Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold399
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: 323073
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 5237 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:212 original size:23 final size:22
Alignment explanation
Indices: 186--230 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
176 AATTACATTT
*
186 CAAAACATTTTAAAAAAAAAAAC
1 CAAAAC-TTTCAAAAAAAAAAAC
*
209 CAAATCTTTCAAAAAAAAAAAC
1 CAAAACTTTCAAAAAAAAAAAC
231 TCTCTCAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.18
Consensus pattern (22 bp):
CAAAACTTTCAAAAAAAAAAAC
Found at i:1348 original size:133 final size:128
Alignment explanation
Indices: 1082--1465 Score: 569
Period size: 133 Copynumber: 3.0 Consensus size: 128
1072 CTCTGTAACT
* *
1082 TTAGGGAGATAAGACTTGTAGCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
1 TTAGGGAGATAAGA--TCTA-CTTCAACCTTCTCTGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
1147 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTG
63 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTG
1212 C
128 C
*
1213 TTAGGGAGATAAGATCTACAATCTTCAACCTTCTCTGCTGCTGCTCAGGGAGACAAGGCTTGATG
1 TTAGGGAGATAAGATCT---A-CTTCAACCTTCTCTGCTGCTGCTCAGGGAGACAAGGCTTGGTG
* * * *
1278 GCCTAAATCTGCTTCCCCACTATCTTGGAAAGATAAAATTCGTCGTCTTCGATCTACTCCACTAC
62 GCTTAAATCTGCTT-CCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
1343 TGC
126 TGC
* *
1346 TTAGGGAGATAAGATCTA--T-AACCTTCTCCT-CTACTACTCAGGGAGACAAGGCTTGGTGGCT
1 TTAGGGAGATAAGATCTACTTCAACCTTCT-CTGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
*
1407 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTTGATCTGCTCCACT
65 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
1466 GCAACTTCAG
Statistics
Matches: 232, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
125 44 0.19
126 46 0.20
127 3 0.01
129 2 0.01
130 1 0.00
131 14 0.06
132 55 0.24
133 67 0.29
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (128 bp):
TTAGGGAGATAAGATCTACTTCAACCTTCTCTGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTT
AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
Found at i:11599 original size:98 final size:98
Alignment explanation
Indices: 11429--11729 Score: 575
Period size: 98 Copynumber: 3.1 Consensus size: 98
11419 GTGCAATAAA
11429 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
11494 CCTCTAAAATCCCAAACTTGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTTGGAATATTTCCTTT
*
11527 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
* *
11592 CCACTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTTGGAATATTTCCTTT
11625 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
11690 CCTCTAAAATCCCAAACTTGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTTGGAATATTTCCTTT
11723 ACTTTAA
1 ACTTTAA
11730 GTTGGTTTAA
Statistics
Matches: 197, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 197 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTCTAAAATCCCAAACTTGGAATATTTCCTTT
Found at i:12749 original size:10 final size:10
Alignment explanation
Indices: 12727--12762 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
12717 GTCCTCCGAC
12727 CATCGGCCGGT
1 CATCGG-CGGT
12738 CATCGGCGGT
1 CATCGGCGGT
12748 CATCGGCGGT
1 CATCGGCGGT
12758 CATCG
1 CATCG
12763 ACCACCACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.11, C:0.33, G:0.36, T:0.19
Consensus pattern (10 bp):
CATCGGCGGT
Found at i:13645 original size:259 final size:260
Alignment explanation
Indices: 13173--13694 Score: 1010
Period size: 259 Copynumber: 2.0 Consensus size: 260
13163 AGTGTGTTTA
13173 TGGCTTTTTTATAGCCGAAATAGTAAATCAAAGAAAGAAAAAAAATCTGGTCATATCTTTGATTC
1 TGGCTTTTTTATAGCCGAAATAGTAAATCAAAGAAAGAAAAAAAATCTGGTCATATCTTTGATTC
13238 GCAAATACATGATTTTTCTTTCCATATGTTGTTGGTTTCCTTGCAGGTGAAGATCACGAAGATTC
66 GCAAATACATGATTTTTCTTTCCATATGTTGTTGGTTTCCTTGCAGGTGAAGATCACGAAGATTC
*
13303 GGGGACGAAGCTTGGCTTACGGCACTGCCCTATGGTTCCATCTGCTCCCCGAGCTTTGGGCTAGG
131 GGGGACGAAGCTTGGCTTACGGCACTGCCCTAGGGTTCCATCTGCTCCCCGAGCTTTGGGCTAGG
13368 GTCCGATTTGGGCCGCTGTTTTGTTTGGATTTGGGCCATATAGGCCAATCTTTGTTTTTATTAGT
196 GTCCGATTTGGGCCGCTGTTTTGTTTGGATTTGGGCCATATAGGCCAATCTTTGTTTTTATTAGT
13433 TGGCTTTTTTAT-GCCGAAATAGTAAATCAAAGAAAGAAAAAAAATCTGGTCATATCTTTGATTC
1 TGGCTTTTTTATAGCCGAAATAGTAAATCAAAGAAAGAAAAAAAATCTGGTCATATCTTTGATTC
13497 GCAAATACATGATTTTTCTTTCCATATGTTGTTGGTTTCCTTGCAGGTGAAGATCACGAAGATTC
66 GCAAATACATGATTTTTCTTTCCATATGTTGTTGGTTTCCTTGCAGGTGAAGATCACGAAGATTC
* *
13562 GGGGACGAAGCTTGGCTTGCGGCGCTGCCCTAGGGTTCCATCTGCTCCCCGAGCTTTGGGCTAGG
131 GGGGACGAAGCTTGGCTTACGGCACTGCCCTAGGGTTCCATCTGCTCCCCGAGCTTTGGGCTAGG
13627 GTCCGATTTGGGCCGCTGTTTTGTTTGGATTTGGGCCATATAGGCCAATCTTTGTTTTTATTAGT
196 GTCCGATTTGGGCCGCTGTTTTGTTTGGATTTGGGCCATATAGGCCAATCTTTGTTTTTATTAGT
13692 TGG
1 TGG
13695 GCCATGCGGG
Statistics
Matches: 259, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
259 247 0.95
260 12 0.05
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.35
Consensus pattern (260 bp):
TGGCTTTTTTATAGCCGAAATAGTAAATCAAAGAAAGAAAAAAAATCTGGTCATATCTTTGATTC
GCAAATACATGATTTTTCTTTCCATATGTTGTTGGTTTCCTTGCAGGTGAAGATCACGAAGATTC
GGGGACGAAGCTTGGCTTACGGCACTGCCCTAGGGTTCCATCTGCTCCCCGAGCTTTGGGCTAGG
GTCCGATTTGGGCCGCTGTTTTGTTTGGATTTGGGCCATATAGGCCAATCTTTGTTTTTATTAGT
Found at i:15119 original size:39 final size:39
Alignment explanation
Indices: 15064--15159 Score: 165
Period size: 39 Copynumber: 2.5 Consensus size: 39
15054 TGAGTTGTAA
* *
15064 GTGATTATTAATCTACATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
*
15103 GTGACTATTCATCTACATCACTTAAATGTTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
15142 GTGACTATTCATCTACAT
1 GTGACTATTCATCTACAT
15160 TCATGTATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
Found at i:19635 original size:16 final size:16
Alignment explanation
Indices: 19614--19668 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
19604 ATGTGTGTAA
*
19614 CTCTTCATCTTCAAGT
1 CTCTTCATTTTCAAGT
*
19630 CTCTTCACATTTTTAA--
1 CTCTT--CATTTTCAAGT
19646 CTCTTCATTTTCAAGT
1 CTCTTCATTTTCAAGT
19662 CTCTTCA
1 CTCTTCA
19669 CATTTCTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 8 0.25
16 17 0.53
18 7 0.22
ACGTcount: A:0.20, C:0.29, G:0.04, T:0.47
Consensus pattern (16 bp):
CTCTTCATTTTCAAGT
Found at i:19652 original size:32 final size:32
Alignment explanation
Indices: 19611--19685 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
19601 TGCATGTGTG
*
19611 TAACTCTTCATCTTCAAGTCTCTTCACATTTT
1 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
*
19643 TAACTCTTCATTTTCAAGTCTCTTCACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
19675 TAACTCTTCAT
1 TAACTCTTCAT
19686 AATTTATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.23, C:0.28, G:0.03, T:0.47
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTCTCTTCACATTTC
Found at i:19681 original size:16 final size:16
Alignment explanation
Indices: 19630--19684 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
19620 ATCTTCAAGT
*
19630 CTCTTCACATTTTTAA
1 CTCTTCACATTTCTAA
*
19646 CTCTTCA-TTTTC-AA
1 CTCTTCACATTTCTAA
19660 GTCTCTTCACATTTCTAA
1 --CTCTTCACATTTCTAA
19678 CTCTTCA
1 CTCTTCA
19685 TAATTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 2 0.06
15 3 0.09
16 21 0.66
17 4 0.12
18 2 0.06
ACGTcount: A:0.22, C:0.29, G:0.02, T:0.47
Consensus pattern (16 bp):
CTCTTCACATTTCTAA
Found at i:33237 original size:16 final size:17
Alignment explanation
Indices: 33207--33239 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33197 ATAAACGAAG
*
33207 ATATGGTTTGTTTGTTT
1 ATATGGTTTGCTTGTTT
33224 ATAT-GTTTGCTTGTTT
1 ATATGGTTTGCTTGTTT
33240 TTTATGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.03, G:0.21, T:0.64
Consensus pattern (17 bp):
ATATGGTTTGCTTGTTT
Found at i:34194 original size:33 final size:32
Alignment explanation
Indices: 34157--34317 Score: 133
Period size: 33 Copynumber: 4.8 Consensus size: 32
34147 ACATTCGTAG
*
34157 TGCCATAACCCAATTATGGTCTTATCATCAGAA
1 TGCCATAACCCAACTATGGTCTTA-CATCAGAA
* * * *
34190 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAACCCAACTATGGTCTTACAT-CAGA-A
* * * * * *
34224 CTGCCATGATCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAACCCAACTATGGTCTTAC-ATCAGAA
*
34258 TGCCATAACCCAATTATGGTCTTATCATCAGAA
1 TGCCATAACCCAACTATGGTCTTA-CATCAGAA
** *
34291 TGCCATAGTCCAACTATAGTCTTACAT
1 TGCCATAACCCAACTATGGTCTTACAT
34318 ATAAACACTG
Statistics
Matches: 98, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
32 6 0.06
33 67 0.68
34 2 0.02
35 22 0.22
36 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (32 bp):
TGCCATAACCCAACTATGGTCTTACATCAGAA
Found at i:34244 original size:35 final size:34
Alignment explanation
Indices: 34205--34351 Score: 113
Period size: 33 Copynumber: 4.3 Consensus size: 34
34195 TAGCCCAGCT
34205 ATGGTCTTACATATAAACACTGCCATGATCCAACC
1 ATGGTCTTACAT-TAAACACTGCCATGATCCAACC
* * * * * * **
34240 ATGGTCTTACGTT-CATAGTGCCATAACCCAATT
1 ATGGTCTTACATTAAACACTGCCATGATCCAACC
* * *
34273 ATGGTCTTATCATCAGA-A-TGCCAT-AGTCCAACT
1 ATGGTCTTA-CATTAAACACTGCCATGA-TCCAACC
* *
34306 ATAGTCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTACAT-TAAACACTGCCATGATCCAACC
34341 ATGGTCTTACA
1 ATGGTCTTACA
34352 CGAAATCACA
Statistics
Matches: 86, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
32 4 0.05
33 43 0.50
34 5 0.06
35 34 0.40
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (34 bp):
ATGGTCTTACATTAAACACTGCCATGATCCAACC
Found at i:34329 original size:101 final size:101
Alignment explanation
Indices: 34145--34351 Score: 360
Period size: 101 Copynumber: 2.0 Consensus size: 101
34135 AATTCATCAT
* * *
34145 TTACATTCGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAACTATAGT
34210 CTTACATATAAACACTGCCATGATCCAACCATGGTC
66 CTTACATATAAACACTGCCATGATCCAACCATGGTC
* *
34246 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGTCCAACTATAGT
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAACTATAGT
*
34311 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGATCCAACCATGGTC
34347 TTACA
1 TTACA
34352 CGAAATCACA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAACTATAGT
CTTACATATAAACACTGCCATGATCCAACCATGGTC
Found at i:38336 original size:6 final size:6
Alignment explanation
Indices: 38325--38387 Score: 90
Period size: 6 Copynumber: 10.5 Consensus size: 6
38315 GGATTGCAAG
* * * *
38325 TTTCCA TTTCCA TTTTCA TTTTCA TTTCCA TTTCCA TTTTCA TTTTCA
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA
38373 TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTT
38388 TTGGAACCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (6 bp):
TTTCCA
Found at i:38357 original size:24 final size:24
Alignment explanation
Indices: 38325--38388 Score: 128
Period size: 24 Copynumber: 2.7 Consensus size: 24
38315 GGATTGCAAG
38325 TTTCCATTTCCATTTTCATTTTCA
1 TTTCCATTTCCATTTTCATTTTCA
38349 TTTCCATTTCCATTTTCATTTTCA
1 TTTCCATTTCCATTTTCATTTTCA
38373 TTTCCATTTCCATTTT
1 TTTCCATTTCCATTTT
38389 TGGAACCTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTCCATTTCCATTTTCATTTTCA
Found at i:38499 original size:10 final size:10
Alignment explanation
Indices: 38474--38502 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
38464 CATTTCTCAT
38474 TTTCTATTCA
1 TTTCTATTCA
38484 -TTCTATTCA
1 TTTCTATTCA
38493 TTTCTATTCA
1 TTTCTATTCA
38503 AACACGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:51101 original size:20 final size:22
Alignment explanation
Indices: 51066--51106 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
51056 AAATGGAAGC
*
51066 AAAAGTAACAATATATTAAAAT
1 AAAAGTAACAATATATGAAAAT
51088 AAAAGT-AC-ATATATGAAAA
1 AAAAGTAACAATATATGAAAA
51107 ATTCAAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAAGTAACAATATATGAAAAT
Found at i:53407 original size:30 final size:30
Alignment explanation
Indices: 53372--53440 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
53362 ATTTTAACAA
53372 AAAACTCTCAAATTTCTCCCTAAATTTCTC
1 AAAACTCTCAAATTTCTCCCTAAATTTCTC
*
53402 AAAACTCTCAAATTTCTCCTTAAATTTCTC
1 AAAACTCTCAAATTTCTCCCTAAATTTCTC
*
53432 AAAGCTCTC
1 AAAACTCTC
53441 TTTAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAACTCTCAAATTTCTCCCTAAATTTCTC
Found at i:54540 original size:21 final size:21
Alignment explanation
Indices: 54514--54557 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
54504 CGACTTCATT
54514 AGACCAACGGTCGGAAGTGCA
1 AGACCAACGGTCGGAAGTGCA
54535 AGACCAACGGTCGGAAGTGCA
1 AGACCAACGGTCGGAAGTGCA
54556 AG
1 AG
54558 TAAGTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.34, T:0.09
Consensus pattern (21 bp):
AGACCAACGGTCGGAAGTGCA
Found at i:55229 original size:18 final size:18
Alignment explanation
Indices: 55206--55242 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
55196 GTCAGGTGTA
* *
55206 TATCCTAGCCTTTATATG
1 TATCCTAACCCTTATATG
55224 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
55242 T
1 T
55243 TTTCTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:55682 original size:25 final size:24
Alignment explanation
Indices: 55648--55695 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
55638 TTTAATAAAA
55648 TAAATTTTTTAA-ATATTTTAATAG
1 TAAATTTTTTAATAT-TTTTAATAG
*
55672 TAAATTATTTTTATATTTTTAATA
1 TAAATT-TTTTAATATTTTTAATA
55696 AAATAGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 13 0.62
26 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TAAATTTTTTAATATTTTTAATAG
Found at i:60762 original size:42 final size:42
Alignment explanation
Indices: 60674--60754 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
60664 ACACAGAACC
* * *
60674 CTAAATTATTTTAACAAAACCCTAAACCATACAAACCTATCC
1 CTAAATTATTTTAACAAAACCCTAAACCATAAAAACCTAGCA
60716 CTAAATTATTTTTAA-AAAACCCT-AACCA-AAAAATCCTAG
1 CTAAATTA-TTTTAACAAAACCCTAAACCATAAAAA-CCTAG
60755 GGACTAAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 4 0.11
41 9 0.26
42 16 0.46
43 6 0.17
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.27
Consensus pattern (42 bp):
CTAAATTATTTTAACAAAACCCTAAACCATAAAAACCTAGCA
Found at i:62614 original size:18 final size:19
Alignment explanation
Indices: 62573--62614 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
62563 GGATTCATTA
*
62573 AAGTT-GTGGAGTTTGTTG
1 AAGTTAGTGGAGTTAGTTG
62591 AA-TTAGTGGAGTTAGTT-
1 AAGTTAGTGGAGTTAGTTG
62608 AAGTTAG
1 AAGTTAG
62615 CTGGGTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (19 bp):
AAGTTAGTGGAGTTAGTTG
Found at i:75711 original size:6 final size:6
Alignment explanation
Indices: 75649--75713 Score: 51
Period size: 6 Copynumber: 10.2 Consensus size: 6
75639 TGAAAAAAAA
* *
75649 TATTTT AATTTT CCTATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT
1 TATTTT TATTTT --TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT
*
75701 CATTTT TATTTT T
1 TATTTT TATTTT T
75714 GCAGGAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
5 5 0.11
6 27 0.57
7 6 0.13
8 9 0.19
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (6 bp):
TATTTT
Found at i:81075 original size:2 final size:2
Alignment explanation
Indices: 81064--81095 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
81054 TGTTATTTAC
81064 AT AT -T 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 AT AT AT A
81096 AATTCTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84786 original size:22 final size:23
Alignment explanation
Indices: 84738--84789 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
84728 GTTTTTAAAG
*
84738 TTTTAAATATTGTCTAAAACATA
1 TTTTAAATATTGTATAAAACATA
* *
84761 TTTTAATTATTTTATAAAA-ATA
1 TTTTAAATATTGTATAAAACATA
84783 TTTTAAA
1 TTTTAAA
84790 CTTTCTGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTTAAATATTGTATAAAACATA
Found at i:85901 original size:21 final size:22
Alignment explanation
Indices: 85834--85901 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 22
85824 ATGAATATTA
* *
85834 AATTTAAGATAAATATAATTTG
1 AATTGAAGATATATATAATTTG
* *
85856 AATATTAAGATATATATTA-TT-
1 AAT-TGAAGATATATATAATTTG
*
85877 AATTGAA-ATATATATGATTTG
1 AATTGAAGATATATATAATTTG
85898 AATT
1 AATT
85902 TATTTTACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 9 0.23
20 5 0.13
21 7 0.18
22 5 0.13
23 13 0.33
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (22 bp):
AATTGAAGATATATATAATTTG
Found at i:90078 original size:8 final size:8
Alignment explanation
Indices: 90066--90098 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
90056 TGGTTAAATG
90066 ATTA-AAA
1 ATTATAAA
90073 ATT-TAAA
1 ATTATAAA
90080 ATTATAAA
1 ATTATAAA
90088 ATTATAAA
1 ATTATAAA
90096 ATT
1 ATT
90099 TATCAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 9 0.38
8 15 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTATAAA
Found at i:90621 original size:10 final size:10
Alignment explanation
Indices: 90593--90660 Score: 63
Period size: 10 Copynumber: 6.9 Consensus size: 10
90583 TTAATGTTTC
90593 TAATAATTTT-
1 TAAT-ATTTTA
*
90603 TATTATTTTA
1 TAATATTTTA
90613 TAATATTTTCA
1 TAATATTTT-A
90624 T-AT-TTTTCA
1 TAATATTTT-A
90633 TAATATTTTA
1 TAATATTTTA
*
90643 TAATATTTCA
1 TAATATTTTA
90653 TAA-ATTTT
1 TAATATTTT
90661 TATCCTTTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
9 16 0.32
10 28 0.56
11 6 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (10 bp):
TAATATTTTA
Found at i:90640 original size:12 final size:11
Alignment explanation
Indices: 90606--90660 Score: 68
Period size: 10 Copynumber: 5.5 Consensus size: 11
90596 TAATTTTTAT
90606 TATTTT-ATAA
1 TATTTTCATAA
90616 TATTTTCAT-A
1 TATTTTCATAA
90626 T-TTTTCATAA
1 TATTTTCATAA
90636 TATTTT-ATAA
1 TATTTTCATAA
90646 TA-TTTCATAA
1 TATTTTCATAA
90656 -ATTTT
1 TATTTT
90661 TATCCTTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
9 11 0.28
10 23 0.57
11 6 0.15
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTCATAA
Found at i:90661 original size:20 final size:19
Alignment explanation
Indices: 90597--90688 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 19
90587 TGTTTCTAAT
*
90597 AATTTTTAT-TATTTTATA
1 AATTTTTATATATTTCATA
* *
90615 ATATTTTCATATTTTTCAT-
1 A-ATTTTTATATATTTCATA
90634 AATATTTTATAATATTTCATA
1 AAT-TTTTAT-ATATTTCATA
*
90655 AATTTTTATCCT-TTTC-TA
1 AATTTTTAT-ATATTTCATA
90673 AATTTTTATAATATTT
1 AATTTTTAT-ATATTT
90689 AAATAATTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
18 15 0.25
19 20 0.34
20 21 0.36
21 3 0.05
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
AATTTTTATATATTTCATA
Found at i:90698 original size:20 final size:19
Alignment explanation
Indices: 90594--90700 Score: 60
Period size: 20 Copynumber: 5.6 Consensus size: 19
90584 TAATGTTTCT
*
90594 AATAATTTTTATTATTTTA
1 AATAATTTTTATAATTTTA
* *
90613 TAAT-ATTTTCAT-ATTTTT
1 -AATAATTTTTATAATTTTA
*
90631 CATAATATTTTATAATATTT-
1 AATAAT-TTTTATAAT-TTTA
* ** *
90651 CATAAATTTTTATCCTTTTC
1 AAT-AATTTTTATAATTTTA
*
90671 TA-AATTTTTATAATATTTA
1 AATAATTTTTATAAT-TTTA
90690 AATAATTTTTA
1 AATAATTTTTA
90701 AGCTTAAACA
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
17 2 0.03
18 17 0.25
19 19 0.28
20 24 0.35
21 6 0.09
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.59
Consensus pattern (19 bp):
AATAATTTTTATAATTTTA
Found at i:90766 original size:53 final size:53
Alignment explanation
Indices: 90709--90872 Score: 117
Period size: 53 Copynumber: 3.1 Consensus size: 53
90699 TAAGCTTAAA
90709 CATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACT
1 CATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACT
** ** ** * * * * *
90762 CATTT--TTATCCTTTTTAA--ATTTTTATAAT-ATTTAAATAATTTTTAAGCTTA-A-A
1 CATTTAAAAAT-C-AATTAAGCAACTATAAAATAATTTAAA-AA--ATCAA--TTACACT
90815 CATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACT
1 CATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACT
90868 CATTT
1 CATTT
90873 TTTTCCATCA
Statistics
Matches: 75, Mismatches: 22, Indels: 28
0.60 0.18 0.22
Matches are distributed among these distances:
50 7 0.09
51 14 0.19
52 2 0.03
53 29 0.39
54 2 0.03
55 14 0.19
56 7 0.09
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.39
Consensus pattern (53 bp):
CATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACT
Found at i:90786 original size:106 final size:107
Alignment explanation
Indices: 90656--90874 Score: 431
Period size: 106 Copynumber: 2.1 Consensus size: 107
90646 TATTTCATAA
90656 ATTTTTATCCTTTTCTAAATTTTTATAATATTTAAATAATTTTTAAGCTTAAACATTTAAAAATC
1 ATTTTTATCCTTTTCTAAATTTTTATAATATTTAAATAATTTTTAAGCTTAAACATTTAAAAATC
90721 AATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACTC
66 AATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACTC
90763 ATTTTTATCCTTTT-TAAATTTTTATAATATTTAAATAATTTTTAAGCTTAAACATTTAAAAATC
1 ATTTTTATCCTTTTCTAAATTTTTATAATATTTAAATAATTTTTAAGCTTAAACATTTAAAAATC
90827 AATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACTC
66 AATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACTC
90869 ATTTTT
1 ATTTTT
90875 TTCCATCAAA
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 98 0.88
107 14 0.12
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (107 bp):
ATTTTTATCCTTTTCTAAATTTTTATAATATTTAAATAATTTTTAAGCTTAAACATTTAAAAATC
AATTAAGCAACTATAAAATAATTTAAAAAATCAATTACACTC
Found at i:90910 original size:106 final size:105
Alignment explanation
Indices: 90689--90911 Score: 297
Period size: 106 Copynumber: 2.1 Consensus size: 105
90679 TATAATATTT
90689 AAATAATTTTTAAGCTTAAACATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCA
1 AAATAATTTTTAAGCTTAAACATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCA
* * **** ***
90754 ATTACACTCATTTTTATCCTTTTTAAATTTTTATAATATTT
66 ATTACACTCATTTTTATCC-TATCAAAACCATATAATAGGC
90795 AAATAATTTTTAAGCTTAAACATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCA
1 AAATAATTTTTAAGCTTAAACATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCA
*
90860 ATTACACTCATTTTTTTCC-ATCAAACACCATATCAAT-GGC
66 ATTACACTCATTTTTATCCTATCAAA-ACCATAT-AATAGGC
*
90900 AACATCATTTTT
1 AA-ATAATTTTT
90912 CATGTCAATT
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
104 4 0.04
105 5 0.05
106 94 0.91
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (105 bp):
AAATAATTTTTAAGCTTAAACATTTAAAAATCAATTAAGCAACTATAAAATAATTTAAAAAATCA
ATTACACTCATTTTTATCCTATCAAAACCATATAATAGGC
Found at i:93025 original size:13 final size:14
Alignment explanation
Indices: 92999--93027 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
92989 ACAAACAAAG
92999 AATTAAACCATTAT
1 AATTAAACCATTAT
93013 AATTAAA-CATTAT
1 AATTAAACCATTAT
93026 AA
1 AA
93028 ATATCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:98021 original size:9 final size:9
Alignment explanation
Indices: 98007--98121 Score: 137
Period size: 9 Copynumber: 13.0 Consensus size: 9
97997 TAAGTATAAT
98007 TAAGTTATG
1 TAAGTTATG
98016 TAAGTTATG
1 TAAGTTATG
* * *
98025 ATATGATATA
1 -TAAGTTATG
*
98035 T-ATTTATG
1 TAAGTTATG
98043 T-A-TTATG
1 TAAGTTATG
98050 TAAGTTATG
1 TAAGTTATG
*
98059 TAAGTTAAG
1 TAAGTTATG
*
98068 TGAGTTATG
1 TAAGTTATG
98077 TAAGTTATG
1 TAAGTTATG
98086 TAAGTTATG
1 TAAGTTATG
98095 TAAGTTATG
1 TAAGTTATG
*
98104 TGAGTTATG
1 TAAGTTATG
98113 TAAGTTATG
1 TAAGTTATG
98122 ATATGAATGA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
7 6 0.07
8 6 0.07
9 72 0.80
10 6 0.07
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:98435 original size:26 final size:26
Alignment explanation
Indices: 98406--98457 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
98396 ATAAATAATT
98406 ATGTTTAAAATTTAAAAAGTTATTAG
1 ATGTTTAAAATTTAAAAAGTTATTAG
98432 ATGTTTAAAATTTAAAAAGTTATTAG
1 ATGTTTAAAATTTAAAAAGTTATTAG
98458 TAATGAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (26 bp):
ATGTTTAAAATTTAAAAAGTTATTAG
Found at i:98442 original size:147 final size:146
Alignment explanation
Indices: 98285--98577 Score: 505
Period size: 147 Copynumber: 2.0 Consensus size: 146
98275 ATTTATAATT
* *
98285 ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTAATATATTCATACTAATA
1 ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTAACATATCCATACTAATA
*
98350 TAGGTGATATATTAAAAATATAGGTTTTAATATTTAAAATTGTAAAATAAATAATTATGTTTAAA
66 TAGGTGATATATTAAAAATATAGGTTTTAATATTTAAAA-TATAAAATAAATAATTATGTTTAAA
98415 ATTTAAAAAGTTATTAG
130 ATTTAAAAAGTTATTAG
*
98432 ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTTACATATCCATACTAATA
1 ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTAACATATCCATACTAATA
* * **
98497 TAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTTTAAAA
66 TAGGTGATATATTAAAAATATAGGTTTTAATATTTAAAATATAAAATAAATAATTATGTTTAAAA
98562 TTTAAAAAGTTATTAG
131 TTTAAAAAGTTATTAG
98578 TAATGAATTT
Statistics
Matches: 138, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
146 38 0.28
147 100 0.72
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (146 bp):
ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTAACATATCCATACTAATA
TAGGTGATATATTAAAAATATAGGTTTTAATATTTAAAATATAAAATAAATAATTATGTTTAAAA
TTTAAAAAGTTATTAG
Found at i:98518 original size:20 final size:21
Alignment explanation
Indices: 98493--98539 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
98483 TATCCATACT
98493 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
98513 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
98534 AATATA
1 AATATA
98540 ATATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:98563 original size:120 final size:120
Alignment explanation
Indices: 98432--98683 Score: 468
Period size: 120 Copynumber: 2.1 Consensus size: 120
98422 AAGTTATTAG
*
98432 ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTTACATATCCATACTAATA
1 ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTAACATATCCATACTAATA
* *
98497 TAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATTTATAATT
66 TAAGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATATATAATT
98552 ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTAACATATCCATACTAATA
1 ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTAACATATCCATACTAATA
98617 TAAGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATATATAATT
66 TAAGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATATATAATT
*
98672 ATTTTTAAAATT
1 ATGTTTAAAATT
98684 GCATAGGAAT
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 128 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.42
Consensus pattern (120 bp):
ATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTAACATATCCATACTAATA
TAAGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATATATAATT
Found at i:99599 original size:6 final size:6
Alignment explanation
Indices: 99590--99630 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
99580 AAATAAAATT
99590 CTAAAA CTAAAAA CTAAAA CT-AAA CTAAAA CTAAAA CTAAA
1 CTAAAA CT-AAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
99631 GTCTAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.15
6 22 0.67
7 6 0.18
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:99616 original size:11 final size:12
Alignment explanation
Indices: 99590--99630 Score: 66
Period size: 11 Copynumber: 3.4 Consensus size: 12
99580 AAATAAAATT
99590 CTAAAACTAAAAA
1 CTAAAACT-AAAA
99603 CTAAAACT-AAA
1 CTAAAACTAAAA
99614 CTAAAACTAAAA
1 CTAAAACTAAAA
99626 CTAAA
1 CTAAA
99631 GTCTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.41
12 8 0.30
13 8 0.30
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (12 bp):
CTAAAACTAAAA
Found at i:99621 original size:17 final size:18
Alignment explanation
Indices: 99593--99630 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
99583 TAAAATTCTA
99593 AAACTAAAAACTAAAACT
1 AAACTAAAAACTAAAACT
99611 AAACT-AAAACTAAAACT
1 AAACTAAAAACTAAAACT
99628 AAA
1 AAA
99631 GTCTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (18 bp):
AAACTAAAAACTAAAACT
Found at i:101663 original size:7 final size:7
Alignment explanation
Indices: 101644--101869 Score: 96
Period size: 7 Copynumber: 31.7 Consensus size: 7
101634 CAAAAGTAAT
101644 TAAACCC
1 TAAACCC
101651 TAAAACCC
1 T-AAACCC
*
101659 TAAACTC
1 TAAACCC
* *
101666 TAGACCT
1 TAAACCC
101673 TAAACCC
1 TAAACCC
101680 TAAACCC
1 TAAACCC
*
101687 TCAACCC
1 TAAACCC
*
101694 TAAACCA
1 TAAACCC
* *
101701 TAAATCG
1 TAAACCC
*
101708 TAAACCT
1 TAAACCC
** *
101715 TATTCCA
1 TAAACCC
*
101722 TAAACAC
1 TAAACCC
* *
101729 TATACCA
1 TAAACCC
*
101736 TAAACCA
1 TAAACCC
*
101743 TAAATACC
1 TAAA-CCC
101751 -AAACCC
1 TAAACCC
101757 TAAAACCC
1 T-AAACCC
*
101765 TAAACTTC
1 TAAAC-CC
** *
101773 TAAGTCT
1 TAAACCC
*
101780 TATAAGCCA
1 TA-AA-CCC
*
101789 TAAACAC
1 TAAACCC
*
101796 TAAACTC
1 TAAACCC
* *
101803 TTAACAC
1 TAAACCC
101810 TAAACCC
1 TAAACCC
***
101817 TAAATTA
1 TAAACCC
*
101824 TAAACCT
1 TAAACCC
101831 TAAACCC
1 TAAACCC
101838 TAAACCC
1 TAAACCC
101845 TAAA-CC
1 TAAACCC
* *
101851 TACACCA
1 TAAACCC
*
101858 TAAACAC
1 TAAACCC
101865 TAAAC
1 TAAAC
101870 TTAAAACTCT
Statistics
Matches: 157, Mismatches: 54, Indels: 16
0.69 0.24 0.07
Matches are distributed among these distances:
6 7 0.04
7 125 0.80
8 22 0.14
9 3 0.02
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:101867 original size:20 final size:21
Alignment explanation
Indices: 101824--101874 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
101814 CCCTAAATTA
* *
101824 TAAACCTTAAACCCTAAACCC
1 TAAACCTTAAACCATAAACAC
*
101845 TAAACC-TACACCATAAACAC
1 TAAACCTTAAACCATAAACAC
101865 TAAA-CTTAAA
1 TAAACCTTAAA
101875 ACTCTAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 18 0.72
21 6 0.24
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCTTAAACCATAAACAC
Found at i:102921 original size:7 final size:7
Alignment explanation
Indices: 102870--103085 Score: 114
Period size: 7 Copynumber: 30.4 Consensus size: 7
102860 GATCTATTGC
102870 AACCCTA
1 AACCCTA
*
102877 AACCGTA
1 AACCCTA
* *
102884 GACCCTG
1 AACCCTA
102891 AACCCTA
1 AACCCTA
*
102898 CA-CCTA
1 AACCCTA
*
102904 AAACCTAA
1 AACCCT-A
102912 AACCCTA
1 AACCCTA
*
102919 AACCATA
1 AACCCTA
**
102926 AACTGTA
1 AACCCTA
102933 AACCCTA
1 AACCCTA
*
102940 AACCATA
1 AACCCTA
*
102947 AACCTTA
1 AACCCTA
* *
102954 TACCATA
1 AACCCTA
*
102961 AACCATA
1 AACCCTA
102968 AACACC-A
1 AAC-CCTA
*
102975 AACCTTAA
1 AACCCT-A
102983 AACCCTA
1 AACCCTA
*
102990 AACTTCTA
1 AAC-CCTA
*** *
102998 GGTCTTA
1 AACCCTA
*
103005 TAAGCCATA
1 -AA-CCCTA
*
103014 AACACTA
1 AACCCTA
* *
103021 AACTCTT
1 AACCCTA
*
103028 AACACTA
1 AACCCTA
103035 AACCCTA
1 AACCCTA
103042 AACCCTA
1 AACCCTA
*
103049 AACCTTA
1 AACCCTA
*
103056 AACCCCA
1 AACCCTA
103063 AACCCTA
1 AACCCTA
103070 AA-CCTA
1 AACCCTA
*
103076 TACCCTA
1 AACCCTA
103083 AAC
1 AAC
103086 ATTAAACTTA
Statistics
Matches: 155, Mismatches: 45, Indels: 18
0.71 0.21 0.08
Matches are distributed among these distances:
6 11 0.07
7 123 0.79
8 18 0.12
9 3 0.02
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:102928 original size:21 final size:21
Alignment explanation
Indices: 102871--103085 Score: 132
Period size: 21 Copynumber: 10.1 Consensus size: 21
102861 ATCTATTGCA
* * *
102871 ACCCTAAACCGTAGACCCTGA
1 ACCCTAAACCATAAACCCTAA
* *
102892 ACCCTACACC-TAAAACCTAAA
1 ACCCTAAACCATAAACCCT-AA
**
102913 ACCCTAAACCATAAACTGTAA
1 ACCCTAAACCATAAACCCTAA
* *
102934 ACCCTAAACCATAAACCTTAT
1 ACCCTAAACCATAAACCCTAA
*
102955 ACCATAAACCATAAACACC-AA
1 ACCCTAAACCATAAAC-CCTAA
* * * *
102976 ACCTTAAAACCCTAAACTTCTAG
1 ACCCT-AAACCATAAAC-CCTAA
** * *
102999 GTCTTATAAGCCATAAACACTAA
1 ACCCTA-AA-CCATAAACCCTAA
* *
103022 ACTCTTAA-CACTAAACCCTAA
1 ACCCTAAACCA-TAAACCCTAA
* *
103043 ACCCTAAACCTTAAACCCCAA
1 ACCCTAAACCATAAACCCTAA
*
103064 ACCCTAAACC-TATACCCTAA
1 ACCCTAAACCATAAACCCTAA
103084 AC
1 AC
103086 ATTAAACTTA
Statistics
Matches: 149, Mismatches: 36, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
20 18 0.12
21 93 0.62
22 21 0.14
23 10 0.07
24 7 0.05
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (21 bp):
ACCCTAAACCATAAACCCTAA
Found at i:104187 original size:188 final size:192
Alignment explanation
Indices: 103861--104408 Score: 603
Period size: 195 Copynumber: 2.9 Consensus size: 192
103851 TTATTTTTTA
* * * * **
103861 GGCATTTCTCAA-AAACGCCGCTAAT-TATCGATCTATTGTGGCATTTTTTGAAAAAGCACTGCT
1 GGCATTTCTCAACTAGCGCCGCTAATGT-TCGATCTATTGCGGCATTTTTT-AAAAAGCGCCACT
* * * *
103924 AATGCCACTAAAGCTCAATAAAAAACA-AAGTCGTTTTGCTCAACTTTTTTGTGGCGTTTTACAA
64 AAAGCCAATAAAGCTCAACAAAAAA-AGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTACAA
* * *
103988 AAAGTGCCGCTAATTCCTGATCTATAGCGGCGTTTTTTATAAAGCG-C-C-A-C-CGATCTATTG
128 AAAGCGCCGCTAATTCTTGATCTATAGCGGC-TTTTTTATAAAGCGCCACAAGCTCAATCTATTG
*
104048 T
192 C
* * **
104049 GGCATTTCTCAAGTTGCGCCGCTAATGTTCGATCTATTGCAACATTTTTTAAAAAGCGCCACTAA
1 GGCATTTCTCAACTAGCGCCGCTAATGTTCGATCTATTGCGGCATTTTTTAAAAAGCGCCACTAA
* * *
104114 AGCCAATAAAGCTCAACAAAAAAAGAAGTTGTTTTGCTCAACTTTTTTACGGTGTTTTA-AAACA
66 AGCCAATAAAGCTCAACAAAAAAAGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTACAAA-A
* ** *
104178 AGCGCCGCTAATTCTTGATCTTTA-TTGCTATTTCTTATAAAGTGCCACTAAAGCTCAATCTATT
130 AGCGCCGCTAATTCTTGATCTATAGCGGCT-TTT-TTATAAAGCGCCAC--AAGCTCAATCTATT
104242 GC
191 GC
** * *
104244 GGTGTTTCTCAACTAGCGTCGCTAATGTTCGATCTATTGCGGCATTTTTTAGAAAGCGCCACTAA
1 GGCATTTCTCAACTAGCGCCGCTAATGTTCGATCTATTGCGGCATTTTTTAAAAAGCGCCACTAA
* ** * * * *
104309 AGCCAATAAAGCTCAACAAAAAACGAAGTCGTTTTGCTCAAAATTTCTGCGGCGCTTTACAGATA
66 AGCCAATAAAGCTCAACAAAAAAAGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTACAAAAA
*
104374 GCGCCGCTAATTCTTGATCTATTGCGGCATTTTTT
131 GCGCCGCTAATTCTTGATCTATAGCGGC-TTTTTT
104409 GAAAAGTGCC
Statistics
Matches: 298, Mismatches: 46, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
186 1 0.00
187 9 0.03
188 105 0.35
189 30 0.10
190 2 0.01
193 1 0.00
194 1 0.00
195 141 0.47
196 7 0.02
197 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (192 bp):
GGCATTTCTCAACTAGCGCCGCTAATGTTCGATCTATTGCGGCATTTTTTAAAAAGCGCCACTAA
AGCCAATAAAGCTCAACAAAAAAAGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTACAAAAA
GCGCCGCTAATTCTTGATCTATAGCGGCTTTTTTATAAAGCGCCACAAGCTCAATCTATTGC
Found at i:104747 original size:20 final size:21
Alignment explanation
Indices: 104710--104750 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
104700 ACCTAGGGTT
104710 CTTGAAGCTTAGAAAGAGAAA
1 CTTGAAGCTTAGAAAGAGAAA
*
104731 CTTGAAGC-TAGAGAGAGAAA
1 CTTGAAGCTTAGAAAGAGAAA
104751 GCTTCACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.46, C:0.10, G:0.27, T:0.17
Consensus pattern (21 bp):
CTTGAAGCTTAGAAAGAGAAA
Found at i:106207 original size:19 final size:19
Alignment explanation
Indices: 106161--106208 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
106151 GAATATATTT
*
106161 TAAA-TTTATTTAGGTATA
1 TAAATTTTATTTAGGTAGA
*
106179 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
106198 TAAGTTTTATT
1 TAAATTTTATT
106209 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:106266 original size:42 final size:42
Alignment explanation
Indices: 106231--106311 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
106221 TTATTTTATT
* * *
106231 TTATTTTTTAGTAGTTTATTAGAATAATGAAATTATTTTTCC
1 TTATGTTTTAGTAGTGTATTAGAATAAGGAAATTATTTTTCC
*
106273 TTATGTTTTAGTAGTGTATTAGAATAAGGGAATTATTTT
1 TTATGTTTTAGTAGTGTATTAGAATAAGGAAATTATTTT
106312 CCAATTAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (42 bp):
TTATGTTTTAGTAGTGTATTAGAATAAGGAAATTATTTTTCC
Found at i:106835 original size:26 final size:26
Alignment explanation
Indices: 106801--106855 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
106791 CCAACAACTA
106801 TTTTATGTTTAAATTTTGTTTCTAAT
1 TTTTATGTTTAAATTTTGTTTCTAAT
*
106827 TTTTATGTTTAAATTTTGTTTCTGAT
1 TTTTATGTTTAAATTTTGTTTCTAAT
106853 TTT
1 TTT
106856 GATAAGGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (26 bp):
TTTTATGTTTAAATTTTGTTTCTAAT
Found at i:109821 original size:19 final size:19
Alignment explanation
Indices: 109775--109822 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
109765 AAATATATTT
109775 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
109793 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
109812 TAAGTTTTATT
1 TAAATTTTATT
109823 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:109882 original size:42 final size:42
Alignment explanation
Indices: 109845--109927 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
109835 ATATTTTGTT
* *
109845 TTATCTTTTAGTAGTTTCTTAAAAGAATGGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAAAAGAAAGGAATTATTTTCCC
* * *
109887 TTATGTTTTAGTAGTTTATTAGAATAAAGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAAAAGAAAGGAATTATTTTCC
109928 AATTAGGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.48
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAAAAGAAAGGAATTATTTTCCC
Found at i:116831 original size:69 final size:68
Alignment explanation
Indices: 116706--117099 Score: 405
Period size: 69 Copynumber: 5.7 Consensus size: 68
116696 TTCACCTGTG
* * * * * * * *
116706 GGAGTTTTGCTCACGCTAACTGGGTTGAAGGTTGC-AGCTCTTCACCTCCGAACCTTAATAAGAC
1 GGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGA-CTCTTCACCTGCGAGCCTTAATATGAC
116770 AGTT
65 AGTT
* *
116774 GGCAGCTTTGCTCTCGCTAACTGTGCTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATATGAT
1 GG-AGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATATGAC
116839 AGTT
65 AGTT
* * * * * * *
116843 GAGAGCTTTGTTTTCGC-AGCTGTGTTAGAGGATACGACTCTTCACCTACGAGCCTTAATATGAC
1 G-GAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATATGAC
116907 AGTT
65 AGTT
* * * * * *
116911 AGGAGCTTTGCTCTCACTAACTATGTTGGAGGCTGTGGCTTTTCACCTGCCAGCCTTAATATGAC
1 -GGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATATGAC
*
116976 AGCT
65 AGTT
* * * * * * *
116980 GGAAGCTTTGCTCTCGCTAATTGTGGTGGAGGCTGCGACTTTTCACCTACGAACATTACTATGAC
1 GG-AGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATATGAC
*
117045 AGATG
65 AG-TT
* * *
117050 GGAGTTTTGCTCTCGCTAACTGTGTTGGAGGCTGCAATTCTTCACCTGCG
1 GGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCG
117100 GGAGCTTTAC
Statistics
Matches: 266, Mismatches: 53, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
68 60 0.23
69 202 0.76
70 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (68 bp):
GGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCGAGCCTTAATATGACA
GTT
Found at i:116989 original size:137 final size:137
Alignment explanation
Indices: 116743--117098 Score: 419
Period size: 137 Copynumber: 2.6 Consensus size: 137
116733 AAGGTTGCAG
* * *
116743 CTCTTCACCTCCGAACCTTAATAAGACAGTTGGCAGCTTTGCTCTCGCTAACTGTGCTGGAGGCT
1 CTCTTCACCTACGAACCTTAATATGACAGTTGG-AGCTTTGCTCTCGCTAACTGTGTTGGAGGCT
* * * * * * *
116808 GCGACTCTTCACCTGCGAGCCTTAATATGATAGTTGAGAGCTTTGTTTTCGC-AGCTGTGTTAGA
65 GCGACTCTTCACCTGCCAGCCTTAATATGACAGTGGAGAGCTTTGCTCTCGCTAACTGTGGTAGA
116872 GGATACGA
130 GGATACGA
* * *
116880 CTCTTCACCTACGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCACTAACTATGTTGGAGGCT
1 CTCTTCACCTACGAACCTTAATATGACAGTT-GGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCT
* * * * *
116945 GTGGCTTTTCACCTGCCAGCCTTAATATGACAGCTGGA-AGCTTTGCTCTCGCTAATTGTGGTGG
65 GCGACTCTTCACCTGCCAGCCTTAATATGACAG-TGGAGAGCTTTGCTCTCGCTAACTGTGGTAG
* *
117009 AGGCTGCGA
129 AGGATACGA
* * * * *
117018 CTTTTCACCTACGAACATTACTATGACAGATGGGAGTTTTGCTCTCGCTAACTGTGTTGGAGGCT
1 CTCTTCACCTACGAACCTTAATATGACAG-TTGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCT
* *
117083 GCAATTCTTCACCTGC
65 GCGACTCTTCACCTGC
117099 GGGAGCTTTA
Statistics
Matches: 182, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
137 96 0.53
138 85 0.47
139 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (137 bp):
CTCTTCACCTACGAACCTTAATATGACAGTTGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTG
CGACTCTTCACCTGCCAGCCTTAATATGACAGTGGAGAGCTTTGCTCTCGCTAACTGTGGTAGAG
GATACGA
Found at i:117176 original size:50 final size:50
Alignment explanation
Indices: 117049--117196 Score: 181
Period size: 50 Copynumber: 3.0 Consensus size: 50
117039 TATGACAGAT
* * * **
117049 GGGAGTTTTGCTCTCGCTAACTGTGTTGGAGGCTGCAATTCTTCACCTGC
1 GGGAGCTTTGCTCACACTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGC
* * * *
117099 GGGAGCTTTACTCACA-TAAATTCTGTTGAAGGCTGCAGCTCTTCACCTGC
1 GGGAGCTTTGCTCACACT-AACTGTGTTGGAGGCTGCAGCTCTTCACCTGC
* *
117149 GGGAGCTTTGCTCACACTAACTGTGTTGGAGGTTGCGGCTCTTCACCT
1 GGGAGCTTTGCTCACACTAACTGTGTTGGAGGCTGCAGCTCTTCACCT
117197 ACAAGCCTTA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 79 0.98
51 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.32
Consensus pattern (50 bp):
GGGAGCTTTGCTCACACTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGC
Found at i:117350 original size:69 final size:68
Alignment explanation
Indices: 117150--117357 Score: 236
Period size: 69 Copynumber: 3.0 Consensus size: 68
117140 TTCACCTGCG
* * * * *
117150 GGAGCTTTGCTCACACTAACTGTGTTGGAGGTTGCGGCTCTTCACCTACAAGCCTTAATATGACA
1 GGAGTTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATATGATA
**
117215 ATT
66 GCT
* * * * *
117218 GGTAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTGGCTTTTCACCTACAAGTCTTAATATGAT
1 GG-AGTTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATATGAT
117283 AGCT
65 AGCT
* * *** *
117287 GAGAGTTTTGCTCTCGCTAACTGTGTTGGAAGCTACGGCTCTTCACCTGTGAGCCTTACTATGAT
1 G-GAGTTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATATGAT
117352 AGCT
65 AGCT
117356 GG
1 GG
117358 GAGTGTAACA
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
68 3 0.03
69 113 0.97
70 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (68 bp):
GGAGTTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACCTACAAGCCTTAATATGATA
GCT
Found at i:120250 original size:69 final size:69
Alignment explanation
Indices: 120135--120300 Score: 233
Period size: 69 Copynumber: 2.4 Consensus size: 69
120125 TTGTTTCAAT
* *
120135 GAGCTTTGCTCTCGTTAACTGTGTTGGAGGCTACGACTCTTCACCTACGAGCCATAATATGACAG
1 GAGCTTTGCTCTCGCTAACTGTGTTGGAGGCCACGACTCTTCACCTACGAGCCATAATATGACAG
* *
120200 TTGG
66 CTAG
* * * * * *
120204 GAGGTTTGCTCTTGCTAACTGTGTTGGAGGCCGCGGCTCTTCACCTACGAGCCTTAATATGTCAG
1 GAGCTTTGCTCTCGCTAACTGTGTTGGAGGCCACGACTCTTCACCTACGAGCCATAATATGACAG
120269 CTAG
66 CTAG
*
120273 GAGCTTTGCTCTCGCTAATTGTGTTGGA
1 GAGCTTTGCTCTCGCTAACTGTGTTGGA
120301 CATCAAAGGT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 84 1.00
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.32
Consensus pattern (69 bp):
GAGCTTTGCTCTCGCTAACTGTGTTGGAGGCCACGACTCTTCACCTACGAGCCATAATATGACAG
CTAG
Found at i:126465 original size:26 final size:25
Alignment explanation
Indices: 126436--126484 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
126426 TAAAAGAAGT
*
126436 ACAAGAAAATAATAAAAATAAACAAA
1 ACAACAAAA-AATAAAAATAAACAAA
* *
126462 ACAACTAAAAATTAAAATAAACA
1 ACAACAAAAAATAAAAATAAACA
126485 TCAAATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.14
Consensus pattern (25 bp):
ACAACAAAAAATAAAAATAAACAAA
Found at i:128159 original size:10 final size:9
Alignment explanation
Indices: 128143--128202 Score: 63
Period size: 8 Copynumber: 6.9 Consensus size: 9
128133 AAAAAAATAC
128143 TAATAAAAA
1 TAATAAAAA
128152 TGAATAAAAA
1 T-AATAAAAA
128162 TAAT-AAAA
1 TAATAAAAA
*
128170 -ACTAAAAA
1 TAATAAAAA
128178 TAA-AAAAA
1 TAATAAAAA
*
128186 TAATAACAA
1 TAATAAAAA
*
128195 GAATAAAA
1 TAATAAAA
128203 CAAAAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 2 0.05
8 16 0.38
9 15 0.36
10 9 0.21
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (9 bp):
TAATAAAAA
Found at i:128184 original size:33 final size:32
Alignment explanation
Indices: 128147--128212 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
128137 AAATACTAAT
* *
128147 AAAAATGAATAAAAATAATAAAAACTAAAAATAA
1 AAAAAT-AATAAAAAGAAT-AAAACAAAAAATAA
*
128181 AAAAATAATAACAAGAATAAAACAAAAAATAA
1 AAAAATAATAAAAAGAATAAAACAAAAAATAA
128213 CAAGAATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.45
33 10 0.34
34 6 0.21
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (32 bp):
AAAAATAATAAAAAGAATAAAACAAAAAATAA
Found at i:128199 original size:12 final size:12
Alignment explanation
Indices: 128184--128219 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
128174 AAAATAAAAA
128184 AATAATAACAAG
1 AATAATAACAAG
128196 AATAA-AACAA-
1 AATAATAACAAG
128206 AA-AATAACAAG
1 AATAATAACAAG
128217 AAT
1 AAT
128220 CAAAAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 2 0.10
10 7 0.33
11 7 0.33
12 5 0.24
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (12 bp):
AATAATAACAAG
Found at i:128213 original size:21 final size:20
Alignment explanation
Indices: 128153--128224 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 20
128143 TAATAAAAAT
128153 GAATAAAAATAATAAA-AACTAA
1 GAATAAAAA-AA-AAATAAC-AA
* *
128175 AAATAAAAAAATAATAACAA
1 GAATAAAAAAAAAATAACAA
128195 GAATAAAACAAAAAATAACAA
1 GAATAAAA-AAAAAATAACAA
128216 GAATCAAAA
1 GAAT-AAAA
128225 GAAATATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
20 11 0.26
21 20 0.47
22 12 0.28
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.14
Consensus pattern (20 bp):
GAATAAAAAAAAAATAACAA
Found at i:128233 original size:21 final size:19
Alignment explanation
Indices: 128153--128233 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 19
128143 TAATAAAAAT
*
128153 GAATAAAAATAATAAAAACTAA
1 GAATAAAAA-AAT-ATAAC-AA
*
128175 AAATAAAAAAATAATAACAA
1 GAATAAAAAAAT-ATAACAA
*
128195 GAATAAAACAAAAAATAACAA
1 GAAT-AAA-AAAATATAACAA
128216 GAATCAAAAGAAATATAA
1 GAAT-AAAA-AAATATAA
128234 ATTATATAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 6 0.12
21 32 0.64
22 12 0.24
ACGTcount: A:0.74, C:0.06, G:0.05, T:0.15
Consensus pattern (19 bp):
GAATAAAAAAATATAACAA
Found at i:131901 original size:21 final size:21
Alignment explanation
Indices: 131875--131916 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
131865 GCACTAACAC
131875 CAATGGTGAAACCATGGCTTA
1 CAATGGTGAAACCATGGCTTA
131896 CAATGGTGAAACCATGGCTTA
1 CAATGGTGAAACCATGGCTTA
131917 AAATCTTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (21 bp):
CAATGGTGAAACCATGGCTTA
Found at i:135716 original size:36 final size:36
Alignment explanation
Indices: 135675--135797 Score: 88
Period size: 36 Copynumber: 3.2 Consensus size: 36
135665 AAATATTATT
135675 ATAAATAGTAATTTAATCAATTTTAAAATCACTAAA
1 ATAAATAGTAATTTAATCAATTTTAAAATCACTAAA
* * * **
135711 ATAAATTTAGTGCTCAGATAATT-CTACTAAATTTAAAAT-ATTATT
1 ATAAA--TA--G-T-A-AT--TTAAT-C-AATTTTAAAATCACTAAA
135756 ATAAATAGTAATTTAATCAATTTTAAAATCACTAAA
1 ATAAATAGTAATTTAATCAATTTTAAAATCACTAAA
135792 ATAAAT
1 ATAAAT
135798 TTAGTGCTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 26
0.64 0.10 0.26
Matches are distributed among these distances:
35 10 0.16
36 17 0.27
37 1 0.02
38 4 0.06
39 1 0.02
40 2 0.03
41 2 0.03
42 1 0.02
43 4 0.06
44 1 0.02
45 11 0.17
46 10 0.16
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (36 bp):
ATAAATAGTAATTTAATCAATTTTAAAATCACTAAA
Found at i:135758 original size:81 final size:82
Alignment explanation
Indices: 135652--135815 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 82
135642 AAGTTCAAAA
135652 CTACTAAATTATAAAATATTATTATAAATAGTAATTTAATCAATTTTAAAATCACTAAAATAAAT
1 CTACTAAATTATAAAATATTATTATAAATAGTAATTTAATCAATTTTAAAATCACTAAAATAAAT
135717 TTAGTGCTCAGATAATT
66 TTAGTGCTCAGATAATT
135734 CTACTAAATT-TAAAATATTATTATAAATAGTAATTTAATCAATTTTAAAATCACTAAAATAAAT
1 CTACTAAATTATAAAATATTATTATAAATAGTAATTTAATCAATTTTAAAATCACTAAAATAAAT
135798 TTAGTGCTCAGATAATT
66 TTAGTGCTCAGATAATT
135815 C
1 C
135816 ATTGAAGAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 72 0.88
82 10 0.12
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (82 bp):
CTACTAAATTATAAAATATTATTATAAATAGTAATTTAATCAATTTTAAAATCACTAAAATAAAT
TTAGTGCTCAGATAATT
Found at i:142332 original size:24 final size:24
Alignment explanation
Indices: 142280--142334 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
142270 CAATTTATGG
*
142280 ATCACACGGCCTGAGACACGGGTT
1 ATCACACGGCCTGAGACACGGGCT
* *
142304 GTCACACGGCCT-AGGACATGGGCT
1 ATCACACGGCCTGA-GACACGGGCT
142328 ATCACAC
1 ATCACAC
142335 AGCTGTGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.16
Consensus pattern (24 bp):
ATCACACGGCCTGAGACACGGGCT
Found at i:143818 original size:19 final size:19
Alignment explanation
Indices: 143782--143826 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
143772 TTCCACTTAT
143782 ATTAATTAAAGATGGATTAA
1 ATTAA-TAAAGATGGATTAA
*
143802 GTTAATAAAGTAT-GATTAA
1 ATTAATAAAG-ATGGATTAA
143821 ATTAAT
1 ATTAAT
143827 TTAATTAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (19 bp):
ATTAATAAAGATGGATTAA
Found at i:144592 original size:287 final size:288
Alignment explanation
Indices: 144055--144636 Score: 880
Period size: 287 Copynumber: 2.0 Consensus size: 288
144045 TACCAATTTG
* * * *
144055 TAAAATTGTTAAAGTTTTAAAAAGTTTCCATTGTTGATTTCTTGAAGAATTTGGTGTGAAATTGA
1 TAAAACTGATAAAGATTTAAAAAGTTTCCATTGTTGATTTCTTAAAGAATTTGGTGTGAAATTGA
* ** * *
144120 TATATTTTAAGTTTAAATTATAAAAAAGACTAGATTGTGGCATTTAATTGTTAGTTTTGTACATA
66 TATATTTTAAGCTTAAATTATAAAAAAGACTAGATTGTAACAGTTAATTGTTAGTTTTGCACATA
* * * *
144185 TGGACTAAAGTGAATAAAATGTGAAATTGTTGTGAAATTTCGGTATAAATAGAAAGTAGAGGGTC
131 TAGACTAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGGGTC
* * * *
144250 CCTAATGAATGTATTTTAAATCAGATTTTAAATCGAGGTTAGGAATTTGAAGTTATTGCTATTTT
196 CCTAATGAATGTATTTGAAATCAAATTTTAAATCGAGGTTAGGAATTGGAAGTTATTGCTATTTC
*
144315 GAATTTAGGGACTAAATTGAATAAAATA
261 GAATTCAGGGACTAAATTGAATAAAATA
* * *
144343 TAAAACTGATAAAGATTTAGAAAGTTTCCTTTGTTGATTTCTTAAATAATTTGGTGT-AAACTTG
1 TAAAACTGATAAAGATTTAAAAAGTTTCCATTGTTGATTTCTTAAAGAATTTGGTGTGAAA-TTG
* * *
144407 ATATA-TTTAAGCTTAGATTATGAAAAAGGCTAGATTGTAACAGTTAATTGTTAGTTTTGCACAT
65 ATATATTTTAAGCTTAAATTATAAAAAAGACTAGATTGTAACAGTTAATTGTTAGTTTTGCACAT
*
144471 ATAGACTAAAGTGAATAAAATGTGAAACTGTTATGAAATTTTAGTATAAATAGAAAGTAGAGGGT
130 ATAGACTAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGGGT
* *
144536 CCCTAATGAATGTATTTGAAGTCAAATTTTAAATTGAGGTTAGGAATTGGAAGTTATTGCTATTT
195 CCCTAATGAATGTATTTGAAATCAAATTTTAAATCGAGGTTAGGAATTGGAAGTTATTGCTATTT
* *
144601 CGAATTCAGGGACTAAATTGAATCAAATG
260 CGAATTCAGGGACTAAATTGAATAAAATA
144630 TAAAACT
1 TAAAACT
144637 TTAGGAGTAC
Statistics
Matches: 264, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
287 206 0.78
288 58 0.22
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (288 bp):
TAAAACTGATAAAGATTTAAAAAGTTTCCATTGTTGATTTCTTAAAGAATTTGGTGTGAAATTGA
TATATTTTAAGCTTAAATTATAAAAAAGACTAGATTGTAACAGTTAATTGTTAGTTTTGCACATA
TAGACTAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGGGTC
CCTAATGAATGTATTTGAAATCAAATTTTAAATCGAGGTTAGGAATTGGAAGTTATTGCTATTTC
GAATTCAGGGACTAAATTGAATAAAATA
Found at i:146358 original size:27 final size:27
Alignment explanation
Indices: 146328--146380 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
146318 TTTTGAAATG
146328 GTATATAATAAAGAGAGCTCAATCATA
1 GTATATAATAAAGAGAGCTCAATCATA
146355 GTATATAATAAAGAGAGCTCAATCAT
1 GTATATAATAAAGAGAGCTCAATCAT
146381 GGTACTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.26
Consensus pattern (27 bp):
GTATATAATAAAGAGAGCTCAATCATA
Found at i:149242 original size:16 final size:17
Alignment explanation
Indices: 149211--149243 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
149201 TTTTTATTTC
*
149211 TATTTTTTATTTAAATT
1 TATTTTTTATTAAAATT
149228 TATTTTTTA-TAAAATT
1 TATTTTTTATTAAAATT
149244 CCTAAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTTTATTAAAATT
Found at i:149597 original size:17 final size:18
Alignment explanation
Indices: 149567--149602 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
149557 TTATTATATC
*
149567 ATAAGATAATATTTTATA
1 ATAAGATAAAATTTTATA
149585 ATAA-ATAAAATTTTATA
1 ATAAGATAAAATTTTATA
149602 A
1 A
149603 ACAGTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAAGATAAAATTTTATA
Found at i:155446 original size:20 final size:19
Alignment explanation
Indices: 155406--155443 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
155396 TTAAATATGT
*
155406 TTTAATTATCATTACATAA
1 TTTAATTATAATTACATAA
155425 TTTAAGTTATAATTA-ATAA
1 TTTAA-TTATAATTACATAA
155444 ATTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTAATTATAATTACATAA
Found at i:156085 original size:135 final size:135
Alignment explanation
Indices: 155827--156096 Score: 506
Period size: 135 Copynumber: 2.0 Consensus size: 135
155817 GATCCCTTCT
155827 CTTATATTCCCAATTCATTTCCTCAAACCTAATTTCGTATTTTCACAATCTACACCATAATTTAC
1 CTTATATTCCCAATTCATTTCCTCAAACCTAATTTCGTATTTTCACAATCTACACCATAATTTAC
*
155892 GTAAATTCGTTTTCGAAAAAGGGTAAATTTGATTCGCAAGGGGATATTTGTTACAAATTCAAAAA
66 GTAAATTCGTTTTCGAAAAAGGGTAAATTTGATTCGCAAGGGGATATTTGTTAAAAATTCAAAAA
155957 AAAAA
131 AAAAA
155962 CTTATATTCCCAATTCATTTCCTCAAACCTAATTTCGTATTTTCACAATCTACACCATAATTTAC
1 CTTATATTCCCAATTCATTTCCTCAAACCTAATTTCGTATTTTCACAATCTACACCATAATTTAC
*
156027 GTAAATTCGTTTTCGAAAAAGGGTAAATTTGATTCGCCAAGGGGAT-TTTTTTAAAAATTCAAAA
66 GTAAATTCGTTTTCGAAAAAGGGTAAATTTGATTCG-CAAGGGGATATTTGTTAAAAATTCAAAA
156091 AAAAAA
130 AAAAAA
156097 AAAAAAAAAA
Statistics
Matches: 132, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 123 0.93
136 9 0.07
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (135 bp):
CTTATATTCCCAATTCATTTCCTCAAACCTAATTTCGTATTTTCACAATCTACACCATAATTTAC
GTAAATTCGTTTTCGAAAAAGGGTAAATTTGATTCGCAAGGGGATATTTGTTAAAAATTCAAAAA
AAAAA
Found at i:157204 original size:20 final size:20
Alignment explanation
Indices: 157179--157220 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
157169 TATTAACTAT
*
157179 AAAAAAATTGA-AACAAAGAA
1 AAAAAAATGGAGAA-AAAGAA
157199 AAAAAAATGGAGAAAAAGAA
1 AAAAAAATGGAGAAAAAGAA
157219 AA
1 AA
157221 TCAAAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (20 bp):
AAAAAAATGGAGAAAAAGAA
Found at i:157895 original size:126 final size:127
Alignment explanation
Indices: 157659--157920 Score: 499
Period size: 126 Copynumber: 2.1 Consensus size: 127
157649 TCATAAAACT
*
157659 TAAAATAAAATAAATCTAACTCAAAATAATAAAGTTTAATGATATTTTTAGTTACTAATGTTCAT
1 TAAAATAATATAAATCTAACTCAAAATAATAAAGTTTAATGATATTTTTAGTTACTAATGTTCAT
*
157724 ATATTTTGTCATTTTTATTCTTTTAACATATTTGATAAAAGTATCTTAAAAAGTTAATGTAA
66 ATATTTTGTCATTTTTATTCTTTTAAAATATTTGATAAAAGTATCTTAAAAAGTTAATGTAA
157786 TAAAATAATA-AAATCTAACTCAAAATAATAAAGTTTAATGATATTTTTAGTTACTAATGTTCAT
1 TAAAATAATATAAATCTAACTCAAAATAATAAAGTTTAATGATATTTTTAGTTACTAATGTTCAT
157850 ATATTTTGTCATTTTTATTCTTTTAAAATATTTGATAAAAGTATCTTAAAAAGTTAATGTAA
66 ATATTTTGTCATTTTTATTCTTTTAAAATATTTGATAAAAGTATCTTAAAAAGTTAATGTAA
157912 TAAAATAAT
1 TAAAATAAT
157921 TATATATGAA
Statistics
Matches: 133, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
126 124 0.93
127 9 0.07
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (127 bp):
TAAAATAATATAAATCTAACTCAAAATAATAAAGTTTAATGATATTTTTAGTTACTAATGTTCAT
ATATTTTGTCATTTTTATTCTTTTAAAATATTTGATAAAAGTATCTTAAAAAGTTAATGTAA
Found at i:157940 original size:26 final size:25
Alignment explanation
Indices: 157909--157957 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
157899 AAAGTTAATG
*
157909 TAATAAA-ATAATTATATATGAAAAAA
1 TAATAAATA-AATCATATAT-AAAAAA
157935 TAATAAATAAATCATATATAAAA
1 TAATAAATAAATCATATATAAAA
157958 GTAAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 16 0.76
27 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
TAATAAATAAATCATATATAAAAAA
Found at i:158041 original size:19 final size:18
Alignment explanation
Indices: 157999--158042 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
157989 ATACTGAATG
*
157999 TTTATATTTATTTTAATT
1 TTTATAATTATTTTAATT
*
158017 TTTATAATTATTTTTATT
1 TTTATAATTATTTTAATT
158035 TTCTATAA
1 TT-TATAA
158043 ATTAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATAATTATTTTAATT
Found at i:158852 original size:18 final size:18
Alignment explanation
Indices: 158830--158892 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
158820 TAGAATTTTT
158830 TTATAAAAATCGTAAAAA
1 TTATAAAAATCGTAAAAA
* * *
158848 ATATAAAAAATTGTAAAAT
1 TTAT-AAAAATCGTAAAAA
158867 TTATAAAAATCGTAAAAA
1 TTATAAAAATCGTAAAAA
158885 TTATAAAA
1 TTATAAAA
158893 TATATAGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
TTATAAAAATCGTAAAAA
Found at i:158874 original size:27 final size:27
Alignment explanation
Indices: 158844--158929 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
158834 AAAAATCGTA
*
158844 AAAAATATAAAAAATTGTAAAATTTAT
1 AAAAATATAAAAAATTATAAAATTTAT
* *
158871 AAAAATCGT-AAAAATTATAAAATATAT
1 AAAAAT-ATAAAAAATTATAAAATTTAT
* *
158898 AGAAATATAAAAAAGTTATAAAGTTTTAT
1 AAAAATATAAAAAA-TTATAAA-ATTTAT
158927 AAA
1 AAA
158930 GTTGTAAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.02
27 32 0.68
28 8 0.17
29 6 0.13
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAAATATAAAAAATTATAAAATTTAT
Found at i:158891 original size:9 final size:9
Alignment explanation
Indices: 158830--158910 Score: 58
Period size: 9 Copynumber: 9.0 Consensus size: 9
158820 TAGAATTTTT
158830 TTATAAAAA
1 TTATAAAAA
**
158839 TCGTAAAAA
1 TTATAAAAA
*
158848 ATATAAAAAA
1 TTAT-AAAAA
* *
158858 TTGTAAAAT
1 TTATAAAAA
158867 TTATAAAAA
1 TTATAAAAA
**
158876 TCGTAAAAA
1 TTATAAAAA
158885 TTAT-AAAA
1 TTATAAAAA
*
158893 TATATAGAAA
1 T-TATAAAAA
158903 -TATAAAAA
1 TTATAAAAA
158911 AGTTATAAAG
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
8 12 0.23
9 31 0.58
10 10 0.19
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (9 bp):
TTATAAAAA
Found at i:158987 original size:20 final size:19
Alignment explanation
Indices: 158923--158988 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
158913 TTATAAAGTT
* *
158923 TTATAAAGTTGTAAGAAAA
1 TTATAAAATTGTAAAAAAA
* *
158942 TTATACAAAATGTAAAGAAA
1 TTATA-AAATTGTAAAAAAA
*
158962 -TATAAATTTCGTAAAAAAA
1 TTATAAAATT-GTAAAAAAA
158981 TTATAAAA
1 TTATAAAA
158989 ATTATCGTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
18 3 0.08
19 17 0.47
20 16 0.44
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (19 bp):
TTATAAAATTGTAAAAAAA
Found at i:159315 original size:88 final size:87
Alignment explanation
Indices: 159163--159365 Score: 241
Period size: 88 Copynumber: 2.3 Consensus size: 87
159153 AAAAAGGAAT
* * * ** *
159163 AAAAGCAGGGGCTTAATTG--TTTTTTTGAAAAATTTTGAGGGTTTTTTTGATGCATTTTGAAAG
1 AAAAACAGGGGCTTAATTGCTTTTTTTTGAAAAAGTCTGAGGGCCTGTTTGATGCATTTTGAAAG
*
159226 TTCAAGTACCT-AATTGAGTGAA
66 TTCAAGT-CCTCAATTGAATGAA
* *
159248 AAAAATCAGGGGCTTAATTGCTTTTTTTTGGAGAAGTCTGAGGGCCTGTTTGATGCATTTTGAAA
1 AAAAA-CAGGGGCTTAATTGCTTTTTTTTGAAAAAGTCTGAGGGCCTGTTTGATGCATTTTGAAA
*
159313 GTTCAAGTGCTCAATTGAATGAA
65 GTTCAAGTCCTCAATTGAATGAA
* *
159336 AAAAAAAGAAGAGCTTAATTGCTTTTTTTT
1 AAAAACAG--GGGCTTAATTGCTTTTTTTT
159366 TTTTTTAAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
85 4 0.04
86 14 0.14
87 4 0.04
88 59 0.59
89 19 0.19
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (87 bp):
AAAAACAGGGGCTTAATTGCTTTTTTTTGAAAAAGTCTGAGGGCCTGTTTGATGCATTTTGAAAG
TTCAAGTCCTCAATTGAATGAA
Found at i:159591 original size:14 final size:15
Alignment explanation
Indices: 159561--159598 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
159551 TGAGTGAATG
*
159561 AAAATATTTTTATTA
1 AAAATATATTTATTA
159576 AAAATATATTTA-TA
1 AAAATATATTTATTA
159590 AAAATATAT
1 AAAATATAT
159599 CAATAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATATATTTATTA
Found at i:162027 original size:19 final size:19
Alignment explanation
Indices: 162003--162056 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
161993 AATCTTCAAG
162003 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
162022 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
162041 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
162057 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:162032 original size:36 final size:36
Alignment explanation
Indices: 161992--162063 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
161982 TATGGAAACA
161992 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
162028 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
162064 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:162047 original size:38 final size:40
Alignment explanation
Indices: 162003--162079 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
161993 AATCTTCAAG
162003 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
162041 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
162080 GATTTAATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:166578 original size:33 final size:33
Alignment explanation
Indices: 166532--166692 Score: 118
Period size: 33 Copynumber: 4.7 Consensus size: 33
166522 TCAACCGTTA
* *
166532 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
166566 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
*
166608 ATCGTGGAATCAGCACTTAGCAACCACCAATGAT
1 -TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* *
166642 TCGAGGAATCAACACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
*
166669 TGGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
166693 CCCTTCACAT
Statistics
Matches: 107, Mismatches: 10, Indels: 27
0.74 0.07 0.19
Matches are distributed among these distances:
27 22 0.21
32 2 0.02
33 39 0.36
34 10 0.09
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
42 5 0.05
43 21 0.20
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:167921 original size:11 final size:12
Alignment explanation
Indices: 167893--167926 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
167883 GCCCAAACGT
167893 CGAAATTTTTGAA
1 CGAAATTTTT-AA
167906 CGAAATTTTT-A
1 CGAAATTTTTAA
167917 CGAAATTTTT
1 CGAAATTTTT
167927 CCGCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:170087 original size:14 final size:15
Alignment explanation
Indices: 170061--170093 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
170051 TCCCAAGCTG
170061 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
170076 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
170090 GGAA
1 GGAA
170094 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:171882 original size:44 final size:45
Alignment explanation
Indices: 171771--171902 Score: 115
Period size: 44 Copynumber: 3.0 Consensus size: 45
171761 TGTAGCAGAG
* *
171771 CAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAA
1 CAGGTTAAAAATAGCAGATCTTGCCTCCCTGCACCGACAGCGAAA
* * * * * * ****
171816 CAGATCAAAGACACCAG-CCTTGCCTCCCTG-GGTTACAGCGAAA
1 CAGGTTAAAAATAGCAGATCTTGCCTCCCTGCACCGACAGCGAAA
* * *
171859 CAGGTTAAAAATAGCAGATCTTGCTTTCCTGCACCGACAACGAA
1 CAGGTTAAAAATAGCAGATCTTGCCTCCCTGCACCGACAGCGAA
171903 GTAGATCGAT
Statistics
Matches: 60, Mismatches: 25, Indels: 4
0.67 0.28 0.04
Matches are distributed among these distances:
43 20 0.33
44 21 0.35
45 19 0.32
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (45 bp):
CAGGTTAAAAATAGCAGATCTTGCCTCCCTGCACCGACAGCGAAA
Found at i:171934 original size:88 final size:88
Alignment explanation
Indices: 171424--171911 Score: 791
Period size: 88 Copynumber: 5.5 Consensus size: 88
171414 AGCAGACCAG
* * *
171424 TAAAGATAACAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
1 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
171489 TCCTGGGTTGTAGCAGAGCAGGT
66 TCCTGGGTTGTAGCAGAGCAGGT
171512 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
1 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
171577 TCCTGGGTTGTAGCAGAGCAGGT
66 TCCTGGGTTGTAGCAGAGCAGGT
171600 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
1 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
171665 TCCTGGGTTGTAGCAGAGCAGGT
66 TCCTGGGTTGTAGCAGAGCAGGT
171688 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
1 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
171753 TCCTGGGTTGTAGCAGAGCAGGT
66 TCCTGGGTTGTAGCAGAGCAGGT
* * * * *
171776 TAAAAATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAA-CAGATCAAAGACACCAGCCTTGCC
1 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGC-AAAGCAGATCGAAGACACTAGCATTGCC
* ** *
171840 TCCCTGGGTTACAGC-GAAACAGGT
65 TTCCTGGGTTGTAGCAG-AGCAGGT
* * * * *
171864 TAAAAATAGCAGATCTTGCTTTCCTGCACCGACAACGAAGTAGATCGA
1 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGA
171912 TGACCCCAGC
Statistics
Matches: 379, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
87 3 0.01
88 373 0.98
89 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCAAAGCAGATCGAAGACACTAGCATTGCCT
TCCTGGGTTGTAGCAGAGCAGGT
Found at i:171987 original size:44 final size:44
Alignment explanation
Indices: 171924--172021 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
171914 ACCCCAGCCC
* *
171924 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG-TAAGTCT
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGCGAA-TCT
* * *
171968 TATCTCCCTGGTCAGCAGTGGAATATGTTGAATATGGCGAATCT
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGCGAATCT
172012 TATCTCCCTG
1 TATCTCCCTG
172022 AAGTTACAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 46 0.96
45 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGCGAATCT
Found at i:172104 original size:44 final size:44
Alignment explanation
Indices: 172008--172434 Score: 213
Period size: 44 Copynumber: 9.8 Consensus size: 44
171998 AATATGGCGA
* ** *
172008 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCA-ATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-G
* **
172052 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * * *** *
172096 ATCTTATCTCTCTGAAGTTGTAG-AGAACAGA-TCGCATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * * * *
172137 -TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACT-AAGTAAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCA-CAG
** * * * **
172180 GCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGC-G
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCACAG
* ** *
172224 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCA-ATA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACA-G
* * **
172269 ATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * *** *
172313 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCAT--CGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
* * **
172353 GTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACCCAAGAA--AGC-G
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCA-CAG
* *
172397 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
172435 GAAATCAAGT
Statistics
Matches: 287, Mismatches: 73, Indels: 47
0.71 0.18 0.12
Matches are distributed among these distances:
40 44 0.15
41 16 0.06
42 8 0.03
43 15 0.05
44 142 0.49
45 57 0.20
46 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAG
Found at i:172430 original size:45 final size:45
Alignment explanation
Indices: 172135--172514 Score: 178
Period size: 45 Copynumber: 8.6 Consensus size: 45
172125 GATCGCATCT
* * *
172135 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGA-CTAAGTAAGCA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAAGAAAGCA
* * * * ** **
172179 GGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCGA
1 AGTCTTATCTC-CCTAAAGTTGCAGTGGA-GCAGACCAAAGAAAGC-A
* * ** * *
172225 A-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAAG-AAAGCA
* ** ** *
172269 A-TCCTATCTCCCTAAAGTTGCAGTGGAGTGGA--TTA-AAATCA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAAGAAAGCA
* * * * * * *
172310 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATC---G-CATCG
1 -AG-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAAGAAAGCA
* * * * *
172352 GGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAAGAAAGCA
* *
172397 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGAAATCA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAAGAAAGCA
* * * * * *
172442 AGTTTTATCCCCCTAAAATTGCAGTGGGGCAGACTAAATAAA-CA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAAGAAAGCA
* ** *
172486 AATCCCATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAG
172515 TGGATTAGAA
Statistics
Matches: 258, Mismatches: 59, Indels: 38
0.73 0.17 0.11
Matches are distributed among these distances:
40 24 0.09
41 10 0.04
42 5 0.02
43 8 0.03
44 96 0.37
45 111 0.43
46 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCAAAGAAAGCA
Found at i:173259 original size:23 final size:23
Alignment explanation
Indices: 173215--173259 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
173205 TCTTATTTTG
* *
173215 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
173238 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
173260 CAAATCTCTT
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:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:180328 original size:32 final size:32
Alignment explanation
Indices: 180287--180360 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
180277 CAGTTGCTTT
*
180287 TGTTCACACCCAATGGACCGTCCAACTCC-TGA
1 TGTTCACACCCAAGGGACCGTCCAACTCCAT-A
*
180319 TGTTCACACCCAAGGGACCGTCCAAGTCCATA
1 TGTTCACACCCAAGGGACCGTCCAACTCCATA
180351 TGTTCACACC
1 TGTTCACACC
180361 AATTACTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 38 0.97
33 1 0.03
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (32 bp):
TGTTCACACCCAAGGGACCGTCCAACTCCATA
Found at i:180791 original size:29 final size:29
Alignment explanation
Indices: 180758--180815 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
180748 TTCAACCTAT
* *
180758 ACCGACTAGTTCTTATCTCTAATAGATAG
1 ACCGACTAGTTCCTATCTCCAATAGATAG
*
180787 ACCGACTGGTTCCTATCTCCAATAGATAG
1 ACCGACTAGTTCCTATCTCCAATAGATAG
180816 TGGGTCACGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (29 bp):
ACCGACTAGTTCCTATCTCCAATAGATAG
Found at i:185541 original size:16 final size:16
Alignment explanation
Indices: 185520--185552 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
185510 AATATATATA
185520 TATATATTGGTTTACG
1 TATATATTGGTTTACG
185536 TATATATTGGTTTACG
1 TATATATTGGTTTACG
185552 T
1 T
185553 TATTTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (16 bp):
TATATATTGGTTTACG
Found at i:187980 original size:14 final size:15
Alignment explanation
Indices: 187961--187990 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
187951 AATTTTATAC
187961 TTAAAAAAA-TTAAA
1 TTAAAAAAATTTAAA
187975 TTAAAAAAATTTAAA
1 TTAAAAAAATTTAAA
187990 T
1 T
187991 GATAACGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAAAAATTTAAA
Found at i:190481 original size:16 final size:16
Alignment explanation
Indices: 190434--190486 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
190424 GAAACATTTA
*
190434 TTTTAATATTTTTAGTGT
1 TTTTAAT-TTTTTA-TAT
* * *
190452 TTTTGATATATTATAT
1 TTTTAATTTTTTATAT
190468 TTTTAATTTTTTATAT
1 TTTTAATTTTTTATAT
190484 TTT
1 TTT
190487 CTTTTAGAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 18 0.64
17 4 0.14
18 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.70
Consensus pattern (16 bp):
TTTTAATTTTTTATAT
Found at i:190901 original size:478 final size:478
Alignment explanation
Indices: 190005--190961 Score: 1898
Period size: 478 Copynumber: 2.0 Consensus size: 478
189995 TTTCATTGAC
190005 TTTTCTTTTAGAGGTGGAAGTCTTAAATTCAATCATAATTTGATTGGTTGTTTAAATACAATGGA
1 TTTTCTTTTAGAGGTGGAAGTCTTAAATTCAATCATAATTTGATTGGTTGTTTAAATACAATGGA
190070 AAAATATCTTAGATTTTTGTTTTCTTGCAATAAATTAATGTAATCAAAATTTTATTAAAGTCGGA
66 AAAATATCTTAGATTTTTGTTTTCTTGCAATAAATTAATGTAATCAAAATTTTATTAAAGTCGGA
190135 TATGAATAAAATTGACTACACAAAATAAAAATATCTAATTGATTAATAGAGTTGTTCATTGCGGG
131 TATGAATAAAATTGACTACACAAAATAAAAATATCTAATTGATTAATAGAGTTGTTCATTGCGGG
190200 TCATCCAATTAGGTCTAAATGTTTGTCTAAAAAATGAGTATTTGGACAAAAAGTCAAATTCGTTT
196 TCATCCAATTAGGTCTAAATGTTTGTCTAAAAAATGAGTATTTGGACAAAAAGTCAAATTCGTTT
190265 TCTAAACATGTTAAGCCTCGGGTGAATTTTTTTTCCTCGGGCCCGACCCAACCCAGATACATGTC
261 TCTAAACATGTTAAGCCTCGGGTGAATTTTTTTTCCTCGGGCCCGACCCAACCCAGATACATGTC
190330 TAGAACCTTTGTTTTATTGTTAATTTTGCCTGCTATATATTTTAGTTGCAGCTATCTTAGTATAA
326 TAGAACCTTTGTTTTATTGTTAATTTTGCCTGCTATATATTTTAGTTGCAGCTATCTTAGTATAA
190395 AAACTTTTTAAGTATTTTTAATTTCTTGAGAAACATTTATTTTAATATTTTTA-GTGTTTTTGAT
391 AAACTTTTTAAGTATTTTTAATTTCTTGAGAAACATTTATTTTAATATTTTTAGGTGTTTTTGA-
190459 ATATTATATTTTTAATTTTTTATA
455 ATATTATATTTTTAATTTTTTATA
190483 TTTTCTTTTAGAGGTGGAAGTCTTAAATTCAATCATAATTTGATTGGTTGTTTAAATACAATGGA
1 TTTTCTTTTAGAGGTGGAAGTCTTAAATTCAATCATAATTTGATTGGTTGTTTAAATACAATGGA
190548 AAAATATCTTAGATTTTTGTTTTCTTGCAATAAATTAATGTAATCAAAATTTTATTAAAGTCGGA
66 AAAATATCTTAGATTTTTGTTTTCTTGCAATAAATTAATGTAATCAAAATTTTATTAAAGTCGGA
190613 TATGAATAAAATTGACTACACAAAATAAAAATATCTAATTGATTAATAGAGTTGTTCATTGCGGG
131 TATGAATAAAATTGACTACACAAAATAAAAATATCTAATTGATTAATAGAGTTGTTCATTGCGGG
190678 TCATCCAATTAGGTCTAAATGTTTGTCTAAAAAATGAGTATTTGGACAAAAAGTCAAATTCGTTT
196 TCATCCAATTAGGTCTAAATGTTTGTCTAAAAAATGAGTATTTGGACAAAAAGTCAAATTCGTTT
190743 TCTAAACATGTTAAGCCTCGGGTGAATTTTTTTTCCTCGGGCCCGACCCAACCCAGATACATGTC
261 TCTAAACATGTTAAGCCTCGGGTGAATTTTTTTTCCTCGGGCCCGACCCAACCCAGATACATGTC
190808 TAGAACCTTTGTTTTATTGTTAATTTTGCCTGCTATATATTTTAGTTGCAGCTATCTTAGTATAA
326 TAGAACCTTTGTTTTATTGTTAATTTTGCCTGCTATATATTTTAGTTGCAGCTATCTTAGTATAA
190873 AAACTTTTTAAGTATTTTTAATTTCTTGAGAAACATTTATTTTAATATTTTTAGGTGTTTTTGAA
391 AAACTTTTTAAGTATTTTTAATTTCTTGAGAAACATTTATTTTAATATTTTTAGGTGTTTTTGAA
190938 TATTATATTTTTAATTTTTTATA
456 TATTATATTTTTAATTTTTTATA
190961 T
1 T
190962 GATAAAATAT
Statistics
Matches: 478, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
478 468 0.98
479 10 0.02
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (478 bp):
TTTTCTTTTAGAGGTGGAAGTCTTAAATTCAATCATAATTTGATTGGTTGTTTAAATACAATGGA
AAAATATCTTAGATTTTTGTTTTCTTGCAATAAATTAATGTAATCAAAATTTTATTAAAGTCGGA
TATGAATAAAATTGACTACACAAAATAAAAATATCTAATTGATTAATAGAGTTGTTCATTGCGGG
TCATCCAATTAGGTCTAAATGTTTGTCTAAAAAATGAGTATTTGGACAAAAAGTCAAATTCGTTT
TCTAAACATGTTAAGCCTCGGGTGAATTTTTTTTCCTCGGGCCCGACCCAACCCAGATACATGTC
TAGAACCTTTGTTTTATTGTTAATTTTGCCTGCTATATATTTTAGTTGCAGCTATCTTAGTATAA
AAACTTTTTAAGTATTTTTAATTTCTTGAGAAACATTTATTTTAATATTTTTAGGTGTTTTTGAA
TATTATATTTTTAATTTTTTATA
Found at i:196482 original size:29 final size:29
Alignment explanation
Indices: 196446--196503 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
196436 AGAAAAGGAA
196446 AACGTGAGGAAAGAGAGGGATTGAAAGGG
1 AACGTGAGGAAAGAGAGGGATTGAAAGGG
196475 AACGTGAGGAAAGAGAGGGATTGAAAGGG
1 AACGTGAGGAAAGAGAGGGATTGAAAGGG
196504 GAATTACCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.45, T:0.10
Consensus pattern (29 bp):
AACGTGAGGAAAGAGAGGGATTGAAAGGG
Found at i:199045 original size:32 final size:34
Alignment explanation
Indices: 199008--199083 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 34
198998 ATTCATCCAA
199008 ATTTTCAATTGAACA-CT-TATATATATGCATTT
1 ATTTTCAATTGAACACCTATATATATATGCATTT
199040 ATTTTCAATTGAACACCTATATATATATGCATTT
1 ATTTTCAATTGAACACCTATATATATATGCATTT
* *
199074 AGTTACAATT
1 ATTTTCAATT
199084 TAATATCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 15 0.38
33 2 0.05
34 23 0.57
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (34 bp):
ATTTTCAATTGAACACCTATATATATATGCATTT
Found at i:200755 original size:31 final size:31
Alignment explanation
Indices: 200720--200782 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
200710 ATCTTCTGTT
200720 TCCCGAATCAGATCAATCCCGAGTATTTTTC
1 TCCCGAATCAGATCAATCCCGAGTATTTTTC
200751 TCCCGAATCAGATCAATCCCGAGTATTTTTC
1 TCCCGAATCAGATCAATCCCGAGTATTTTTC
200782 T
1 T
200783 TTCACTCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (31 bp):
TCCCGAATCAGATCAATCCCGAGTATTTTTC
Found at i:204514 original size:25 final size:24
Alignment explanation
Indices: 204486--204533 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
204476 ATCTAGGCAA
204486 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
*
204511 TATAACGGGTAGCTCCAAAGAGC
1 TATAACGGGAAGCTCCAAAGAGC
204534 AATTAATGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:204544 original size:24 final size:26
Alignment explanation
Indices: 204482--204548 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 26
204472 GCTTATCTAG
*
204482 GCAATATAACGGGAAGCTCACAAAGA
1 GCAATATAACGGGTAGCTCACAAAGA
*
204508 GC-CTATAACGGGTAGCTC-CAAAGA
1 GCAATATAACGGGTAGCTCACAAAGA
*
204532 GCAAT-TAATGGGTAGCT
1 GCAATATAACGGGTAGCT
204549 TTGAAGAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 19 0.53
25 15 0.42
26 2 0.06
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.18
Consensus pattern (26 bp):
GCAATATAACGGGTAGCTCACAAAGA
Found at i:204673 original size:26 final size:25
Alignment explanation
Indices: 204609--204674 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
204599 AAGCGAGCAC
*
204609 TAACGGGAAGCTCACAAAGAACCCT
1 TAACGGGAAGCTCACAAAGAACCAT
* * *
204634 TAATCAGGAAGCTCACGAAGAGCCAT
1 TAA-CGGGAAGCTCACAAAGAACCAT
*
204660 ATAACGGGACGCTCA
1 -TAACGGGAAGCTCA
204675 TAAGAGCTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.09
26 27 0.82
27 3 0.09
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.14
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAACCAT
Found at i:216227 original size:16 final size:17
Alignment explanation
Indices: 216201--216235 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
216191 TTAATTTAAA
*
216201 AGGTAAATTTGGTAATT
1 AGGTAAATTTGGAAATT
216218 AGGT-AATTTGGAAATT
1 AGGTAAATTTGGAAATT
216234 AG
1 AG
216236 AAAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (17 bp):
AGGTAAATTTGGAAATT
Found at i:219240 original size:42 final size:42
Alignment explanation
Indices: 219191--219345 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
219181 CATGTTTTAC
* *
219191 TTTCCGTTTAGCTCTTATGAGATTTTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTATGAGCTTTTGTTTAACTCATATGAG
* * *
219233 TTTCCGTTTAGCTCTT-TCGAGCTTTTGTTGAACTCTTATGAG
1 TTTCCGTTCAGCTCTTAT-GAGCTTTTGTTTAACTCATATGAG
* *
219275 TTTCTGTTCAGCTCTTATGAGCTTTTGTTTAACTTATATGAG
1 TTTCCGTTCAGCTCTTATGAGCTTTTGTTTAACTCATATGAG
* * *
219317 TTTTCGTTCAGCTCTTACGAGCTTCTGTT
1 TTTCCGTTCAGCTCTTATGAGCTTTTGTT
219346 CAACCCTTAT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 97 0.98
43 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTATGAGCTTTTGTTTAACTCATATGAG
Found at i:219346 original size:21 final size:21
Alignment explanation
Indices: 219200--219389 Score: 113
Period size: 21 Copynumber: 9.0 Consensus size: 21
219190 CTTTCCGTTT
* *
219200 AGCTCTTATGAGATTTTGTTT
1 AGCTCTTATGAGCTTTTGTTC
* * * *
219221 AACTCATATGAG-TTTCCGTTT
1 AGCTCTTATGAGCTTT-TGTTC
*
219242 AGCTCTT-TCGAGCTTTTGTTG
1 AGCTCTTAT-GAGCTTTTGTTC
*
219263 AACTCTTATGAG-TTTCTGTTC
1 AGCTCTTATGAGCTTT-TGTTC
*
219284 AGCTCTTATGAGCTTTTGTTT
1 AGCTCTTATGAGCTTTTGTTC
*
219305 AACT-TATATGAG-TTTTCGTTC
1 AGCTCT-TATGAGCTTTT-GTTC
* *
219326 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTATGAGCTTTTGTTC
* * * *
219347 AACCCTTATG-GCTTTCTATTT
1 AGCTCTTATGAGCTTT-TGTTC
* * *
219368 AGCACTCATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTTTGTTC
219389 A
1 A
219390 ACTTTCGATA
Statistics
Matches: 129, Mismatches: 28, Indels: 24
0.71 0.15 0.13
Matches are distributed among these distances:
20 16 0.12
21 98 0.76
22 15 0.12
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.45
Consensus pattern (21 bp):
AGCTCTTATGAGCTTTTGTTC
Found at i:219355 original size:84 final size:84
Alignment explanation
Indices: 219190--219393 Score: 257
Period size: 84 Copynumber: 2.4 Consensus size: 84
219180 TCATGTTTTA
* * * * *
219190 CTTTCCGTTTAGCTCTTATGAGATTTTGTTTAACTCATATGAGTTTCCGTTTAGCTCTTTCGAGC
1 CTTTCTGTTTAGCTCTTATGAGCTTTTGTTTAACTTATATGAGTTTCCGTTCAGCTCTTACGAGC
* * *
219255 TTTTGTTGAACTCTTATGAG
66 TTCTGTTCAACCCTTATG-G
* *
219275 -TTTCTGTTCAGCTCTTATGAGCTTTTGTTTAACTTATATGAGTTTTCGTTCAGCTCTTACGAGC
1 CTTTCTGTTTAGCTCTTATGAGCTTTTGTTTAACTTATATGAGTTTCCGTTCAGCTCTTACGAGC
219339 TTCTGTTCAACCCTTATGG
66 TTCTGTTCAACCCTTATGG
* * * * *
219358 CTTTCTATTTAGCACTCATGAGCTTCTGTTCAACTT
1 CTTTCTGTTTAGCTCTTATGAGCTTTTGTTTAACTT
219394 TCGATATTCT
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
83 1 0.01
84 101 0.99
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (84 bp):
CTTTCTGTTTAGCTCTTATGAGCTTTTGTTTAACTTATATGAGTTTCCGTTCAGCTCTTACGAGC
TTCTGTTCAACCCTTATGG
Found at i:223033 original size:43 final size:43
Alignment explanation
Indices: 222983--223122 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 43
222973 TATCCCGGAT
* *
222983 ATGGTCTTACATGTTAACGCATATCGATGCCAGTGTCCTAGAC
1 ATGGTCTTACATGTTAACTCATATCGATGCCAATGTCCTAGAC
* * * *
223026 AGGGTCTTATATG--AA-TCATATACGATGCCAATGTCCCAGAA
1 ATGGTCTTACATGTTAACTCATAT-CGATGCCAATGTCCTAGAC
** *
223067 ATGGTCTTACATGTTTTCTCACT-TCAATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTTAACTCA-TATCGATGCCAATGTCCTAGAC
223110 ATGGTCTTACATG
1 ATGGTCTTACATG
223123 AAATCACACC
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
40 5 0.06
41 29 0.37
43 40 0.51
44 4 0.05
45 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
ATGGTCTTACATGTTAACTCATATCGATGCCAATGTCCTAGAC
Found at i:226971 original size:14 final size:14
Alignment explanation
Indices: 226954--226987 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
226944 GAACATACAG
226954 AAAAGAAAAGAAACA
1 AAAAGAAAAGAAA-A
226969 AAAA-AAAAGAAAA
1 AAAAGAAAAGAAAA
226982 AAAAGA
1 AAAAGA
226988 TAAAACAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 9 0.50
15 4 0.22
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAA
Found at i:227169 original size:15 final size:15
Alignment explanation
Indices: 227149--227179 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
227139 ACATTTATCG
*
227149 AAATAGATGAATTAC
1 AAATAGACGAATTAC
227164 AAATAGACGAATTAC
1 AAATAGACGAATTAC
227179 A
1 A
227180 TACAACATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:231763 original size:24 final size:23
Alignment explanation
Indices: 231736--231792 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
231726 CGATAACAAT
*
231736 ATGCATAAAATTTTGCTAGTAAAA
1 ATGCATAAAAGTTT-CTAGTAAAA
* *
231760 ATGCAGACAAGTTTCTAGTAAAA
1 ATGCATAAAAGTTTCTAGTAAAA
231783 ATGCGATAAA
1 ATGC-ATAAA
231793 TTGCCATTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (23 bp):
ATGCATAAAAGTTTCTAGTAAAA
Found at i:235340 original size:26 final size:26
Alignment explanation
Indices: 235273--235350 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
235263 TATCTGGACC
* * *
235273 GAAATACCCTCG-ATGGGTAAAATGACC
1 GAAATACCCCCGTA-GGGTAGAAT-ACT
* *
235300 GAAATGCCCCCGTAGTGTAGAATACT
1 GAAATACCCCCGTAGGGTAGAATACT
* *
235326 GAAATACCCCTGTAGGGTATAATAC
1 GAAATACCCCCGTAGGGTAGAATAC
235351 CCTCATAGGT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 23 0.56
27 17 0.41
28 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
GAAATACCCCCGTAGGGTAGAATACT
Done.