTCTT
* *
139434 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAACTTCATCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTTGAATTTGATTCACA
139498 TTAAAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTC
66 TT-AAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTC
* * * *
139539 AAAACAAATTTCATCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTTGAATTTGTTTCACA
1 AAAACAAACTTCATCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTTGAATTTGATTCACA
* * * *
139604 TTAAACAAAGTTGATCTCA-CTT-GA--GATCG-TTCTCTC
66 TTAAACAAAATTAATCTCACCTTAGATTG-TTGTTTCTTTC
** *
139640 AAAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 -AAAACAAACTTCATCTCGCTTGAGACATTTTC
139673 TCTAAAAACA
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
101 7 0.06
102 29 0.25
103 2 0.02
104 3 0.03
105 73 0.63
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (105 bp):
AAAACAAACTTCATCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTTGAATTTGATTCACA
TTAAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTC
Found at i:139611 original size:273 final size:269
Alignment explanation
Indices: 139267--139901 Score: 773
Period size: 273 Copynumber: 2.3 Consensus size: 269
139257 AATTTCTTGA
* * * * *
139267 AAAACAAATTCCGTCTCACTGGAGACATTTTTCC-TTGAGATACAAATTTCGAATTTGATTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACA-TTTTCCTTTGAGATACAAATTTTGAATTTGTTTCACA
* * * *
139331 TTAAACAAAGTTGATCTCACTTGAGATCGTT-T-TC-TCAAATTTTGTTTTGCTTGAGACAATTT
65 TTAAACAAAGTTGATCTCACTTGAGATCGTTCTCTCAACAAACTTTGTCTCGCTTGAGACAATTT
* *
139393 CTTTAAAAACAAAGTTTATATCACTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAG
130 CTCTAAAAACAAAGTTTATATCACTTAAGAC-AA-TATCTTAAAACAAACTTCGTCTCGCTTGAG
139458 ACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTT-
193 ACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAAC--AA--AATCTCA-CTTG
*
139522 AGATTGTTGTTTCTTTC
253 AGATTGTTGTTTATTTC
* * *
139539 AAAACAAATTTCATCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTTGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTT-CCTTTGAGATACAAATTTTGAATTTGTTTCACA
139604 TTAAACAAAGTTGATCTCACTTGAGATCGTTCTCTCAAAAACAAACTTTGTCTCGCTTGAGACAA
65 TTAAACAAAGTTGATCTCACTTGAGATCGTTCTCTC---AACAAACTTTGTCTCGCTTGAGACAA
* * * * * * * *
139669 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTATATCTTAAAGCAAATTTCGTCTCGCTTGA
127 TTTCTCTAAAAACAAAGTTTATATCACTTAAGACAATATCTTAAAACAAACTTCGTCTCGCTTGA
* * *
139734 GACATTTTTCCTTTGAGATACTAATTTTGAATTTGTTTCACTTAAAACAAAATCTCACTTGATAT
192 GACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATCTCACTTGAGAT
139799 TGTTGTTTATTTC
257 TGTTGTTTATTTC
* * * * * *
139812 GAAACAAAATTCGTTTCGCTTGAGACATTTTTCTCTGAGATACAAA-TTTAAATTTGTTGT-AC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTTGAATTTGTT-TCACA
* * *
139874 TTAAAGCAAAATTAATATCACTTGAGAT
65 TTAAA-CAAAGTTGATCTCACTTGAGAT
139902 TTTCAAAGCT
Statistics
Matches: 314, Mismatches: 38, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
270 5 0.02
271 36 0.11
272 40 0.13
273 106 0.34
274 1 0.00
275 4 0.01
277 72 0.23
278 1 0.00
279 49 0.16
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (269 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTTGAATTTGTTTCACAT
TAAACAAAGTTGATCTCACTTGAGATCGTTCTCTCAACAAACTTTGTCTCGCTTGAGACAATTTC
TCTAAAAACAAAGTTTATATCACTTAAGACAATATCTTAAAACAAACTTCGTCTCGCTTGAGACA
TTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATCTCACTTGAGATTGTT
GTTTATTTC
Found at i:139663 original size:36 final size:36
Alignment explanation
Indices: 139633--139737 Score: 108
Period size: 36 Copynumber: 2.9 Consensus size: 36
139623 CTTGAGATCG
*
139633 TTCTCTCAAAAACAAACTTTGTCTCGCTTGAGACAAT
1 TTCTCT-AAAAACAAACTTTGTCTCACTTGAGACAAT
* * *
139670 TTCTCTAAAAACAAATTTTGTCTCATTTGAGACTAT
1 TTCTCTAAAAACAAACTTTGTCTCACTTGAGACAAT
* * *
139706 ATCT-T-AAAGCAAA-TTTCGTCTCGCTTGAGACA
1 TTCTCTAAAAACAAACTTT-GTCTCACTTGAGACA
139738 TTTTTCCTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 3 0.05
34 19 0.33
35 1 0.02
36 29 0.50
37 6 0.10
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (36 bp):
TTCTCTAAAAACAAACTTTGTCTCACTTGAGACAAT
Found at i:140125 original size:29 final size:29
Alignment explanation
Indices: 140078--140329 Score: 191
Period size: 29 Copynumber: 8.7 Consensus size: 29
140068 ACAGTTTCTC
140078 TTGAA-AAAAATCTTTGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
*
140106 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* *
140135 TTGAATAAATATCTTTGAG-TTGTTTCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* * **
140163 TTG-A-AAAAATCTTTGAGTCTATTTATT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
*** * *
140190 TT-AA-AACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC
1 TTGAATAA-AAA--------TCT-TTGAGTTTGTTCCTT
*
140227 TTGAAAAAAAATCTTTGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
*
140256 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* * *
140285 TTGAATAAATATCTTTGAG-TCGTTTCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
140313 TTG---AAAAATCTTTGAGT
1 TTGAATAAAAATCTTTGAGT
140330 CTATTTATTT
Statistics
Matches: 183, Mismatches: 25, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
25 12 0.07
26 12 0.07
27 12 0.07
28 29 0.16
29 93 0.51
30 3 0.02
36 3 0.02
37 12 0.07
38 5 0.03
39 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.46
Consensus pattern (29 bp):
TTGAATAAAAATCTTTGAGTTTGTTCCTT
Found at i:140351 original size:149 final size:149
Alignment explanation
Indices: 140059--140373 Score: 587
Period size: 150 Copynumber: 2.1 Consensus size: 149
140049 ACGATTTTTG
140059 TCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGA
1 TCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGA
*
140124 GTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAATCTTTGAGTCTATTTAT
66 GTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAAATCTTTGAGTCTATTTAT
140189 TTTAAAACAAAGTTTTGTC
131 TTTAAAACAAAGTTTTGTC
140208 TCTCTTGAGACAGTTTCTCTTGAAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGG
1 TCTCTTGAGACAGTTTCTCTTG-AAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGG
140273 AGTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTG-AAAAATCTTTGAGTCTATTTA
65 AGTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAAATCTTTGAGTCTATTTA
*
140337 TTTTGAAACAAAGTTTTGTC
130 TTTTAAAACAAAGTTTTGTC
*
140357 TCTCTTGAGACAATTTC
1 TCTCTTGAGACAGTTTC
140374 GTGAAAAATC
Statistics
Matches: 162, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
149 78 0.48
150 84 0.52
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (149 bp):
TCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGA
GTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAAATCTTTGAGTCTATTTAT
TTTAAAACAAAGTTTTGTC
Found at i:140418 original size:52 final size:53
Alignment explanation
Indices: 140340--140443 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
140330 CTATTTATTT
140340 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
140392 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAAATCTTTGAG
140444 ATTGTTTCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 36 0.73
54 13 0.27
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:140467 original size:27 final size:27
Alignment explanation
Indices: 140430--140486 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
140420 AATTTTGTGA
*
140430 AAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAATCTTTGAGATTGTTTCTTTGG
*
140457 AAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAATCTTTGAGATTGTTTCTTTGG
140484 AAA
1 AAA
140487 CAAAATTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.46
Consensus pattern (27 bp):
AAAAAATCTTTGAGATTGTTTCTTTGG
Found at i:140537 original size:67 final size:67
Alignment explanation
Indices: 140442--140678 Score: 378
Period size: 67 Copynumber: 3.6 Consensus size: 67
140432 AAAATCTTTG
* *
140442 AGATTGTTTCTTTTG--A-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTCTTTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTCTTTCTCTCT
140504 TA
66 TA
140506 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAA-TC-TTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTCTTTCTCTCT
140569 TA
66 TA
140571 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATT-TTGTCTCTC
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTCTT-TCTCTC
140635 TTA
65 TTA
* * *
140638 AGATAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCT
140679 CTTAAAATGA
Statistics
Matches: 162, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
64 14 0.09
65 63 0.39
66 5 0.03
67 80 0.49
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (67 bp):
AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTCTTTCTCTCT
TA
Found at i:140545 original size:30 final size:30
Alignment explanation
Indices: 140511--140623 Score: 145
Period size: 30 Copynumber: 3.6 Consensus size: 30
140501 TCTTAAGATA
140511 GTTTCTTTTGAAACAAAAATCTTTGAGTTT
1 GTTTCTTTTGAAACAAAAATCTTTGAGTTT
* * * *
140541 GTTTCTTTTGAAACAAAATCTTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAA----ATCT-TTGAGTTT
140576 GTTTCTTTTGAAACAAAAATCTTTGAGTTT
1 GTTTCTTTTGAAACAAAAATCTTTGAGTTT
140606 GTTTCTTTTGAAACAAAA
1 GTTTCTTTTGAAACAAAA
140624 TTTTGTCTCT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
30 41 0.59
31 3 0.04
34 3 0.04
35 23 0.33
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (30 bp):
GTTTCTTTTGAAACAAAAATCTTTGAGTTT
Found at i:140619 original size:132 final size:129
Alignment explanation
Indices: 140442--140678 Score: 386
Period size: 132 Copynumber: 1.8 Consensus size: 129
140432 AAAATCTTTG
*
140442 AGATTGTTTCTTTTGAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTCTT-TCTCTCTTA
1 AGATAGTTTCTTTTGAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATT-TTGTCTCTCTTA
* * *
140506 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATCTTCTCTCTTA
65 AGATAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCTTTTGAAACAAAATCTTCTCTCTTA
*
140571 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCT
1 AGATAGTTTCTTTTG--A-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCT
140636 TAAGATAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCT
63 TAAGATAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCT
140679 CTTAAAATGA
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
129 14 0.14
131 3 0.03
132 82 0.83
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (129 bp):
AGATAGTTTCTTTTGAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAA
GATAATTTCTTTTGAAACAAAAATCTTTGAATCTGTTTCTTTTGAAACAAAATCTTCTCTCTTA
Found at i:141022 original size:63 final size:63
Alignment explanation
Indices: 140905--141060 Score: 181
Period size: 64 Copynumber: 2.5 Consensus size: 63
140895 AGATCCATCT
* *
140905 TTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGA-AAAAATC
1 TTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTTAAAGACAATTTCATTTGAGAAAAATC
* * * * ** *
140967 ATTGAATCTCTTTCTTTGGAAACAAAATTTTGTTTCTCTCGAGACAGTTT-ATTTGAGAAAAATC
1 -TTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCT-TAAAGACAATTTCATTTGAGAAAAATC
*
141031 TTGGAGTTTGTTTCTTTGGAAACAAAATTT
1 TT-GAGTCTGTTTCTTTGGAAACAAAATTT
141061 ACTATCTTTG
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
63 38 0.49
64 40 0.51
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (63 bp):
TTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTTAAAGACAATTTCATTTGAGAAAAATC
Found at i:141120 original size:35 final size:36
Alignment explanation
Indices: 141049--141123 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
141039 TGTTTCTTTG
** *
141049 GAAACAAAATTTACTATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATAAACTATCTTTGAATCTGTTTACCTT
141085 GAAACAAAATAAAC-ATCTTTGAGATC-GTTTACCTT
1 GAAACAAAATAAACTATCTTTGA-ATCTGTTTACCTT
141120 GAAA
1 GAAA
141124 TGAATTTCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 20 0.57
36 15 0.43
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATAAACTATCTTTGAATCTGTTTACCTT
Found at i:141420 original size:46 final size:45
Alignment explanation
Indices: 141326--141693 Score: 254
Period size: 46 Copynumber: 8.4 Consensus size: 45
141316 AGATCTCCTT
* * * *
141326 ATCACGTAGGAGCCGTGTCA--A-CTATAGATAACCAG-CCGTCCTC
1 ATCACGTATGAGCCGTGTCATCACCT-TAGATAGCCAGAAC-TCTTC
* * * *
141369 ATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTC
1 ATCACGTATGAGCCGTGTCATCACC-TTAGATAGCCAGAACTCTTC
* *
141415 ATCACGTATGAGCCGTGTCATTC-CC-CAG--A-CCAGATCTCTTC
1 ATCACGTATGAGCCGTGTCA-TCACCTTAGATAGCCAGAACTCTTC
* * * *
141456 ATCACGTATGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCCTC
1 ATCACGTATGAGCCGTGTCATCACCTTAGATAGCCAGAAC-TCTTC
* * * *
141499 ATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTC
1 ATCACGTATGAGCCGTGTCATCACC-TTAGATAGCCAGAACTCTTC
* * *
141545 ATCACGTATGAGCCGTGTCATTC-CC-CAG--A-CCGGATCTCTTC
1 ATCACGTATGAGCCGTGTCA-TCACCTTAGATAGCCAGAACTCTTC
* * * *
141586 ATCACGTATGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCCTC
1 ATCACGTATGAGCCGTGTCATCACCTTAGATAGCCAGAAC-TCTTC
* * *
141629 ATCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGAACTCTTC
1 ATCACGTATGAGCCGTGTCATCACC-TTAGATAGCCAGAACTCTTC
*
141675 ATCACGTATGAGCAGTGTC
1 ATCACGTATGAGCCGTGTC
141694 GTCCCCAACA
Statistics
Matches: 253, Mismatches: 45, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
39 4 0.02
40 4 0.02
41 61 0.24
42 4 0.02
43 67 0.26
44 4 0.02
45 7 0.03
46 94 0.37
47 8 0.03
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (45 bp):
ATCACGTATGAGCCGTGTCATCACCTTAGATAGCCAGAACTCTTC
Found at i:141460 original size:41 final size:40
Alignment explanation
Indices: 141403--141605 Score: 183
Period size: 41 Copynumber: 4.8 Consensus size: 40
141393 CTTTAGATGG
141403 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGA
* * **
141444 CCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
* * * * * *
141487 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGA
1 CCAGAAC-TCTTCATCACGTATGAGCCGTGTCATC-CC--CAGA
141530 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGA
1 ---CCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGA
* *
141574 CCGGATCTCTTCATCACGTATGAGCCGTGTCA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA
141606 ACCATAGATA
Statistics
Matches: 131, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
40 4 0.03
41 61 0.47
42 1 0.01
43 28 0.21
44 4 0.03
46 30 0.23
47 3 0.02
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
Found at i:141500 original size:130 final size:130
Alignment explanation
Indices: 141284--141693 Score: 725
Period size: 130 Copynumber: 3.2 Consensus size: 130
141274 CCAGCCGTCC
* * * *
141284 TCATCATGTAGGAACCGTGTCA-TCCCCAGACCAGATCTCCTT-ATCACGTAGGAGCCGTGTCAA
1 TCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCT-CTTCATCACGTATGAGCCGTGTCAA
*
141347 CTATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTC
65 CCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTC
141412 T
130 T
141413 TCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAAC
141478 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
*
141543 TCATCACGTATGAGCCGTGTCATTCCCCAGACCGGATCTCTTCATCACGTATGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAAC
*
141608 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAGAACTCT
66 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
*
141673 TCATCACGTATGAGCAGTGTC
1 TCATCACGTATGAGCCGTGTC
141694 GTCCCCAACA
Statistics
Matches: 271, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
129 22 0.08
130 249 0.92
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (130 bp):
TCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAAC
CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:141862 original size:3 final size:3
Alignment explanation
Indices: 141851--141893 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
141841 TTTTTTATCG
141851 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T
141894 GTTTATTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:141990 original size:25 final size:25
Alignment explanation
Indices: 141961--142085 Score: 250
Period size: 25 Copynumber: 5.0 Consensus size: 25
141951 CAATCAACCC
141961 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
141986 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
142011 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
142036 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
142061 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
142086 TCCCCTAAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 100 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:155380 original size:2 final size:2
Alignment explanation
Indices: 155373--155397 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
155363 ACCTAAATAA
155373 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
155398 AATGATCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:156223 original size:18 final size:19
Alignment explanation
Indices: 156195--156235 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
156185 CTCACTAACT
*
156195 TTTTCTTTTTCTCCTTTTA
1 TTTTCTTTTTCTCATTTTA
156214 TTTT-TTTTTCTCATTTTA
1 TTTTCTTTTTCTCATTTTA
156232 TTTT
1 TTTT
156236 ATTATTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTTTTTCTCATTTTA
Found at i:161872 original size:94 final size:94
Alignment explanation
Indices: 161709--161887 Score: 286
Period size: 94 Copynumber: 1.9 Consensus size: 94
161699 TCACAGCAAC
* *
161709 CGTGTCACCCTTAGATAACCAACTGTCCTCATCACGTAGGAACAGAATTATCACCCTTCCCTTAG
1 CGTGTCACCCTTAGATAACCAACTGTCCTCATCACATAGGAACAGAATTATCACCCTTCCCTTAA
161774 ACGACCAGAACTCTTCATCACGTATGAGT
66 ACGACCAGAACTCTTCATCACGTATGAGT
* * * * * *
161803 CGTGTCACCCTTAGATAGCCAATTGTCCTCATCACATAGGAACCGAGTTATTACTCTTCCCTTAA
1 CGTGTCACCCTTAGATAACCAACTGTCCTCATCACATAGGAACAGAATTATCACCCTTCCCTTAA
161868 ACGACCAGAACTCTTCATCA
66 ACGACCAGAACTCTTCATCA
161888 TGAATGAGCG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (94 bp):
CGTGTCACCCTTAGATAACCAACTGTCCTCATCACATAGGAACAGAATTATCACCCTTCCCTTAA
ACGACCAGAACTCTTCATCACGTATGAGT
Found at i:162070 original size:3 final size:3
Alignment explanation
Indices: 162055--162103 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
162045 CTACAAAAAA
* *
162055 ATT A-T ATT A-T ATT ATT ATT ATT ATT ATT AAT -TT ATAT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
162098 ATT ATT
1 ATT ATT
162104 TTGTAGGCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 5 0.13
3 30 0.79
4 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:163687 original size:3 final size:3
Alignment explanation
Indices: 163669--163713 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
163659 ATATTTTTAT
163669 TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
163714 TATTTTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:165158 original size:18 final size:18
Alignment explanation
Indices: 165109--165160 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
165099 CGATTCTTCT
*
165109 GACCGGTCGGACCGCTTC
1 GACCGGTCGGACCGGTTC
* *
165127 GATCGATCGGACCGGTTC
1 GACCGGTCGGACCGGTTC
*
165145 GACCGGTCGAACCGGT
1 GACCGGTCGGACCGGT
165161 AGCACGACCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.33, G:0.35, T:0.17
Consensus pattern (18 bp):
GACCGGTCGGACCGGTTC
Found at i:169448 original size:28 final size:31
Alignment explanation
Indices: 169417--169475 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
169407 ATTTCGAAAT
169417 TATAATTATAAA-AAAA-A-ATATTAATTTA
1 TATAATTATAAATAAAATATATATTAATTTA
* *
169445 TATATTTATAAATAAAATATATATTTATTTA
1 TATAATTATAAATAAAATATATATTAATTTA
169476 AAAATATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 4 0.15
30 1 0.04
31 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
TATAATTATAAATAAAATATATATTAATTTA
Found at i:171091 original size:4 final size:4
Alignment explanation
Indices: 171062--171118 Score: 78
Period size: 4 Copynumber: 13.8 Consensus size: 4
171052 CTTGTAATTA
* *
171062 TTAT TATAT ATAT TTTT TTAT ATTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT T-TAT TTAT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT
171112 TTAT TTA
1 TTAT TTA
171119 ATAATAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
4 40 0.85
5 7 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:171128 original size:6 final size:6
Alignment explanation
Indices: 171117--171182 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
171107 TTTATTTATT
* * * *
171117 TAATAA TAATAA T-GTATA TAATAA TTATAA TAATAA TTATAA TTATAA
1 TAATAA TAATAA TAATA-A TAATAA TAATAA TAATAA TAATAA TAATAA
* *
171165 TTATAA TTATAA TAATAA
1 TAATAA TAATAA TAATAA
171183 AAATGGTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
5 2 0.04
6 48 0.92
7 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (6 bp):
TAATAA
Found at i:171140 original size:18 final size:18
Alignment explanation
Indices: 171117--171182 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
171107 TTTATTTATT
171117 TAATAATAATAATGTAT-A
1 TAATAATAATAAT-TATAA
* *
171135 TAATAATTATAATAATAA
1 TAATAATAATAATTATAA
* *
171153 TTATAATTATAATTATAA
1 TAATAATAATAATTATAA
*
171171 TTATAATAATAA
1 TAATAATAATAA
171183 AAATGGTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
17 2 0.05
18 40 0.95
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATAATAATAATTATAA
Found at i:171170 original size:12 final size:12
Alignment explanation
Indices: 171119--171182 Score: 85
Period size: 12 Copynumber: 5.3 Consensus size: 12
171109 TATTTATTTA
171119 ATAATAATAATGT
1 ATAATAATAAT-T
171132 AT-ATAATAATT
1 ATAATAATAATT
171143 ATAATAATAATT
1 ATAATAATAATT
*
171155 ATAATTATAATT
1 ATAATAATAATT
* *
171167 ATAATTATAATA
1 ATAATAATAATT
171179 ATAA
1 ATAA
171183 AAATGGTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
11 3 0.06
12 43 0.90
13 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:171551 original size:124 final size:123
Alignment explanation
Indices: 171323--171832 Score: 428
Period size: 113 Copynumber: 4.3 Consensus size: 123
171313 TTGAATAAAA
* * * * * * *
171323 TCTTCTCT-TTCTTCAGATGAGTTCTTTTCATTATGAACTTTTCGCTGG---GGATGATGTTGAC
1 TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTCTCTGGAAAGGTTGATGCTAAT
* * * * * *
171384 CTATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTTATTATGAACT
65 CTATAT-CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
* *
171444 TTTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTATGGAAAGGTTGATGCTAATC
1 TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC
*
171509 TATATGCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACT
66 TATAT-CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
* * * * *
171568 TCTTC-TTCCTCTTCAGATAAGTTCTTCTTATTATGAACTTTCTCTGGAAATGTTGAT-C-CATC
1 TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC
* *
171630 -A-A------GTGAT-GAATT-TGAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACT
66 TATATCTTCTGTGATAGAATTATG--CAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
* **** * * *
171680 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGAT-C-CATC
1 TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC
* * ** *
171743 -A-A------GTGATGGATTTGA-GCAAAAGGTTGAACAAATTCTTCTCATTATGAATT
66 TATATCTTCTGTGATAGAATT-ATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
* *
171793 TATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACT
171833 CGAACTGGAA
Statistics
Matches: 337, Mismatches: 42, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
110 2 0.01
111 5 0.01
112 41 0.12
113 124 0.37
114 4 0.01
115 1 0.00
119 1 0.00
120 1 0.00
121 16 0.05
122 30 0.09
123 47 0.14
124 65 0.19
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (123 bp):
TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC
TATATCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
Found at i:171744 original size:113 final size:113
Alignment explanation
Indices: 171534--172127 Score: 719
Period size: 113 Copynumber: 5.4 Consensus size: 113
171524 TAGAATTATG
** * * *
171534 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** *
171598 TTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAA
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTGAA
* *
171646 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
171711 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTGAA
* *
171759 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
171824 TTATGAACTCGAACTGGAAAAGCTGATCTATCAAGTGATGTATTTGAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTGAA
* ***
171872 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA-TGAGT-TC-
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * * *
171934 -T-T---CT--ACCTGGCAATGTTAATCCATAAAATAATGAATTTAAA
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTGAA
* *
171975 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
172040 TTATGAACTCGAACTGGTAATGCTGATCCATTGAA-TGATGAA-TTCAA
66 TTATGAACTCGAACTGGAAATGCTGATCCA-TCAAGTGATGAATTTGAA
* *
172087 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCT
1 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
172128 GGAAAAGCTA
Statistics
Matches: 419, Mismatches: 50, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
103 78 0.19
104 2 0.00
105 3 0.01
107 1 0.00
108 2 0.00
109 1 0.00
111 4 0.01
112 46 0.11
113 279 0.67
114 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTGAA
Found at i:172055 original size:216 final size:222
Alignment explanation
Indices: 171534--172127 Score: 720
Period size: 216 Copynumber: 2.7 Consensus size: 222
171524 TAGAATTATG
** * *
171534 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
**** * * * *
171598 TTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGT
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTGAACAAAT
* ***
171663 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTGAGTCTCA-TAT--ACTC-AACTGG
* * * * * * *
171728 AAAAGCTGATCCATCAAGTGATGGATTTGAG
192 AAAAGCTAATCCATAAAATAATGAATTTAAA
* * *
171759 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
* * *
171824 TTATGAACTCGAACTGGAAAAGCTGATCTATCAAGTGATGTATTTGAGCAAAAGGTTGAACAAAT
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTGAACAAAT
* * *
171889 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA-TGAGT-TC-T-T-CT-ACCTGGCAAT
131 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTGAGTCTCATATACTCAACTGGAAAA
*
171948 GTTAATCCATAAAATAATGAATTTAAA
196 GCTAATCCATAAAATAATGAATTTAAA
*
171975 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
* * ** *
172040 TTATGAACTCGAACTGGTAATGCTGATCCATTGAA-TGATGAATTCAAGCAAAAAGTTGAACAAA
66 TTATGAACTCGAACTGGAAATGCTGATCCA-TCAAGTGATGAATTTGAGCAAAAGGTTGAACAAA
172104 TTCTTCTCATTATGAACTTT-TTCT
130 TTCTTCTCATTATGAA-TTTCTTCT
172128 GGAAAAGCTA
Statistics
Matches: 321, Mismatches: 45, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
216 159 0.50
217 6 0.02
218 2 0.01
221 1 0.00
222 1 0.00
224 2 0.01
225 40 0.12
226 110 0.34
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (222 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
TTATGAACTCGAACTGGAAATGCTGATCCATCAAGTGATGAATTTGAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTGAGTCTCATATACTCAACTGGAAAA
GCTAATCCATAAAATAATGAATTTAAA
Done.