Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3583
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: 552418
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:324 original size:45 final size:46
Alignment explanation
Indices: 272--381 Score: 145
Period size: 45 Copynumber: 2.4 Consensus size: 46
262 TCTCGCCTTA
272 CACATATACTACAC-TTCACATTCAT-CACACCGGCCATTAGGCC-AT
1 CACATATA-TACACTTTCACATTCATCCACACC-GCCATTAGGCCGAT
*
317 CACATATATACACTTTCACATTCATCCACATCGCCATTAGGCCGTAT
1 CACATATATACACTTTCACATTCATCCACACCGCCATTAGGCCG-AT
* *
364 CACATATAAACAATTTCA
1 CACATATATACACTTTCA
382 ACATCACAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
44 5 0.09
45 30 0.52
46 5 0.09
47 18 0.31
ACGTcount: A:0.34, C:0.32, G:0.07, T:0.27
Consensus pattern (46 bp):
CACATATATACACTTTCACATTCATCCACACCGCCATTAGGCCGAT
Found at i:14548 original size:37 final size:37
Alignment explanation
Indices: 14504--14594 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 37
14494 AAATTATATT
*
14504 AATTGATAAATATTGAAATAT-TG-AAAT-ATATTTAA
1 AATTGATAAATATTGAAATATAAGCAAATCAT-TTTAA
14539 AATGTTGAT-AA-A-TGAAATATAAGCAAATCATTTTAA
1 AA--TTGATAAATATTGAAATATAAGCAAATCATTTTAA
14575 AATTGATAAATATTGAAATA
1 AATTGATAAATATTGAAATA
14595 CATTAAAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
34 13 0.28
35 6 0.13
36 14 0.30
37 14 0.30
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (37 bp):
AATTGATAAATATTGAAATATAAGCAAATCATTTTAA
Found at i:16582 original size:58 final size:58
Alignment explanation
Indices: 16485--16612 Score: 184
Period size: 58 Copynumber: 2.2 Consensus size: 58
16475 TTTCAAATTG
* * ** *
16485 GGGAGAAAGGGGTAATTATTTTAGGGTTTTGAATTAGGGAAAATGAAGGGAATAAACTA
1 GGGAG-AAGGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAATGAAGGAAATAAACTA
* *
16544 GGGAGAAGGGGTGATTATTTTAGGGATTCGAAGAAGGGAAAATGGAGGAAATAAACTA
1 GGGAGAAGGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAATGAAGGAAATAAACTA
16602 GGGAGAAGGGG
1 GGGAGAAGGGG
16613 GAACTCGGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 57 0.92
59 5 0.08
ACGTcount: A:0.38, C:0.02, G:0.38, T:0.22
Consensus pattern (58 bp):
GGGAGAAGGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAATGAAGGAAATAAACTA
Found at i:17141 original size:230 final size:228
Alignment explanation
Indices: 16682--17219 Score: 565
Period size: 230 Copynumber: 2.3 Consensus size: 228
16672 TAACATTTGC
* *
16682 GGCGTTT-TCACCTAGCGCCGCTAAAGGCAAACCAATTGTGGCGTTTTAACAT-AAACGCCACTA
1 GGCGTTTATCACCTAGCGCCGCTAAAGGCAAA-CTATTGTGGCGTTTTAACCTAAAACGCCACT-
* *
16745 AAAAAAT-AAACAAAACAACACCGTTTTGATATAAACAGAATAAACTTTAGTGGCGTTTTTCTGT
64 -AAAAATCAAACAAAACAACACCGTTTTGATATAAACAGAATAAACATTAGTGGCGTTTTCCTGT
* * * * *
16809 AGCGCCGCTAGAGGCAAATCAATTGCGGCGTTTCACCTTAAAACGCCACTAAAAATCCAAAAAAA
128 AGCGCCACTAGAAGCAAACCAATTGCGGCGTTTAACCTAAAAACGCCACTAAAAATCCAAAAAAA
* * * *
16874 TGACGATGTTTTCATATGAACAGAATAACATTTAGT
193 TGACGACGTTTTCATATAAACAAAATAACACTTAGT
* * ** *
16910 GGCATTTTATCACCAAGCGCCGCTAAAGGCGAAACTATTCCGGCGTTTTACCCTAAAACGCCACT
1 GGC-GTTTATCACCTAGCGCCGCTAAAGGC-AAACTATTGTGGCGTTTTAACCTAAAACGCCACT
* * * * * *
16975 AATAATCGAATAAAACTACATCGTTTTGATATAAACA-AATTAACCATTAGTGGCGTTTATACCT
64 AAAAATCAAACAAAACAACACCGTTTTGATATAAACAGAA-TAAACATTAGTGGCGTTT-T-CCT
* * *
17039 -TAGCGCCACTA-AATCAAACCTATTGTGGCGTTTGAACC-AAAAACGCCACTAAAAATCCATAA
126 GTAGCGCCACTAGAAGCAAACCAATTGCGGCGTTT-AACCTAAAAACGCCACTAAAAATCCA-AA
* * * *
17101 AAACT-AC-ACCGTTTTGATCTAAACAAAATAACCCTTAGT
189 AAAATGACGA-CGTTTTCATATAAACAAAATAACACTTAGT
* * * *
17140 GGCGTTTATAACCTTGCGCCGCTAAA-TCAACCCTATTGTGGCGTTTTAACCTAAAACGCCACTA
1 GGCGTTTATCACCTAGCGCCGCTAAAGGCAA-ACTATTGTGGCGTTTTAACCTAAAACGCCACTA
*
17204 AAAATCCAAAGAAAAC
65 AAAAT-CAAACAAAAC
17220 GGTGTCGTCT
Statistics
Matches: 254, Mismatches: 43, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
227 2 0.01
228 37 0.15
229 38 0.15
230 142 0.56
231 33 0.13
232 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (228 bp):
GGCGTTTATCACCTAGCGCCGCTAAAGGCAAACTATTGTGGCGTTTTAACCTAAAACGCCACTAA
AAATCAAACAAAACAACACCGTTTTGATATAAACAGAATAAACATTAGTGGCGTTTTCCTGTAGC
GCCACTAGAAGCAAACCAATTGCGGCGTTTAACCTAAAAACGCCACTAAAAATCCAAAAAAATGA
CGACGTTTTCATATAAACAAAATAACACTTAGT
Found at i:17208 original size:114 final size:113
Alignment explanation
Indices: 16682--17212 Score: 488
Period size: 114 Copynumber: 4.6 Consensus size: 113
16672 TAACATTTGC
* * *
16682 GGCGTTT-TCACCTAGCGCCGCTAAAGGCAAACCAATTGTGGCGTTTTAACAT-AAACGCCACTA
1 GGCGTTTAT-ACCTTGCGCCGCTAAA-GCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACT-
* * * *
16745 AAAAAAT-AAACAAAACAACACCGTTTTGATATAAACAGAATAAACTTTAGT
63 -AAAAATCCAACAAAACTACACCGTTTTGATATAAACAAAATAACCTTTAGT
* * * * * *
16796 GGCGTTT-T-TCTGTAGCGCCGCTAGAGGCAAATCAATTGCGGCG-TTTCACCTTAAAACGCCAC
1 GGCGTTTATACCT-T-GCGCCGCTA-AAGCAAACCTATTGTGGCGTTTTAACC-TAAAACGCCAC
* * * * * *
16858 TAAAAATCCAA-AAAAATGACGA-TGTTTTCATATGAACAGAATAACATTTAGT
62 TAAAAATCCAACAAAACT-AC-ACCGTTTTGATATAAACAAAATAACCTTTAGT
* ** ** *
16910 GGCATTTTATCACCAAGCGCCGCTAAAGGCGAAA-CTATTCCGGCGTTTTACCCTAAAACGCCAC
1 GGC-GTTTAT-ACCTTGCGCCGCTAAA-GC-AAACCTATTGTGGCGTTTTAACCTAAAACGCCAC
* * * * * *
16974 TAATAATCGAATAAAACTACATCGTTTTGATATAAACAAATTAACCATTAGT
62 TAAAAATCCAACAAAACTACACCGTTTTGATATAAACAAAATAACCTTTAGT
* * * *
17026 GGCGTTTATACCTTAGCGCCACTAAATCAAACCTATTGTGGCGTTTGAACCAAAAACGCCACTAA
1 GGCGTTTATACCTT-GCGCCGCTAAAGCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACTAA
* *
17091 AAATCCATA-AAAACTACACCGTTTTGATCTAAACAAAATAACCCTTAGT
65 AAATCCA-ACAAAACTACACCGTTTTGATATAAACAAAATAACCTTTAGT
* *
17140 GGCGTTTATAACCTTGCGCCGCTAAATCAACCCTATTGTGGCGTTTTAACCTAAAACGCCACTAA
1 GGCGTTTAT-ACCTTGCGCCGCTAAAGCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACTAA
17205 AAATCCAA
65 AAATCCAA
17213 AGAAAACGGT
Statistics
Matches: 342, Mismatches: 54, Indels: 43
0.78 0.12 0.10
Matches are distributed among these distances:
112 2 0.01
113 19 0.06
114 200 0.58
115 38 0.11
116 69 0.20
117 13 0.04
118 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (113 bp):
GGCGTTTATACCTTGCGCCGCTAAAGCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACTAAA
AATCCAACAAAACTACACCGTTTTGATATAAACAAAATAACCTTTAGT
Found at i:17895 original size:14 final size:14
Alignment explanation
Indices: 17873--17931 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
17863 ATACCCATGG
*
17873 CCATTAAACTTAAA
1 CCATAAAACTTAAA
17887 CCATAAAACCTTAAA
1 CCATAAAA-CTTAAA
* *
17902 CCATAGATCTTAAA
1 CCATAAAACTTAAA
*
17916 CCTTAAATA-TTAAA
1 CCATAAA-ACTTAAA
17930 CC
1 CC
17932 CTCAACCCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 25 0.68
15 12 0.32
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (14 bp):
CCATAAAACTTAAA
Found at i:18092 original size:22 final size:22
Alignment explanation
Indices: 18062--18136 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
18052 TGGGGTTTAA
* *
18062 TTAGGGTTTTAAAGGTTATAGT
1 TTAGTGTTTTAGAGGTTATAGT
* * **
18084 TTAGTG-TTTAGTGTTTAGGGGT
1 TTAGTGTTTTAGAGGTTA-TAGT
* *
18106 TTAGTGTTTTAGGGGTTATAGA
1 TTAGTGTTTTAGAGGTTATAGT
18128 TTAGTGTTT
1 TTAGTGTTT
18137 ATATTTTTTG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 8 0.20
22 23 0.57
23 9 0.22
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (22 bp):
TTAGTGTTTTAGAGGTTATAGT
Found at i:18109 original size:15 final size:16
Alignment explanation
Indices: 18089--18122 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
18079 ATAGTTTAGT
18089 GTTTAGTG-TTTAGGG
1 GTTTAGTGTTTTAGGG
18104 GTTTAGTGTTTTAGGG
1 GTTTAGTGTTTTAGGG
18120 GTT
1 GTT
18123 ATAGATTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (16 bp):
GTTTAGTGTTTTAGGG
Found at i:18123 original size:44 final size:45
Alignment explanation
Indices: 18066--18168 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
18056 GTTTAATTAG
** * *
18066 GGTTTTAAAGGTTATAGTTTAGTGTTTA-GTGTTTAGGGGTTT-A
1 GGTTTTAGGGGTTATAGATTAGTGTTTATATGTTTAGGGGTTTAA
* *
18109 GTGTTTTAGGGGTTATAGATTAGTGTTTATATTTTTTGGGGTTTAA
1 G-GTTTTAGGGGTTATAGATTAGTGTTTATATGTTTAGGGGTTTAA
18155 GGTTTTAGGGGTTA
1 GGTTTTAGGGGTTA
18169 AATGACTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
43 1 0.02
44 24 0.47
45 24 0.47
46 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (45 bp):
GGTTTTAGGGGTTATAGATTAGTGTTTATATGTTTAGGGGTTTAA
Found at i:18227 original size:41 final size:41
Alignment explanation
Indices: 18175--18464 Score: 154
Period size: 41 Copynumber: 7.1 Consensus size: 41
18165 GTTAAATGAC
*
18175 TTTTAGCGGCGTTTTTGGTAAAATGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTAATGCTCTGGT
* **** * * * *
18216 TTTTAGTGGCGTTTTACACAAAGCGCTGCTAATTCTTTGGT
1 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTAATGCTCTGGT
* *** * * *
18257 TTTTAGTGGCG-TTTTACCAAACGCGCCACTAATGCTCTGGC
1 TTTTAGCGGCGTTTTTGGTAAA-ACGCCGCTAATGCTCTGGT
* * * * * *
18298 TTTTAGCGGCGTTTTGGGTAAAACACCACTATTGCTATGTT
1 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTAATGCTCTGGT
* * * * **
18339 TTTTGGCGGCGTTTTCT-GTAAAACGCCGCTATTTCTATAAT
1 TTTTAGCGGCGTTTT-TGGTAAAACGCCGCTAATGCTCTGGT
* **** * *
18380 TTTTAGCTGCGTTTTACCAAAAACGCCGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTAATGCTCTGGT
* **** *
18420 TTTTAGTGGCGTTTTACCAAAAACGCCGCTATTGCTCTGCGT
1 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTAATGCTCTG-GT
18462 TTT
1 TTT
18465 ACAATTTTTG
Statistics
Matches: 197, Mismatches: 46, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
40 45 0.23
41 142 0.72
42 10 0.05
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTGGTAAAACGCCGCTAATGCTCTGGT
Found at i:18767 original size:15 final size:14
Alignment explanation
Indices: 18738--18766 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18728 ATATTGTTGC
18738 TATTTTTGTTTTTT
1 TATTTTTGTTTTTT
18752 TATTTTTGTTTTTT
1 TATTTTTGTTTTTT
18766 T
1 T
18767 TGTCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (14 bp):
TATTTTTGTTTTTT
Found at i:22392 original size:7 final size:7
Alignment explanation
Indices: 22382--22407 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22372 AGGAGAGAAT
22382 GATGAGG
1 GATGAGG
22389 GATGAGG
1 GATGAGG
22396 GATGAGG
1 GATGAGG
22403 GATGA
1 GATGA
22408 TTGAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:32257 original size:45 final size:45
Alignment explanation
Indices: 32153--32369 Score: 282
Period size: 45 Copynumber: 4.9 Consensus size: 45
32143 CCAAATTCAT
* * ** *
32153 TCACCGACATT-TCGCCTGCTAGGCT-TGAGGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
*
32195 TCACTGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
*
32240 TCACCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
32285 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
32330 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
32370 ATCAAATCAA
Statistics
Matches: 154, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
42 9 0.06
43 13 0.08
44 8 0.05
45 123 0.80
46 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:37355 original size:7 final size:7
Alignment explanation
Indices: 37343--37368 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37333 GAGAGAGAAT
37343 GATGAGG
1 GATGAGG
37350 GATGAGG
1 GATGAGG
37357 GATGAGG
1 GATGAGG
37364 GATGA
1 GATGA
37369 TTGAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:41890 original size:60 final size:60
Alignment explanation
Indices: 41804--41938 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 60
41794 AAGTTAACTC
* * *
41804 GGCCTTAGGCCATATCAATATTAATCTGGGCCATAGCCC-CTTACAATATC-AGAGTATACTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAA-ATCGAGA-TATACTG
* * * *
41865 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAATCGAGATATACTG
*
41925 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
41939 TAACATAGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
60 51 0.80
61 13 0.20
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAATCGAGATATACTG
Found at i:47601 original size:68 final size:68
Alignment explanation
Indices: 47512--47638 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
47502 TACATGTATC
* * * *
47512 TTGTAGCTCTCTTGTCTACATGGTGTATACAT-AGTATCACCCATGTGACCTAGCTACATCATAA
1 TTGTAGCTCTCTTGTCTACATGATGTACAC-TCAGTACCACACATGTGACCTAGCTACATCATAA
47576 TGTT
65 TGTT
* *
47580 TTGTAGCTCTCTTGTAC-ACATGATGTGCACTCAGTACCATACATGTGACCTAGCTACAT
1 TTGTAGCTCTCTTGT-CTACATGATGTACACTCAGTACCACACATGTGACCTAGCTACAT
47639 ACTATCTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
67 1 0.02
68 49 0.96
69 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (68 bp):
TTGTAGCTCTCTTGTCTACATGATGTACACTCAGTACCACACATGTGACCTAGCTACATCATAAT
GTT
Found at i:51226 original size:40 final size:40
Alignment explanation
Indices: 51132--51273 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
51122 TCTCGAACAT
* * *
51132 TAAGTGCCAATACATAGCCGAAGCTATTTCCATCTCGCACAC
1 TAAGTG-CTATACATAGCCGAAGCTATTTCGA-ATCGCACAC
* * *
51174 TATGTGCCATACATAGCCGAAGCTATCTCGAATCGCACAC
1 TAAGTGCTATACATAGCCGAAGCTATTTCGAATCGCACAC
* * * *
51214 AAAGTGCTATACATAGCTGAAGCTATTTTGAATCACACAC
1 TAAGTGCTATACATAGCCGAAGCTATTTCGAATCGCACAC
**
51254 TAAGTGCTATATGTAGCCGA
1 TAAGTGCTATACATAGCCGA
51274 GTTATCGTCA
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 57 0.68
41 22 0.26
42 5 0.06
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
TAAGTGCTATACATAGCCGAAGCTATTTCGAATCGCACAC
Found at i:67445 original size:26 final size:26
Alignment explanation
Indices: 67416--67523 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
67406 TGGTACAAAT
67416 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
67442 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67468 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67494 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67520 TGAT
1 TGAT
67524 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:69169 original size:27 final size:27
Alignment explanation
Indices: 69139--69215 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
69129 CCGGTGGCAA
69139 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAATTATCTGATCTGGTGGCTC
* * *
69166 TGCCAC-ATATATTTGTTCTTGTGGCTC
1 TGCCACAAT-TATCTGATCTGGTGGCTC
*
69193 TGCCACAA-TATCTATATCTGGTG
1 TGCCACAATTATCT-GATCTGGTG
69216 ACTTCGTCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 6 0.15
27 33 0.82
28 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (27 bp):
TGCCACAATTATCTGATCTGGTGGCTC
Found at i:72681 original size:40 final size:40
Alignment explanation
Indices: 72624--72706 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
72614 GGAATGAGGA
72624 GTATAAACTCCTAGAACCACCATGACCATTCAATAGAGAG
1 GTATAAACTCCTAGAACCACCATGACCATTCAATAGAGAG
* * *
72664 GTATAAACTCCTCGAACCACTATGACCATTCAATGGAGAG
1 GTATAAACTCCTAGAACCACCATGACCATTCAATAGAGAG
72704 GTA
1 GTA
72707 AGTCAAGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (40 bp):
GTATAAACTCCTAGAACCACCATGACCATTCAATAGAGAG
Found at i:78250 original size:40 final size:40
Alignment explanation
Indices: 78142--78289 Score: 140
Period size: 40 Copynumber: 3.6 Consensus size: 40
78132 GGAATTCTCG
* *
78142 CACACTAAGTGCCA-ATACATAGCCGAAGCTATTTC-AATCTTG
1 CACACTAAGTG--ATATACATAGCCGAAGCTATCTCGAATC--A
* * *
78184 CACACTAAAT-TTCATACTTAGCCGAAGCTATCTCGAATCA
1 CACACTAAGTGAT-ATACATAGCCGAAGCTATCTCGAATCA
* * * *
78224 CACACTAAGTGATATACATAGTCGAAGCTATTTCGATTCG
1 CACACTAAGTGATATACATAGCCGAAGCTATCTCGAATCA
*
78264 CACACTAAGTGCTATACATAGCCGAA
1 CACACTAAGTGATATACATAGCCGAA
78290 TTGTAGTCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 55 0.62
41 20 0.23
42 13 0.15
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGATATACATAGCCGAAGCTATCTCGAATCA
Found at i:79856 original size:14 final size:14
Alignment explanation
Indices: 79837--79877 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
79827 CAGAACATAA
79837 TTCACACAATTAAT
1 TTCACACAATTAAT
*
79851 TTCACACAATCAAT
1 TTCACACAATTAAT
*
79865 TTCACACAGTTAA
1 TTCACACAATTAA
79878 GGGTCTAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.32
Consensus pattern (14 bp):
TTCACACAATTAAT
Found at i:82498 original size:19 final size:20
Alignment explanation
Indices: 82469--82511 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
82459 TTTATTATTT
82469 ATTTTAGTTTTGATTCTAAA
1 ATTTTAGTTTTGATTCTAAA
* *
82489 ATTTTA-TTTTTATTTTAAA
1 ATTTTAGTTTTGATTCTAAA
82508 ATTT
1 ATTT
82512 AAGATAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTAGTTTTGATTCTAAA
Found at i:83160 original size:47 final size:47
Alignment explanation
Indices: 83103--83243 Score: 218
Period size: 49 Copynumber: 3.0 Consensus size: 47
83093 ATACAAAAAA
83103 AACTTTGGATCATAACTTACATAATACATAAATATATATTATATCAT
1 AACTTTGGATCATAACTTACATAATACATAAATATATATTATATCAT
83150 AACTTTGGATCATAACTTACATAACTTACATAAATATATATTATATCAT
1 AACTTTGGATCATAACTTACATAA--TACATAAATATATATTATATCAT
* *
83199 AAC-TT--A-CATAACTTACATAATACATAAATACATATCATATCAT
1 AACTTTGGATCATAACTTACATAATACATAAATATATATTATATCAT
83242 AA
1 AA
83244 TACATAAAAC
Statistics
Matches: 90, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
43 23 0.26
45 14 0.16
46 1 0.01
47 24 0.27
48 2 0.02
49 26 0.29
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (47 bp):
AACTTTGGATCATAACTTACATAATACATAAATATATATTATATCAT
Found at i:83174 original size:9 final size:9
Alignment explanation
Indices: 83160--83218 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
83150 AACTTTGGAT
83160 CATAACTTA
1 CATAACTTA
83169 CATAACTTA
1 CATAACTTA
*
83178 CATAA-ATA
1 CATAACTTA
* *
83186 TAT-ATTATA
1 CATAACT-TA
83195 TCATAACTTA
1 -CATAACTTA
83205 CATAACTTA
1 CATAACTTA
83214 CATAA
1 CATAA
83219 TACATAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 1 0.02
8 4 0.10
9 30 0.73
10 4 0.10
11 2 0.05
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:89527 original size:18 final size:18
Alignment explanation
Indices: 89496--89531 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
89486 TTTTGCTGTA
* *
89496 GTAATTTTTTTATTTAAT
1 GTAATATTTATATTTAAT
89514 GTAATATTTATATTTAAT
1 GTAATATTTATATTTAAT
89532 AAAAGTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
GTAATATTTATATTTAAT
Found at i:91814 original size:30 final size:32
Alignment explanation
Indices: 91760--91818 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
91750 TTAAAATTAT
*
91760 TTTTATTTAAATCTAATATATATTTTTTAAAA
1 TTTTATTTAAAACTAATATATATTTTTTAAAA
*
91792 TTTTA-TTAAAACT-ATTTATATTTTTTA
1 TTTTATTTAAAACTAATATATATTTTTTA
91819 CGTATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 13 0.52
31 7 0.28
32 5 0.20
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTATTTAAAACTAATATATATTTTTTAAAA
Found at i:100873 original size:80 final size:80
Alignment explanation
Indices: 100750--101464 Score: 727
Period size: 80 Copynumber: 8.9 Consensus size: 80
100740 TTTAGTTTAC
* * * * * *
100750 TAAAATTATTGAAATACCC-C-AGTTGTAAAATTAC-CAAAGTACCCCCGGTTTATAAAATTACC
1 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACC
*
100812 GAAATACCGTCGATTA
65 GAAATACCCTCGATTA
* * *
100828 TAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACC-
1 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCG
* * *
100892 AAAGTACCCCTAGTTTT
66 AAA-TA-CCCTCGATTA
* * * * *
100909 TAAAATTACCGAAATACCGTCTA-TTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCG
1 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCG
* *
100973 AAATACCCTCAGTTTG
66 AAATACCCTC-GATTA
* *
100989 CAAAATTA-TCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATC
1 TAAAATTACT-GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACC
* *
101053 AAAATACCCTCAGTTTA
65 GAAATACCCTC-GATTA
* *
101070 TAAAATTACTGAAATACCCTAGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACC-
1 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCG
*
101134 AAAGTACCCCCGATTTA
66 AAA-TACCCTCGA-TTA
* * * * *
101151 TAAAATTA-TCAAAATATCGTC-ATTTTTAAAATTACTGAAATACCCTCGACTTGTAAAATTACC
1 TAAAATTACT-GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACC
* * *
101214 AAAATACCCCCAGTTTA
65 GAAATACCCTC-GATTA
* * *
101231 TAAAATTACCGAAATACCATCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTG
1 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCG
** *
101295 AAATACCCTTAACTTG
66 AAATACCCTCGA-TTA
* * * * ** *
101311 TAAAATTAC-CAAAGTACCCTCGGTTTATAAAATTACTAAAATACTATCGA-TTGTAAAATTACT
1 TAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACC
* *
101374 AAAATACCCTCGATTTG
65 GAAATACCCTCGA-TTA
* * **
101391 TAAAATTACTGAAATACCCT-TAGTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATTATT
1 TAAAATTACTGAAATACCCTCGA-TTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACC
101455 GAAATACCCT
65 GAAATACCCT
101465 TGTAAGGTAG
Statistics
Matches: 539, Mismatches: 75, Indels: 43
0.82 0.11 0.07
Matches are distributed among these distances:
78 17 0.03
79 11 0.02
80 294 0.55
81 216 0.40
82 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
TAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCG
AAATACCCTCGATTA
Found at i:101411 original size:107 final size:106
Alignment explanation
Indices: 100750--101489 Score: 778
Period size: 107 Copynumber: 6.9 Consensus size: 106
100740 TTTAGTTTAC
* * *
100750 TAAAATTATTGAAATACCC-C-AGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTCAACTTGTAAAATTACCAAA-TACCCTCGGTTTATAAAATTACCG
* *
100813 AAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTG
65 AAATACCATCGATTGTAAAATTACTAAAATACCCTCGATTTG
* * * *
100855 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCC-CTAGTTTTTAAAATTACC
1 TAAAATTACTGAAATACCCTCAACTTGTAAAATTACCAAA-TACCCTC-GGTTTATAAAATTACC
* * *
100919 GAAATACCGTCTATTGTAAAATTACTAAAATACCCTCAATTTG
64 GAAATACCATCGATTGTAAAATTACTAAAATACCCTCGATTTG
* ** * * * * *
100962 TAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAATACCCTCGATTTGTAAAATTACTG
1 TAAAATTACTGAAATACCCTCAACTTGTAAAATTA-CCAAATACCCTCGGTTTATAAAATTACCG
* *
101027 AAATACCCTCGATTTGTAAAATTA-TCAAAATACCCTC-AGTTTA
65 AAATACCATCGA-TTGTAAAATTACT-AAAATACCCTCGA-TTTG
* * ** *
101070 TAAAATTACTGAAATACCCT-AGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACC
1 TAAAATTACTGAAATACCCTCA-ACTTGTAAAATTAC-CAAATACCCTCGGTTTATAAAATTACC
** * * * *
101134 -AAAGTACCCCCGATTTATAAAATTA-TCAAAATATCGTC-ATTTT
64 GAAA-TACCATCGA-TTGTAAAATTACT-AAAATACCCTCGATTTG
* * *
101177 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCCCAGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTCAACTTGTAAAATTACC-AAATACCCTCGGTTTATAAAATTACCG
*
101242 AAATACCATCGATTGTAAAATTACTGAAATACCCTCGATTTG
65 AAATACCATCGATTGTAAAATTACTAAAATACCCTCGATTTG
* **
101284 TAAAATTACTGAAATACCCTTAACTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACTA
1 TAAAATTACTGAAATACCCTCAACTTGTAAAATTACCAAA-TACCCTCGGTTTATAAAATTACCG
*
101349 AAATACTATCGATTGTAAAATTACTAAAATACCCTCGATTTG
65 AAATACCATCGATTGTAAAATTACTAAAATACCCTCGATTTG
* ** * * * * **
101391 TAAAATTACTGAAATACCCTTAGTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATTATTG
1 TAAAATTACTGAAATACCCTCAACTTGTAAAATTAC-CAAATACCCTCGGTTTATAAAATTACCG
* * ** *
101456 AAATACCCTTGTAAGGTAGAATTACTAAAATACC
65 AAATACCATCG-ATTGTAAAATTACTAAAATACC
101490 ACTATAGGGT
Statistics
Matches: 547, Mismatches: 69, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
105 17 0.03
106 23 0.04
107 366 0.67
108 141 0.26
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (106 bp):
TAAAATTACTGAAATACCCTCAACTTGTAAAATTACCAAATACCCTCGGTTTATAAAATTACCGA
AATACCATCGATTGTAAAATTACTAAAATACCCTCGATTTG
Found at i:101457 original size:27 final size:27
Alignment explanation
Indices: 100750--101464 Score: 712
Period size: 27 Copynumber: 26.7 Consensus size: 27
100740 TTTAGTTTAC
* *
100750 TAAAATTATTGAAATACCC-C-AGTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * * *
100775 TAAAATTAC-CAAAGTACCCCCGGTTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* * *
100802 TAAAATTACCGAAATACCGTCGA-TTA
1 TAAAATTACTGAAATACCCTCGATTTG
*
100828 TAAAATTACTAAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
100855 TAAAATTACTAAAATACCCTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
100882 TAAAATTAC-CAAAGTACCC-CTAGTTTT
1 TAAAATTACTGAAA-TACCCTCGA-TTTG
* * *
100909 TAAAATTACCGAAATACCGTCTA-TTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
100935 TAAAATTACTAAAATACCCTCAATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
100962 TAAAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
*
100989 CAAAATTA-TCGAAATACCCTCGATTTG
1 TAAAATTACT-GAAATACCCTCGATTTG
101016 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
101043 TAAAATTA-TCAAAATACCCTC-AGTTTA
1 TAAAATTACT-GAAATACCCTCGA-TTTG
*
101070 TAAAATTACTGAAATACCCTAGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
101097 TAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
101124 TAAAATTAC-CAAAGTACCCCCGATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* * * *
101151 TAAAATTA-TCAAAATATCGTC-ATTTT
1 TAAAATTACT-GAAATACCCTCGATTTG
*
101177 TAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
** * *
101204 TAAAATTACCAAAATACCC-CCAGTTTA
1 TAAAATTACTGAAATACCCTCGA-TTTG
* *
101231 TAAAATTACCGAAATACCATCGA-TTG
1 TAAAATTACTGAAATACCCTCGATTTG
101257 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
** *
101284 TAAAATTACTGAAATACCCTTAACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
101311 TAAAATTAC-CAAAGTACCCTCGGTTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* **
101338 TAAAATTACTAAAATACTATCGA-TTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
101364 TAAAATTACTAAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
101391 TAAAATTACTGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
*
101418 CAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
101445 TAAAATTATTGAAATACCCT
1 TAAAATTACTGAAATACCCT
101465 TGTAAGGTAG
Statistics
Matches: 575, Mismatches: 84, Indels: 60
0.80 0.12 0.08
Matches are distributed among these distances:
24 3 0.01
25 13 0.02
26 128 0.22
27 409 0.71
28 22 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:101478 original size:27 final size:27
Alignment explanation
Indices: 101448--101688 Score: 306
Period size: 27 Copynumber: 8.9 Consensus size: 27
101438 CGATTTGTAA
* * *
101448 AATTATTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
101475 AATTACTAAAATACCACTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
101502 AATTACCGAAATACCTTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
101529 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
101556 AAATA-TCGAAATACCCCTGTAGAGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
101583 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
*
101610 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
101637 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
101664 AATTACTGAAATACCCCTGTAGGGT
1 AATTACTGAAATACCCCTGTAGGGT
101689 GTTAAATGGC
Statistics
Matches: 186, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 185 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:101506 original size:54 final size:54
Alignment explanation
Indices: 101421--101684 Score: 302
Period size: 54 Copynumber: 4.9 Consensus size: 54
101411 TAGTTTGCAA
* ** * * *
101421 AATTACTGAAATACCCTCGAT-TTGTAAAATTATTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCC-CTATAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * ** *
101475 AATTACTAAAATACCACTATAGGGTAGAATTACCGAAATACCTTTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
101529 AATTA-TCGAAATACCCTTGTAGGGTAGAAATA-TCGAAATACCCCTGT-AGAGTAG
1 AATTACT-GAAATACCCCTATAGGGTAGAATTACT-GAAATACCCCTGTAAG-GTAG
* *
101583 AATTACTGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
*
101637 AATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTA
1 AATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTA
101685 GGGTGTTAAA
Statistics
Matches: 178, Mismatches: 25, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
53 5 0.03
54 169 0.95
55 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:101506 original size:81 final size:81
Alignment explanation
Indices: 101421--101688 Score: 328
Period size: 81 Copynumber: 3.3 Consensus size: 81
101411 TAGTTTGCAA
** *
101421 AATTACTGAAATACCCTCG-ATTTGTAAAATTATTGAAATACCCTTGTAAGGTAGAATTACTAAA
1 AATTACTGAAATACCCTCGTA-GGGTAAAATTATTGAAATACCCTTGTAAGGTAGAATTACTGAA
*
101485 ATACCACTATAGGGTAG
65 ATACCCCTATAGGGTAG
* * * * * * *
101502 AATTACCGAAATACCTTTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATA-TCGAA
1 AATTACTGAAATACCCTCGTAGGGTAAAATTATTGAAATACCCTTGTAAGGTAGAATTACT-GAA
* *
101566 ATACCCCTGTAGAGTAG
65 ATACCCCTATAGGGTAG
* * *
101583 AATTACTGAAATACCC-CTGTAGGGTAAAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAA
1 AATTACTGAAATACCCTC-GTAGGGTAAAATTATTGAAATACCCTTGTAAGGTAGAATTACTGAA
101647 ATACCCCTATAGGGTAG
65 ATACCCCTATAGGGTAG
101664 AATTACTGAAATACCC-CTGTAGGGT
1 AATTACTGAAATACCCTC-GTAGGGT
101689 GTTAAATGGC
Statistics
Matches: 158, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 156 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (81 bp):
AATTACTGAAATACCCTCGTAGGGTAAAATTATTGAAATACCCTTGTAAGGTAGAATTACTGAAA
TACCCCTATAGGGTAG
Found at i:101934 original size:27 final size:26
Alignment explanation
Indices: 101896--101978 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
101886 TGGAGGAAGC
101896 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
101923 GTTCTGGTGGCTCTGCTACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
101949 GTATCTGGTGACTTTTTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
101976 GTT
1 GTT
101979 GATCGATCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 10 0.21
27 38 0.79
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:102147 original size:20 final size:20
Alignment explanation
Indices: 102107--102147 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
102097 TGTGTGCCGT
* *
102107 TATTGTGGGCTTCATATCGA
1 TATTGTAGGCTTCATACCGA
*
102127 TATTGTAGGCTTCGTACCGA
1 TATTGTAGGCTTCATACCGA
102147 T
1 T
102148 TATAGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (20 bp):
TATTGTAGGCTTCATACCGA
Found at i:102162 original size:98 final size:98
Alignment explanation
Indices: 102029--102267 Score: 397
Period size: 98 Copynumber: 2.4 Consensus size: 98
102019 TGTGTGCCGT
* *
102029 TATTGTAGGCTTCGTGCCGATTATAGACCCATTATCAATGGCTGAGTGCCGATCATGTTATCGAA
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCGAA
*
102094 GGCTGTGTGCCGTTATTGTGGGCTTCATATCGA
66 GGCTGTGTCCCGTTATTGTGGGCTTCATATCGA
* *
102127 TATTGTAGGCTTCGTACCGATTATAGACCCGTTATCAATGGTTGAGTGCCGATCATGTTACCGAA
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCGAA
102192 GGCTGTGTCCCGTTATTGTGGGCTTCATATCGA
66 GGCTGTGTCCCGTTATTGTGGGCTTCATATCGA
* ** *
102225 TATTGTGGGCTTCGTGTTGATTATAGACCCGTTATCGATGGCT
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCT
102268 TTGTACCATG
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 130 1.00
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (98 bp):
TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCGAA
GGCTGTGTCCCGTTATTGTGGGCTTCATATCGA
Found at i:116607 original size:56 final size:56
Alignment explanation
Indices: 116510--116664 Score: 251
Period size: 55 Copynumber: 2.8 Consensus size: 56
116500 TCCCAAACAG
* * *
116510 GGTCTTACTCGTAAACACATAT-GGAATCACATATTGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATTGATGCCAACGTATTAAACGT
*
116565 GGTCTTACTCGCACACACATATCAGAATCACATATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATTGATGCCAACGTATTAAACGT
*
116621 GGTCTTGCTCGCACAC-CATATCGGAATCACATATTGATGCCAAC
1 GGTCTTACTCGCACACACATATCGGAATCACATATTGATGCCAAC
116665 TCCAAAATGT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 47 0.51
56 46 0.49
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCGGAATCACATATTGATGCCAACGTATTAAACGT
Found at i:118449 original size:46 final size:45
Alignment explanation
Indices: 118396--118559 Score: 149
Period size: 46 Copynumber: 3.5 Consensus size: 45
118386 ATTGTGAACT
*
118396 AGTGTAAGACATGTTTGGGACATGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCC-CATTATGAGAGCC
*
118442 AGTGTAAGACCATGTCTGGGACATGGCATTGG--CATTGA-GACGAATGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCCATT-ATGA-G-A-GCC
* *
118490 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCC-C-ATTATG-AGAGCC
**
118536 AGTGTAAGACATGTCCAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
118560 TATCGACTAC
Statistics
Matches: 99, Mismatches: 7, Indels: 24
0.76 0.05 0.18
Matches are distributed among these distances:
45 6 0.06
46 41 0.41
47 29 0.29
48 19 0.19
49 2 0.02
50 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCCATTATGAGAGCC
Found at i:119630 original size:28 final size:28
Alignment explanation
Indices: 119573--119636 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
119563 TGGGAAATAG
* * *
119573 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
* *
119601 TTGGGCTTGATAGGCCATGTGAACGAGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
*
119629 TTAGGCCT
1 TTGGGCCT
119637 AAATGGGCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAACGAGA
Found at i:119983 original size:27 final size:27
Alignment explanation
Indices: 119953--120077 Score: 150
Period size: 27 Copynumber: 4.7 Consensus size: 27
119943 TAATAAAGAG
*
119953 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
119980 AAATTATTGAAATACCCTC-AATTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
120006 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
120033 AAATTATCGAAATACCCTCGGTTT-TG
1 AAATTATCGAAATACCCTCGATTTGTA
120059 AAATTA-CTGAAATACCCTC
1 AAATTATC-GAAATACCCTC
120078 ATATATATTT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.01
26 40 0.47
27 43 0.51
28 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:120032 original size:53 final size:53
Alignment explanation
Indices: 119952--120077 Score: 191
Period size: 53 Copynumber: 2.4 Consensus size: 53
119942 ATAATAAAGA
* *
119952 GAAATTA-TCGAAACACCCTCGATTTGTAAAATTATTGAAATACCCTCAATTGT
1 GAAATTACT-GAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTGT
** *
120005 GAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGGTTTT
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTGT
120058 GAAATTACTGAAATACCCTC
1 GAAATTACTGAAATACCCTC
120078 ATATATATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
53 66 0.99
54 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (53 bp):
GAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTGT
Found at i:123066 original size:21 final size:21
Alignment explanation
Indices: 123041--123097 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
123031 CGTGGTCCAA
* *
123041 GGGACACACCTGTGTGACCTT
1 GGGACACACCCGTGCGACCTT
*
123062 GGGACACGCCCGTGCGACCTT
1 GGGACACACCCGTGCGACCTT
*
123083 GGGACACGCCCGTGC
1 GGGACACACCCGTGC
123098 TGCAGGCCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (21 bp):
GGGACACACCCGTGCGACCTT
Found at i:134634 original size:25 final size:27
Alignment explanation
Indices: 134596--134645 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
134586 GGAGGGATAA
*
134596 GGGGAGAGATTTTAG-GGATTTGAGAG
1 GGGGAGAGATTTTAGCCGATTTGAGAG
*
134622 GGGGATAGA-TTTAGCCGATTTGAG
1 GGGGAGAGATTTTAGCCGATTTGAG
134646 GGGATTAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.26, C:0.04, G:0.42, T:0.28
Consensus pattern (27 bp):
GGGGAGAGATTTTAGCCGATTTGAGAG
Found at i:135441 original size:8 final size:8
Alignment explanation
Indices: 135430--135457 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
135420 TTAAATTGAT
135430 AAATGCCG
1 AAATGCCG
135438 AAATGCCG
1 AAATGCCG
135446 AAATGCCG
1 AAATGCCG
135454 AAAT
1 AAAT
135458 TCTGGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:135977 original size:20 final size:20
Alignment explanation
Indices: 135952--135998 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
135942 ATTTTGATAT
135952 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
135972 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
135992 ACATGAT
1 ACATGAT
135999 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:136078 original size:26 final size:26
Alignment explanation
Indices: 136048--136117 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
136038 GAGGAAGTGC
*
136048 AAAAGGGTTTATGCCCCAGTTCACCG
1 AAAAGGGTTTATGCCCCAGCTCACCG
* * *
136074 AAAAGGGCTTATGCCCCAGCTGACGG
1 AAAAGGGTTTATGCCCCAGCTCACCG
136100 AAAAGGGCTTT-TGCCCCA
1 AAAAGGG-TTTATGCCCCA
136118 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 36 0.95
27 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (26 bp):
AAAAGGGTTTATGCCCCAGCTCACCG
Found at i:137987 original size:16 final size:17
Alignment explanation
Indices: 137960--137991 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
137950 ACATTAAGGG
137960 CAAATGTGTAAATTTTC
1 CAAATGTGTAAATTTTC
137977 CAAAT-TGTAAATTTT
1 CAAATGTGTAAATTTT
137992 AGGCTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (17 bp):
CAAATGTGTAAATTTTC
Found at i:138275 original size:40 final size:40
Alignment explanation
Indices: 138231--138333 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
138221 ATGACAAATC
*
138231 GGCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTT
1 GGCTATATATGGCACTTAGTGTGCGATTTAAGATAGCTTT
* * * *
138271 GGCTATGTACGACACTTAGTGCGCGATTTAAGATAGCTTT
1 GGCTATATATGGCACTTAGTGTGCGATTTAAGATAGCTTT
138311 GGCTATATACT-GCACTTAGTGTG
1 GGCTATATA-TGGCACTTAGTGTG
138334 TAGTGTACAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (40 bp):
GGCTATATATGGCACTTAGTGTGCGATTTAAGATAGCTTT
Found at i:140167 original size:4 final size:4
Alignment explanation
Indices: 140160--140184 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
140150 CAAAAAAAAG
140160 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
140185 TTTAATAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:140738 original size:30 final size:30
Alignment explanation
Indices: 140704--140764 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
140694 AACAGAGGGT
140704 AATACACATAGAAATAGAGAAAAGCACACC
1 AATACACATAGAAATAGAGAAAAGCACACC
140734 AATACACATAGAAATAGAGAAAAGCACACC
1 AATACACATAGAAATAGAGAAAAGCACACC
140764 A
1 A
140765 CAAAAGCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.20, G:0.13, T:0.10
Consensus pattern (30 bp):
AATACACATAGAAATAGAGAAAAGCACACC
Found at i:141596 original size:23 final size:27
Alignment explanation
Indices: 141570--141633 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 27
141560 CTTATTTTTA
141570 TATTATATATTAT-ATA-AT-TAT-TT
1 TATTATATATTATCATATATCTATATT
* *
141593 TATTATATACTATTCATATATCTTTATT
1 TATTATATATTA-TCATATATCTATATT
141621 TATTATATATTAT
1 TATTATATATTAT
141634 TTTTCACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 11 0.33
24 1 0.03
25 3 0.09
26 2 0.06
27 3 0.09
28 13 0.39
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTATATATTATCATATATCTATATT
Found at i:141670 original size:20 final size:22
Alignment explanation
Indices: 141620--141670 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
141610 ATATCTTTAT
*
141620 TTATTATATATTATTTTTCACA
1 TTATTATTTATTATTTTTCACA
*
141642 -AATTA-TTATTA-TTTT-ACA
1 TTATTATTTATTATTTTTCACA
141660 TTATTATTTAT
1 TTATTATTTAT
141671 ATTATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.12
19 8 0.33
20 9 0.38
21 4 0.17
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATTATTTATTATTTTTCACA
Found at i:141736 original size:26 final size:23
Alignment explanation
Indices: 141707--141776 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 23
141697 ATATTTATTG
141707 ATTATTTATTACATATATATTTTCAT
1 ATTATTTATTACA-AT-TATTTT-AT
* *
141733 ATTATATATTATAATTATTTTAT
1 ATTATTTATTACAATTATTTTAT
*
141756 ATTA-TTATGAC-ATT-TTTTAT
1 ATTATTTATTACAATTATTTTAT
141776 A
1 A
141777 CCATTATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 7 0.18
21 3 0.08
22 4 0.10
23 6 0.15
24 6 0.15
25 2 0.05
26 11 0.28
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (23 bp):
ATTATTTATTACAATTATTTTAT
Found at i:141775 original size:20 final size:18
Alignment explanation
Indices: 141734--141798 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
141724 TATTTTCATA
141734 TTATA-TATTATAATTATT
1 TTATATTATTATAATT-TT
141752 TTATATTATTATGACATTTT
1 TTATATTATTAT-A-ATTTT
**
141772 TTATACCATTATATATTTT
1 TTATATTATTATA-ATTTT
141791 TTAT-TTAT
1 TTATATTAT
141799 ATATTATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.18
19 16 0.41
20 13 0.33
21 3 0.08
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATTATTATAATTTT
Found at i:142083 original size:16 final size:16
Alignment explanation
Indices: 142058--142108 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
142048 TTCTAAACCA
*
142058 ATATATTTATATTATT
1 ATATAATTATATTATT
*
142074 ATATAATTATTATTCTT
1 ATATAATTA-TATTATT
*
142091 ATA-AATATTTATTATT
1 ATATAAT-TATATTATT
142107 AT
1 AT
142109 TATTACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATAATTATATTATT
Found at i:142102 original size:19 final size:17
Alignment explanation
Indices: 142058--142111 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
142048 TTCTAAACCA
142058 ATATATTTA-TATTATT
1 ATATATTTATTATTATT
* *
142074 ATATAATTATTATTCTT
1 ATATATTTATTATTATT
142091 ATAAATATTTATTATTATT
1 AT--ATATTTATTATTATT
142110 AT
1 AT
142112 TACATATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 8 0.26
17 8 0.26
19 15 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTTATTATTATT
Found at i:142121 original size:19 final size:19
Alignment explanation
Indices: 142067--142121 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
142057 AATATATTTA
*
142067 TATTATTATATAATTATTAT
1 TATTATTAAAT-ATTATTAT
*
142087 TCTTA-TAAATATTTATTAT
1 TATTATTAAATA-TTATTAT
*
142106 TATTATTACATATTAT
1 TATTATTAAATATTAT
142122 ATTTTAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.03
19 19 0.66
20 9 0.31
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTATTAAATATTATTAT
Found at i:154526 original size:206 final size:205
Alignment explanation
Indices: 153995--154548 Score: 835
Period size: 205 Copynumber: 2.7 Consensus size: 205
153985 CTGATCTGGC
* *
153995 TGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAA-CTGAAGACGTAGCT
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATC-GAAGACATAGCT
* * *
154059 GATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTATCAG
65 GATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
154124 AGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGGTAGCAGATACATAACAGATCTCACCTTC
130 AGAACAAATCGAAGTCTAGCATCACCACTTCAACGGGGAGCAGATACATAACAGATCTCACCTTC
*
154189 AGATGTTTATA
195 AGATATTTATA
* * * *
154200 CTGAAGC-ATATCCAAGATGATTTGGCATCCTTGTGCCTACAAGGAGCGAATCGAAGACATAGCT
1 -TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
154264 GATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * *
154329 AGAACAAATCGAAGTCTAGCATCACTACTTTAACGGGGAGTAGATACATAACAGATCTCACCTTC
130 AGAACAAATCGAAGTCTAGCATCACCACTTCAACGGGGAGCAGATACATAACAGATCTCACCTTC
154394 AGATAATTTCAT-
195 AGAT-ATTT-ATA
* * *
154406 TGAAGCAAGATCCCAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAACTG
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
** * *
154471 ATTTGGCTTTCACGTGCATATGATGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
154536 GAACAAATCGAAG
131 GAACAAATCGAAG
154549 AAGCAGATTT
Statistics
Matches: 316, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
205 179 0.57
206 135 0.43
207 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTAGCATCACCACTTCAACGGGGAGCAGATACATAACAGATCTCACCTTCA
GATATTTATA
Found at i:156238 original size:11 final size:11
Alignment explanation
Indices: 156218--156387 Score: 72
Period size: 11 Copynumber: 15.1 Consensus size: 11
156208 TTATTTTACA
156218 TTAT-TATTAT
1 TTATATATTAT
156228 TTATATATTAT
1 TTATATATTAT
156239 TGT-TATATT-T
1 T-TATATATTAT
*
156249 TTACTTGTATTAT
1 TTA--TATATTAT
156262 ATT-TATTGATTAT
1 -TTATA-T-ATTAT
156275 TTATATA-TA-
1 TTATATATTAT
*
156284 TTATGTATTAT
1 TTATATATTAT
*
156295 TTTTACTTATATAT
1 TTATA--TAT-TAT
156309 TT-TCATATTAT
1 TTAT-ATATTAT
*
156320 ATATTATAATTAT
1 TTA-TAT-ATTAT
156333 TT-TATATTA-
1 TTATATATTAT
156342 TTATGATATT-T
1 TTAT-ATATTAT
*
156353 TTATACCATTAT
1 TTATA-TATTAT
* *
156365 ATATATTTTAT
1 TTATATATTAT
*
156376 CTATATATTAT
1 TTATATATTAT
156387 T
1 T
156388 ATCATTAAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 47
0.67 0.08 0.26
Matches are distributed among these distances:
9 9 0.07
10 16 0.13
11 50 0.41
12 20 0.16
13 19 0.16
14 8 0.07
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (11 bp):
TTATATATTAT
Found at i:156239 original size:17 final size:17
Alignment explanation
Indices: 156165--156345 Score: 103
Period size: 17 Copynumber: 10.6 Consensus size: 17
156155 TATACTATTC
*
156165 ATATTATCATTATTTAT
1 ATATTATTATTATTTAT
*
156182 -TATATATTATT-TTTCAC
1 ATAT-TATTATTATTT-AT
*
156199 AAATTATTATTATTT-T
1 ATATTATTATTATTTAT
*
156215 ACATTATTATTATTTAT
1 ATATTATTATTATTTAT
*
156232 ATATTATTGTTATATT-T
1 ATATTATTATTAT-TTAT
*
156249 TTACTTGTATTA-TATTTAT
1 ATA--T-TATTATTATTTAT
156268 -TGATTATTTATATATATTAT
1 AT-ATTA-TTAT-TAT-TTAT
* * *
156288 GTATTATTTTTACTTAT
1 ATATTATTATTATTTAT
156305 ATATT-TTCA-TA-TTAT
1 ATATTATT-ATTATTTAT
*
156320 ATATTATAATTATTT-T
1 ATATTATTATTATTTAT
156336 ATATTATTAT
1 ATATTATTAT
156346 GATATTTTTA
Statistics
Matches: 129, Mismatches: 15, Indels: 41
0.70 0.08 0.22
Matches are distributed among these distances:
15 10 0.08
16 39 0.30
17 43 0.33
18 12 0.09
19 12 0.09
20 12 0.09
21 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (17 bp):
ATATTATTATTATTTAT
Found at i:156261 original size:56 final size:56
Alignment explanation
Indices: 156201--156355 Score: 127
Period size: 48 Copynumber: 2.9 Consensus size: 56
156191 TTTTTCACAA
*
156201 ATTATTATTATTTTACATTATTATTATTTATATATTATTGTTATATTTTTACTTGT
1 ATTATTATTATTTTACATTATTATTATTTATATATTATTGTTATATTTTTACTTAT
* *
156257 ATTA-TATT-TATT-GATTA-T-TTA--TATATATTA-TG-TATTATTTTTACTTAT
1 ATTATTATTATTTTACATTATTATTATTTATATATTATTGTTA-TATTTTTACTTAT
* * * *
156305 A-TATT-TTCATATTATATATTATAATTATTT-TATATTATTATGATATTTTTA
1 ATTATTATT-AT-TT-TACATTATTATTATTTATATATTATTGTTATATTTTTA
156356 TACCATTATA
Statistics
Matches: 78, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
47 6 0.08
48 16 0.21
49 10 0.13
50 1 0.01
51 4 0.05
52 5 0.06
53 4 0.05
54 6 0.08
55 11 0.14
56 14 0.18
57 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (56 bp):
ATTATTATTATTTTACATTATTATTATTTATATATTATTGTTATATTTTTACTTAT
Found at i:156268 original size:43 final size:42
Alignment explanation
Indices: 156221--156326 Score: 101
Period size: 43 Copynumber: 2.4 Consensus size: 42
156211 TTTTACATTA
*
156221 TTATTATTTATATATTATTGT-TA-TATTTTTACTTGTATTATAT
1 TTATTATTTATATATTATTATGTATTATTTTTAC-T-TA-TATAT
*
156264 TTATTGATTATTTATATATATTATGTATTATTTTTACTTATATAT
1 TTATT-ATT-TATATAT-TATTATGTATTATTTTTACTTATATAT
*
156309 TT-TCATATTATATATTAT
1 TTATTAT-TTATATATTAT
156327 AATTATTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
42 3 0.06
43 13 0.25
44 5 0.09
45 13 0.25
46 7 0.13
47 3 0.06
48 9 0.17
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (42 bp):
TTATTATTTATATATTATTATGTATTATTTTTACTTATATAT
Found at i:156344 original size:58 final size:59
Alignment explanation
Indices: 156256--156386 Score: 148
Period size: 58 Copynumber: 2.2 Consensus size: 59
156246 TTTTTACTTG
* *
156256 TATTATAT-TTATTGATTATTTATATATATTATG-TATTATTTTTA-C-TTATATAT-TTT
1 TATTATATATTA-TAATTATTTATATATATTATGATATT-TTTATACCATTATATATATTT
156312 CATATTATATATTATAATTATTT-TATATTATTATGATATTTTTATACCATTATATATATTT
1 --TATTATATATTATAATTATTTATATA-TATTATGATATTTTTATACCATTATATATATTT
156373 TATCTATATATTAT
1 TAT-TATATATTAT
156387 TATCATTAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
57 4 0.06
58 28 0.44
59 11 0.17
60 18 0.28
61 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (59 bp):
TATTATATATTATAATTATTTATATATATTATGATATTTTTATACCATTATATATATTT
Found at i:156345 original size:19 final size:17
Alignment explanation
Indices: 156118--156387 Score: 75
Period size: 19 Copynumber: 15.3 Consensus size: 17
156108 ATTTTTAACC
156118 TTATTTT-TATATTATA
1 TTATTTTATATATTATA
* *
156134 -TATTATATA-ATTATT
1 TTATTTTATATATTATA
*
156149 TTATTATATACTATTCATA
1 TTATTTTATA-TATT-ATA
* *
156168 TTATCATTATTTATTATATA
1 TTAT-TTTATATA-T-TATA
*
156188 TTATTTT-TCACA--A-A
1 TTATTTTAT-ATATTATA
*
156202 TTATTATTAT-T-TTACA
1 TTATT-TTATATATTATA
*
156218 TTATTATTATTTA-TATA
1 TTATT-TTATATATTATA
*
156235 TTATTGTTATAT-TTTTA
1 TTATT-TTATATATTATA
* *
156252 CTTGTATTATAT-TTATTGA
1 -TTATTTTATATATTA-T-A
156271 TTATTTATATATATTATGTA
1 TTATTT-TATATATTA--TA
*
156291 TTATTTT-TACTTATATATT
1 TTATTTTATA--TAT-TATA
*
156310 TTCATATTATATATTATAA
1 TT-ATTTTATATATTAT-A
156329 TTATTTTATATTATTATGA
1 TTATTTTATA-TATTAT-A
*
156348 -TATTTTTATACCATTATA
1 TTA-TTTTATA-TATTATA
*
156366 TATATTTTATCTA-TATA
1 T-TATTTTATATATTATA
156383 TTATT
1 TTATT
156388 ATCATTAAAA
Statistics
Matches: 192, Mismatches: 29, Indels: 66
0.67 0.10 0.23
Matches are distributed among these distances:
14 6 0.03
15 14 0.07
16 27 0.14
17 30 0.16
18 28 0.15
19 51 0.27
20 30 0.16
21 6 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATTTTATATATTATA
Found at i:156679 original size:37 final size:34
Alignment explanation
Indices: 156604--156690 Score: 86
Period size: 37 Copynumber: 2.5 Consensus size: 34
156594 ATTATTTTAC
* * *
156604 ATATTTGATATTTTATACATTATTTTTCTAAACCAA
1 ATATTTTATATTTTATAAATTATTATTCT-AA-CAA
* *
156640 TATATTTTATATTTTATATAATTATTATTCTTATAA
1 -ATATTTTATATTTTATA-AATTATTATTCTAACAA
156676 ATATTTTAT-TTTTAT
1 ATATTTTATATTTTAT
156691 TATTATATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 6 0.14
35 9 0.20
36 2 0.05
37 17 0.39
38 10 0.23
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (34 bp):
ATATTTTATATTTTATAAATTATTATTCTAACAA
Found at i:156684 original size:17 final size:18
Alignment explanation
Indices: 156641--156709 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 18
156631 CTAAACCAAT
156641 ATATTTTATATTTTATATA
1 ATATTTTAT-TTTTATATA
* *
156660 AT-TATTATTCTTATA-A
1 ATATTTTATTTTTATATA
*
156676 ATATTTTATTTTTATTATT
1 ATATTTTATTTTTA-TATA
*
156695 ATATATTATATTTTA
1 ATATTTTAT-TTTTA
156710 AATCTATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
16 3 0.08
17 15 0.38
18 7 0.17
19 10 0.25
20 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTTATTTTTATATA
Found at i:156705 original size:26 final size:28
Alignment explanation
Indices: 156640--156709 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 28
156630 TCTAAACCAA
*
156640 TATATTTTATATTTTATATAATTATTAT
1 TATATATTATATTTTATATAATTATTAT
* * *
156668 TCT-TATAAATATTTTAT-T-TTTATTAT
1 TATATAT-TATATTTTATATAATTATTAT
156694 TATATATTATATTTTA
1 TATATATTATATTTTA
156710 AATCTATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
26 17 0.50
27 6 0.18
28 11 0.32
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (28 bp):
TATATATTATATTTTATATAATTATTAT
Found at i:158741 original size:49 final size:47
Alignment explanation
Indices: 158678--158825 Score: 133
Period size: 44 Copynumber: 3.1 Consensus size: 47
158668 GGACTCACCA
* *
158678 CAGCTCGTTTGAGCTTACCATATATCAGCTCAAAAGAGCTTACTGTTTT
1 CAGCTCATTGGAGCTTACCAT-T-TCAGCTCAAAAGAGCTTACTGTTTT
** *
158727 CAGCTCATTGGAGCTTACCATTTCAGCTCGTATGAGCTTACTG--TT
1 CAGCTCATTGGAGCTTACCATTTCAGCTCAAAAGAGCTTACTGTTTT
* * * ** *
158772 -AGCTCGA-TAGAGCTTATCGTTTCAGCTCAATTGAGCTTACTGTTCAT
1 CAGCTC-ATTGGAGCTTACCATTTCAGCTCAAAAGAGCTTACTGTT-TT
158819 CAGCTCA
1 CAGCTCA
158826 GGAGGAGCTT
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
44 34 0.41
45 3 0.04
47 20 0.24
48 6 0.07
49 19 0.23
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (47 bp):
CAGCTCATTGGAGCTTACCATTTCAGCTCAAAAGAGCTTACTGTTTT
Found at i:158763 original size:23 final size:23
Alignment explanation
Indices: 158678--158799 Score: 74
Period size: 23 Copynumber: 5.3 Consensus size: 23
158668 GGACTCACCA
*
158678 CAGCTCGTTTGAGCTTACCATATAT
1 CAGCTCGTATGAGCTTACCAT-T-T
** * **
158703 CAGCTCAAAAGAGCTTACTGTTTT
1 CAGCTCGTATGAGCTTAC-CATTT
*
158727 CAGCTCAT-TGGAGCTTACCATTT
1 CAGCTCGTAT-GAGCTTACCATTT
158750 CAGCTCGTATGAGCTTA-C-TGTT
1 CAGCTCGTATGAGCTTACCAT-TT
* *
158772 -AGCTCG-ATAGAGCTTATCGTTT
1 CAGCTCGTAT-GAGCTTACCATTT
158794 CAGCTC
1 CAGCTC
158800 AATTGAGCTT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
20 2 0.03
21 14 0.18
22 6 0.08
23 23 0.29
24 17 0.22
25 15 0.19
26 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACCATTT
Found at i:158807 original size:23 final size:21
Alignment explanation
Indices: 158713--158825 Score: 77
Period size: 23 Copynumber: 4.9 Consensus size: 21
158703 CAGCTCAAAA
158713 GAGCTTACTGTTTTCAGCTCATT
1 GAGCTTAC-G-TTTCAGCTCATT
* *
158736 GGAGCTTACCATTTCAGCTCGTAT
1 -GAGCTTA-CGTTTCAGCTCAT-T
*
158760 GAGCTTAC-TGTT-AGCTCGATA
1 GAGCTTACGT-TTCAGCTC-ATT
158781 GAGCTTATCGTTTCAGCTCAATT
1 GAGCTTA-CGTTTCAGCTC-ATT
158804 GAGCTTACTGTTCATCAGCTCA
1 GAGCTTAC-GTT--TCAGCTCA
158826 GGAGGAGCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
21 13 0.18
22 8 0.11
23 35 0.48
24 9 0.12
25 8 0.11
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
GAGCTTACGTTTCAGCTCATT
Found at i:163098 original size:19 final size:20
Alignment explanation
Indices: 163060--163098 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
163050 ATTATGAACG
* *
163060 AATGATATTTGCTGAAATGA
1 AATGACATTTGATGAAATGA
163080 AATGACATTTGAT-AAATGA
1 AATGACATTTGATGAAATGA
163099 TTGTTCTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (20 bp):
AATGACATTTGATGAAATGA
Found at i:172080 original size:5 final size:5
Alignment explanation
Indices: 172070--172115 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
172060 TTTTTCTTGC
172070 AATTT AATTT AATTT AATTT AATTTT ACTATTT -A-TT AATTT AATTT
1 AATTT AATTT AATTT AATTT AA-TTT A--ATTT AATTT AATTT AATTT
172116 TTCTTTCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 24 0.67
6 4 0.11
7 3 0.08
8 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
AATTT
Found at i:177059 original size:40 final size:40
Alignment explanation
Indices: 177002--177219 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
176992 CGGATGATAA
* * *
177002 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
177042 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
177082 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTAGTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
177122 CCAGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
177162 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
177202 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
177220 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 17 0.11
40 143 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:185319 original size:40 final size:41
Alignment explanation
Indices: 185264--185481 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 41
185254 CGGATGATAA
* *
185264 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTCACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
*
185304 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTAC-AATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
*
185344 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
* *
185384 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTAA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
* *
185424 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATAT
* *
185464 CC-GGCTAAATCTCGAAGG
1 CCGGGCTAAGTCCCGAAGG
185482 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 20 0.13
40 137 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
Found at i:197324 original size:16 final size:16
Alignment explanation
Indices: 197303--197336 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
197293 TTTTGAAATC
*
197303 ATGGGCAAACCTGTCA
1 ATGGGCAAACCTATCA
197319 ATGGGCAAACCTATCA
1 ATGGGCAAACCTATCA
197335 AT
1 AT
197337 TTAAAACAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.21
Consensus pattern (16 bp):
ATGGGCAAACCTATCA
Found at i:198679 original size:6 final size:7
Alignment explanation
Indices: 198662--198688 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
198652 TTGCTCTTAA
198662 AAAAAAT
1 AAAAAAT
198669 AAAAAAT
1 AAAAAAT
198676 AAAAAAT
1 AAAAAAT
198683 AAAAAA
1 AAAAAA
198689 ACATTCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:203683 original size:17 final size:18
Alignment explanation
Indices: 203648--203694 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
203638 TAGAACTTGA
203648 TCATTCTAAAATCTGTTAT
1 TCATT-TAAAATCTGTTAT
203667 TCATTTAAAAT-TGTTAT
1 TCATTTAAAATCTGTTAT
*
203684 TACCTTTAAAA
1 T-CATTTAAAA
203695 CATTTGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.27
18 14 0.54
19 5 0.19
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (18 bp):
TCATTTAAAATCTGTTAT
Found at i:204531 original size:27 final size:27
Alignment explanation
Indices: 204500--204555 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
204490 GAAACACAAT
204500 GGCATAATCGTCAGTTTACCCTATAGG
1 GGCATAATCGTCAGTTTACCCTATAGG
* * * *
204527 GGCATTATGGTCATTTTACCCTATCGG
1 GGCATAATCGTCAGTTTACCCTATAGG
204554 GG
1 GG
204556 GTATTTTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (27 bp):
GGCATAATCGTCAGTTTACCCTATAGG
Found at i:204570 original size:28 final size:27
Alignment explanation
Indices: 204514--204570 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
204504 TAATCGTCAG
*
204514 TTTACCCTATAGGGGCATTATGGTCAT
1 TTTACCCTATAGGGGCATTATGGTAAT
* * *
204541 TTTACCCTATCGGGGGTATTTTGGTAAT
1 TTTACCCTAT-AGGGGCATTATGGTAAT
204569 TT
1 TT
204571 CACAATCTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (27 bp):
TTTACCCTATAGGGGCATTATGGTAAT
Found at i:216428 original size:16 final size:17
Alignment explanation
Indices: 216398--216431 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
216388 CTGAACCTAG
216398 CTTTTGTTGTTTGTTTT
1 CTTTTGTTGTTTGTTTT
216415 CTTTTGTT-TTTGTTTT
1 CTTTTGTTGTTTGTTTT
216431 C
1 C
216432 GGTGGATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.00, C:0.09, G:0.15, T:0.76
Consensus pattern (17 bp):
CTTTTGTTGTTTGTTTT
Found at i:222391 original size:46 final size:45
Alignment explanation
Indices: 222324--222498 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
222314 TGTAACCCGC
*
222324 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* *
222370 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGCAT
* *** * * * *
222416 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* *
222463 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
222499 ATGCCCAAAC
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:222444 original size:93 final size:93
Alignment explanation
Indices: 222332--222503 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
222322 GCCCATAAGT
* * *
222332 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
222397 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
222425 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
222490 TGAGTTCGGATGCC
66 CGAGCTCGGATGCC
222504 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:222518 original size:46 final size:46
Alignment explanation
Indices: 222329--222518 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
222319 CCCGCCCATA
* * *
222329 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT-TCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAT-ACATCC-T
*
222374 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * * *
222424 --CGAACTCGGACTCAACTCAACGAGTTCAGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* * *
222467 AAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
222514 AGTGA
1 AGTGA
222519 CATGTCACTT
Statistics
Matches: 116, Mismatches: 16, Indels: 24
0.74 0.10 0.15
Matches are distributed among these distances:
42 1 0.01
43 6 0.05
45 2 0.02
46 63 0.54
47 28 0.24
48 9 0.08
50 5 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:229044 original size:13 final size:13
Alignment explanation
Indices: 229026--229050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
229016 GTAAGTGATT
229026 TTGATGATTTTTC
1 TTGATGATTTTTC
229039 TTGATGATTTTT
1 TTGATGATTTTT
229051 ACACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:229900 original size:46 final size:46
Alignment explanation
Indices: 229753--229969 Score: 203
Period size: 46 Copynumber: 4.7 Consensus size: 46
229743 TTATTTGTGT
** *
229753 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCTGCCACGA-GATGAGA
* * * *
229799 GCCAGTGTAACACCATGTCTAGGACATGGCATC-GACATTGAGATGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCTGCCA-CGAGATGAGA
*
229847 GCTAGTGTAAGACATGTCTGGGACATGCATCTGCCACGAGATGTAG-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCTGCCACGAGATG-AGA
* * * *
229893 GCCAGTGTAAGACATGTCTGGGACACGCAT-TGGCTACAAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCT-GCCACGAGATGAGA
*
229937 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
229970 GGCATGGATA
Statistics
Matches: 143, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 11 0.08
45 14 0.10
46 62 0.43
47 33 0.23
48 21 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCTGCCACGAGATGAGA
Found at i:231280 original size:21 final size:20
Alignment explanation
Indices: 231250--231288 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
231240 TCATTATGAA
231250 CACACAGGTGTGTTGCCCTTC
1 CACACAGGTGTG-TGCCCTTC
*
231271 CACACGGGTGTGTGCCCT
1 CACACAGGTGTGTGCCCT
231289 GTTTCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (20 bp):
CACACAGGTGTGTGCCCTTC
Found at i:238298 original size:44 final size:43
Alignment explanation
Indices: 238198--238326 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
238188 AGCTCGTACA
* * *
238198 ATGCCAGCGTCCCAGGCATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * *
238241 ATGTC-ACTATCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGT-AATC-AAATATCG
* * * *
238285 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATC
238327 AAAATCCTAT
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.03
43 31 0.46
44 31 0.46
45 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:243221 original size:28 final size:28
Alignment explanation
Indices: 243189--243272 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
243179 AACTTCGATC
243189 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
243217 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
243239 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
243267 ACGTGT
1 ACGTGT
243273 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:243262 original size:50 final size:49
Alignment explanation
Indices: 243141--243316 Score: 226
Period size: 50 Copynumber: 3.5 Consensus size: 49
243131 TGAGGTCGCA
* * * *
243141 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* **
243192 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * * *
243242 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTTGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
243291 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
243317 TGCGTACTAG
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
49 30 0.27
50 46 0.42
51 34 0.31
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:253033 original size:50 final size:51
Alignment explanation
Indices: 252957--253095 Score: 185
Period size: 50 Copynumber: 2.8 Consensus size: 51
252947 TGAGGTCGCA
*
252957 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTT-AGATCACG
* * ** *
253008 -GTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT-GGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGATCACG
*
253057 TGTGTAGTACTAAGTGCAGGCTACTATGCGAACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
253096 GCTTTGGCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
48 1 0.01
49 7 0.09
50 68 0.89
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGATCACG
Found at i:256741 original size:21 final size:21
Alignment explanation
Indices: 256717--256786 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
256707 TAATCTGAAC
256717 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * * *
256738 TCA-TGATATATGTGACATTTGAGC
1 TCATTGA-GT-TGTG--GTCTGAGT
256762 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
256783 TCAT
1 TCAT
256787 GATGTATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 4 0.11
23 4 0.11
24 9 0.25
25 3 0.08
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.41
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:262168 original size:39 final size:39
Alignment explanation
Indices: 262114--262191 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
262104 TTGAAGAGTC
*
262114 ATGATTTGATTGTTGTTCCTATA-CAGATTAGAAAGAAAA
1 ATGATTTGATGGTTGTTCCTATACCA-ATTAGAAAGAAAA
262153 ATGATTTGATGGTTGTTCCTATACCAATTAGAAAGAAAA
1 ATGATTTGATGGTTGTTCCTATACCAATTAGAAAGAAAA
262192 TCAATGCTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
39 35 0.95
40 2 0.05
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (39 bp):
ATGATTTGATGGTTGTTCCTATACCAATTAGAAAGAAAA
Found at i:263288 original size:24 final size:25
Alignment explanation
Indices: 263252--263298 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
263242 ACTGACTACG
*
263252 CAAGTGGAGATGGAGTT-GAAAAAGA
1 CAAGGGGAGATGG-GTTAGAAAAAGA
263277 CAAGGGGA-ATGGGTTAGAAAAA
1 CAAGGGGAGATGGGTTAGAAAAA
263299 TAAAATAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 10 0.50
25 7 0.35
ACGTcount: A:0.45, C:0.04, G:0.36, T:0.15
Consensus pattern (25 bp):
CAAGGGGAGATGGGTTAGAAAAAGA
Found at i:264617 original size:29 final size:29
Alignment explanation
Indices: 264583--264639 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
264573 GAAACTTAGT
*
264583 ATAAAACTTTAAAAATATTTGCATATGAG
1 ATAAAACTTTAAAAATATTTGCACATGAG
264612 ATAAAACTTTAAAAATATTTGCACATGA
1 ATAAAACTTTAAAAATATTTGCACATGA
264640 ATTACTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (29 bp):
ATAAAACTTTAAAAATATTTGCACATGAG
Found at i:267513 original size:21 final size:21
Alignment explanation
Indices: 267489--267558 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
267479 CACATACATC
267489 ATGAACTCAGACCACAACTTA
1 ATGAACTCAGACCACAACTTA
* * * *
267510 ATGAGCTCGGATGTCACATA-TATC
1 ATGAACTCAGA--CCACA-ACT-TA
*
267534 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTTA
267555 ATGA
1 ATGA
267559 GTTCAAATCA
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
21 14 0.40
22 5 0.14
23 5 0.14
24 11 0.31
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTTA
Found at i:268916 original size:23 final size:24
Alignment explanation
Indices: 268867--268923 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
268857 GGATGTTACA
**
268867 AGAGCTTACTGTTCTCAGCTCGTT
1 AGAGCTTACTGTTCTCAGCTCCAT
* *
268891 AGAGCTTATTGTT-TTAGCTCCAT
1 AGAGCTTACTGTTCTCAGCTCCAT
268914 AGAGCTTACT
1 AGAGCTTACT
268924 ATCCATCAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (24 bp):
AGAGCTTACTGTTCTCAGCTCCAT
Found at i:282719 original size:41 final size:40
Alignment explanation
Indices: 282659--282842 Score: 246
Period size: 41 Copynumber: 4.6 Consensus size: 40
282649 TATTCGGATG
* *
282659 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTGACT
* *
282700 ATATCCGGGTTAAGTCCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTGACT
*
282741 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
282781 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTGACT
* *
282821 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
282843 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.11
40 53 0.41
41 63 0.48
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:282799 original size:81 final size:81
Alignment explanation
Indices: 282659--282847 Score: 249
Period size: 81 Copynumber: 2.3 Consensus size: 81
282649 TATTCGGATG
* * *
282659 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
282724 ATTTTGTGCTA-GTGACT
66 A-TTTGTGCGATGTG-CT
* *
282741 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
282805 ATTTGTGCGATTTGCT
66 ATTTGTGCGATGTGCT
* * *
282821 ATATCC-GGTTAAATCCCGAAGGTACTT
1 ATATCCGGGCTAAGTCCCGAAGGCACTT
282848 GGGTTTGGAA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 15 0.16
80 18 0.19
81 38 0.40
82 24 0.25
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCGATGTGCT
Found at i:290028 original size:40 final size:41
Alignment explanation
Indices: 289904--290093 Score: 235
Period size: 41 Copynumber: 4.7 Consensus size: 41
289894 TTATTCGGAT
* *
289904 TATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGAC
* * *
289945 TATATCCGGGTTAAGTCCCGAAGGCATTTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGAC
*
289986 TATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGAC
** *
290026 TATATCCGTTCTAAGTCCCGAAGGCA-TTTGTGCGATTTG-C
1 TATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGA-GTGAC
* * *
290066 TATATCC-GGTTAAATCCCGAAGGTACTT
1 TATATCCGGGCTAAGTCCCGAAGGCACTT
290094 GGGTTTGGAA
Statistics
Matches: 132, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.10
40 55 0.42
41 64 0.48
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (41 bp):
TATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGAC
Found at i:290044 original size:81 final size:81
Alignment explanation
Indices: 289904--290093 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
289894 TTATTCGGAT
* *
289904 TATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGTTAAGTCCCGAAGG
*
289969 CATTTTGTGCTA-GTGAC
66 CA-TTTGTGCGATGTG-C
* *
289986 TATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTATATCC-GTTCTAAGTCCCGAAG
1 TATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGT-TAAGTCCCGAAG
*
290049 GCATTTGTGCGATTTGC
65 GCATTTGTGCGATGTGC
* * *
290066 TATATCC-GGTTAAATCCCGAAGGTACTT
1 TATATCCGGGCTAAGTCCCGAAGGCACTT
290094 GGGTTTGGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.16
80 20 0.21
81 36 0.38
82 25 0.26
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (81 bp):
TATATCCGGGCTAAGTCCCGAAGGCACTTTGTGCGAGTGACTATATCCGGGTTAAGTCCCGAAGG
CATTTGTGCGATGTGC
Found at i:298494 original size:43 final size:43
Alignment explanation
Indices: 298429--298590 Score: 218
Period size: 43 Copynumber: 3.8 Consensus size: 43
298419 GATGAATTCG
* *
298429 GGCTTCGAGCCTAGCAGCCTATAATGCCGGTGAAAAAATATCA
1 GGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCA
* * *
298472 GGCTTTGAGCCTGGCAGGCTATAATGCCGGTGAAATAATATCG
1 GGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCA
* * *
298515 GGCATCGACCCTAGCAGGCTATAATGCCAGTGAAATAATATCA
1 GGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCA
* * *
298558 AGCGTCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 GGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
298591 TGAATTCAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 11 0.11
43 92 0.89
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.20
Consensus pattern (43 bp):
GGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCA
Found at i:299184 original size:16 final size:18
Alignment explanation
Indices: 299153--299185 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
299143 AACTTGTCAC
299153 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
299171 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
299186 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:302444 original size:40 final size:40
Alignment explanation
Indices: 302367--302584 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
302357 AAACCAAGTA
* *
302367 CCTTCGGGATTTAG-CCGGATATAGGT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GTAACTCGCACAAATG
*
302406 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
302446 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
302486 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
302526 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
302566 CCTCCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
302585 TTATCATCCG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:307471 original size:47 final size:47
Alignment explanation
Indices: 307414--307717 Score: 410
Period size: 47 Copynumber: 6.4 Consensus size: 47
307404 ATTGATGTAC
* * *
307414 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
307461 AAGTATATATATACGTGATAGGGCCGAGTGGCCAACGTGATGAATCTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * ** *
307510 AAGTGTATATATGTGATAGGGTCGAGTGACCAACATGATGAATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
307557 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
307604 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
307651 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
307698 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
307718 TCTCGAAGGG
Statistics
Matches: 232, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
47 188 0.81
49 44 0.19
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:311702 original size:36 final size:36
Alignment explanation
Indices: 311661--311733 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
311651 ATTCATGCCT
*
311661 TAGTTGTTATTATGCCATTTACTCACAATTCCATCA
1 TAGTTGTTATTATACCATTTACTCACAATTCCATCA
311697 TAGTTGTTATTATACCATTTACTCACAATTCCATCA
1 TAGTTGTTATTATACCATTTACTCACAATTCCATCA
311733 T
1 T
311734 CAAACATCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (36 bp):
TAGTTGTTATTATACCATTTACTCACAATTCCATCA
Found at i:320150 original size:46 final size:46
Alignment explanation
Indices: 320093--320218 Score: 193
Period size: 46 Copynumber: 2.7 Consensus size: 46
320083 TTGGGCATCT
* *
320093 GAGCTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-TATCC
1 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACT-CCC
*
320139 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCC
1 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACTCCC
320185 GAGCTCGTTGAGTTGAGT-TCGAGTTCACTTATGG
1 GAGCTCGTTGAGTTGAGTCT-GAGTTCACTTATGG
320219 GCAGGTTACA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
46 73 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (46 bp):
GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACTCCC
Found at i:322098 original size:54 final size:53
Alignment explanation
Indices: 322006--322114 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 53
321996 ACCCTCTTTA
* *
322006 TGGTAAAATGACTATATTGTCCTTGTGTGGTAAAATGACTATTTTACCCTTATG
1 TGGTAAAATGACTATATTGTCCTTATGTGCTAAAATGACTATTTTACCC-TATG
* * * * *
322060 TGGTAAATTGACTATTTTG-CCGTTATGTGCTAAGATGACTGTTTTGCCCTATG
1 TGGTAAAATGACTATATTGTCC-TTATGTGCTAAAATGACTATTTTACCCTATG
322113 TG
1 TG
322115 ATGTATGTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
53 8 0.17
54 39 0.83
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (53 bp):
TGGTAAAATGACTATATTGTCCTTATGTGCTAAAATGACTATTTTACCCTATG
Found at i:322104 original size:27 final size:26
Alignment explanation
Indices: 322006--322114 Score: 112
Period size: 27 Copynumber: 4.1 Consensus size: 26
321996 ACCCTCTTTA
* * *
322006 TGGTAAAATGACTATATTGTCCTTGTG
1 TGGT-AAATGACTATTTTGCCCTTATG
*
322033 TGGTAAAATGACTATTTTACCCTTATG
1 TGGT-AAATGACTATTTTGCCCTTATG
*
322060 TGGTAAATTGACTATTTTGCCGTTATG
1 TGGTAAA-TGACTATTTTGCCCTTATG
* *
322087 TGCTAAGATGACTGTTTTGCCC-TATG
1 TGGTAA-ATGACTATTTTGCCCTTATG
322113 TG
1 TG
322115 ATGTATGTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (26 bp):
TGGTAAATGACTATTTTGCCCTTATG
Found at i:323558 original size:56 final size:56
Alignment explanation
Indices: 323411--323585 Score: 273
Period size: 56 Copynumber: 3.2 Consensus size: 56
323401 TACATGTAAT
* * *
323411 CACATATATCGGAATCACATATCGATGCCAACGTATTAAATGTGGTATTACTCGTA
1 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
*
323467 CACATATA--GGAATCACATATCGATGACAACGTATTAAACGTGGTCTTACTCGCA
1 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
* * *
323521 CACATATATCAGAATTACATATCGATGCCAACGTATTAAACGTGGTCTTACTTGCA
1 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
323577 CACATATAT
1 CACATATAT
323586 TGATGCCATG
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
54 50 0.46
56 59 0.54
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (56 bp):
CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
Found at i:335118 original size:20 final size:20
Alignment explanation
Indices: 335093--335134 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
335083 ATCCATAAGT
* *
335093 GAACTCGGACTCAACTTAAC
1 GAACTCAGACTCAACTCAAC
335113 GAACTCAGACTCAACTCAAC
1 GAACTCAGACTCAACTCAAC
335133 GA
1 GA
335135 GTTCGGGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.31, G:0.14, T:0.17
Consensus pattern (20 bp):
GAACTCAGACTCAACTCAAC
Found at i:335130 original size:66 final size:66
Alignment explanation
Indices: 335047--335178 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
335037 TACATCTCAT
* *
335047 GAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTTAA
335112 C
66 C
335113 GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTTAA
335178 C
66 C
335179 AAGCTTGGGT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (66 bp):
GAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTTAA
C
Found at i:347807 original size:13 final size:13
Alignment explanation
Indices: 347789--347815 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
347779 CGTGTTGGTG
347789 CACACGACTGTGT
1 CACACGACTGTGT
347802 CACACGACTGTGT
1 CACACGACTGTGT
347815 C
1 C
347816 CTACTTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (13 bp):
CACACGACTGTGT
Found at i:357262 original size:27 final size:27
Alignment explanation
Indices: 357231--357408 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
357221 TAAATTGTAC
357231 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
357258 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
357284 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
357312 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
357340 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
357367 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
357394 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
357409 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:357345 original size:82 final size:81
Alignment explanation
Indices: 357232--357387 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
357222 AAATTGTACA
* *
357232 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
357296 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
357313 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
357378 TGCGAGTTGA
65 TGCGAATTGA
357388 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:357399 original size:82 final size:81
Alignment explanation
Indices: 357228--357408 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
357218 GATTAAATTG
* *
357228 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
357293 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
357309 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
357373 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
357391 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
357409 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:365500 original size:27 final size:27
Alignment explanation
Indices: 365463--365612 Score: 158
Period size: 27 Copynumber: 5.5 Consensus size: 27
365453 TGCTAAGTGT
* *
365463 GCACTAAGTGTGCGAAATGAATATG-A
1 GCACTAAGTGTGCGAATTGACTATGTA
* **
365489 TGCACTAAGTGTGCGAATTGACCATGCG
1 -GCACTAAGTGTGCGAATTGACTATGTA
*
365517 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTA
* * *
365545 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAATTGACTATGTA
* * *
365572 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTA
*
365599 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
365613 GACTCAATAT
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 84 0.79
28 23 0.21
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTA
Found at i:365559 original size:55 final size:54
Alignment explanation
Indices: 365463--365612 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 54
365453 TGCTAAGTGT
** * *
365463 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACGCA
* * ** *
365517 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
* * *
365572 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
365613 GACTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 37 0.45
55 44 0.54
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
Found at i:371995 original size:94 final size:94
Alignment explanation
Indices: 371881--372057 Score: 282
Period size: 94 Copynumber: 1.9 Consensus size: 94
371871 GTTATGTGAG
* * * *
371881 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGGGCTAGTGTAAAACGTG
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGGGCCAGTGTAAAACGTG
371946 TCTGGGACATGCATCAGCCACATTACGAT
66 TCTGGGACATGCATCAGCCACATTACGAT
* * * *
371975 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGATGTG
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGGGCCAGTGTAAAACGTG
372040 TCTGGGACATGCATCAGC
66 TCTGGGACATGCATCAGC
372058 TAAGCTTCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (94 bp):
AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGGGCCAGTGTAAAACGTG
TCTGGGACATGCATCAGCCACATTACGAT
Found at i:373013 original size:55 final size:55
Alignment explanation
Indices: 372898--373029 Score: 160
Period size: 55 Copynumber: 2.4 Consensus size: 55
372888 CTTAAACTTT
** * * *
372898 TAAGTCAGTATTGTCCACGGGTAGGCCACATGGGCGTGTGACATAGTCGTGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACAGACGTGTGACATAGCCGTGCCTA
* *
372953 TAAGTCAGTATTGTCCACGGGTAGGCCACACAGACGTGTGTCATTGCCGTGCCCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACAGACGTGTGACATAGCCGTG-CCTA
*
373009 -AAGTCAGTGTTG-CACACGGGT
1 TAAGTCAGTATTGTC-CACGGGT
373030 TAAGGGCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 1 0.01
55 63 0.94
56 3 0.04
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACAGACGTGTGACATAGCCGTGCCTA
Found at i:376947 original size:43 final size:42
Alignment explanation
Indices: 376895--377047 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 42
376885 CGTAAAATGC
376895 CAAC-GTCCCAGACGTGGTCTTACATGTAATCACATGTCGATG
1 CAACTGTCCCAGACGTGGTCTTACATGTAATCACAT-TCGATG
*
376937 CGACTGTCCCAGACAG-GGTCTTACATG-AATCACAATTACGATG
1 CAACTGTCCCAGAC-GTGGTCTTACATGTAATCAC-ATT-CGATG
* * * *
376980 CCAA-TGTCCCAGACATGGTCTTAC-TCTAAATCATATATCAATG
1 -CAACTGTCCCAGACGTGGTCTTACATGT-AATCACAT-TCGATG
*
377023 CCAACT-TCCTAGACGTGGTCTTACA
1 -CAACTGTCCCAGACGTGGTCTTACA
377048 CGAGAAAACA
Statistics
Matches: 92, Mismatches: 8, Indels: 20
0.77 0.07 0.17
Matches are distributed among these distances:
42 11 0.12
43 71 0.77
44 10 0.11
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
CAACTGTCCCAGACGTGGTCTTACATGTAATCACATTCGATG
Done.