Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 1 of 444
Found at i:1169 original size:35 final size:35
Alignment explanation
Indices: 1125--1291 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
1115 TCCTCATTGA
** *
1125 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
1160 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
1200 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
1235 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
1270 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
1292 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:1208 original size:75 final size:73
Alignment explanation
Indices: 1120--1291 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
1110 GGTTTTCCTC
** * * **
1120 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
1184 TCAGTATGG
65 TCAGTATGG
*
1193 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
1258 CTCAGTATGG
64 CTCAGTATGG
1268 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
1292 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:8662 original size:35 final size:35
Alignment explanation
Indices: 8618--8784 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
8608 TCCTCATTGA
** *
8618 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
8653 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
8693 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
8728 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
8763 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
8785 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:8701 original size:75 final size:73
Alignment explanation
Indices: 8613--8784 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
8603 GGTTTTCCTC
** * * **
8613 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
8677 TCAGTATGG
65 TCAGTATGG
*
8686 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
8751 CTCAGTATGG
64 CTCAGTATGG
8761 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
8785 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:11375 original size:69 final size:70
Alignment explanation
Indices: 11097--11396 Score: 300
Period size: 73 Copynumber: 4.2 Consensus size: 70
11087 TTTGGGTACT
* * * * ** **
11097 CTGAGGTATCTTTAATTCATGTTTTCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTC
1 CTGAGGTATTTTTAGTTTATG-TTTC-AAAAATC-ACTCATATTGCGAGAGGTGAGTCAAGCCTC
* *
11162 AGGTCACAAG
63 GGGGCAC--G
* *
11172 CTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
1 CTGAGGTATTTTTAGTTTATGTTTCAAAAA-TCACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
*
11237 GTCACG
65 GGCACG
* * * **
11243 CTGAGGTATTTTAATTCCTTTTGTTTCAAAAATCAGCTCATATTGCGAG-GAGTGAGTTGAGCCT
1 CTGAGGTATTTTTAGT--TTATGTTTCAAAAATCA-CTCATATTGCGAGAG-GTGAGTCAAGCCT
11307 CGGGGCACG
62 CGGGGCACG
*
11316 CTGATGTATTTTTAGTTTATGTTT-AGAAAAT-ACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
1 CTGAGGTATTTTTAGTTTATGTTTCA-AAAATCACTCATATTGCGAGAGGTGAGTCAAGCCTCGG
11379 GGCACG
65 GGCACG
*
11385 CTGAGGTCTTTT
1 CTGAGGTATTTT
11397 CAATTTCTAC
Statistics
Matches: 193, Mismatches: 25, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
69 43 0.22
70 3 0.02
71 27 0.14
72 3 0.02
73 94 0.49
74 5 0.03
75 18 0.09
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (70 bp):
CTGAGGTATTTTTAGTTTATGTTTCAAAAATCACTCATATTGCGAGAGGTGAGTCAAGCCTCGGG
GCACG
Found at i:11389 original size:142 final size:144
Alignment explanation
Indices: 11097--11401 Score: 413
Period size: 146 Copynumber: 2.1 Consensus size: 144
11087 TTTGGGTACT
*
11097 CTGAGGTATCTTTAATTCATGTTTTCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTC
1 CTGAGGTAT-TTTAATTCATGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
*
11162 AGGTCACAAGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGT
65 AGGGCAC-AGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGT
*
11227 CAAGCCTCAGGTCACG
129 CAAGCCTCAGGGCACG
* * * * *
11243 CTGAGGTATTTTAATTCCTTTTGTTTC-AAAAATCAGCTCATATTGCGAGGAGTGAGTTGAGCCT
1 CTGAGGTATTTTAATT-CATGT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* *
11307 CGGGGCAC-GCTGATGTATTTTTAGTTTATGTTT-AGAAAA-T-ACTCATATTGCGAGAGGTGAG
64 CAGGGCACAGCTGAGGTATTTTTAGTTTATGTTTCA-AAAATTGACTCATATTGCGAGAGGTGAG
*
11368 TCAAGCCTCGGGGCACG
128 TCAAGCCTCAGGGCACG
*
11385 CTGAGGTCTTTTCAATT
1 CTGAGGTATTTT-AATT
11402 TCTACTTTTC
Statistics
Matches: 143, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
142 47 0.33
143 6 0.04
144 28 0.20
145 7 0.05
146 51 0.36
147 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (144 bp):
CTGAGGTATTTTAATTCATGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
GGGCACAGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCA
AGCCTCAGGGCACG
Found at i:11411 original size:14 final size:14
Alignment explanation
Indices: 11392--11427 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
11382 ACGCTGAGGT
*
11392 CTTTTCAATTTCTA
1 CTTTTCAATTCCTA
11406 CTTTTCAATTCCTA
1 CTTTTCAATTCCTA
11420 CTTTTCAA
1 CTTTTCAA
11428 AAAAAATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (14 bp):
CTTTTCAATTCCTA
Found at i:11412 original size:142 final size:144
Alignment explanation
Indices: 11097--11413 Score: 410
Period size: 142 Copynumber: 2.2 Consensus size: 144
11087 TTTGGGTACT
* * *
11097 CTGAGGTATCTTTAATTCAT-GTTTTCAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCT
1 CTGAGGTAT-TTTAATTCCTACTTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
11161 CAGGTCACAAGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAG
64 CAGGGCAC-AGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAG
*
11226 TCAAGCCTCAGGTCACG
128 TCAAGCCTCAGGGCACG
** * * *
11243 CTGAGGTATTTTAATTCCTTTTGTTTCAAAAATCAGCTCATATTGCGAGGAGTGAGTTGAGCCTC
1 CTGAGGTATTTTAATTCCTACT-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* *
11308 GGGGCAC-GCTGATGTATTTTTAGTTTATGTTT-AGAAAA-T-ACTCATATTGCGAGAGGTGAGT
65 AGGGCACAGCTGAGGTATTTTTAGTTTATGTTTCA-AAAATTGACTCATATTGCGAGAGGTGAGT
*
11369 CAAGCCTCGGGGCACG
129 CAAGCCTCAGGGCACG
* *
11385 CTGAGGTCTTTTCAATTTCTACTTTTCAA
1 CTGAGGTATTTT-AATTCCTACTTTTCAA
11414 TTCCTACTTT
Statistics
Matches: 152, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
142 53 0.35
143 9 0.06
144 28 0.18
145 9 0.06
146 49 0.32
147 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (144 bp):
CTGAGGTATTTTAATTCCTACTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
GGGCACAGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCA
AGCCTCAGGGCACG
Found at i:11499 original size:13 final size:13
Alignment explanation
Indices: 11481--11507 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11471 CACGCTGAGG
11481 TATTTTCAATTTA
1 TATTTTCAATTTA
11494 TATTTTCAATTTA
1 TATTTTCAATTTA
11507 T
1 T
11508 GCTGTTCAAA
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:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTTCAATTTA
Found at i:11865 original size:130 final size:130
Alignment explanation
Indices: 11515--11892 Score: 693
Period size: 131 Copynumber: 2.9 Consensus size: 130
11505 TATGCTGTTC
11515 AAAAACAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTC
1 AAAAACAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTC
11580 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *
11645 AAGAACCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACT
1 AA-AAACAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACT
*
11710 CATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGTTGTCAAAA
65 CATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
11775 A
130 A
11776 AAAAACAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTC
1 AAAAACAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTC
* *
11841 ATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCAATTT
66 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
11893 TTATTTTTCA
Statistics
Matches: 237, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
130 111 0.47
131 126 0.53
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (130 bp):
AAAAACAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATCTCTACTTTTTCAAAATCAACTC
ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:13860 original size:3 final size:3
Alignment explanation
Indices: 13852--13885 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
13842 CCACTTTTTA
*
13852 TAT TAT TAT TAT TAT TAT TA- TAT TAT TTT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13886 CTATGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18338 original size:2 final size:2
Alignment explanation
Indices: 18325--18355 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
18315 TTTTCACATT
*
18325 TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18356 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23695 original size:21 final size:22
Alignment explanation
Indices: 23671--23714 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
23661 TTATTTCGAA
23671 TATATAACATAGGTTTA-GACT
1 TATATAACATAGGTTTACGACT
*
23692 TATATAGCATAGGTTTACGACT
1 TATATAACATAGGTTTACGACT
23714 T
1 T
23715 TCATAAGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (22 bp):
TATATAACATAGGTTTACGACT
Found at i:23883 original size:16 final size:16
Alignment explanation
Indices: 23862--23895 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
23852 ATGGGCATTA
23862 TTTTTCTTTTCTTTTT
1 TTTTTCTTTTCTTTTT
23878 TTTTTCTTTTCTTTTT
1 TTTTTCTTTTCTTTTT
23894 TT
1 TT
23896 GGCTTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTT
Found at i:25342 original size:4 final size:4
Alignment explanation
Indices: 25333--25367 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
25323 AAGCAAACGT
25333 GAAA GAAA G-AA GAAA GAAA GAAA GAAA GAAA -AAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
25368 GGAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:31233 original size:40 final size:40
Alignment explanation
Indices: 31174--31341 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
31164 CATTTGAATG
* * *
31174 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
31214 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
31254 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGA-TT
* * *
31295 A-ATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
31334 ATATCCGG
1 ATATCCGG
31342 TTAAATCCCG
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.04
40 97 0.91
41 6 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:35895 original size:4 final size:4
Alignment explanation
Indices: 35888--35922 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
35878 GAGCAAACGT
35888 GAAA GAAA G-AA GAAA GAAA GAAA GAAA GAAA -AAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
35923 GGAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:38162 original size:21 final size:21
Alignment explanation
Indices: 38137--38178 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38127 GCCATCTTGC
*
38137 TTGTTGT-TCTTTCTTTTTGTT
1 TTGTTGTAT-TTTATTTTTGTT
38158 TTGTTGTATTTTATTTTTGTT
1 TTGTTGTATTTTATTTTTGTT
38179 CTTCCACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.05, C:0.05, G:0.14, T:0.76
Consensus pattern (21 bp):
TTGTTGTATTTTATTTTTGTT
Found at i:40134 original size:34 final size:33
Alignment explanation
Indices: 40028--40135 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 33
40018 TTCTTATCTG
* ** * *
40028 ATATGACATTCCGATTTGACATATGCTTCTGGAA
1 ATATGACATTCTGACCTGATATATGTTTCTGG-A
* *
40062 ATATGACATTCTGATCC-GATAAATGTTTCTAGA
1 ATATGACATTCTGA-CCTGATATATGTTTCTGGA
*
40095 TATATGACATTCTGACCTGATATATGTTTATGGTA
1 -ATATGACATTCTGACCTGATATATGTTTCTGG-A
40130 ATATGA
1 ATATGA
40136 TATTTTGATA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
33 3 0.05
34 56 0.93
35 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (33 bp):
ATATGACATTCTGACCTGATATATGTTTCTGGA
Found at i:41697 original size:32 final size:32
Alignment explanation
Indices: 41661--41726 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
41651 TTTTGGGTAC
41661 AAAAATCATAAAAATGTTTT-ATATTTGCTTTT
1 AAAAATCATAAAAATGTTTTAATATTT-CTTTT
* * *
41693 AAAAATTATAAAGATTTTTTAAATATTTCTTTT
1 AAAAATCATAAAAATGTTTT-AATATTTCTTTT
41726 A
1 A
41727 TGATTTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 17 0.59
33 6 0.21
34 6 0.21
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (32 bp):
AAAAATCATAAAAATGTTTTAATATTTCTTTT
Found at i:46788 original size:28 final size:28
Alignment explanation
Indices: 46757--46835 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
46747 TTCCTTTTTT
46757 ATAATAATTAATATTATATATAAATTTA
1 ATAATAATTAATATTATATATAAATTTA
**
46785 ATAATAAAAAATACTTA-AT-TAAAATTTA
1 ATAATAATTAATA-TTATATAT-AAATTTA
*
46813 AT-TTAAATTACATATTATATATA
1 ATAAT-AATTA-ATATTATATATA
46836 TATATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
27 2 0.05
28 28 0.70
29 9 0.22
30 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (28 bp):
ATAATAATTAATATTATATATAAATTTA
Found at i:47028 original size:19 final size:19
Alignment explanation
Indices: 47004--47040 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46994 AAATTATTAT
*
47004 TAAAATCTTATTATTAAAA
1 TAAAATCTTAATATTAAAA
*
47023 TAAAATTTTAATATTAAA
1 TAAAATCTTAATATTAAA
47041 TAATTTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAATCTTAATATTAAAA
Found at i:47153 original size:22 final size:22
Alignment explanation
Indices: 47128--47171 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
47118 TTGTTTAATA
47128 ATATTGAACATTATAA-TATTTT
1 ATATT-AACATTATAACTATTTT
* *
47150 ATATTAATATTTTAACTATTTT
1 ATATTAACATTATAACTATTTT
47172 TAAGTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTAACATTATAACTATTTT
Found at i:47799 original size:13 final size:13
Alignment explanation
Indices: 47777--47809 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47767 TTGTGAAAAT
*
47777 AAATAATTTTTTA
1 AAATATTTTTTTA
47790 AAATATTTTTTTA
1 AAATATTTTTTTA
47803 AAA-ATTT
1 AAATATTT
47810 AGGAAGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AAATATTTTTTTA
Found at i:48088 original size:10 final size:10
Alignment explanation
Indices: 48073--48155 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 10
48063 TTCCAAGCAT
48073 ATTTTTAATA
1 ATTTTTAATA
48083 ATTTTTAA-A
1 ATTTTTAATA
* *
48092 CATATTTATTA
1 -ATTTTTAATA
48103 A-TTTTAAT-
1 ATTTTTAATA
48111 ATTTTTAATA
1 ATTTTTAATA
* *
48121 TTTTTTTATA
1 ATTTTTAATA
* *
48131 ACCTCTT-ATA
1 A-TTTTTAATA
*
48141 ATTATTAATA
1 ATTTTTAATA
48151 ATTTT
1 ATTTT
48156 CCATCATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
8 1 0.02
9 16 0.29
10 34 0.62
11 4 0.07
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:48128 original size:11 final size:9
Alignment explanation
Indices: 48071--48125 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
48061 CATTCCAAGC
48071 ATATTTTTA
1 ATATTTTTA
48080 ATAATTTTTAA
1 AT-ATTTTT-A
* *
48091 ACATATTTA
1 ATATTTTTA
* *
48100 TTAATTTTA
1 ATATTTTTA
48109 ATATTTTTA
1 ATATTTTTA
48118 ATATTTTT
1 ATATTTTT
48126 TTATAACCTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 23 0.64
10 11 0.31
11 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
ATATTTTTA
Found at i:48143 original size:38 final size:39
Alignment explanation
Indices: 48071--48155 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
48061 CATTCCAAGC
*
48071 ATATTTTTAATAATTTTTAAACATATTTATTAATT-TTA
1 ATATTTTTAATAATTTTTAAACATACTTATTAATTATTA
* *
48109 ATATTTTTAATATTTTTTTATAACCT-CTTA-TAATTATTA
1 ATATTTTTAATA-ATTTTTA-AACATACTTATTAATTATTA
*
48148 ATAATTTT
1 ATATTTTT
48156 CCATCATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 17 0.43
39 19 0.47
40 4 0.10
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (39 bp):
ATATTTTTAATAATTTTTAAACATACTTATTAATTATTA
Found at i:48533 original size:31 final size:31
Alignment explanation
Indices: 48488--48558 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
48478 TTTTATTTTC
*
48488 TTACAT-AATATTATTTATCTTTA-TGAAAATT
1 TTACATAAATATTA-TTATC-TTACTAAAAATT
*
48519 TTACATAAAT-TTATTCTCTTACTTAAAAATT
1 TTACATAAATATTATTATCTTAC-TAAAAATT
48550 TTACATAAA
1 TTACATAAA
48559 AATTTAGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.09
30 4 0.11
31 25 0.71
32 3 0.09
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (31 bp):
TTACATAAATATTATTATCTTACTAAAAATT
Found at i:53731 original size:46 final size:46
Alignment explanation
Indices: 53663--53825 Score: 254
Period size: 46 Copynumber: 3.5 Consensus size: 46
53653 TACCACGGTG
* *
53663 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCT
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCC
* * *
53709 TTGGTATCTTTTAACCATGGTCTTATTCATTTCCTGTCATGTTGCC
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCC
*
53755 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATATTGCC
1 ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCC
* *
53801 ATAGTATCTTTCAACTATGGTCTTA
1 ATGGTATCTTTCAACCATGGTCTTA
53826 CACATTTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 106 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (46 bp):
ATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCC
Found at i:53864 original size:45 final size:45
Alignment explanation
Indices: 53797--53922 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
53787 CTTGTCATAT
* * *
53797 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTGAATCGCGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
* * * *
53842 TGCCATAGCATCTTTTAGCTATGGTCTTACTCGTCTGAATCGTGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
*
53887 TGCCATAACATCTTTCAGCTATGGTCTTACTCATTT
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
53923 ATGGTATGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
Found at i:53933 original size:45 final size:43
Alignment explanation
Indices: 53751--53939 Score: 144
Period size: 45 Copynumber: 4.2 Consensus size: 43
53741 CCTGTCATGT
* * * * * * *
53751 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCATA
1 TGCCATAGCATCTTTCAACTATGGTCTTACTCATTTATCGT--GA
* * *
53796 TTGCCATAGTATCTTTCAACTATGGTCTTACACATTTGAATCGCGA
1 -TGCCATAGCATCTTTCAACTATGGTCTTACTCATTT--ATCGTGA
* * * *
53842 TGCCATAGCATCTTTTAGCTATGGTCTTACTCGTCTGAATCGTGA
1 TGCCATAGCATCTTTCAACTATGGTCTTACTCAT-T-TATCGTGA
* * *
53887 TGCCATAACATCTTTCAGCTATGGTCTTACTCATTTATGGTATGA
1 TGCCATAGCATCTTTCAACTATGGTCTTACTCATTTATCG--TGA
53932 TGCCATAG
1 TGCCATAG
53940 TCCAACTATG
Statistics
Matches: 116, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 76 0.66
46 34 0.29
48 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (43 bp):
TGCCATAGCATCTTTCAACTATGGTCTTACTCATTTATCGTGA
Found at i:55654 original size:8 final size:8
Alignment explanation
Indices: 55635--55670 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
55625 TATATATACT
55635 AAATAA-A
1 AAATAATA
55642 AAATAATA
1 AAATAATA
55650 AAATAATA
1 AAATAATA
*
55658 AAACAATA
1 AAATAATA
55666 AAATA
1 AAATA
55671 TCATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (8 bp):
AAATAATA
Found at i:55989 original size:30 final size:31
Alignment explanation
Indices: 55933--55991 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
55923 CACCCTTAAA
* *
55933 ATATTTACACTATTAGTCATTCAAATTTTTT
1 ATATTTACACTATTAATCACTCAAATTTTTT
*
55964 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCACTCAAATTTT
55992 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCACTCAAATTTTTT
Found at i:55999 original size:30 final size:31
Alignment explanation
Indices: 55933--56001 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
55923 CACCCTTAAA
* * *
55933 ATATTTACACTATTAGTCATTCAAATTTTTT
1 ATATTTACACTATTAATCACTCAAATTTTTG
*
55964 ATATTTACACT-TTAATCCCTCAAA-TTTTG
1 ATATTTACACTATTAATCACTCAAATTTTTG
55993 AGTATTTAC
1 A-TATTTAC
56002 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (31 bp):
ATATTTACACTATTAATCACTCAAATTTTTG
Found at i:68083 original size:24 final size:24
Alignment explanation
Indices: 68002--68083 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
67992 ATTAGGTCCC
* *
68002 AAAATTATTATTTTAGAATTTTTT
1 AAAATTATAATTTTTGAATTTTTT
* * *
68026 TAAATTTTTATTTTT-ATATTTTTTT
1 AAAATTATAATTTTTGA-A-TTTTTT
* *
68051 AAAAATATAATTTTTGAATTTTTG
1 AAAATTATAATTTTTGAATTTTTT
68075 AAAATTATA
1 AAAATTATA
68084 TTGATCCTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.02
24 26 0.57
25 18 0.39
26 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AAAATTATAATTTTTGAATTTTTT
Found at i:72406 original size:21 final size:20
Alignment explanation
Indices: 72367--72406 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
72357 CTTCGTCTTC
*
72367 AATTATTTCTAATATTTTAA
1 AATTATTTCTAAAATTTTAA
*
72387 AATTATTTTTTAAAATTTTA
1 AATTA-TTTCTAAAATTTTA
72407 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTATTTCTAAAATTTTAA
Found at i:72419 original size:17 final size:15
Alignment explanation
Indices: 72381--72421 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 15
72371 ATTTCTAATA
72381 TTTTAAAA--TTATT
1 TTTTAAAATTTTATT
72394 TTTTAAAATTTTATT
1 TTTTAAAATTTTATT
72409 TTTAATAAAATTT
1 TTT--TAAAATTT
72422 AAAAAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.33
15 8 0.33
17 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTAAAATTTTATT
Found at i:77459 original size:35 final size:35
Alignment explanation
Indices: 77413--77482 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
77403 AGTAAGGATG
77413 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
1 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
*
77448 ACTTATCTATCATTTTTTTGCTATCACCCTAAAAA
1 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
77483 CCCAAACTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (35 bp):
ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
Found at i:77578 original size:11 final size:11
Alignment explanation
Indices: 77562--77599 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
77552 GTTAGATTTG
77562 TAAAATAAATC
1 TAAAATAAATC
*
77573 TAAAATAAAAC
1 TAAAATAAATC
*
77584 T-GAATAAATC
1 TAAAATAAATC
77594 TAAAAT
1 TAAAAT
77600 CGCTATAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAATAAATC
Found at i:82206 original size:3 final size:3
Alignment explanation
Indices: 82198--82257 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
82188 CTTATATGAT
82198 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
82246 TAA TAA TAA TAA
1 TAA TAA TAA TAA
82258 CTACATGTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:90893 original size:30 final size:30
Alignment explanation
Indices: 90859--90917 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
90849 CTTTATTAAT
*
90859 AAAATGTATTTTCTGAGAAAAAATAAAAAA
1 AAAATGTATTTGCTGAGAAAAAATAAAAAA
*
90889 AAAATGTATTTGCTGAGAAAAAATCAAAA
1 AAAATGTATTTGCTGAGAAAAAATAAAAA
90918 TAGTGTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.25
Consensus pattern (30 bp):
AAAATGTATTTGCTGAGAAAAAATAAAAAA
Found at i:95583 original size:6 final size:6
Alignment explanation
Indices: 95572--95607 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
95562 ACATACGTAC
95572 ATACAT ATACAT AT--AT ATACAT ATACAT ATACAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
95608 CAACCACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
6 24 0.86
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
ATACAT
Found at i:95593 original size:16 final size:16
Alignment explanation
Indices: 95558--95606 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 16
95548 AAATTTATTT
95558 ATATACATACGTACATAC
1 ATATACATA--TACATAC
*
95576 ATATACATATATATAC
1 ATATACATATACATAC
95592 ATATACATATACATA
1 ATATACATATACATA
95607 TCAACCACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 20 0.69
18 9 0.31
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (16 bp):
ATATACATATACATAC
Found at i:97689 original size:16 final size:16
Alignment explanation
Indices: 97641--97689 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
97631 AACTTCTAAA
97641 TTTAA-TCTT-TATAT
1 TTTAATTCTTATATAT
*
97655 TTTAATT-TGATTATAT
1 TTTAATTCTTA-TATAT
*
97671 TTTAATTCTTATATCT
1 TTTAATTCTTATATAT
97687 TTT
1 TTT
97690 TGAATTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 6 0.21
15 1 0.04
16 19 0.68
17 2 0.07
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTAATTCTTATATAT
Found at i:109309 original size:16 final size:16
Alignment explanation
Indices: 109290--109326 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
109280 GTTTAGATTG
*
109290 TTTTAAGTTCAAGTTA
1 TTTTAAGTTCAAATTA
*
109306 TTTTGAGTTCAAATTA
1 TTTTAAGTTCAAATTA
109322 TTTTA
1 TTTTA
109327 GTCGGGTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (16 bp):
TTTTAAGTTCAAATTA
Found at i:113926 original size:23 final size:23
Alignment explanation
Indices: 113882--113926 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
113872 ATTTCGCATT
* *
113882 TTTTTATTAATTTATTAATTAAG
1 TTTTTATTAATTGAGTAATTAAG
* *
113905 TTTTTATTAATTGGGTATTTAA
1 TTTTTATTAATTGAGTAATTAA
113927 AATTTTAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (23 bp):
TTTTTATTAATTGAGTAATTAAG
Found at i:116691 original size:2 final size:2
Alignment explanation
Indices: 116684--116713 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
116674 TCAAAAGAGA
116684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116714 TGCATTTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119055 original size:54 final size:54
Alignment explanation
Indices: 118997--119108 Score: 224
Period size: 54 Copynumber: 2.1 Consensus size: 54
118987 ACACTATGAG
118997 ACTATGAGTAGAGTTTTTAGACTCCAAATGAAAAGTCAGGATGATAATAAGTGT
1 ACTATGAGTAGAGTTTTTAGACTCCAAATGAAAAGTCAGGATGATAATAAGTGT
119051 ACTATGAGTAGAGTTTTTAGACTCCAAATGAAAAGTCAGGATGATAATAAGTGT
1 ACTATGAGTAGAGTTTTTAGACTCCAAATGAAAAGTCAGGATGATAATAAGTGT
119105 ACTA
1 ACTA
119109 CAAATTTTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.29
Consensus pattern (54 bp):
ACTATGAGTAGAGTTTTTAGACTCCAAATGAAAAGTCAGGATGATAATAAGTGT
Found at i:119573 original size:2 final size:2
Alignment explanation
Indices: 119566--119592 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
119556 TCATCATTAC
119566 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
119593 AAAGCTGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119672 original size:13 final size:13
Alignment explanation
Indices: 119656--119681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119646 ATATTTAAGG
119656 TTTATAATCAAGA
1 TTTATAATCAAGA
119669 TTTATAATCAAGA
1 TTTATAATCAAGA
119682 ATGAAAAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TTTATAATCAAGA
Found at i:125916 original size:168 final size:168
Alignment explanation
Indices: 125629--125964 Score: 575
Period size: 168 Copynumber: 2.0 Consensus size: 168
125619 GGAGTAAAAT
* *
125629 GAGTACATGAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTTGATATTCAATT
1 GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTCGATATTCAATT
* * *
125694 ATTCTTAGCTATGTCAACAACATGATGTGTTATTACTAAGATATAAGATATGTGGGTGACCAATG
66 ATTCCTAGCTATGTCAACAACATGATGTGATATTACTAAGATACAAGATATGTGGGTGACCAATG
125759 ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
131 ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
*
125797 GAGTACATAAATAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTCGATATTCAATT
1 GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTCGATATTCAATT
* *
125862 ATTCCTAGCTATGTTAAC-ACAATGATGTGATATTACTAAGATACAAGGTATGTGGGTGACCAAT
66 ATTCCTAGCTATGTCAACAAC-ATGATGTGATATTACTAAGATACAAGATATGTGGGTGACCAAT
*
125926 GATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATGGTAG
130 GATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
125965 CTAACTTGCG
Statistics
Matches: 158, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
167 2 0.01
168 156 0.99
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (168 bp):
GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTCGATATTCAATT
ATTCCTAGCTATGTCAACAACATGATGTGATATTACTAAGATACAAGATATGTGGGTGACCAATG
ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
Found at i:137010 original size:45 final size:46
Alignment explanation
Indices: 136961--137059 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 46
136951 GACACTCACC
136961 CAAATTGAAGTG-TATATATATATATTATCATCAACACAAACAAAA
1 CAAATTGAAGTGATATATATATATATTATCATCAACACAAACAAAA
137006 CAAATTGAAGTGTATATATATATATATATTATCATCAACACAAACAAAA
1 CAAATTGAAGTG---ATATATATATATATTATCATCAACACAAACAAAA
137055 -AAATT
1 CAAATT
137060 TAAGGAAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
45 12 0.24
48 5 0.10
49 33 0.66
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (46 bp):
CAAATTGAAGTGATATATATATATATTATCATCAACACAAACAAAA
Found at i:139159 original size:22 final size:22
Alignment explanation
Indices: 139134--139175 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
139124 TTGATATACT
*
139134 ATTAGAATACCTTAAATATTTA
1 ATTAAAATACCTTAAATATTTA
**
139156 ATTAAAATATTTTAAATATT
1 ATTAAAATACCTTAAATATT
139176 GAAATCAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAAAATACCTTAAATATTTA
Found at i:143791 original size:46 final size:46
Alignment explanation
Indices: 143741--143916 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
143731 TGGTTGAGCA
143741 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
143787 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
143832 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
143880 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
143917 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:143897 original size:93 final size:93
Alignment explanation
Indices: 143738--143909 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
143728 GGATGGTTGA
* *
143738 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
143803 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* **
143831 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
143896 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
143910 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:145941 original size:21 final size:21
Alignment explanation
Indices: 145915--145967 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
145905 CGCTGTTTCT
*
145915 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
145936 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
145957 AATCTCACCGC
1 AATCTCACCGC
145968 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:148576 original size:11 final size:12
Alignment explanation
Indices: 148554--148590 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
148544 ATTTCTCCAA
*
148554 TTTATTTTAATT
1 TTTAATTTAATT
148566 TTTAA-TTAA-T
1 TTTAATTTAATT
148576 TTTAATTTAATT
1 TTTAATTTAATT
148588 TTT
1 TTT
148591 GAAATGAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 6 0.27
11 8 0.36
12 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTAATTTAATT
Found at i:158563 original size:16 final size:16
Alignment explanation
Indices: 158524--158579 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
158514 TTTAAGTTTG
*
158524 AATCATTTCAAAATT-A
1 AATCATTTC-AAATTCC
* * *
158540 AATTATTTTAAATTCG
1 AATCATTTCAAATTCC
*
158556 AATCATTTCATATTCC
1 AATCATTTCAAATTCC
158572 AATCATTT
1 AATCATTT
158580 ACCTTTTATG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 5 0.16
16 27 0.84
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (16 bp):
AATCATTTCAAATTCC
Found at i:159853 original size:49 final size:49
Alignment explanation
Indices: 159781--159894 Score: 185
Period size: 49 Copynumber: 2.3 Consensus size: 49
159771 CTATTCTTGC
*
159781 GTTGGATCCGTATAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGAA
1 GTTGGATCCGTCTAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGAA
* * *
159830 GTTGGATCCATCTAAAGATTCAAATGAAGAGTCTAAGCAAATCTTAGGA
1 GTTGGATCCGTCTAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGAA
159879 GTTGGAT-CGTCTAAAG
1 GTTGGATCCGTCTAAAG
159895 GATAAGCCGA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
48 8 0.13
49 52 0.87
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (49 bp):
GTTGGATCCGTCTAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGAA
Found at i:163820 original size:6 final size:6
Alignment explanation
Indices: 163809--163836 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
163799 GTAAAACATA
163809 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
163837 AAAGTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:174086 original size:3 final size:3
Alignment explanation
Indices: 174078--174154 Score: 84
Period size: 3 Copynumber: 25.0 Consensus size: 3
174068 TGGGTAAAAT
* *
174078 ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATA ATA ATA ATA AGGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* *
174124 ATAA ATA ATA ATG ATA ATA GTA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
174155 TAAGTAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 2 0.03
3 56 0.88
4 3 0.05
5 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:174339 original size:13 final size:13
Alignment explanation
Indices: 174321--174350 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
174311 TATAATAACG
*
174321 ATAAATAGTAATA
1 ATAAATAATAATA
174334 ATAAATAATAATA
1 ATAAATAATAATA
174347 ATAA
1 ATAA
174351 GTTAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:174575 original size:3 final size:3
Alignment explanation
Indices: 174569--174802 Score: 192
Period size: 3 Copynumber: 76.3 Consensus size: 3
174559 ACGGATATGT
174569 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * **
174617 ACA ATA ATA ATA ATA ATGG A-A ATA GTA ATA AAA ATGGC ATT CGA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT--A ATA ATA ATA
*
174664 A-A ATA A-A TATA AGT- ATA A-A TATA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA A-TA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
174708 ATA ATA ATG ATA ATA ATG ATAA ATA TAGA AAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA
* *
174755 ATA ATA ATA ATA ATA ATA A-A ATA GAGCA ACAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -A-TA A-TA ATA ATA ATA ATA ATA
174802 A
1 A
174803 CACATTAATA
Statistics
Matches: 187, Mismatches: 28, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
2 8 0.04
3 164 0.88
4 12 0.06
5 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:175093 original size:14 final size:14
Alignment explanation
Indices: 175076--175127 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
175066 ATAATAATAG
175076 AAATATAAATAGAT
1 AAATATAAATAGAT
175090 AAATA-AAATTAGAT
1 AAATATAAA-TAGAT
175104 AAA-ATAAATACAGATT
1 AAATATAAAT--AGA-T
175120 AAATATAA
1 AAATATAA
175128 TAGTTATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 5 0.16
14 16 0.50
15 3 0.09
16 4 0.12
17 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (14 bp):
AAATATAAATAGAT
Found at i:175306 original size:23 final size:21
Alignment explanation
Indices: 175210--175310 Score: 60
Period size: 23 Copynumber: 4.5 Consensus size: 21
175200 AATAATAAGG
* *
175210 AAAATAAT-AACAATAGTACA
1 AAAATAATAAAGAATAGTAAA
* * *
175230 ATAATAATAAAGTAGTAATGAAA
1 AAAATAATAAAG-AATAGT-AAA
* *
175253 ATAAAAAATAACTATAATAGTAAA
1 A-AAATAATAA--AGAATAGTAAA
*
175277 AATATAATAAAGAATAGTAAA
1 AAAATAATAAAGAATAGTAAA
175298 GGAAAATAATAAA
1 --AAAATAATAAA
175311 ATTAACTAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
20 7 0.12
21 12 0.20
22 4 0.07
23 20 0.34
24 11 0.19
25 4 0.07
26 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAATAATAAAGAATAGTAAA
Found at i:180208 original size:21 final size:22
Alignment explanation
Indices: 180184--180227 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
180174 ACCTTTTCTA
*
180184 AAGTTAAAAGTCAAAA-TCATT
1 AAGTTAAAAGGCAAAATTCATT
180205 AAGTTAAAAGGCAAAATTCATT
1 AAGTTAAAAGGCAAAATTCATT
180227 A
1 A
180228 TATTGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.27
Consensus pattern (22 bp):
AAGTTAAAAGGCAAAATTCATT
Found at i:181783 original size:23 final size:22
Alignment explanation
Indices: 181757--181806 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
181747 TAATTTTACT
*
181757 ATTTTAATATCTATATCTTTTAA
1 ATTTTAATATCTAT-TATTTTAA
* * *
181780 ATTTTTATTTTTATTATTTTAA
1 ATTTTAATATCTATTATTTTAA
181802 ATTTT
1 ATTTT
181807 TATAAACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTTTAATATCTATTATTTTAA
Found at i:187277 original size:2 final size:2
Alignment explanation
Indices: 187265--187308 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
187255 TTTAATTTCC
*
187265 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
187307 TA
1 TA
187309 ATAGCAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:191359 original size:2 final size:2
Alignment explanation
Indices: 191352--191382 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
191342 TGGTATTCCC
191352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
191383 TGTTCTATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:192819 original size:12 final size:13
Alignment explanation
Indices: 192794--192823 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
192784 ATATAATATT
192794 ATATAATGAAATA
1 ATATAATGAAATA
192807 ATATAAT-AAATA
1 ATATAATGAAATA
192819 ATATA
1 ATATA
192824 TTTTATGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
ATATAATGAAATA
Found at i:198171 original size:93 final size:93
Alignment explanation
Indices: 198059--198230 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
198049 CGCCCATAAG
* *
198059 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
198124 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
198152 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
198217 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
198231 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:198227 original size:46 final size:46
Alignment explanation
Indices: 198052--198227 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
198042 TGTAACCCGC
* * *
198052 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
198098 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
198148 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
198191 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
198228 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:205723 original size:93 final size:93
Alignment explanation
Indices: 205611--205782 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
205601 CGCCCATAAG
* *
205611 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
205676 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
205704 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
205769 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
205783 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:205779 original size:46 final size:46
Alignment explanation
Indices: 205604--205779 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
205594 TGTAACCCGC
* * *
205604 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
205650 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
205700 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
205743 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
205780 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:208366 original size:43 final size:43
Alignment explanation
Indices: 208319--208403 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
208309 AAATGCTCGA
208319 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
1 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
208362 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTAT
1 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTAT
208404 AGTTTGGGGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (43 bp):
GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
Found at i:210603 original size:44 final size:44
Alignment explanation
Indices: 210535--210625 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
210525 TGATAAATGA
* *
210535 ATTGATAGGTTGATCATGCATTTAGTCTCAAACACATTTTATCT
1 ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
*
210579 ATTGATAGGTAGATCATGCGTTTAGTCTCAAACACATTTTACCT
1 ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
210623 ATT
1 ATT
210626 AAACATGCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (44 bp):
ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
Found at i:213530 original size:46 final size:46
Alignment explanation
Indices: 213463--213553 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
213453 CTTTCTTTTA
*
213463 AAGTAAAACAATTATTAAATCAATTTACATGCTAAATCAAATTATG
1 AAGTAAAACAATTATTAAATCAATTCACATGCTAAATCAAATTATG
*
213509 AAGTAAAACAATTATTAAATCAATTCACATGTTAAATCAAATTAT
1 AAGTAAAACAATTATTAAATCAATTCACATGCTAAATCAAATTAT
213554 CTAATCTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (46 bp):
AAGTAAAACAATTATTAAATCAATTCACATGCTAAATCAAATTATG
Found at i:215847 original size:167 final size:170
Alignment explanation
Indices: 215515--215848 Score: 467
Period size: 167 Copynumber: 2.0 Consensus size: 170
215505 CATAGGACAT
* * * * *
215515 CTAAATTGACATTTAAAACCTATTTGGACTGCCATGTAGGACCGCAATTAGGGAGTAATGGAGTT
1 CTAAAATGACATTTAAAACCCATTTGGACTACCATGTAGGACCGCAATTAGGGAGTAACGGAGCT
* *
215580 TATTGGTATAGTGACCACTTTATAACAAAACGATAACATAAATGACTAAAACGTAACATTTCAAA
66 TAATGGTAAAGTGACCACTTTATAACAAAACGATAACATAAATGACTAAAACGTAACATTTCAAA
* *
215645 CATAAGTAACTAAAATATAATATGAGGCAAACAAAAATGA
131 CATAAATAACTAAAATATAATATGAGACAAACAAAAATGA
* * *
215685 CTAAAATG-CATTTAAAACCCATTTGGGCTACTATGTAGGACCGGAATTAGGGAGTAACGGAGCT
1 CTAAAATGACATTTAAAACCCATTTGGACTACCATGTAGGACCGCAATTAGGGAGTAACGGAGCT
* * * *
215749 TAATGGTAAAGTGACCAC-TT-TAACAAAATGATAACGTAAGTGACTAAAACGTAACATTTCTAA
66 TAATGGTAAAGTGACCACTTTATAACAAAACGATAACATAAATGACTAAAACGTAACATTTCAAA
* * **
215812 TATAAATGACTAAAATATAATATGAGATTAACAAAAA
131 CATAAATAACTAAAATATAATATGAGACAAACAAAAA
215849 CAACTATTTT
Statistics
Matches: 144, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
167 70 0.49
168 2 0.01
169 65 0.45
170 7 0.05
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (170 bp):
CTAAAATGACATTTAAAACCCATTTGGACTACCATGTAGGACCGCAATTAGGGAGTAACGGAGCT
TAATGGTAAAGTGACCACTTTATAACAAAACGATAACATAAATGACTAAAACGTAACATTTCAAA
CATAAATAACTAAAATATAATATGAGACAAACAAAAATGA
Found at i:216153 original size:12 final size:12
Alignment explanation
Indices: 216136--216174 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
216126 GTTATTAATA
216136 TAATTTAGTTCT
1 TAATTTAGTTCT
216148 TAATTTAGTTC-
1 TAATTTAGTTCT
216159 TAATTT-GTT-T
1 TAATTTAGTTCT
216169 TAATTT
1 TAATTT
216175 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:216270 original size:21 final size:20
Alignment explanation
Indices: 216250--216287 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
216240 AGTCTTATAT
*
216250 TTTATTTTTTTGTTTTAATA
1 TTTATTTTTATGTTTTAATA
*
216270 TTTGTTTTTATGTTTTAA
1 TTTATTTTTATGTTTTAA
216288 ATGTGTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATGTTTTAATA
Found at i:216294 original size:19 final size:20
Alignment explanation
Indices: 216254--216295 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
216244 TTATATTTTA
* *
216254 TTTTTTTGTTTTAATATTTG
1 TTTTTATGTTTTAATATGTG
216274 TTTTTATGTTTTAA-ATGTG
1 TTTTTATGTTTTAATATGTG
216293 TTT
1 TTT
216296 GATTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (20 bp):
TTTTTATGTTTTAATATGTG
Found at i:234157 original size:33 final size:33
Alignment explanation
Indices: 234120--234184 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
234110 AAAATTATAC
*
234120 AAAACATTAAATT-GTAAATTGAAATAAATTTTG
1 AAAACATT-AATTAGTAAATTAAAATAAATTTTG
* *
234153 AAAACATTAATTATTAATTTAAAATAAATTTT
1 AAAACATTAATTAGTAAATTAAAATAAATTTT
234185 AATGCAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (33 bp):
AAAACATTAATTAGTAAATTAAAATAAATTTTG
Found at i:235992 original size:18 final size:18
Alignment explanation
Indices: 235969--236010 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
235959 ATAAGTATAA
235969 AATTAATAGAATTAACCG
1 AATTAATAGAATTAACCG
* *
235987 AATTAATCGAATTACCCG
1 AATTAATAGAATTAACCG
236005 AATTAA
1 AATTAA
236011 CCAATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (18 bp):
AATTAATAGAATTAACCG
Found at i:235999 original size:27 final size:26
Alignment explanation
Indices: 235969--236026 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
235959 ATAAGTATAA
*
235969 AATTAATAGAATTAACCGAATTAA-TCG
1 AATTAACAGAATTAACC-AATTAACT-G
* *
235996 AATTACCCGAATTAACCAATTAACTG
1 AATTAACAGAATTAACCAATTAACTG
236022 AATTA
1 AATTA
236027 TTTGTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (26 bp):
AATTAACAGAATTAACCAATTAACTG
Found at i:236025 original size:9 final size:9
Alignment explanation
Indices: 235977--236026 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
235967 AAAATTAATA
235977 GAATTAACC
1 GAATTAACC
*
235986 GAATTAATC
1 GAATTAACC
*
235995 GAATTACCC
1 GAATTAACC
236004 GAATTAACC
1 GAATTAACC
*
236013 -AATTAACT
1 GAATTAACC
236021 GAATTA
1 GAATTA
236027 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (9 bp):
GAATTAACC
Found at i:236070 original size:20 final size:20
Alignment explanation
Indices: 236045--236087 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
236035 AAATTATATT
*
236045 TTTTTATATTTTTATTCTTA
1 TTTTTAGATTTTTATTCTTA
*
236065 TTTTTAGATTTTTATTTTTA
1 TTTTTAGATTTTTATTCTTA
236085 TTT
1 TTT
236088 ATTACATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTAGATTTTTATTCTTA
Found at i:237471 original size:6 final size:6
Alignment explanation
Indices: 237453--237483 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
237443 TATGAGGAGC
*
237453 ATGAGG ATAAGG ATGAGG ATGAGG ATGAGG A
1 ATGAGG ATGAGG ATGAGG ATGAGG ATGAGG A
237484 GGACAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.16
Consensus pattern (6 bp):
ATGAGG
Found at i:246500 original size:25 final size:25
Alignment explanation
Indices: 246466--246524 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
246456 GGGATCCGCG
246466 CGTTTGGTCTTTGAGGGTTATTTCA
1 CGTTTGGTCTTTGAGGGTTATTTCA
*
246491 CGTTTGGTCTTTGAGGGTTATTTCG
1 CGTTTGGTCTTTGAGGGTTATTTCA
246516 CGTTTGGTC
1 CGTTTGGTC
246525 CCTCCCTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.08, C:0.14, G:0.31, T:0.47
Consensus pattern (25 bp):
CGTTTGGTCTTTGAGGGTTATTTCA
Found at i:247462 original size:15 final size:16
Alignment explanation
Indices: 247433--247462 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
247423 TAATTTCTAT
247433 ATTGTTTTGTATATTG
1 ATTGTTTTGTATATTG
247449 ATTGTTTT-TATATT
1 ATTGTTTTGTATATT
247463 ATTTCATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (16 bp):
ATTGTTTTGTATATTG
Found at i:255859 original size:26 final size:26
Alignment explanation
Indices: 255810--255860 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
255800 AATATGATAA
**
255810 CCTAAATTGACCTAATGACCAAAAAT
1 CCTAAATTGACCTAATGAAAAAAAAT
*
255836 CCTAAATTGGCCTAATGAAAAAAAA
1 CCTAAATTGACCTAATGAAAAAAAA
255861 ATCAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.22
Consensus pattern (26 bp):
CCTAAATTGACCTAATGAAAAAAAAT
Found at i:256432 original size:15 final size:16
Alignment explanation
Indices: 256414--256452 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
256404 AAGATATTTT
256414 AACAAATAAAATTAA-
1 AACAAATAAAATTAAC
*
256429 AACAAATGAAATTAAC
1 AACAAATAAAATTAAC
256445 AACAAATA
1 AACAAATA
256453 TGGTGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (16 bp):
AACAAATAAAATTAAC
Found at i:262083 original size:21 final size:21
Alignment explanation
Indices: 262057--262097 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
262047 AGACAAGCGA
* *
262057 TACTCCACAGCAGGTAGAGTG
1 TACTCCAAAACAGGTAGAGTG
262078 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
262098 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:284910 original size:16 final size:15
Alignment explanation
Indices: 284874--284912 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
284864 AAGATATTTT
284874 AACAAATAAAGTTAA
1 AACAAATAAAGTTAA
284889 AACAAATGAAA-TTAA
1 AACAAAT-AAAGTTAA
284904 CAACAAATA
1 -AACAAATA
284913 CGTTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (15 bp):
AACAAATAAAGTTAA
Found at i:293543 original size:16 final size:15
Alignment explanation
Indices: 293507--293545 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
293497 AAGATATTTT
293507 AACAAATAAAGTTAA
1 AACAAATAAAGTTAA
293522 AACAAATGAAA-TTAA
1 AACAAAT-AAAGTTAA
293537 CAACAAATA
1 -AACAAATA
293546 CGGTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (15 bp):
AACAAATAAAGTTAA
Found at i:296890 original size:15 final size:16
Alignment explanation
Indices: 296870--296899 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
296860 TATAATACGT
296870 TAAATACG-TGAAAAA
1 TAAATACGATGAAAAA
296885 TAAATACGATGAAAA
1 TAAATACGATGAAAA
296900 CACTGTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (16 bp):
TAAATACGATGAAAAA
Found at i:301760 original size:16 final size:15
Alignment explanation
Indices: 301724--301762 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
301714 AAGATATTTT
301724 AACAAATAAAGTTAA
1 AACAAATAAAGTTAA
301739 AACAAATGAAA-TTAA
1 AACAAAT-AAAGTTAA
301754 CAACAAATA
1 -AACAAATA
301763 CGGTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (15 bp):
AACAAATAAAGTTAA
Found at i:305107 original size:15 final size:16
Alignment explanation
Indices: 305087--305116 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
305077 TATAATACGT
305087 TAAATACG-TGAAAAA
1 TAAATACGATGAAAAA
305102 TAAATACGATGAAAA
1 TAAATACGATGAAAA
305117 CACTGTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (16 bp):
TAAATACGATGAAAAA
Found at i:309977 original size:16 final size:15
Alignment explanation
Indices: 309941--309979 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
309931 AAGATATTTT
309941 AACAAATAAAGTTAA
1 AACAAATAAAGTTAA
309956 AACAAATGAAA-TTAA
1 AACAAAT-AAAGTTAA
309971 CAACAAATA
1 -AACAAATA
309980 CGGTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (15 bp):
AACAAATAAAGTTAA
Found at i:313324 original size:15 final size:16
Alignment explanation
Indices: 313304--313333 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
313294 TATAATACGT
313304 TAAATACG-TGAAAAA
1 TAAATACGATGAAAAA
313319 TAAATACGATGAAAA
1 TAAATACGATGAAAA
313334 CACTGTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (16 bp):
TAAATACGATGAAAAA
Found at i:326318 original size:93 final size:93
Alignment explanation
Indices: 326206--326378 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
326196 CGCCCATAAG
* *
326206 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
326271 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
326299 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
326364 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
326379 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:326374 original size:46 final size:46
Alignment explanation
Indices: 326199--326374 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
326189 TGTAACCCGC
* *
326199 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
326245 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
326295 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
326338 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
326375 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:326393 original size:46 final size:45
Alignment explanation
Indices: 326250--326393 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
326240 CGCATCCATA
* * *
326250 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
326298 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
326343 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
326389 AGTGA
1 AGTGA
326394 CATGTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.48
47 30 0.39
48 5 0.06
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:328306 original size:15 final size:16
Alignment explanation
Indices: 328288--328349 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 16
328278 AAAGATAACA
328288 AGAAACC-GAATAAAG
1 AGAAACCAGAATAAAG
*
328303 AGAATCCA-AGAT--AG
1 AGAAACCAGA-ATAAAG
328317 AGAAATCCAGAATAAAG
1 AGAAA-CCAGAATAAAG
*
328334 -GAATCCAGAATAAAG
1 AGAAACCAGAATAAAG
328349 A
1 A
328350 AACCCAAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
14 6 0.16
15 23 0.62
16 6 0.16
17 2 0.05
ACGTcount: A:0.56, C:0.13, G:0.19, T:0.11
Consensus pattern (16 bp):
AGAAACCAGAATAAAG
Found at i:328351 original size:30 final size:29
Alignment explanation
Indices: 328287--328353 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
328277 CAAAGATAAC
328287 AAGAAACCGAATAAAGAGAATCCAAGATA
1 AAGAAACCGAATAAAGAGAATCCAAGATA
*
328316 GAGAAATCCAGAATAAAG-GAATCC-AGAATA
1 AAGAAA-CC-GAATAAAGAGAATCCAAG-ATA
328346 AAGAAACC
1 AAGAAACC
328354 CAAGATACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 9 0.27
30 16 0.48
31 8 0.24
ACGTcount: A:0.57, C:0.15, G:0.18, T:0.10
Consensus pattern (29 bp):
AAGAAACCGAATAAAGAGAATCCAAGATA
Found at i:331412 original size:93 final size:93
Alignment explanation
Indices: 331300--331472 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
331290 CGCCCATAAG
* *
331300 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
331365 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
331393 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
331458 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
331473 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:331468 original size:46 final size:46
Alignment explanation
Indices: 331293--331468 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
331283 TGTAACCCGC
* *
331293 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
331339 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
331389 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
331432 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
331469 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:331487 original size:46 final size:45
Alignment explanation
Indices: 331344--331487 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
331334 CGCATCCATA
* * *
331344 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
331392 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
331437 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
331483 AGTGA
1 AGTGA
331488 CATGTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.48
47 30 0.39
48 5 0.06
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:333036 original size:27 final size:27
Alignment explanation
Indices: 332998--333050 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
332988 GGTCCATAGT
* *
332998 AGGAGGATTTGTTAGCTTGTTAGTAGG
1 AGGAGGAGTTGTTAGCTTATTAGTAGG
333025 AGGAGGAGTTGTTAGCTTATTAGTAG
1 AGGAGGAGTTGTTAGCTTATTAGTAG
333051 CAATTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.36, T:0.36
Consensus pattern (27 bp):
AGGAGGAGTTGTTAGCTTATTAGTAGG
Found at i:346170 original size:15 final size:15
Alignment explanation
Indices: 346150--346194 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
346140 TAAATTTAGC
346150 ACTTAATTTTTTAAT
1 ACTTAATTTTTTAAT
* * *
346165 ATTTAATTTTTTGAC
1 ACTTAATTTTTTAAT
346180 ACTTAATTTTTTAAT
1 ACTTAATTTTTTAAT
346195 TTATCAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (15 bp):
ACTTAATTTTTTAAT
Found at i:346211 original size:22 final size:22
Alignment explanation
Indices: 346183--346226 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
346173 TTTTGACACT
346183 TAATTTTTTAATTTATCAAATA
1 TAATTTTTTAATTTATCAAATA
346205 TAATTTTTTAATTTATCAAATA
1 TAATTTTTTAATTTATCAAATA
346227 GCACCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATTTTTTAATTTATCAAATA
Found at i:349483 original size:13 final size:14
Alignment explanation
Indices: 349465--349495 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
349455 TGGCTCACCC
349465 ATATTATT-TTTTT
1 ATATTATTATTTTT
349478 ATATTATTATTTTT
1 ATATTATTATTTTT
349492 ATAT
1 ATAT
349496 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATATTATTATTTTT
Found at i:349487 original size:16 final size:16
Alignment explanation
Indices: 349466--349496 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
349456 GGCTCACCCA
*
349466 TATTATTTTTTTATAT
1 TATTATTTTTATATAT
349482 TATTATTTTTATATA
1 TATTATTTTTATATA
349497 AAAATAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTTTTATATAT
Found at i:359787 original size:36 final size:36
Alignment explanation
Indices: 359747--359858 Score: 188
Period size: 36 Copynumber: 3.1 Consensus size: 36
359737 GATGTAAAAA
* *
359747 ATGGTACTACGAATGAAGTGGTTTCATTTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
*
359783 ATGGTACAACGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
*
359819 ATGGTACTATGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
359855 ATGG
1 ATGG
359859 GGGTAATAGG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.35
Consensus pattern (36 bp):
ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
Found at i:360066 original size:285 final size:285
Alignment explanation
Indices: 359545--360071 Score: 788
Period size: 285 Copynumber: 1.8 Consensus size: 285
359535 TGATGCTACA
* *
359545 AACGCAGTGGTTGCATCTGATGTTGGTGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
1 AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
* * * * *
359610 TGTTGGGACTGATGATTCGAGTACGGCGAAACAGGAATCTCAAGGATGCTCTGGTTATGATTCTC
66 TGTTGAGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTC
* **
359675 AAAAGGATTCTTTTGATAATATTTCTGTGGGAAGTGAAGAGTCGCCTACTAAAGAACCTCAAGAT
131 AAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAGAT
* * * **
359740 GTAAAAAATGGTACTACGAATGAAGTGGTTTCATTTGATGTTGATGGTACAACGAACGAAGTGGT
196 ATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGGTACAACGAACGAAGTGGT
359805 TTCATCTGATGTTGATGGTACTATG
261 TTCATCTGATGTTGATGGTACTATG
* * *
359830 AACGAAGTGGTTTCATCTGATGTTGATGGGGGTAATAGGATGACTTCAGACATC-AGAACCGTGC
1 AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGAC-TCAAGAACCATGC
359894 CTGTTGAGACTGATGACTT-GAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTC
65 CTGTTGAGACTGATGA-TTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTC
* * * * * *
359958 TCCAAAGGATTCTTTTGATACTATTTCTGTGAGAAGTGAAGAGTTGCAGGCTAAGGAACCTCAGG
129 TCAAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAG
* *
360023 ATATAAAAGATGATAATACGAATGATGTGGTTTCACCTGATGTTGATGG
194 ATATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGG
360072 GGGTAATAGG
Statistics
Matches: 214, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
285 210 0.98
286 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (285 bp):
AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
TGTTGAGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTC
AAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAGAT
ATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGGTACAACGAACGAAGTGGT
TTCATCTGATGTTGATGGTACTATG
Found at i:375431 original size:33 final size:33
Alignment explanation
Indices: 375389--375455 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
375379 CTAATTTGCT
375389 CATTTTTTGTAGATAGGACAAAATGCAATCTGA
1 CATTTTTTGTAGATAGGACAAAATGCAATCTGA
375422 CATTTTTTGTAGATAGGACAAAATGCAATCTGA
1 CATTTTTTGTAGATAGGACAAAATGCAATCTGA
375455 C
1 C
375456 TCATAGTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (33 bp):
CATTTTTTGTAGATAGGACAAAATGCAATCTGA
Found at i:376339 original size:2 final size:2
Alignment explanation
Indices: 376334--376362 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
376324 TATATATATC
376334 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
376363 ATTCAAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:377010 original size:80 final size:80
Alignment explanation
Indices: 376877--377036 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
376867 GATCGTTTCA
376877 AGTTTAGGTCAATTTGAATTTAAGGTAAATTTGAGTTCAAGTTATTGAGTTTTCATGGTCAAATC
1 AGTTTAGGTCAATTTGAATTTAAGGTAAATTTGAGTTCAAGTTATTGAGTTTTCATGGTCAAATC
376942 AAGTTGGATCAAATT
66 AAGTTGGATCAAATT
376957 AGTTTAGGTCAATTTGAATTTAAGGTAAATTTGAGTTCAAGTTATTGAGTTTTCATGGTCAAATC
1 AGTTTAGGTCAATTTGAATTTAAGGTAAATTTGAGTTCAAGTTATTGAGTTTTCATGGTCAAATC
377022 AAGTTGGATCAAATT
66 AAGTTGGATCAAATT
377037 CGGGTTAATC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (80 bp):
AGTTTAGGTCAATTTGAATTTAAGGTAAATTTGAGTTCAAGTTATTGAGTTTTCATGGTCAAATC
AAGTTGGATCAAATT
Found at i:381106 original size:32 final size:31
Alignment explanation
Indices: 380992--381106 Score: 92
Period size: 31 Copynumber: 3.6 Consensus size: 31
380982 CACCCATTTC
* * *
380992 AAAAAATTAAAAGGTTTAATTGAATTTTTTTAT
1 AAAAAATTGAGAGGTTTAA-TGAA-TTTTTTAA
* * * *
381025 TAAAAACT-AAAGATTTAATGAATTTTTTAA
1 AAAAAATTGAGAGGTTTAATGAATTTTTTAA
*
381055 AAAAAATTGAGAGGATTAAT-AATTTTTTTAA
1 AAAAAATTGAGAGGTTTAATGAA-TTTTTTAA
381086 AAAACAATT-AGATGGTTTAAT
1 AAAA-AATTGAGA-GGTTTAAT
381107 TAAAATTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
30 15 0.22
31 27 0.40
32 20 0.29
33 6 0.09
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (31 bp):
AAAAAATTGAGAGGTTTAATGAATTTTTTAA
Found at i:382644 original size:67 final size:68
Alignment explanation
Indices: 382529--382665 Score: 161
Period size: 67 Copynumber: 2.0 Consensus size: 68
382519 TGTTTTATTT
* * * ** * *
382529 TTGGTTAAAATATGCTCCAAGTCCTTATGCTTTTTGTACATTTAGAATTAGTTC-TTTACTTTTT
1 TTGGTTAAAATATGATCCAAGTCCCTATGATTTTCATACATTTAGAATTAGTTCATCTACTTTTC
382593 GAA
66 GAA
* * *
382596 TTGGTTAAAATATGATCCAAGTCCCTAT-ATTCTTCATATATTTGGAATTATTTCATCTACTTTT
1 TTGGTTAAAATATGATCCAAGTCCCTATGATT-TTCATACATTTAGAATTAGTTCATCTACTTTT
382660 CGAA
65 CGAA
382664 TT
1 TT
382666 TAAAAATTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 2 0.03
67 43 0.74
68 13 0.22
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.47
Consensus pattern (68 bp):
TTGGTTAAAATATGATCCAAGTCCCTATGATTTTCATACATTTAGAATTAGTTCATCTACTTTTC
GAA
Found at i:388470 original size:22 final size:22
Alignment explanation
Indices: 388445--388486 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
388435 TAATTTTAAA
388445 AATATTTATAA-TATTAATATAT
1 AATA-TTATAATTATTAATATAT
*
388467 AATATTATAATTTTTAATAT
1 AATATTATAATTATTAATAT
388487 TATTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTATAATTATTAATATAT
Done.