Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1812.1
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: 356210
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.32
Warning! 9177 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:967 original size:13 final size:13
Alignment explanation
Indices: 949--976 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
939 AGTTACCCAC
949 TTGTCTATCATTT
1 TTGTCTATCATTT
962 TTGTCTATCATTT
1 TTGTCTATCATTT
975 TT
1 TT
977 ACTAATCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (13 bp):
TTGTCTATCATTT
Found at i:1961 original size:45 final size:45
Alignment explanation
Indices: 1897--1984 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
1887 AAACATGTGC
* *
1897 CACATACATCATGAACTCAAACTACAACTCAATGAGTTCAGATGT
1 CACATACATCATGAACTCAAACCACAACTCAATGAATTCAGATGT
*
1942 CACATATATCATGAACTCAAACCACAACTCAATGAATTCAGAT
1 CACATACATCATGAACTCAAACCACAACTCAATGAATTCAGAT
1985 CACATAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (45 bp):
CACATACATCATGAACTCAAACCACAACTCAATGAATTCAGATGT
Found at i:1988 original size:21 final size:21
Alignment explanation
Indices: 1920--1988 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
1910 AACTCAAACT
*
1920 ACAACTCAATGAGTTCAGATGTC
1 ACAACTCAATGAATTCAGA--TC
* * * *
1943 ACATATATC-ATGAACTCAAACC
1 ACA-A-CTCAATGAATTCAGATC
1965 ACAACTCAATGAATTCAGATC
1 ACAACTCAATGAATTCAGATC
1986 ACA
1 ACA
1989 TAGTTCCTAG
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
20 2 0.06
21 14 0.41
22 4 0.12
23 3 0.09
24 9 0.26
25 2 0.06
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (21 bp):
ACAACTCAATGAATTCAGATC
Found at i:4383 original size:85 final size:84
Alignment explanation
Indices: 4231--4386 Score: 199
Period size: 85 Copynumber: 1.8 Consensus size: 84
4221 AGCTCGTACA
* ** ** *
4231 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCTTCTGTCCCAGATAAGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCAAATATCGATGCAACTGTCCCAGACAAGGT
4296 CTTACACAAATTGAATGCG
66 CTTACACAAATTGAATGCG
**
4315 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAA-ATCGATGCCAAC-GTCCCAGACGT
1 ATGCCAATGTCCCAGACATGGTCTTACACAT-AATCA-AATATCGATG-CAACTGTCCCAGACAA
4378 GGTCTTACA
63 GGTCTTACA
4387 TGAAATCACA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
84 28 0.46
85 29 0.48
86 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (84 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAATCAAATATCGATGCAACTGTCCCAGACAAGGT
CTTACACAAATTGAATGCG
Found at i:6335 original size:21 final size:20
Alignment explanation
Indices: 6311--6353 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
6301 TAAGAGAGGG
* *
6311 AGAAGAGAAAAGAAGAAAGAA
1 AGAAAAGAAAAGAA-AAAAAA
*
6332 AGAAAAGAGAAGAAAAAAAA
1 AGAAAAGAAAAGAAAAAAAA
6352 AG
1 AG
6354 GTAATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AGAAAAGAAAAGAAAAAAAA
Found at i:10920 original size:43 final size:43
Alignment explanation
Indices: 10880--10977 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
10870 TAACCCAGCT
* *
10880 ATGGTTTTACATGAAATCAAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
* * * *
10923 ATGGCCTTACACGCAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
10966 ATGGTCTTACAC
1 ATGGTCTTACAC
10978 ATAATCATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
Found at i:12478 original size:48 final size:48
Alignment explanation
Indices: 12404--12496 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
12394 TTTTCTATAG
* **
12404 TAGAGTACCATTGTATGTACTGTAACGATGGTTGCGGATCGGAAGTAC
1 TAGAGTACCATTGTATGTACTCTAACGATGGTTGCAAATCGGAAGTAC
*
12452 TAGAGTATCATTGTATGTACTCTAACGATGGTTGCAAATCGGAAG
1 TAGAGTACCATTGTATGTACTCTAACGATGGTTGCAAATCGGAAG
12497 AAATATCCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
TAGAGTACCATTGTATGTACTCTAACGATGGTTGCAAATCGGAAGTAC
Found at i:14944 original size:21 final size:22
Alignment explanation
Indices: 14918--14976 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
14908 GTTTTAAGAA
*
14918 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
14939 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
14961 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
14977 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:14994 original size:26 final size:24
Alignment explanation
Indices: 14947--14994 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
14937 ATTTGTTTTA
* *
14947 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTGTTAAAT
14971 ATATTTGATTTATTATATTGTTAA
1 ATATTTG-TTT-TTATATTGTTAA
14995 TTTTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 3 0.15
26 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATATTGTTAAAT
Found at i:16818 original size:27 final size:28
Alignment explanation
Indices: 16776--16831 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
16766 TTTTCTTTTC
*
16776 TTTTTCTTTTCATTTTTAGTTTAGATTT
1 TTTTTCTTTTCATTTTTAGGTTAGATTT
16804 TTTTTCTTTTC-TTTTTAGGTTAGATTT
1 TTTTTCTTTTCATTTTTAGGTTAGATTT
16831 T
1 T
16832 AGTTTTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.12, C:0.07, G:0.09, T:0.71
Consensus pattern (28 bp):
TTTTTCTTTTCATTTTTAGGTTAGATTT
Found at i:19552 original size:20 final size:20
Alignment explanation
Indices: 19532--19745 Score: 261
Period size: 20 Copynumber: 10.8 Consensus size: 20
19522 GTGCCGTTAC
* * *
19532 TGATGGCTTTGTGTCGCTAC
1 TGATGGCTTTGTGCCACTAT
19552 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
19572 TGATGGC--TGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
*
19590 TGATGGCTTTGTGCTACTAT
1 TGATGGCTTTGTGCCACTAT
*
19610 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCACTAT
*
19630 TGATGGCTTTATGCCACTAT
1 TGATGGCTTTGTGCCACTAT
* *
19650 TGATGGCTTTGTACCGCTAT
1 TGATGGCTTTGTGCCACTAT
* * *
19670 TGATGGCTTTATGCCGCTAC
1 TGATGGCTTTGTGCCACTAT
* * *
19690 TCATGGTTTTGTACCACTAT
1 TGATGGCTTTGTGCCACTAT
* *
19710 TGATGGCTTCGTGCCACTAC
1 TGATGGCTTTGTGCCACTAT
*
19730 TCATGGCTTTGTGCCA
1 TGATGGCTTTGTGCCA
19746 TATACTGATA
Statistics
Matches: 165, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
18 18 0.11
20 147 0.89
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (20 bp):
TGATGGCTTTGTGCCACTAT
Found at i:25770 original size:39 final size:39
Alignment explanation
Indices: 25725--25845 Score: 215
Period size: 39 Copynumber: 3.1 Consensus size: 39
25715 AAGCAAGACA
*
25725 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
25764 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGTTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
25803 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
25842 CTGG
1 CTGG
25846 TAACATAATT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:44446 original size:51 final size:51
Alignment explanation
Indices: 44383--44480 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
44373 ATTTTCCAAA
*** * *
44383 AACAGCAAAGGATTTTCTTTAACTGAAATTATTCTGAAAAT-ATTTTCTGC
1 AACAGCAAAGGATTTTCCACAACTAAAAATATTCTGAAAATAATTTTCTGC
*
44433 AACAGTCAGAGGATTTTCCACAACTAAAAATATTCTGAAAATAATTTT
1 AACAG-CAAAGGATTTTCCACAACTAAAAATATTCTGAAAATAATTTT
44481 TTTGCATTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 5 0.12
51 30 0.75
52 5 0.12
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (51 bp):
AACAGCAAAGGATTTTCCACAACTAAAAATATTCTGAAAATAATTTTCTGC
Found at i:60547 original size:33 final size:33
Alignment explanation
Indices: 60505--60570 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
60495 TTTCTACTTG
* *
60505 ACATTCCAGCTTCTGTCAAGCAACCAAACACTC
1 ACATTCCAGCTCCTATCAAGCAACCAAACACTC
*
60538 ACATTCCAGCTCCTATCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTATCAAGCAACCAAACACTC
60571 CCACTCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.39, G:0.08, T:0.20
Consensus pattern (33 bp):
ACATTCCAGCTCCTATCAAGCAACCAAACACTC
Found at i:63760 original size:270 final size:270
Alignment explanation
Indices: 63279--63820 Score: 1021
Period size: 270 Copynumber: 2.0 Consensus size: 270
63269 CACGGTTGTG
*
63279 AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCTTAAGATATCTCAATTACAA
1 AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCTTAAGATATCTCAATTAAAA
*
63344 CTTGTATTACATAGATACCACTTGATAGAAAGAACTGAAAACAATCAAGTTAATCAAGACTCATC
66 CTTGTATTACATAGATACCACTTGATAGAAAGAACCGAAAACAATCAAGTTAATCAAGACTCATC
*
63409 TTAAGTAGCTAACTGGTATCTTCCATTTTTATCCATGTACATGTAAAGCCTCAATGCTCTCTTGT
131 TTAAGTAGCTAACTAGTATCTTCCATTTTTATCCATGTACATGTAAAGCCTCAATGCTCTCTTGT
*
63474 TAAACCTCTATTTCTTCGATACTCTGTAATCACACTATCTTATACTGATCATAATCAACATAGCG
196 TAAACCTCTATTTCTTCGATACTCTATAATCACACTATCTTATACTGATCATAATCAACATAGCG
63539 TCATTAGCTA
261 TCATTAGCTA
63549 AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCTTAAGATATCTCAATTAAAA
1 AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCTTAAGATATCTCAATTAAAA
*
63614 CTTGTATTACATAGATACCACTTGATAGAAAGAACCGAAAATAATCAAGTTAATCAAGACTCATC
66 CTTGTATTACATAGATACCACTTGATAGAAAGAACCGAAAACAATCAAGTTAATCAAGACTCATC
63679 TTAAGTAGCTAACTAGTATCTTCCATTTTTATCCATGTACATGTAAAGCCTCAATGCTCTCTTGT
131 TTAAGTAGCTAACTAGTATCTTCCATTTTTATCCATGTACATGTAAAGCCTCAATGCTCTCTTGT
*
63744 TAAACCTCTATTTCTTCGATACTCTATAATCACACTATCTTATACTGATCATAATCAACATAGTG
196 TAAACCTCTATTTCTTCGATACTCTATAATCACACTATCTTATACTGATCATAATCAACATAGCG
*
63809 TCATTGGCTA
261 TCATTAGCTA
63819 AG
1 AG
63821 CTTGCTAATG
Statistics
Matches: 265, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
270 265 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.34
Consensus pattern (270 bp):
AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCTTAAGATATCTCAATTAAAA
CTTGTATTACATAGATACCACTTGATAGAAAGAACCGAAAACAATCAAGTTAATCAAGACTCATC
TTAAGTAGCTAACTAGTATCTTCCATTTTTATCCATGTACATGTAAAGCCTCAATGCTCTCTTGT
TAAACCTCTATTTCTTCGATACTCTATAATCACACTATCTTATACTGATCATAATCAACATAGCG
TCATTAGCTA
Found at i:72231 original size:25 final size:26
Alignment explanation
Indices: 72202--72250 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
72192 CTTATTTCAT
72202 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAATATAA
* *
72227 TAAATCAAATATATTTAAAAATAT
1 TAAATAAAAAATATTTAAAAATAT
72251 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAATATAA
Found at i:72259 original size:24 final size:25
Alignment explanation
Indices: 72214--72262 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
72204 AATAAAAAAT
*
72214 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAATAT-ATAAAACAAATATA
72240 TTTAAAAATAT-TAAAACAAATAT
1 TTTAAAAATATATAAAACAAATAT
72263 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TTTAAAAATATATAAAACAAATATA
Found at i:72260 original size:12 final size:12
Alignment explanation
Indices: 72245--72273 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
72235 ATATATTTAA
72245 AAATATTAAAAC
1 AAATATTAAAAC
72257 AAATATTAAAAC
1 AAATATTAAAAC
72269 AAATA
1 AAATA
72274 AAAATAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:75714 original size:24 final size:24
Alignment explanation
Indices: 75664--75714 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
75654 TTTTGAGCAA
*
75664 TTTAATTATTTTCTTTTATGTTCT
1 TTTAATTATTTTCTTTTATCTTCT
* *
75688 TTTAATTATTTTCTTTTTTCTTTT
1 TTTAATTATTTTCTTTTATCTTCT
75712 TTT
1 TTT
75715 CATTCTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTAATTATTTTCTTTTATCTTCT
Found at i:76002 original size:89 final size:89
Alignment explanation
Indices: 75851--76023 Score: 328
Period size: 89 Copynumber: 1.9 Consensus size: 89
75841 TGTTAAAGCT
*
75851 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTGTTTTCGATCACTGCAAGATGAA
1 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
*
75916 TAAATCAATCTTATTGAATGAGCC
66 TAAATCAATCCTATTGAATGAGCC
75940 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
1 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
76005 TAAATCAATCCTATTGAAT
66 TAAATCAATCCTATTGAAT
76024 TAATCAATAC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (89 bp):
AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
TAAATCAATCCTATTGAATGAGCC
Found at i:78244 original size:36 final size:36
Alignment explanation
Indices: 78197--78269 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
78187 ACACTGGCGA
78197 CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
1 CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
78233 CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
1 CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
78269 C
1 C
78270 TTTCTCGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.16, C:0.21, G:0.27, T:0.36
Consensus pattern (36 bp):
CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
Found at i:88201 original size:20 final size:21
Alignment explanation
Indices: 88167--88206 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
88157 ACATGACTGA
88167 TATTGTGATAAATGATTGATC
1 TATTGTGATAAATGATTGATC
*
88188 TATT-TGATATATGATTGAT
1 TATTGTGATAAATGATTGAT
88207 TGTATGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (21 bp):
TATTGTGATAAATGATTGATC
Found at i:92315 original size:46 final size:46
Alignment explanation
Indices: 92263--92714 Score: 859
Period size: 46 Copynumber: 9.8 Consensus size: 46
92253 AGGATGGTTG
92263 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
92309 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
92355 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
92401 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
92447 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
92493 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
92539 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
92585 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
* *
92631 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCG
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
* * *
92677 AACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
92715 GGGGCGGGTT
Statistics
Matches: 400, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 400 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
AATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA
Found at i:92976 original size:19 final size:20
Alignment explanation
Indices: 92939--92976 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
92929 ATAAGGTGGT
92939 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
92959 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
92977 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:93120 original size:54 final size:54
Alignment explanation
Indices: 93055--93161 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
93045 TTACTAAGCA
93055 TTTATGCTTACTCCTTCCTTTTCATTCACTGTAGTTTTGAACAACCAGGCTCAG
1 TTTATGCTTACTCCTTCCTTTTCATTCACTGTAGTTTTGAACAACCAGGCTCAG
*
93109 TTTATGCTTACTCCTTCCTTTTCATTCACTGTAGTTTTGAACAACCCGGCTCA
1 TTTATGCTTACTCCTTCCTTTTCATTCACTGTAGTTTTGAACAACCAGGCTCA
93162 AGAATCGGGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (54 bp):
TTTATGCTTACTCCTTCCTTTTCATTCACTGTAGTTTTGAACAACCAGGCTCAG
Found at i:100239 original size:46 final size:46
Alignment explanation
Indices: 100189--101097 Score: 1662
Period size: 46 Copynumber: 19.7 Consensus size: 46
100179 TGGTTGAGCA
100189 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100235 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100281 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100327 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100373 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100419 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100465 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100511 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100557 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100603 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100695 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100741 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100787 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100833 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100879 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
100925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
100971 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
101016 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * **
101064 CCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
101098 GGGGCGGGTT
Statistics
Matches: 842, Mismatches: 14, Indels: 14
0.97 0.02 0.02
Matches are distributed among these distances:
43 6 0.01
45 4 0.00
46 794 0.94
47 29 0.03
48 4 0.00
50 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:101359 original size:19 final size:20
Alignment explanation
Indices: 101322--101359 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
101312 ATAAGGTGGT
101322 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
101342 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
101360 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:106249 original size:20 final size:21
Alignment explanation
Indices: 106216--106259 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
106206 GTTCGAATGT
* *
106216 TTTCTGTTTCTTTTGC-TTTG
1 TTTCTGTTTATTTTACTTTTG
*
106236 TTTCTTTTTATTTTACTTTTG
1 TTTCTGTTTATTTTACTTTTG
106257 TTT
1 TTT
106260 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.05, C:0.11, G:0.09, T:0.75
Consensus pattern (21 bp):
TTTCTGTTTATTTTACTTTTG
Found at i:106433 original size:23 final size:22
Alignment explanation
Indices: 106399--106450 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
106389 TAGTTTATTC
106399 ATTAATATAATAATATAATATCA
1 ATTAATATAATAATA-AATATCA
106422 ATTAAT-TAAATAATAAATAT-A
1 ATTAATAT-AATAATAAATATCA
*
106443 ATGAATAT
1 ATTAATAT
106451 CTATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 7 0.27
23 13 0.50
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTAATATAATAATAAATATCA
Found at i:108180 original size:33 final size:33
Alignment explanation
Indices: 108137--108202 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
108127 CTATATGTGA
*
108137 TTACCATGTATCCTTAACGATTCTGAATGGTTC
1 TTACCATGTATCCTTAACGATTCTAAATGGTTC
*
108170 TTACCGTGTATCCTTAACGATTCTAAATGGTTC
1 TTACCATGTATCCTTAACGATTCTAAATGGTTC
108203 AATGGGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (33 bp):
TTACCATGTATCCTTAACGATTCTAAATGGTTC
Found at i:113519 original size:19 final size:19
Alignment explanation
Indices: 113495--113535 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
113485 TTGAAAAGTC
113495 GAGAAATT-TGAGGCTATGT
1 GAGAAATTATGAGGCTA-GT
113514 GAGAAATTGATGAGGCTAGT
1 GAGAAATT-ATGAGGCTAGT
113534 GA
1 GA
113536 AAGCAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.27
Consensus pattern (19 bp):
GAGAAATTATGAGGCTAGT
Found at i:114336 original size:24 final size:24
Alignment explanation
Indices: 114304--114352 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
114294 AATCTAGCTA
114304 GCCCGTACCTCCCATTTCAAAATT
1 GCCCGTACCTCCCATTTCAAAATT
114328 GCCCGTACCTCCCATTTCAAAATT
1 GCCCGTACCTCCCATTTCAAAATT
114352 G
1 G
114353 TTAAAGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (24 bp):
GCCCGTACCTCCCATTTCAAAATT
Found at i:117666 original size:23 final size:24
Alignment explanation
Indices: 117640--117698 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
117630 TTTATTTTCT
117640 TTAATATAATATCT-TAA-TTTTAA
1 TTAATATAATAT-TATAAGTTTTAA
117663 TTAATATAAT-TTATAATGTTTTAA
1 TTAATATAATATTATAA-GTTTTAA
117687 TTAA-ATAATATT
1 TTAATATAATATT
117699 TTTATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 15 0.47
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATAATATTATAAGTTTTAA
Found at i:119551 original size:42 final size:40
Alignment explanation
Indices: 119486--119635 Score: 140
Period size: 42 Copynumber: 3.6 Consensus size: 40
119476 TTTCACGAGT
* * *
119486 TTCTGTTTAACTCATATGAGTTTCTGTTCAGCCCTATTAAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAG-CCT-TTAAGC
* *
119528 TGCTGTTTAACCCTGATGGGTTTCTGTTCAG-CTCTTACGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCT-TTA--AGC
* * * *
119570 TTTTGTTTAGCCCTTATGGGTTTCTGTTAAGCTCTTATGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGC-CTT-TAAGC
*
119612 TTCTGTTCAACCCTTATGGGTTTC
1 TTCTGTTTAACCCTTATGGGTTTC
119636 CGTTTAGCTC
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
40 5 0.06
42 79 0.90
43 1 0.01
44 3 0.03
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.43
Consensus pattern (40 bp):
TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCTTTAAGC
Found at i:119554 original size:21 final size:21
Alignment explanation
Indices: 119530--119641 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 21
119520 TATTAAGCTG
*
119530 CTGTTTAACCCTGATGGGTTT
1 CTGTTTAACCCTTATGGGTTT
* * * * *
119551 CTGTTCAGCTCTTACGAGCTTT
1 CTGTTTAACCCTTATG-GGTTT
*
119573 -TGTTTAGCCCTTATGGGTTT
1 CTGTTTAACCCTTATGGGTTT
* * *
119593 CTG-TTAAGCTCTTATGAGCTT
1 CTGTTTAA-CCCTTATGGGTTT
*
119614 CTGTTCAACCCTTATGGGTTT
1 CTGTTTAACCCTTATGGGTTT
*
119635 CCGTTTA
1 CTGTTTA
119642 GCTCTCATGA
Statistics
Matches: 67, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
20 7 0.10
21 53 0.79
22 7 0.10
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (21 bp):
CTGTTTAACCCTTATGGGTTT
Found at i:119645 original size:42 final size:42
Alignment explanation
Indices: 119525--119662 Score: 177
Period size: 42 Copynumber: 3.3 Consensus size: 42
119515 AGCCCTATTA
* * * * *
119525 AGCTGCTGTTTAACCCTGATGGGTTTCTGTTCAGCTCTTACG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTATG
* * *
119567 AGCTTTTGTTTAGCCCTTATGGGTTTCTGTTAAGCTCTTATG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTATG
* * *
119609 AGCTTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCTCATG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTATG
119651 AGCTTCTGTTCA
1 AGCTTCTGTTCA
119663 GCTTTCGAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.42
Consensus pattern (42 bp):
AGCTTCTGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTATG
Found at i:120906 original size:75 final size:75
Alignment explanation
Indices: 120798--121107 Score: 602
Period size: 75 Copynumber: 4.1 Consensus size: 75
120788 TTAGGTGACA
* *
120798 TGGCCGTGTGTCCCCTATATCTTAAATTGGCACAAAACAGAATGCTCACACAGCCTAGCACACGG
1 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
120863 GCGTGTGGCT
66 GCGTGTGGCT
120873 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
1 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
120938 GCGTGTGGCT
66 GCGTGTGGCT
120948 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
1 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
121013 GCGTGTGGCT
66 GCGTGTGGCT
121023 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
1 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
121088 GCGTGTGGCT
66 GCGTGTGGCT
121098 TGGCCGTGTG
1 TGGCCGTGTG
121108 ACCTAAGTTA
Statistics
Matches: 233, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 233 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (75 bp):
TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
GCGTGTGGCT
Found at i:122715 original size:26 final size:27
Alignment explanation
Indices: 122667--122720 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
122657 AAAGGAAATA
*
122667 AAGTGACAAAAAATAGAATTTTGAGTT
1 AAGTGAAAAAAAATAGAATTTTGAGTT
122694 AAGTGAAAAAAAATAGAA-TTTGAGTT
1 AAGTGAAAAAAAATAGAATTTTGAGTT
122720 A
1 A
122721 TGTCAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.28
Consensus pattern (27 bp):
AAGTGAAAAAAAATAGAATTTTGAGTT
Found at i:122731 original size:26 final size:27
Alignment explanation
Indices: 122674--122731 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
122664 ATAAAGTGAC
*
122674 AAAAAATAGAATTTTGAGTTAAGTGAA
1 AAAAAATAGAATTTTGAGTTAAGTCAA
*
122701 AAAAAATAGAA-TTTGAGTTATGTCAA
1 AAAAAATAGAATTTTGAGTTAAGTCAA
*
122727 CAAAA
1 AAAAA
122732 TCTGTTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.28
Consensus pattern (27 bp):
AAAAAATAGAATTTTGAGTTAAGTCAA
Found at i:122731 original size:27 final size:28
Alignment explanation
Indices: 122672--122731 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
122662 AAATAAAGTG
*
122672 ACAAAAAATAGAATTTTGAGTTAAGTGA
1 ACAAAAAATAGAATTTTGAGTTAAGTCA
*
122700 A-AAAAAATAGAA-TTTGAGTTATGTCA
1 ACAAAAAATAGAATTTTGAGTTAAGTCA
122726 ACAAAA
1 ACAAAA
122732 TCTGTTTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 13 0.45
27 15 0.52
28 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.15, T:0.27
Consensus pattern (28 bp):
ACAAAAAATAGAATTTTGAGTTAAGTCA
Found at i:123824 original size:21 final size:21
Alignment explanation
Indices: 123800--123970 Score: 150
Period size: 21 Copynumber: 8.2 Consensus size: 21
123790 TCATACGAGT
123800 TTCTGTTCAGCTC-TATTGAGC
1 TTCTGTTCAGCTCTTA-TGAGC
* * * * * *
123821 TTCTGTTTAACCCTGATGGGT
1 TTCTGTTCAGCTCTTATGAGC
*
123842 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
123863 TTCTGTTTAGCCCTTATGGGC
1 TTCTGTTCAGCTCTTATGAGC
*
123884 TTCTGTTAAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * * *
123905 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC
* *
123926 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
123947 TTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTATGAGC
123966 TTCTG
1 TTCTG
123971 CTAACAATGT
Statistics
Matches: 115, Mismatches: 34, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
19 9 0.08
20 1 0.01
21 104 0.90
22 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:123826 original size:42 final size:42
Alignment explanation
Indices: 123779--123953 Score: 226
Period size: 42 Copynumber: 4.2 Consensus size: 42
123769 TTTCACGAGT
* * * *
123779 TTCTGTTTAACTCATACGAGTTTCTGTTCAGCTC-TATTGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTA-TGAGC
* *
123821 TTCTGTTTAACCCTGATGGGTTTCTGTTCAGCTCTTACGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* * *
123863 TTCTGTTTAGCCCTTATGGGCTTCTGTTAAGCTCTTATGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* * *
123905 TTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
123947 TTCTGTT
1 TTCTGTT
123954 CAGCTTTCGA
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 114 0.98
43 2 0.02
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.43
Consensus pattern (42 bp):
TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
Found at i:123861 original size:63 final size:64
Alignment explanation
Indices: 123775--123953 Score: 186
Period size: 63 Copynumber: 2.8 Consensus size: 64
123765 TAGCTTTCAC
* * *
123775 GAGTTTCTGTTTAACTCATACGAGTTTCTGTTCAGCTCTATTGAGCTTCTGTTTAA-CCCTGAT
1 GAGTTTCTGTTCAACTCTTACGAGTTTCTGTTTAGCTCTATTGAGCTTCTGTTTAAGCCCTGAT
* * * * * * *
123838 GGGTTTCTGTTCAGCTCTTACGAGCTTCTGTTTAGCCCT-TATGGGCTTCTG-TTAAGCTCTTAT
1 GAGTTTCTGTTCAACTCTTACGAGTTTCTGTTTAGCTCTAT-TGAGCTTCTGTTTAAGCCCTGAT
* * * *
123901 GAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCA-TGAGCTTCTGTT
1 GAGTTTCTGTTCAACTCTTACGAGTTTCTGTTTAGCTCT-ATTGAGCTTCTGTT
123954 CAGCTTTCGA
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
62 5 0.05
63 86 0.93
64 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (64 bp):
GAGTTTCTGTTCAACTCTTACGAGTTTCTGTTTAGCTCTATTGAGCTTCTGTTTAAGCCCTGAT
Found at i:123955 original size:42 final size:42
Alignment explanation
Indices: 123756--123953 Score: 218
Period size: 42 Copynumber: 4.7 Consensus size: 42
123746 TTTGTGTTTA
* * * * * * * * *
123756 GTTTTTGTTTAGCTTTCACGAGTTTCTGTTTAACTCATACGA
1 GTTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGG
*
123798 GTTTCTGTTCAGCTCT-ATTGAGCTTCTGTTTAACCCTGATGG
1 GTTTCTGTTCAGCTCTCA-TGAGCTTCTGTTTAACCCTTATGG
* * *
123840 GTTTCTGTTCAGCTCTTACGAGCTTCTGTTTAGCCCTTATGG
1 GTTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGG
* * * *
123882 GCTTCTGTTAAGCTCTTATGAGCTTCTGTTCAACCCTTATGG
1 GTTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGG
*
123924 GTTTCTGTTTAGCTCTCATGAGCTTCTGTT
1 GTTTCTGTTCAGCTCTCATGAGCTTCTGTT
123954 CAGCTTTCGA
Statistics
Matches: 133, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 131 0.98
43 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (42 bp):
GTTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGG
Found at i:124497 original size:27 final size:27
Alignment explanation
Indices: 124443--124499 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
124433 TGTGGCTATG
* *
124443 GTTGAATGATATGTTTATGATTGCTGT
1 GTTGAATGATATGTCTATGATAGCTGT
*
124470 GTTGAATGATCTGTCTATGACTAG-TGT
1 GTTGAATGATATGTCTATGA-TAGCTGT
124497 GTT
1 GTT
124500 ATGCATATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (27 bp):
GTTGAATGATATGTCTATGATAGCTGT
Found at i:125486 original size:18 final size:18
Alignment explanation
Indices: 125465--125500 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
125455 GCTATATGAT
125465 ATGAAATGACTATTATTC
1 ATGAAATGACTATTATTC
125483 ATGAAATGACTATTATTC
1 ATGAAATGACTATTATTC
125501 GATCTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
ATGAAATGACTATTATTC
Found at i:127254 original size:47 final size:49
Alignment explanation
Indices: 127185--127361 Score: 206
Period size: 47 Copynumber: 3.7 Consensus size: 49
127175 ATTTGTGTGT
127185 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATTAT-GAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATCGAGAGC
* * * * *
127232 CAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATT-TCGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATCGAGAGC
*
127281 CAGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATCGA-GAGC
* *
127328 CAGTGTAAGACCATGTTTGAGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
127362 ATTATACCCT
Statistics
Matches: 110, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
44 2 0.02
46 4 0.04
47 56 0.51
48 11 0.10
49 37 0.34
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATCGAGAGC
Found at i:137416 original size:43 final size:43
Alignment explanation
Indices: 137355--137440 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
137345 GAGATCATTG
* * **
137355 TAGGGAAAGCTCAGAATGAAGCTGTTATTTTTTACCACTTGTC
1 TAGGGAAAGCTCAGAATGAAGCTATTAATTTCGACCACTTGTC
137398 TAGGGAAAGCTCAGAATGAAGCTATTAATTTCGACCACTTGTC
1 TAGGGAAAGCTCAGAATGAAGCTATTAATTTCGACCACTTGTC
137441 ATCCTCCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (43 bp):
TAGGGAAAGCTCAGAATGAAGCTATTAATTTCGACCACTTGTC
Found at i:142117 original size:31 final size:31
Alignment explanation
Indices: 142081--142142 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
142071 AAATTTTACA
142081 GCACATGTATTCATAAAATTTCAGAATTTTT
1 GCACATGTATTCATAAAATTTCAGAATTTTT
142112 GCACATGTATTCATAAAATTTCAGAATTTTT
1 GCACATGTATTCATAAAATTTCAGAATTTTT
142143 CATCAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (31 bp):
GCACATGTATTCATAAAATTTCAGAATTTTT
Found at i:142162 original size:20 final size:20
Alignment explanation
Indices: 142121--142165 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
142111 TGCACATGTA
* *
142121 TTCATAAAATTTCAGAATTT
1 TTCATAAAATTTCACAACTT
142141 TTCATCAAAATTT-ACAACTT
1 TTCAT-AAAATTTCACAACTT
142161 TTCAT
1 TTCAT
142166 TTTAGTCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (20 bp):
TTCATAAAATTTCACAACTT
Found at i:148204 original size:16 final size:16
Alignment explanation
Indices: 148183--148213 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
148173 ATTAGATCGA
*
148183 AAAAATTATTTAATTG
1 AAAAATTAATTAATTG
148199 AAAAATTAATTAATT
1 AAAAATTAATTAATT
148214 TACATTTTTT
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:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATTAATTAATTG
Found at i:149037 original size:19 final size:19
Alignment explanation
Indices: 149013--149051 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
149003 TATTTTATTG
149013 TTATTGTTTGGATATTGTA
1 TTATTGTTTGGATATTGTA
149032 TTATTGTTTGGATATTGTA
1 TTATTGTTTGGATATTGTA
149051 T
1 T
149052 AACTCTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (19 bp):
TTATTGTTTGGATATTGTA
Found at i:152098 original size:27 final size:27
Alignment explanation
Indices: 152068--152208 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 27
152058 ACAAAATTTT
* * *
152068 TTCTTTCAAAGTTCACTGCAAAGGTTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
* * *
152095 TTCTTTTAGAGTTCG-TGACAAAGGCTG
1 TTCTTTCAGAGTTCGCT-ACAAAGGTTA
* * *
152122 TTCTTTCAGAGTTCGCCATAGAGGTTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
152149 TTCTTTCAGAGCTT-GCTACAAAGGTTA
1 TTCTTTCAGAG-TTCGCTACAAAGGTTA
* *
152176 TTCTTTCAGAGTTCGCCACAAAGGCTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
152203 TTCTTT
1 TTCTTT
152209 GTTTTCATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.03
27 88 0.95
28 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
TTCTTTCAGAGTTCGCTACAAAGGTTA
Found at i:156916 original size:21 final size:22
Alignment explanation
Indices: 156890--156930 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
156880 CACTTGACAC
156890 AGGGGC-ACACGCCCATGTGGG
1 AGGGGCAACACGCCCATGTGGG
*
156911 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCATGTG
156931 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGG
Found at i:157940 original size:47 final size:50
Alignment explanation
Indices: 157869--158001 Score: 175
Period size: 47 Copynumber: 2.7 Consensus size: 50
157859 AGGTATGATA
*
157869 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCA-TATC-TCAAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTATCATCAAGT
* * *
157917 -TGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATTGTCATCAAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTATCATCAAGT
* * *
157965 CCGACGCCATGTCCCAGACATGTTCTTACACTAGCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
158002 TCGCATATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 1 0.01
47 35 0.49
48 6 0.08
49 30 0.42
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTATCATCAAGT
Found at i:161450 original size:3 final size:3
Alignment explanation
Indices: 161442--161636 Score: 390
Period size: 3 Copynumber: 65.0 Consensus size: 3
161432 AATTAATCTC
161442 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
161490 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
161538 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
161586 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
161634 ATT
1 ATT
161637 TTGGATTTTA
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 192 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:170188 original size:21 final size:20
Alignment explanation
Indices: 170164--170208 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
170154 TAACTCAAGG
170164 GAAACAATATTAAAATCGAGT
1 GAAACAAT-TTAAAATCGAGT
* * *
170185 GAAACAGTTTTAAATCGATT
1 GAAACAATTTAAAATCGAGT
170205 GAAA
1 GAAA
170209 ACTTTTAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (20 bp):
GAAACAATTTAAAATCGAGT
Found at i:175928 original size:16 final size:16
Alignment explanation
Indices: 175897--175944 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
175887 GAATTATTTT
175897 TTAATAATAAATTATA
1 TTAATAATAAATTATA
175913 TTAATTAATAAA-TATA
1 TTAA-TAATAAATTATA
*
175929 ATAA-AA-AAATT-TA
1 TTAATAATAAATTATA
175942 TTA
1 TTA
175945 TCCATGTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
16 11 0.39
17 7 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAATAATAAATTATA
Found at i:176798 original size:52 final size:50
Alignment explanation
Indices: 176704--176806 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 50
176694 ACAAATTTAG
* * *
176704 CTCTCAACTTTTACATATATATCAATTTACTCATAATTTTAAAAAAATTAA
1 CTCTCAAATTTTACAAATATATCAATTTACTCA-AATCTTAAAAAAATTAA
*
176755 CTCTCAAATTTTACAAATATTTCTAATTTGATCTC-AATCTTAAAAAAATTAA
1 CTCTCAAATTTTACAAATATATC-AATTT-A-CTCAAATCTTAAAAAAATTAA
176807 AAAATATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 20 0.44
52 21 0.47
53 1 0.02
54 3 0.07
ACGTcount: A:0.43, C:0.16, G:0.01, T:0.41
Consensus pattern (50 bp):
CTCTCAAATTTTACAAATATATCAATTTACTCAAATCTTAAAAAAATTAA
Found at i:186457 original size:21 final size:21
Alignment explanation
Indices: 186431--186476 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
186421 TGGTATGTGT
186431 TTTGTACAGGAAATGGCATGA
1 TTTGTACAGGAAATGGCATGA
* * * *
186452 TTTGTATATGAATTGGCATGT
1 TTTGTACAGGAAATGGCATGA
186473 TTTG
1 TTTG
186477 GTTGCCTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (21 bp):
TTTGTACAGGAAATGGCATGA
Found at i:190518 original size:28 final size:29
Alignment explanation
Indices: 190487--190597 Score: 147
Period size: 28 Copynumber: 3.8 Consensus size: 29
190477 GACATCAAAT
190487 ATGGA-ACTTAGTGTGCGAAATATTGAGA
1 ATGGACACTTAGTGTGCGAAATATTGAGA
190515 ATGGCACTTACTTAGTGTGCGAAATATTGAGA
1 ATGG-AC--ACTTAGTGTGCGAAATATTGAGA
* *
190547 ATGG-CACTTAGTGTGCTAGATATTGAGA
1 ATGGACACTTAGTGTGCGAAATATTGAGA
*
190575 AT-GACACTTAGTGTACGAAATAT
1 ATGGACACTTAGTGTGCGAAATAT
190598 CGAATGATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.01
28 43 0.59
29 1 0.01
30 1 0.01
32 27 0.37
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (29 bp):
ATGGACACTTAGTGTGCGAAATATTGAGA
Found at i:190532 original size:32 final size:32
Alignment explanation
Indices: 190492--190584 Score: 131
Period size: 32 Copynumber: 3.0 Consensus size: 32
190482 CAAATATGGA
190492 ACTTAGTGTGCGAAATATTGAGAATGGCACTT
1 ACTTAGTGTGCGAAATATTGAGAATGGCACTT
190524 ACTTAGTGTGCGAAATATTGAGAATGG--C--
1 ACTTAGTGTGCGAAATATTGAGAATGGCACTT
* * *
190552 ACTTAGTGTGCTAGATATTGAGAATGACACTT
1 ACTTAGTGTGCGAAATATTGAGAATGGCACTT
190584 A
1 A
190585 GTGTACGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 24 0.44
30 2 0.04
32 28 0.52
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (32 bp):
ACTTAGTGTGCGAAATATTGAGAATGGCACTT
Found at i:190849 original size:17 final size:17
Alignment explanation
Indices: 190824--190862 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
190814 AGATATGAAT
*
190824 AATAGTTGTTTAAACTA
1 AATATTTGTTTAAACTA
190841 AATATTTGTTTAAACTA
1 AATATTTGTTTAAACTA
190858 AATAT
1 AATAT
190863 ACATATGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (17 bp):
AATATTTGTTTAAACTA
Found at i:196160 original size:54 final size:53
Alignment explanation
Indices: 196071--196175 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 53
196061 GGTCGGGCCC
*
196071 GGAGTATTTGTAAAAGTTCTTCTTGAGGCCCGATGGGGAACCTCAGGAAAGNCT
1 GGAGTATTTGGAAAAGTTCTTCTTGAGGCCCGATGGGGAACCTCAGGAAAG-CT
* * *
196125 GGAGTATTTGGAAATGATT-TTCTTGGGGCCTGATGGGGAACCTCAGGAAAG
1 GGAGTATTTGGAAAAG-TTCTTCTTGAGGCCCGATGGGGAACCTCAGGAAAG
196176 AGTGACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 44 0.96
55 2 0.04
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.27
Consensus pattern (53 bp):
GGAGTATTTGGAAAAGTTCTTCTTGAGGCCCGATGGGGAACCTCAGGAAAGCT
Found at i:201709 original size:25 final size:25
Alignment explanation
Indices: 201681--201730 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
201671 ATTTGAAATG
201681 TTAGTTGATATAAAGTGTTCTATTA
1 TTAGTTGATATAAAGTGTTCTATTA
201706 TTAGTTGATATAAAGTGTTCTATTA
1 TTAGTTGATATAAAGTGTTCTATTA
201731 AGTGGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (25 bp):
TTAGTTGATATAAAGTGTTCTATTA
Found at i:206210 original size:28 final size:28
Alignment explanation
Indices: 206170--206233 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
206160 TAGGAAGTAG
*
206170 TTGGGCCTGATGGGCCATATGAACGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
206198 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
206226 TTGAGCCT
1 TTGGGCCT
206234 AAAGGGGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:206588 original size:27 final size:27
Alignment explanation
Indices: 206550--206810 Score: 303
Period size: 27 Copynumber: 9.7 Consensus size: 27
206540 TAATAAAGAG
* *
206550 AAATTACTGAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
206577 AAATTACTGAAATACCCTCGATTTGAA
1 AAATTACTGAAATACCCTCGATTTGTA
*
206604 AAATTACTGAAATACCCTTGATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
206632 AAATTATTGAAATACCCTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
206658 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
206685 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
206712 AAATTA-TCAAAATACCCTCAATTTTTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
206739 AAATTACTGAAACACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * * *
206766 AAATTACCGACATACCCTTG-TAGTATA
1 AAATTACTGAAATACCCTCGAT-TTGTA
*
206793 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
206811 TGTAGTGTAA
Statistics
Matches: 201, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 25 0.12
27 151 0.75
28 25 0.12
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:206795 original size:54 final size:54
Alignment explanation
Indices: 206572--206855 Score: 252
Period size: 54 Copynumber: 5.3 Consensus size: 54
206562 TACCCCCAAT
* * *
206572 TTGTAAAATTACTGAAATACCCTCGATTTGAAAAATTACTGAAATACCCTTGATT
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTG-TA
* ** *
206627 TTGTAAAATTATTGAAATACCCTCGA-TTGTAAAATTACTAAAATACCCTCG-A
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA
* * * * **
206679 TTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCAAAATACCC-TCAA
1 -TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA
* * * *
206733 TTTTTAAAATTACTGAAACACCCTTGATTTGTAAAATTACCGACATACCCTTGTA
1 -TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA
* * * * * * * *
206788 GTATAAAATTACCGAAATACCCTTG-TAGTGTAAAATGACCGACATACCCCTGTA
1 TTGTAAAATTACTGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCTTGTA
** *
206842 GGGTAAAATGACTG
1 TTGTAAAATTACTG
206856 TTTTGCCCTT
Statistics
Matches: 193, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
53 24 0.12
54 142 0.74
55 27 0.14
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (54 bp):
TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA
Found at i:206811 original size:27 final size:27
Alignment explanation
Indices: 206573--206850 Score: 163
Period size: 27 Copynumber: 10.3 Consensus size: 27
206563 ACCCCCAATT
* * *
206573 TGTAAAATTACTGAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * **
206600 TGAAAAATTACTGAAATACCCTTGATTT
1 TGTAAAATTACCGAAATACCCTTG-TAG
** * *
206628 TGTAAAATTATTGAAATACCCTCG-AT
1 TGTAAAATTACCGAAATACCCTTGTAG
** * *
206654 TGTAAAATTACTAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
206681 TGTAAAATTACCGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * ** *
206708 TGTAAAATTATCAAAATACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
206735 TTTAAAATTACTGAAACACCCTTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
206762 TGTAAAATTACCGACATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
206789 TATAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
206816 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
206843 GGTAAAAT
1 TGTAAAAT
206851 GACTGTTTTG
Statistics
Matches: 210, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
26 24 0.11
27 162 0.77
28 24 0.11
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:214209 original size:43 final size:43
Alignment explanation
Indices: 214143--214637 Score: 792
Period size: 43 Copynumber: 11.5 Consensus size: 43
214133 TATTATAATT
* * **
214143 GGGCCTTCGTACCTAGCATGCTTCGTGCCGGTGAACTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
214186 GGGCCTTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
214229 GAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
214272 GGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
** *
214315 GGGTTTTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
214358 GGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
** *
214401 GGGTTTTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
214444 GGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
** *
214487 GGGTTTTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
214530 GGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
** *
214573 GGGTTTTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
214616 GGGCCTTCGTGCCTAGCAGGCT
1 GGGCCTTCGTGCCTAGCAGGCT
214638 ATGATGCTAG
Statistics
Matches: 413, Mismatches: 39, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 413 1.00
ACGTcount: A:0.10, C:0.24, G:0.33, T:0.33
Consensus pattern (43 bp):
GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
Found at i:214290 original size:86 final size:86
Alignment explanation
Indices: 214148--214637 Score: 881
Period size: 86 Copynumber: 5.7 Consensus size: 86
214138 TAATTGGGCC
* * * ** *
214148 TTCGTACCTAGCATGCTTCGTGCCGGTGAACTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCTTG
1 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
* * **
214213 CCGGTGATGTGTATTCGAGCC
66 CTGGTGATGTGTATTCGGGTT
*
214234 TTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
1 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
214299 CTGGTGATGTGTATTCGGGTT
66 CTGGTGATGTGTATTCGGGTT
214320 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
1 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
214385 CTGGTGATGTGTATTCGGGTT
66 CTGGTGATGTGTATTCGGGTT
214406 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
1 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
214471 CTGGTGATGTGTATTCGGGTT
66 CTGGTGATGTGTATTCGGGTT
214492 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
1 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
214557 CTGGTGATGTGTATTCGGGTT
66 CTGGTGATGTGTATTCGGGTT
214578 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT
1 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT
214638 ATGATGCTAG
Statistics
Matches: 394, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 394 1.00
ACGTcount: A:0.10, C:0.23, G:0.33, T:0.34
Consensus pattern (86 bp):
TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
CTGGTGATGTGTATTCGGGTT
Found at i:214675 original size:45 final size:45
Alignment explanation
Indices: 214611--214715 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
214601 CGGTGATGTG
* * *
214611 TATTCGGGCCTTCGTGCCTAGCAGGCTATGATGCTAGT-AGAATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAG-ATAC
* *
214656 TATTCGGGCCTTTGAGCCTAGCATGCTATAATGCCAGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
* *
214701 TATTCAGGCTTTCGA
1 TATTCGGGCCTTCGA
214716 TAGCGGGCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 49 0.96
46 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
Found at i:217737 original size:24 final size:24
Alignment explanation
Indices: 217710--217759 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
217700 TTCAAGTGGT
* *
217710 TTTCGGATACATACAAGGGGGACA
1 TTTCAGATACATACAAGGGAGACA
*
217734 TTTCAGTTACATACAAGGGAGACA
1 TTTCAGATACATACAAGGGAGACA
217758 TT
1 TT
217760 ATACATCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (24 bp):
TTTCAGATACATACAAGGGAGACA
Found at i:221455 original size:21 final size:23
Alignment explanation
Indices: 221431--221482 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
221421 AATGTGTTTT
*
221431 TGTTTGATAAG-TT-TTTAAATG
1 TGTTTAATAAGTTTGTTTAAATG
* *
221452 TGTTTAATATGTTTGTTTTAATG
1 TGTTTAATAAGTTTGTTTAAATG
221475 TGTTTAAT
1 TGTTTAAT
221483 TGCAGGTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 2 0.08
23 15 0.58
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (23 bp):
TGTTTAATAAGTTTGTTTAAATG
Found at i:221586 original size:24 final size:24
Alignment explanation
Indices: 221559--221607 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
221549 TCCAAGTGGT
*
221559 TTTCGGTTACATACAAGGGGGACA
1 TTTCGGTTACATACAAGGGAGACA
221583 TTTCGGTTACATACAAGGGAGACA
1 TTTCGGTTACATACAAGGGAGACA
221607 T
1 T
221608 CATACATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (24 bp):
TTTCGGTTACATACAAGGGAGACA
Found at i:233447 original size:21 final size:23
Alignment explanation
Indices: 233423--233474 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
233413 AATGTGTTTT
*
233423 TGTTTGATAAG-TT-TTTAAATG
1 TGTTTAATAAGTTTGTTTAAATG
* *
233444 TGTTTAATATGTTTGTTTTAATG
1 TGTTTAATAAGTTTGTTTAAATG
233467 TGTTTAAT
1 TGTTTAAT
233475 TGCAGGTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 2 0.08
23 15 0.58
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (23 bp):
TGTTTAATAAGTTTGTTTAAATG
Found at i:233578 original size:24 final size:24
Alignment explanation
Indices: 233551--233599 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
233541 TCCAAGTGGT
*
233551 TTTCGGTTACATACAAGGGGGACA
1 TTTCGGTTACATACAAGGGAGACA
233575 TTTCGGTTACATACAAGGGAGACA
1 TTTCGGTTACATACAAGGGAGACA
233599 T
1 T
233600 CATACATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (24 bp):
TTTCGGTTACATACAAGGGAGACA
Found at i:239402 original size:40 final size:40
Alignment explanation
Indices: 239319--239541 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
239309 TTGAATGCTG
* * * * *
239319 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
239359 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
239399 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
239439 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
239479 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
239518 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
239542 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:239456 original size:80 final size:79
Alignment explanation
Indices: 239319--239543 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
239309 TTGAATGCTG
* * * * * *
239319 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
239382 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
239399 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
239464 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
239479 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
239543 G
65 G
239544 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:239561 original size:79 final size:80
Alignment explanation
Indices: 239394--239576 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
239384 GTGCGAGATA
** *
239394 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
239459 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
239474 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
239538 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
239553 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
239577 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:239561 original size:119 final size:120
Alignment explanation
Indices: 239319--239576 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 120
239309 TTGAATGCTG
* * * * *
239319 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
* ** ** *
239384 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
239439 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * *
239501 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
239558 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
239577 TACGTGATTT
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 15 0.13
119 51 0.44
120 39 0.34
121 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:246480 original size:49 final size:49
Alignment explanation
Indices: 246424--246793 Score: 740
Period size: 49 Copynumber: 7.6 Consensus size: 49
246414 TATTTGAATA
246424 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
246473 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
246522 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
246571 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
246620 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
246669 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
246718 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
246767 AATGTGAAAGTGTATATATATGTGATA
1 AATGTGAAAGTGTATATATATGTGATA
246794 TGAATGTGAA
Statistics
Matches: 321, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 321 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:246790 original size:76 final size:75
Alignment explanation
Indices: 246710--246861 Score: 252
Period size: 76 Copynumber: 2.0 Consensus size: 75
246700 CGAATGGCCA
246710 ATGTG-ATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 ATGTGAATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
246774 AAGTGTATATAT
64 AAGTGTATATAT
* *
246786 ATGTGATATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGA-ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
246851 AGTGTATATAT
65 AGTGTATATAT
246862 GTGACAGGGC
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
76 57 0.79
78 15 0.21
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (75 bp):
ATGTGAATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
GTGTATATAT
Found at i:246811 original size:27 final size:28
Alignment explanation
Indices: 246764--246820 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
246754 GGCCAATGTG
246764 ATGAATGTGAAAGTGTATATATATGTGAT
1 ATGAATGTGAAAGTG-ATATATATGTGAT
246793 ATGAATGTGAAAGTG-TATATATGTGAT
1 ATGAATGTGAAAGTGATATATATGTGAT
246820 A
1 A
246821 AGGCCTAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 13 0.46
29 15 0.54
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.37
Consensus pattern (28 bp):
ATGAATGTGAAAGTGATATATATGTGAT
Found at i:246846 original size:47 final size:47
Alignment explanation
Indices: 246793--246916 Score: 176
Period size: 47 Copynumber: 2.6 Consensus size: 47
246783 TATATGTGAT
* * *
246793 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTG
* * *
246840 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTG
* *
246887 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
246917 TCCCGAAGGG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTG
Found at i:252592 original size:27 final size:27
Alignment explanation
Indices: 252561--252738 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
252551 TAAATTGTAC
252561 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
252588 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
252614 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
252642 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
252670 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
252697 AGCACTAACTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
252724 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
252739 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 101 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:252729 original size:82 final size:81
Alignment explanation
Indices: 252558--252738 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
252548 GATTAAATTG
*
252558 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
*
252623 GTGTGCGAATTGACCA
66 CTGTGCGAATTGACCA
* * ** *
252639 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
252702 TAACTGTGCGAGTTGATTA
63 TAACTGTGCGAATTGACCA
* *
252721 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
252739 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 17 0.20
82 62 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
CTGTGCGAATTGACCA
Found at i:258329 original size:3 final size:3
Alignment explanation
Indices: 258321--258368 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
258311 CGTTCATTTA
* *
258321 TTC TTC TTC TTC TTC TTC TTAC -TA TTC TTC TTC TTTC TTC TCC TTC
1 TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC -TTC TTC TTC TTC
258367 TT
1 TT
258369 TTTGTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 34 0.89
4 4 0.11
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:262331 original size:38 final size:38
Alignment explanation
Indices: 262284--262543 Score: 268
Period size: 38 Copynumber: 6.8 Consensus size: 38
262274 TGAAATACAG
*
262284 AATATACTGAATGTTGCTCAATCGAGAAAAATCTACTA
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
* * *
262322 AACACACTGAATGTTGCTCAATCGAGCAAAATCTACTG
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
* * * **
262360 AACACATTGAATGTTGCTCAATCGAGCAAAATCTACCG
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
* *
262398 AATATACTAAATGTTGCTCAATCGAGAAAAATCTACTA
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
** ** * **
262436 AATACACTGAATGTTGCTCAATTAAGTTAAACCTACCG
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
** * * * *
262474 AATATGCCGAATGTTGCTTAATCGAGTAAAACCTACTAA
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACT-A
* * *
262513 AATATACTGAATGATGTTCAATCGAGAAAAA
1 AATACACTGAATGTTGCTCAATCGAGAAAAA
262544 ATTCACTGAT
Statistics
Matches: 184, Mismatches: 37, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
38 159 0.86
39 25 0.14
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.27
Consensus pattern (38 bp):
AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
Found at i:262486 original size:114 final size:115
Alignment explanation
Indices: 262282--262543 Score: 337
Period size: 114 Copynumber: 2.3 Consensus size: 115
262272 AATGAAATAC
*
262282 AGAATATACTGAATGTTGCTCAATCGAGAAAAATCTACTAAACACACTGAATGTTGCTCAATCGA
1 AGAATATACTGAATGTTGCTCAATCGAGAAAAATCTACTAAACACACTGAATGTTGCTCAATCAA
* * ** *
262347 GCAAAATCTACTGAACACATTGAATGTTGCTCAATCGAGCAAAATCTAC-
66 GCAAAACCTACCGAACACACCGAATGTTGCTCAATCGAGCAAAACCTACT
* * * *
262396 CGAATATACTAAATGTTGCTCAATCGAGAAAAATCTACTAAATACACTGAATGTTGCTCAATTAA
1 AGAATATACTGAATGTTGCTCAATCGAGAAAAATCTACTAAACACACTGAATGTTGCTCAATCAA
** * ** * *
262461 GTTAAACCTACCGAATATGCCGAATGTTGCTTAATCGAGTAAAACCTACT
66 GCAAAACCTACCGAACACACCGAATGTTGCTCAATCGAGCAAAACCTACT
* * *
262511 AAAATATACTGAATGATGTTCAATCGAGAAAAA
1 AGAATATACTGAATGTTGCTCAATCGAGAAAAA
262544 ATTCACTGAT
Statistics
Matches: 125, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
114 97 0.78
115 28 0.22
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (115 bp):
AGAATATACTGAATGTTGCTCAATCGAGAAAAATCTACTAAACACACTGAATGTTGCTCAATCAA
GCAAAACCTACCGAACACACCGAATGTTGCTCAATCGAGCAAAACCTACT
Found at i:272486 original size:22 final size:23
Alignment explanation
Indices: 272443--272486 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
272433 TTGGTTTCTC
272443 TTTCTTTCTTTATCCTCCTTCAT
1 TTTCTTTCTTTATCCTCCTTCAT
*
272466 TTTCTTTCTTT-TCCTCTTTCA
1 TTTCTTTCTTTATCCTCCTTCA
272487 AGTGAGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTCTTTCTTTATCCTCCTTCAT
Found at i:282597 original size:15 final size:14
Alignment explanation
Indices: 282577--282634 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 14
282567 TTCCCTCCCC
282577 TTTCTTCTTTTGTTT
1 TTTCTTCTTTT-TTT
*
282592 TTTCTTTCTTTCTTT
1 TTTC-TTCTTTTTTT
* *
282607 TTCCTCCTTTTTCATT
1 TTTCTTCTTTTT--TT
282623 TTTCTTCTTTTT
1 TTTCTTCTTTTT
282635 CCTCTTTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 6 0.18
15 10 0.29
16 18 0.53
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTCTTTTTTT
Found at i:282617 original size:23 final size:26
Alignment explanation
Indices: 282590--282638 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
282580 CTTCTTTTGT
282590 TTTTTC-TTTCT-TTCTTTTTCCTCC
1 TTTTTCATTTCTCTTCTTTTTCCTCC
*
282614 TTTTTCATTTTTCTTCTTTTTCCTC
1 TTTTTCATTTCTCTTCTTTTTCCTC
282639 TTTCAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTCATTTCTCTTCTTTTTCCTCC
Found at i:283727 original size:43 final size:42
Alignment explanation
Indices: 283680--283783 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 42
283670 AAGACACGGA
* *
283680 CATCTGTCCAAGCCATGTGAACCACACGGGTAGAGGACATGGG
1 CATCTGTCCAAGCCGTGTGAACCACACAGGTA-AGGACATGGG
* * *
283723 CATCTGTCTAGGCTGTGTGAACCACACAGGTAAGGACATGGG
1 CATCTGTCCAAGCCGTGTGAACCACACAGGTAAGGACATGGG
* * *
283765 CGTTTGTACAAGCCGTGTG
1 CATCTGTCCAAGCCGTGTG
283784 GCATAATAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
42 23 0.46
43 27 0.54
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (42 bp):
CATCTGTCCAAGCCGTGTGAACCACACAGGTAAGGACATGGG
Found at i:287590 original size:50 final size:50
Alignment explanation
Indices: 287449--287590 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 50
287439 TTAACTTCGA
* * *
287449 TCACGTGTGTAGTACGAAGTGCAGGCTACTACGTGTATCAGATGGATAAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAG
* * * * *
287499 TCACATGTATAGTACTAAGTGTAGGCTACTACGTGTTCCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAG
* * * *
287549 TCGCATGTGTAGTACTACGTGCAGGCTACTATGCGTACCAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
287591 GAGCTTCGGT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAG
Found at i:287811 original size:16 final size:16
Alignment explanation
Indices: 287790--287821 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
287780 AGAATGGAGT
287790 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
287806 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
287822 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:289991 original size:15 final size:15
Alignment explanation
Indices: 289971--290014 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
289961 TATGATATTG
289971 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
289985 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
*
290001 TATCTTGGACTTCT
1 TATCTTGGATTTCT
290015 TAATCCTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:290029 original size:30 final size:30
Alignment explanation
Indices: 289971--290029 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
289961 TATGATATTG
* *
289971 TATCTTGGATTTCCTTATCTTGGATTTCTC
1 TATCTTGGACTTCCTTATCCTGGATTTCTC
*
290001 TATCTTGGACTT-CTTAATCCTGGTTTTCT
1 TATCTTGGACTTCCTT-ATCCTGGATTTCT
290030 TGTTATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.53
Consensus pattern (30 bp):
TATCTTGGACTTCCTTATCCTGGATTTCTC
Found at i:293171 original size:51 final size:51
Alignment explanation
Indices: 293042--293275 Score: 377
Period size: 51 Copynumber: 4.6 Consensus size: 51
293032 CAATTTTAGG
* * * *
293042 TCACGTGTGTAGTACTAAGTGCAGGCTACTATG---TACCAGATTG-TTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCA-ATAGTTTCGA
* *
293090 TCTCATGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
293141 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
293192 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
293243 TCACGTGTGTAGTACTAAGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATG
293276 TTTTTAAGAC
Statistics
Matches: 174, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
48 31 0.18
50 3 0.02
51 140 0.80
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
Found at i:293229 original size:102 final size:99
Alignment explanation
Indices: 293042--293531 Score: 389
Period size: 102 Copynumber: 4.8 Consensus size: 99
293032 CAATTTTAGG
* * *
293042 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTACCAGATTGTTAGGTCTCATGTGTAGTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTACCAGATAGTTAGATCACATGTGTAGTACTA
293107 AGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
66 AGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
* * *
293141 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCA-ATAGTTTCGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATG---TACCAGATAG-TTAGATCACATGTGTAGT
293205 ACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
62 ACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
*** * * * * *
293243 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTTTTTAAGACAATTTTAGGTCACGTGTGTGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATG--TACCAGA-TA-GTTAGATCACATGTGTAGT
* ** * * *** * * * *
293308 ACTAAGTGTAGGCTACTACACGTACTGGATTG-ATAGG
62 ACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
* * * * * * *
293345 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTATAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAT--GTACCAGAT-AGTTAGATCACATGTGTAGTA
* * * **
293410 CTAAGTGCAGGCTACTACGTGTA-T--CAGATGGATAAG-
63 CTAAGTGCAGGCTACTA--TGCATTCCCA-ATAGTTTCGA
* * * * * **
293446 TCACGTGTGTAGTACTAAGTGCAGGTTATTACGTGTACCAGATTGATAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA--TGTACCAGATAGTTAGATCACATGTGTAGTAC
293511 TAAGTGCAGGCTACTATGCAT
64 TAAGTGCAGGCTACTATGCAT
293532 ACCAGAGAGC
Statistics
Matches: 307, Mismatches: 67, Indels: 34
0.75 0.16 0.08
Matches are distributed among these distances:
98 3 0.01
99 33 0.11
100 30 0.10
101 73 0.24
102 127 0.41
103 40 0.13
104 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTACCAGATAGTTAGATCACATGTGTAGTACTA
AGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
Found at i:293354 original size:50 final size:50
Alignment explanation
Indices: 293038--293537 Score: 314
Period size: 51 Copynumber: 9.9 Consensus size: 50
293028 AAGACAATTT
* * *
293038 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA--TGTACCAGATTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
* * * * * *
293086 TAGGTCTCATGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCA-ATAGTT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGC-GTACCAGATTG-A
* * * * * * * *
293137 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCA-ATAGTT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGC-GTACCAGATTG-A
* * * * * * * *
293188 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCA-ATAGTT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGC-GTACCAGATTG-A
* * * * ** * *
293239 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTTTTTAAGACA-ATT-T
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACG--CGT-A-CCAGATTGA
* * * * **
293291 TAGGTCACGTGTGTGGTACTAAGTGTAGGCTACTACACGTACTGGATTGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
* * * *
293341 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
* * * * * *
293390 CTTCGATCACATGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGA
1 --TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
* * * * *
293442 TAAGTCACGTGTGTAGTACTAAGTGCAGGTTATTACGTGTACCAGATTGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
** * *
293492 TAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
293538 GAGCTTCGGT
Statistics
Matches: 376, Mismatches: 63, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
48 33 0.09
49 7 0.02
50 119 0.32
51 177 0.47
52 36 0.10
54 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
Found at i:293415 original size:51 final size:51
Alignment explanation
Indices: 293042--293426 Score: 350
Period size: 51 Copynumber: 7.6 Consensus size: 51
293032 CAATTTTAGG
* * * *
293042 TCACGTGTGTAGTACTAAGTGCAGGCTACTATG--TACCAGAT--TGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCGATAAT-TTCGA
* * * *
293090 TCTCATGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCGATAATTTCGA
* *
293141 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCGATAATTTCGA
* *
293192 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCGATAATTTCGA
** *** * * *
293243 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTTTTTAAGACAATTTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCGATAA-TTTCGA
* * ** * * ** * * *
293295 TCACGTGTGTGGTACTAAGTGTAGGCTACTACACGTACTGGAT--TGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCGATAAT-TTCGA
* * * * * *
293345 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCGATAATTTCGA
* *
293396 TCACATGTATAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
293427 CGTGTATCAG
Statistics
Matches: 283, Mismatches: 46, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
48 31 0.11
49 1 0.00
50 43 0.15
51 171 0.60
52 37 0.13
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCGATAATTTCGA
Found at i:293525 original size:151 final size:151
Alignment explanation
Indices: 293197--293534 Score: 426
Period size: 151 Copynumber: 2.2 Consensus size: 151
293187 TTCGATCACG
* ** * *
293197 TGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCAATAGTTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCACATGTATAGTACTAAG
* * * ** * * *
293262 TGCAGGCTACTATGTTTTTAAGACAATTTTAGGTCACGTGTGTGGTACTAAGTGTAGGCTACTAC
66 TGCAGGCTACTACGTGTATAAG--AATGATAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
**
293327 ACGTACTGGATTGATAGGTCGCA
129 ACGTACCAGATTGATAGGTCGCA
* **
293350 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTATAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCACATGTATAGTACTAAG
* * * *
293415 TGCAGGCTACTACGTGTATCAG-ATGGATAAGTCACGTGTGTAGTACTAAGTGCAGGTTATTACG
66 TGCAGGCTACTACGTGTATAAGAAT-GATAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACA
* *
293479 TGTACCAGATTGATAGGTCGTA
130 CGTACCAGATTGATAGGTCGCA
293501 TGTGTAGTACTAAGTGCAGGCTACTATGCATACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACC
293535 AGAGAGCTTC
Statistics
Matches: 159, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
150 2 0.01
151 82 0.52
153 75 0.47
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCACATGTATAGTACTAAG
TGCAGGCTACTACGTGTATAAGAATGATAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACAC
GTACCAGATTGATAGGTCGCA
Found at i:293545 original size:151 final size:151
Alignment explanation
Indices: 293038--293545 Score: 440
Period size: 153 Copynumber: 3.4 Consensus size: 151
293028 AAGACAATTT
* * * * * * *
293038 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATG--TACCAGATTG-TTAGGTCTCATGTGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGCTTCGATCACATGTAT
* *** * **
293100 AGTACTAAGTGCAGGCTACTA--TGCATTCCCAATAGTTTCGATCACGTGTGTAGTACTAAGTGC
66 AGTACTAAGTGCAGGCTACTACGTGTA-TAAGAAT-GATAAG-TCACGTGTGTAGTACTAAGTGC
* * * *
293163 AGGCTACTATGCA-TTCCCA-ATAGTT
128 AGGCTACTA--CACGTACCAGATTG-A
* * * * * * * *
293188 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCA-ATAGTTTCGATCACGTGTG
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA-TACCAGATAGCTTCGATCACATGTA
* * * ** * * *
293252 TAGTACTAAGTGCAGGCTACTATGTTTTTAAGACAATTTTAGGTCACGTGTGTGGTACTAAGTGT
65 TAGTACTAAGTGCAGGCTACTACGTGTATAAG--AATGATAAGTCACGTGTGTAGTACTAAGTGC
**
293317 AGGCTACTACACGTACTGGATTGA
128 AGGCTACTACACGTACCAGATTGA
* * * *
293341 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTAT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGCTTCGATCACATGTAT
*
293406 AGTACTAAGTGCAGGCTACTACGTGTATCAG-ATGGATAAGTCACGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTACGTGTATAAGAAT-GATAAGTCACGTGTGTAGTACTAAGTGCAG
* * **
293470 GTTATTACGTGTACCAGATTGA
130 GCTACTACACGTACCAGATTGA
* *
293492 TAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAGAGCTTCG
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGCTTCG
293546 GTTACAAGGG
Statistics
Matches: 288, Mismatches: 58, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
150 37 0.13
151 89 0.31
152 8 0.03
153 114 0.40
154 33 0.11
155 4 0.01
156 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (151 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAGCTTCGATCACATGTAT
AGTACTAAGTGCAGGCTACTACGTGTATAAGAATGATAAGTCACGTGTGTAGTACTAAGTGCAGG
CTACTACACGTACCAGATTGA
Found at i:294117 original size:17 final size:17
Alignment explanation
Indices: 294073--294130 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
294063 TAATTGCTTT
*
294073 AATATTAAATTAATA-A
1 AATATTAAATTAAGATA
*
294089 AATACT--ATTAAGATA
1 AATATTAAATTAAGATA
* *
294104 AATATTAAATTAAGTTT
1 AATATTAAATTAAGATA
294121 AATATTAAAT
1 AATATTAAAT
294131 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 5 0.15
17 17 0.50
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAGATA
Found at i:305155 original size:207 final size:207
Alignment explanation
Indices: 304800--305219 Score: 813
Period size: 207 Copynumber: 2.0 Consensus size: 207
304790 GTTCCCACCA
*
304800 TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGTGAT
1 TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGGGAT
*
304865 GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGTGGGAAGTCCTTAATTTCTCACAGCT
66 GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGGGGGAAGTCCTTAATTTCTCACAGCT
304930 GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
131 GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
304995 TTTAGGGTTTTG
196 TTTAGGGTTTTG
*
305007 TCTCTTCCTTCTCACCTACGCCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGGGAT
1 TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGGGAT
305072 GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGGGGGAAGTCCTTAATTTCTCACAGCT
66 GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGGGGGAAGTCCTTAATTTCTCACAGCT
305137 GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
131 GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
305202 TTTAGGGTTTTG
196 TTTAGGGTTTTG
305214 TCTCTT
1 TCTCTT
305220 TAAAACATTA
Statistics
Matches: 210, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 210 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (207 bp):
TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGGGAT
GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGGGGGAAGTCCTTAATTTCTCACAGCT
GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
TTTAGGGTTTTG
Found at i:305686 original size:21 final size:23
Alignment explanation
Indices: 305662--305709 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
305652 AGTTTGATTT
*
305662 TTAAATTAATAA-AG-ATAAAAC
1 TTAAAATAATAATAGAATAAAAC
*
305683 TTAAAATAATAATTGAATAAAAC
1 TTAAAATAATAATAGAATAAAAC
305706 TTAA
1 TTAA
305710 CAGATCCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 1 0.04
23 11 0.48
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
TTAAAATAATAATAGAATAAAAC
Found at i:306218 original size:23 final size:24
Alignment explanation
Indices: 306183--306233 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
306173 TGGCTTCAAT
*
306183 TTTTTTTATTTCATTTAAATGATA
1 TTTTTTTATTTCACTTAAATGATA
*
306207 TTTTTTTA-TTCACTTAAATTATA
1 TTTTTTTATTTCACTTAAATGATA
306230 TTTT
1 TTTT
306234 GATATAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTTTTATTTCACTTAAATGATA
Found at i:308630 original size:18 final size:19
Alignment explanation
Indices: 308579--308631 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
308569 GGCAAAAATT
308579 CAAAGTATCGATACCATTTG
1 CAAAGTATCGATA-CATTTG
*
308599 CACAA-TACCGATACATTT-
1 CA-AAGTATCGATACATTTG
*
308617 TAAAGTATCGATACA
1 CAAAGTATCGATACA
308632 GTTATGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 5 0.18
20 9 0.32
21 2 0.07
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (19 bp):
CAAAGTATCGATACATTTG
Found at i:313367 original size:24 final size:24
Alignment explanation
Indices: 313339--313474 Score: 75
Period size: 24 Copynumber: 5.6 Consensus size: 24
313329 CTATATAATG
* *
313339 GGAAGCTCA-TAAGAGCAATAATCA
1 GGAAGCTCACAAAGAACAAT-ATCA
* *
313363 GGAAGTTCACAAAGAACCATATCA
1 GGAAGCTCACAAAGAACAATATCA
* * * *
313387 GGAAGCTCACAAAGAGCCATGTAA
1 GGAAGCTCACAAAGAACAATATCA
* * *
313411 TGGGAAGCTC-CAGATAGCTAATATCA
1 --GGAAGCTCACAAAGAAC-AATATCA
*
313437 GGAAG-T-TC-AAGCAAGCAATATCA
1 GGAAGCTCACAAAG-AA-CAATATCA
313460 GGAAGCTCACAAAGA
1 GGAAGCTCACAAAGA
313475 GCCAATTTAA
Statistics
Matches: 85, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
22 1 0.01
23 15 0.18
24 39 0.46
25 15 0.18
26 15 0.18
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACAAAGAACAATATCA
Found at i:313417 original size:74 final size:73
Alignment explanation
Indices: 313334--313478 Score: 190
Period size: 74 Copynumber: 2.0 Consensus size: 73
313324 CCAAGCTATA
*
313334 TAATGGGAAGCT-CATAAGAGC-AATAATCAGGAAGTTC-A-CAAAGAACCATATCAGGAAGCTC
1 TAATGGGAAGCTCCA-AAGAGCTAAT-ATCAGGAAGTTCAAGC-AAG--CAATATCAGGAAGCTC
313395 ACAAAGAGCCATG
61 ACAAAGAGCCATG
* *
313408 TAATGGGAAGCTCCAGATAGCTAATATCAGGAAGTTCAAGCAAGCAATATCAGGAAGCTCACAAA
1 TAATGGGAAGCTCCAAAGAGCTAATATCAGGAAGTTCAAGCAAGCAATATCAGGAAGCTCACAAA
313473 GAGCCA
66 GAGCCA
313479 ATTTAACGAG
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
73 26 0.41
74 28 0.44
75 9 0.14
76 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (73 bp):
TAATGGGAAGCTCCAAAGAGCTAATATCAGGAAGTTCAAGCAAGCAATATCAGGAAGCTCACAAA
GAGCCATG
Found at i:313987 original size:21 final size:21
Alignment explanation
Indices: 313963--314004 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
313953 AATTTAATCA
*
313963 TCAATTTTATACAATTCACAT
1 TCAATTTGATACAATTCACAT
* *
313984 TCAATTTGATTCAATTTACAT
1 TCAATTTGATACAATTCACAT
314005 CCTAGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (21 bp):
TCAATTTGATACAATTCACAT
Found at i:317573 original size:79 final size:77
Alignment explanation
Indices: 317471--317682 Score: 255
Period size: 79 Copynumber: 2.7 Consensus size: 77
317461 GCTCCTCGTT
* *
317471 CAAATGCCTTCGGGACATAGCCCGGTTATATTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATATTATCTCGCACAAATGCCTTCGGG-CTTAACCCGG
317536 -ATTTAATAACTCGCA
63 AATTT-ATAACTCGCA
* * *
317551 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TATTATCTCGCACAAATGCCTTCGGGCTTAACCCGGAA
* *
317616 TTTGTATCTCGCA
65 TTTATAACTCGCA
* * *
317629 CAAATGCCTTCGGATCTTAGTCCGGATATTTGTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAT-TATCTCGCACAAATGCCTTCGG
317683 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 31 0.27
79 47 0.41
80 37 0.32
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATATTATCTCGCACAAATGCCTTCGGGCTTAACCCGGAAT
TTATAACTCGCA
Found at i:317672 original size:41 final size:40
Alignment explanation
Indices: 317471--317734 Score: 283
Period size: 39 Copynumber: 6.6 Consensus size: 40
317461 GCTCCTCGTT
* * * *
317471 CAAATGCCTTCGGGACATAGCCCGGTTATAT-TAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATTTGTATCTCGCA
* ** *
317511 CAAATGCCTTCGGGACTTAACCCGGAT-TTAATAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATTTGTATCTCGCA
* *
317551 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATTTGTATCTCGCA
*
317590 CAAATGCCTTCGGGCTTAGCCCGGA-ATTTGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATTTGTATCTCGCA
*
317629 CAAATGCCTTCGGATCTTAGTCCGGATATTTGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTTGTATCTCGCA
* *
317670 CAAATGCCTTCGGATCTTAGTCCGGATA-TTGTCA-CTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTTGT-ATC-TCGCA
317711 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
317735 CATCATTCAA
Statistics
Matches: 203, Mismatches: 14, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
39 91 0.45
40 64 0.32
41 48 0.24
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAGCCCGGATATTTGTATCTCGCA
Found at i:317718 original size:80 final size:78
Alignment explanation
Indices: 317471--317734 Score: 263
Period size: 80 Copynumber: 3.3 Consensus size: 78
317461 GCTCCTCGTT
* * * * *
317471 CAAATGCCTTCGGGACATAGCCCGG-TTATATTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGACTTAGCCCG
*
317535 GAT-TTAATAAC-TCGCA
63 GATATT-GT-ACTTCGCA
* *
317551 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA-
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
317615 ATTTGTA-TCTCGCA
66 A-TTGTACT-TCGCA
* * *
317629 CAAATGCCTTCGGATCTTAGTCCGGATATTTGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCG
*
317694 GATATTGTCACTTAGCA
63 GATATTGT-ACTTCGCA
317711 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
317735 CATCATTCAA
Statistics
Matches: 157, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
77 1 0.01
78 31 0.20
79 44 0.28
80 54 0.34
81 19 0.12
82 7 0.04
83 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
ATTGTACTTCGCA
Found at i:332052 original size:35 final size:35
Alignment explanation
Indices: 332011--332077 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
332001 TATAAATATA
* *
332011 AATATATTTTTATTTAATATAA-ATAACATAATCCT
1 AATATATTATTATCTAATATAATATAA-ATAATCCT
332046 AATATATTATTATCTAATATAATATAAATAAT
1 AATATATTATTATCTAATATAATATAAATAAT
332078 TTTTTAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (35 bp):
AATATATTATTATCTAATATAATATAAATAATCCT
Found at i:332090 original size:17 final size:17
Alignment explanation
Indices: 332068--332100 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
332058 TCTAATATAA
*
332068 TATAAATAATTTTTTAG
1 TATAAATAAATTTTTAG
332085 TATAAATAAATTTTTA
1 TATAAATAAATTTTTA
332101 TAATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAAATAAATTTTTAG
Found at i:332157 original size:24 final size:25
Alignment explanation
Indices: 332130--332176 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
332120 AACATAAAAT
**
332130 ATATTTTGTTATTTAATT-TATAAA
1 ATATTTTAATATTTAATTATATAAA
332154 ATATTTTAATATTTAATTATATA
1 ATATTTTAATATTTAATTATATA
332177 TACATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
ATATTTTAATATTTAATTATATAAA
Found at i:332183 original size:24 final size:24
Alignment explanation
Indices: 332139--332187 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
332129 TATATTTTGT
*
332139 TATTTAATTTATAAAATATTTTAA
1 TATTTAATTTATAAAACATTTTAA
*
332163 TATTTAA-TTATATATACATTTTAA
1 TATTTAATTTATA-AAACATTTTAA
332187 T
1 T
332188 TTAACGTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTAATTTATAAAACATTTTAA
Found at i:333089 original size:51 final size:49
Alignment explanation
Indices: 333034--333176 Score: 156
Period size: 51 Copynumber: 3.0 Consensus size: 49
333024 CTACCTTGTA
*
333034 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
1 ACATGTAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
* * * *
333083 TTACATG-AATCGCATCCATTATTAACTTGGACCACTCAACGAGCTCGGATG
1 --ACATGTAA-CGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
*
333134 -C---T--CGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATG
1 ACATGTAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
333177 CCACATATCT
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
43 36 0.45
48 1 0.01
50 2 0.03
51 41 0.51
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (49 bp):
ACATGTAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
Done.