Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 269 of 332
Found at i:89905780 original size:125 final size:125
Alignment explanation
Indices: 89905534--89905802 Score: 296
Period size: 125 Copynumber: 2.2 Consensus size: 125
89905524 ATTCGAGAAA
* * * *
89905534 TCGTGTCCTAACGTACTGGGTTTCGATTTTTCGTTTGATCTAAGTAACCGATTATCCTTTTAAAT
1 TCGTGTCCTAACGTACTGGGTTTCAATTTTTCATTTGATCTAAATAACCGAATATCCTTTTAAAT
* ** * * *
89905599 TAAAATACATGAGTTTTAAATTAAATAAAGGCAATATTTCGTATTTAGAAATTCGAGGAG
66 TAAAATACATGAGTTTTAAATGAAATAAAGGCAATAGCTCATATCTAGAAAGTCGAGGAG
*
89905659 TCGTG-CCTTAACGTACTGGGTTTCAA-TTTTCTATTTGATCTAAATATCCGAATATCCTTTTTA
1 TCGTGTCC-TAACGTACTGGGTTTCAATTTTTC-ATTTGATCTAAATAACCGAATATCC-TTTT-
* * * ** *
89905722 AAATTTACATACATGAGTTTTAAATGAAATAGAAGGC-A-AGCTCATA-CTCGAGGGTCGAGGTG
62 AAATTAAAATACATGAGTTTTAAATGAAATA-AAGGCAATAGCTCATATCTAGAAAGTCGAGGAG
*
89905784 TTGTGTCCTAACGTACTGG
1 TCGTGTCCTAACGTACTGG
89905803 ATATAACATT
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
124 7 0.06
125 68 0.57
126 11 0.09
127 29 0.24
128 5 0.04
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (125 bp):
TCGTGTCCTAACGTACTGGGTTTCAATTTTTCATTTGATCTAAATAACCGAATATCCTTTTAAAT
TAAAATACATGAGTTTTAAATGAAATAAAGGCAATAGCTCATATCTAGAAAGTCGAGGAG
Found at i:89906714 original size:13 final size:13
Alignment explanation
Indices: 89906696--89906734 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
89906686 AATAAATATT
89906696 AAATTAAATTAAA
1 AAATTAAATTAAA
89906709 AAATTAAATTTAAA
1 AAATTAAA-TTAAA
* *
89906723 TATTTAAATTAA
1 AAATTAAATTAA
89906735 GGCTCCATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTAAATTAAA
Found at i:89908295 original size:10 final size:10
Alignment explanation
Indices: 89908280--89908328 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
89908270 TGTAGAGCAT
89908280 AATCAGTATG
1 AATCAGTATG
89908290 AATCAGTATG
1 AATCAGTATG
89908300 -A--AGTGAT-
1 AATCAGT-ATG
*
89908307 AATCAATATG
1 AATCAGTATG
89908317 AATCAGTATG
1 AATCAGTATG
89908327 AA
1 AA
89908329 GTGAGCGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
7 3 0.09
8 3 0.09
9 3 0.09
10 23 0.72
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (10 bp):
AATCAGTATG
Found at i:89908316 original size:27 final size:27
Alignment explanation
Indices: 89908278--89908332 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
89908268 TTTGTAGAGC
*
89908278 ATAATCAGTATGAATCAGTATGAAGTG
1 ATAATCAATATGAATCAGTATGAAGTG
89908305 ATAATCAATATGAATCAGTATGAAGTG
1 ATAATCAATATGAATCAGTATGAAGTG
89908332 A
1 A
89908333 GCGGTCTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (27 bp):
ATAATCAATATGAATCAGTATGAAGTG
Found at i:89917535 original size:22 final size:23
Alignment explanation
Indices: 89917500--89917550 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
89917490 TGTGTTTTCA
89917500 ATTTTTTCT-AAAAATA-AAAACT
1 ATTTTTTCTAAAAAATAGAAAA-T
89917522 ATTTTTT-TAAAAAAATAGAAAAT
1 ATTTTTTCT-AAAAAATAGAAAAT
89917545 ATTTTT
1 ATTTTT
89917551 AAAAATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTTTTTCTAAAAAATAGAAAAT
Found at i:89921231 original size:21 final size:21
Alignment explanation
Indices: 89921185--89921231 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
89921175 AAACGAGAAG
*
89921185 ATTCAGCCTAGTAGAGGTATT
1 ATTCGGCCTAGTAGAGGTATT
*
89921206 ATTCGGCCTAGTGGAGGTATT
1 ATTCGGCCTAGTAGAGGTATT
89921227 ATTCG
1 ATTCG
89921232 ACAAGCTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (21 bp):
ATTCGGCCTAGTAGAGGTATT
Found at i:89927345 original size:121 final size:121
Alignment explanation
Indices: 89927131--89927491 Score: 708
Period size: 119 Copynumber: 3.0 Consensus size: 121
89927121 CCGTATCTCT
89927131 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
1 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
89927196 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACA
66 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACA
89927252 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
1 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
89927317 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTG--CACACACACACACACACA
66 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACA
89927371 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
1 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
89927436 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACA
66 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACA
89927492 TACAAACGCA
Statistics
Matches: 238, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
119 119 0.50
121 119 0.50
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (121 bp):
CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACA
Found at i:89927479 original size:2 final size:2
Alignment explanation
Indices: 89927472--89927519 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
89927462 ATTCAAACTG
* * * *
89927472 CA CA CA CA CA CA CA CA CA CA TA CA AA CG CA GA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
89927514 CA CA CA
1 CA CA CA
89927520 TACATACAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.44, G:0.04, T:0.02
Consensus pattern (2 bp):
CA
Found at i:89927513 original size:32 final size:32
Alignment explanation
Indices: 89927472--89927537 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
89927462 ATTCAAACTG
89927472 CACACACACACACACACACATACAAACGCAGA
1 CACACACACACACACACACATACAAACGCAGA
* *
89927504 CACACACACACACACATACATACAAATGCAGA
1 CACACACACACACACACACATACAAACGCAGA
89927536 CA
1 CA
89927538 AAGGAATGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (32 bp):
CACACACACACACACACACATACAAACGCAGA
Found at i:89931899 original size:11 final size:10
Alignment explanation
Indices: 89931883--89931924 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
89931873 ATTCAAAATA
89931883 AATAAATTATT
1 AATAAATT-TT
89931894 AATAAATTTT
1 AATAAATTTT
89931904 AA-AAATTTT
1 AATAAATTTT
*
89931913 -ATAAAATTT
1 AATAAATTTT
89931922 AAT
1 AAT
89931925 TCAATTCGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 1 0.04
9 13 0.46
10 6 0.21
11 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AATAAATTTT
Found at i:89933211 original size:9 final size:9
Alignment explanation
Indices: 89933182--89933212 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
89933172 TAAAATTTAC
89933182 AATTCGAAT
1 AATTCGAAT
*
89933191 AACTCGAAT
1 AATTCGAAT
89933200 AATTCGAAT
1 AATTCGAAT
89933209 AATT
1 AATT
89933213 AAAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:89933265 original size:11 final size:11
Alignment explanation
Indices: 89933242--89933291 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
89933232 TAAAAATTAT
89933242 AAAAATTTC-A
1 AAAAATTTCTA
89933252 AAAAATTTCTA
1 AAAAATTTCTA
* *
89933263 AAAAATATATA
1 AAAAATTTCTA
*
89933274 AAGAAAGTT-TA
1 AA-AAATTTCTA
89933285 AAAAATT
1 AAAAATT
89933292 AAAATCTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 13 0.39
11 16 0.48
12 4 0.12
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (11 bp):
AAAAATTTCTA
Found at i:89935367 original size:26 final size:25
Alignment explanation
Indices: 89935326--89935377 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
89935316 CACTTCTTAT
89935326 AAAATATTTATCATTTCAAA-AATTA
1 AAAATATTTATCATTT-AAATAATTA
89935351 AAAATTATTCTAT-ATTTAAATAATTA
1 AAAA-TATT-TATCATTTAAATAATTA
89935377 A
1 A
89935378 TTGATGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 7 0.29
26 14 0.58
27 3 0.12
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (25 bp):
AAAATATTTATCATTTAAATAATTA
Found at i:89935633 original size:20 final size:19
Alignment explanation
Indices: 89935600--89935645 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
89935590 TGGGTTCTGA
* *
89935600 AAAAATTATTAAAATTTCT
1 AAAAATTATAAAAAATTCT
89935619 AAAAATATATAAAAAATTCT
1 AAAAAT-TATAAAAAATTCT
*
89935639 TAAAATT
1 AAAAATT
89935646 CATTATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTATAAAAAATTCT
Found at i:89943337 original size:74 final size:74
Alignment explanation
Indices: 89943157--89943343 Score: 239
Period size: 74 Copynumber: 2.5 Consensus size: 74
89943147 CTAACGGAAG
* * *
89943157 TTGCGCCTAGCACTAGTCGGATGAACCGACAAATAAATAGTGAGCCCAACTCTAGTTGGATATAC
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACGAATAAATAGTGAGCCCAACTCTAGTTGGATATAC
89943222 CAAAGATAT
66 CAAAGATAT
** * * * *
89943231 TTGCGCCTAATGCTAGTCGAATAAGCCGACGAATAAATAGTGAGCCTAGCTCTAGTTGGATATAC
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACGAATAAATAGTGAGCCCAACTCTAGTTGGATATAC
* *
89943296 TAACGATAT
66 CAAAGATAT
* * * *
89943305 TTGTGCCTAGCGCTAATCGGATAAACCAACGAAAAAATA
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACGAATAAATA
89943344 ATTATTTATT
Statistics
Matches: 94, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 94 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (74 bp):
TTGCGCCTAGCGCTAGTCGGATAAACCGACGAATAAATAGTGAGCCCAACTCTAGTTGGATATAC
CAAAGATAT
Found at i:89943860 original size:21 final size:21
Alignment explanation
Indices: 89943834--89943889 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
89943824 CCCATGTGAC
89943834 TCACACAGCCGTGTCACT-GG
1 TCACACAGCCGTGTCACTAGG
* *
89943854 ATCACACAGCCATGTCGCTAGG
1 -TCACACAGCCGTGTCACTAGG
*
89943876 TCACACGGCCGTGT
1 TCACACAGCCGTGT
89943890 TGAGAGCCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.21, C:0.34, G:0.25, T:0.20
Consensus pattern (21 bp):
TCACACAGCCGTGTCACTAGG
Found at i:89945285 original size:18 final size:20
Alignment explanation
Indices: 89945244--89945290 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
89945234 TATTCCAAGC
* *
89945244 TCAATATCAGTCAATATTTT
1 TCAATATCAATCAATATTTA
89945264 TCAATATCAATC-A-ATTTA
1 TCAATATCAATCAATATTTA
89945282 TCAATATCA
1 TCAATATCA
89945291 TTCAGTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 1 0.04
20 11 0.44
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (20 bp):
TCAATATCAATCAATATTTA
Found at i:89949323 original size:13 final size:13
Alignment explanation
Indices: 89949305--89949329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89949295 AATTCCAATT
89949305 TAGTCCCTAAACC
1 TAGTCCCTAAACC
89949318 TAGTCCCTAAAC
1 TAGTCCCTAAAC
89949330 AAAGACTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (13 bp):
TAGTCCCTAAACC
Found at i:89949748 original size:25 final size:25
Alignment explanation
Indices: 89949698--89949750 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
89949688 AAAACCCCAA
*
89949698 TTTCTCCTTCTTTTTTCTTTCTTTC
1 TTTCTCCTTCTTTTTTCTTTCGTTC
89949723 TTTC-CCTTCTTTGTTTCGTTT-GTTC
1 TTTCTCCTTCTTT-TTTC-TTTCGTTC
89949748 TTT
1 TTT
89949751 TTTTTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 14 0.56
26 3 0.12
ACGTcount: A:0.00, C:0.25, G:0.06, T:0.70
Consensus pattern (25 bp):
TTTCTCCTTCTTTTTTCTTTCGTTC
Found at i:89951884 original size:2 final size:2
Alignment explanation
Indices: 89951877--89951913 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
89951867 TCCCATCTAT
89951877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89951914 CCTTTTATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89952564 original size:30 final size:30
Alignment explanation
Indices: 89952530--89952592 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
89952520 ACTTATTTTA
89952530 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
89952560 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
89952590 TTG
1 TTG
89952593 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:89971728 original size:20 final size:19
Alignment explanation
Indices: 89971691--89971729 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
89971681 ATTTTTTAGA
* *
89971691 ATTTTTTATAAAATAAATT
1 ATTTTATATAAAACAAATT
89971710 ATTTTATATCAAAACAAATT
1 ATTTTATAT-AAAACAAATT
89971730 CACTTCCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTATATAAAACAAATT
Found at i:89973132 original size:5 final size:5
Alignment explanation
Indices: 89973122--89973146 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
89973112 GATTCGATAT
89973122 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
89973147 GAGCTTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:89985527 original size:20 final size:19
Alignment explanation
Indices: 89985490--89985528 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
89985480 ATTTTTTAGA
* *
89985490 ATTTTTTATAAAATAAATT
1 ATTTTATATAAAACAAATT
89985509 ATTTTATATCAAAACAAATT
1 ATTTTATAT-AAAACAAATT
89985529 CACTTCCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTATATAAAACAAATT
Found at i:89986931 original size:5 final size:5
Alignment explanation
Indices: 89986921--89986945 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
89986911 GATTCGATAT
89986921 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
89986946 GAGCTTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:90078002 original size:18 final size:20
Alignment explanation
Indices: 90077971--90078007 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
90077961 ATTTTGCAGT
90077971 ACAATTATATTAAA-AGTAA
1 ACAATTATATTAAAGAGTAA
90077990 ACAATTA-ATTAAAGAGTA
1 ACAATTATATTAAAGAGTA
90078008 GTAAAGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (20 bp):
ACAATTATATTAAAGAGTAA
Found at i:90084552 original size:44 final size:44
Alignment explanation
Indices: 90084489--90084576 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
90084479 GGAAGTAGTT
90084489 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
1 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
90084533 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
1 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
90084577 ATCTTTTGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (44 bp):
TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
Found at i:90090112 original size:3 final size:3
Alignment explanation
Indices: 90090104--90090147 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
90090094 CTCTGGAGCT
90090104 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
90090148 TAAGTTCTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:90099239 original size:15 final size:17
Alignment explanation
Indices: 90099221--90099255 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
90099211 TATATTCTTA
90099221 AAAAATA-TT-AAAAAT
1 AAAAATATTTAAAAAAT
90099236 AAAAATATTTAAAAAAT
1 AAAAATATTTAAAAAAT
90099253 AAA
1 AAA
90099256 GAAAATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 2 0.11
17 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATATTTAAAAAAT
Found at i:90099240 original size:16 final size:18
Alignment explanation
Indices: 90099219--90099255 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
90099209 TATATATTCT
90099219 TAAAAAATA-TT-AAAAA
1 TAAAAAATATTTAAAAAA
90099235 T-AAAAATATTTAAAAAA
1 TAAAAAATATTTAAAAAA
90099252 TAAA
1 TAAA
90099256 GAAAATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.39
16 3 0.17
17 6 0.33
18 2 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAATATTTAAAAAA
Found at i:90100433 original size:14 final size:15
Alignment explanation
Indices: 90100416--90100456 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
90100406 TTATTTATTA
90100416 AATTAATTTT-AATT
1 AATTAATTTTCAATT
90100430 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
90100446 AAATAATTTTC
1 AATTAATTTTC
90100457 TCATCCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:90100447 original size:16 final size:15
Alignment explanation
Indices: 90100416--90100455 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
90100406 TTATTTATTA
90100416 AATTAA-TTTTAATT
1 AATTAATTTTTAATT
90100430 AATTAATTTTTCAATT
1 AATTAATTTTT-AATT
*
90100446 AAATAATTTT
1 AATTAATTTT
90100456 CTCATCCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 4 0.17
16 13 0.57
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATTTTTAATT
Found at i:90103297 original size:23 final size:23
Alignment explanation
Indices: 90103263--90103306 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
90103253 AAGAGAAGGT
*
90103263 ATCAAACGTTGTCAGACATGGGA
1 ATCAAACCTTGTCAGACATGGGA
90103286 ATCAAACCTTGTCAGACATGG
1 ATCAAACCTTGTCAGACATGG
90103307 TTCGTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
ATCAAACCTTGTCAGACATGGGA
Found at i:90104465 original size:28 final size:28
Alignment explanation
Indices: 90104434--90104487 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
90104424 CTTTTTCCAT
90104434 CTGCATTTATTTTCTTCTTATAGATCTA
1 CTGCATTTATTTTCTTCTTATAGATCTA
90104462 CTGCATTTATTTTCTTCTTATAGATC
1 CTGCATTTATTTTCTTCTTATAGATC
90104488 CACTTACACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.07, T:0.54
Consensus pattern (28 bp):
CTGCATTTATTTTCTTCTTATAGATCTA
Found at i:90105604 original size:19 final size:18
Alignment explanation
Indices: 90105576--90105614 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
90105566 GGTGATGAAA
* *
90105576 AATTATAATGTATGAAAAT
1 AATTAAAATGCAT-AAAAT
90105595 AATTAAAATGCATAAAAT
1 AATTAAAATGCATAAAAT
90105613 AA
1 AA
90105615 AGACAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (18 bp):
AATTAAAATGCATAAAAT
Found at i:90107303 original size:18 final size:17
Alignment explanation
Indices: 90107280--90107313 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
90107270 TCAGAAGAGT
*
90107280 ATCGATATCTTGTACAAC
1 ATCGATA-CTTATACAAC
90107298 ATCGATACTTATACAA
1 ATCGATACTTATACAA
90107314 AAAGTATCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (17 bp):
ATCGATACTTATACAAC
Found at i:90108605 original size:28 final size:28
Alignment explanation
Indices: 90108565--90108623 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
90108555 ATTTTGCCAC
*
90108565 CATGAACTTCCACTATGGTACCTGTTAA
1 CATGAACTTCCACTATCGTACCTGTTAA
*
90108593 CATGGACTTCCACTATCGTACCTGTTAA
1 CATGAACTTCCACTATCGTACCTGTTAA
90108621 CAT
1 CAT
90108624 TAATGTTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (28 bp):
CATGAACTTCCACTATCGTACCTGTTAA
Found at i:90110170 original size:10 final size:10
Alignment explanation
Indices: 90110155--90110190 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
90110145 TCCAACTTTA
90110155 TCATTTCTAT
1 TCATTTCTAT
90110165 TCATTTCTAT
1 TCATTTCTAT
*
90110175 TCATTTCTGT
1 TCATTTCTAT
90110185 TCATTT
1 TCATTT
90110191 GATTCAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.03, T:0.61
Consensus pattern (10 bp):
TCATTTCTAT
Found at i:90114105 original size:43 final size:43
Alignment explanation
Indices: 90114039--90114130 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
90114029 TTTAATTTAG
*
90114039 ATTGATAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
1 ATTGTTAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
90114082 ATTGTTAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
1 ATTGTTAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
90114125 ATTGTT
1 ATTGTT
90114131 TTGCTTCTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (43 bp):
ATTGTTAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
Found at i:90115131 original size:20 final size:20
Alignment explanation
Indices: 90115106--90115146 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
90115096 TCATTTTCAC
90115106 CCATGGTAATTTATG-CTTGA
1 CCATGGTAATTT-TGACTTGA
90115126 CCATGGTAATTTTGACTTGA
1 CCATGGTAATTTTGACTTGA
90115146 C
1 C
90115147 ATGTGGTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
CCATGGTAATTTTGACTTGA
Found at i:90116965 original size:23 final size:23
Alignment explanation
Indices: 90116864--90116969 Score: 86
Period size: 23 Copynumber: 4.6 Consensus size: 23
90116854 GATTAACATG
* **
90116864 CATAAAGCACTGAATATAACATG
1 CATAAAGCATTGAATATAACACA
* * **
90116887 CACAAGGTGTTGAATATAACACA
1 CATAAAGCATTGAATATAACACA
* ** *
90116910 CATATAGTGTTGAATGTAACACA
1 CATAAAGCATTGAATATAACACA
* * *
90116933 TACAAGGCATTGAATATAACACA
1 CATAAAGCATTGAATATAACACA
90116956 CATAAAGCATTGAA
1 CATAAAGCATTGAA
90116970 ACTCCCACCT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (23 bp):
CATAAAGCATTGAATATAACACA
Found at i:90116969 original size:46 final size:46
Alignment explanation
Indices: 90116864--90116969 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 46
90116854 GATTAACATG
* ** **
90116864 CATAAAGCACTGAATATAACATGCACAAGGTGTTGAATATAACACA
1 CATAAAGCATTGAATATAACACACACAAGGCATTGAATATAACACA
* ** * *
90116910 CATATAGTGTTGAATGTAACACATACAAGGCATTGAATATAACACA
1 CATAAAGCATTGAATATAACACACACAAGGCATTGAATATAACACA
90116956 CATAAAGCATTGAA
1 CATAAAGCATTGAA
90116970 ACTCCCACCT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (46 bp):
CATAAAGCATTGAATATAACACACACAAGGCATTGAATATAACACA
Found at i:90117532 original size:5 final size:5
Alignment explanation
Indices: 90117522--90117603 Score: 150
Period size: 5 Copynumber: 16.8 Consensus size: 5
90117512 AAGTAAAAAA
90117522 AATAT AATAT AATAT -A-AT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
90117570 AATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATA
90117604 AAGTTAAATG
Statistics
Matches: 75, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 71 0.95
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:90118500 original size:35 final size:35
Alignment explanation
Indices: 90118443--90118560 Score: 121
Period size: 35 Copynumber: 3.4 Consensus size: 35
90118433 GGCACCCCAT
* * *
90118443 TTATCGATTATACTGACTAGTGCTGGGCACATTTA
1 TTATCGATTTTACCGACCAGTGCTGGGCACATTTA
* * * *
90118478 TTTTCGGTTTTACCGACCAGTGCTGAGCCCA-TTA
1 TTATCGATTTTACCGACCAGTGCTGGGCACATTTA
* * * * *
90118512 TTGTCGATTATACTGATCAGTGCTAGGCACATTTA
1 TTATCGATTTTACCGACCAGTGCTGGGCACATTTA
90118547 TTATCGATTTTACC
1 TTATCGATTTTACC
90118561 AGCTATTGTA
Statistics
Matches: 64, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
34 26 0.41
35 38 0.59
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (35 bp):
TTATCGATTTTACCGACCAGTGCTGGGCACATTTA
Found at i:90119246 original size:8 final size:8
Alignment explanation
Indices: 90119235--90119266 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
90119225 TTATTTTTAG
90119235 TATATTAT
1 TATATTAT
90119243 TATATTAT
1 TATATTAT
90119251 TATATTAT
1 TATATTAT
90119259 TATATTAT
1 TATATTAT
90119267 AAAGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:90119320 original size:5 final size:5
Alignment explanation
Indices: 90119240--90119312 Score: 55
Period size: 5 Copynumber: 14.6 Consensus size: 5
90119230 TTTAGTATAT
** *
90119240 TATTA TATTA T-TATA TTATTA TATTA TAAAGA TATTT TATGT- T-TTA
1 TATTA TATTA TAT-TA -TATTA TATTA T-ATTA TATTA TAT-TA TATTA
90119286 -ATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
90119313 AAATTAAAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
3 1 0.02
4 5 0.09
5 41 0.75
6 7 0.13
7 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:90119665 original size:15 final size:15
Alignment explanation
Indices: 90119642--90119689 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
90119632 TTTATTAAAT
*
90119642 TTATATTGATTGAAA
1 TTATTTTGATTGAAA
90119657 TTATTTTGATTGAAA
1 TTATTTTGATTGAAA
90119672 TTATTTTGATTG-AA
1 TTATTTTGATTGAAA
90119686 TTAT
1 TTAT
90119690 ATAATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 6 0.19
15 26 0.81
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (15 bp):
TTATTTTGATTGAAA
Found at i:90120110 original size:21 final size:21
Alignment explanation
Indices: 90120075--90120145 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
90120065 AGGCACTTTA
90120075 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
90120098 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
90120119 TGTGTTGTATCAAGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
90120140 TGTGTC
1 TGTGTC
90120146 ATTTTAGGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 36 0.80
23 9 0.20
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:90120156 original size:21 final size:21
Alignment explanation
Indices: 90120086--90120156 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
90120076 GTGTCGTATT
*
90120086 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCATA
**
90120107 TCAGGCACCTCGTGTGTTGTA
1 TCAGGCACCTCGTGTGTCATA
* *
90120128 TCAAGCACCTCGTGTGTCATT
1 TCAGGCACCTCGTGTGTCATA
*
90120149 TTAGGCAC
1 TCAGGCAC
90120157 TTTATGTGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCATA
Found at i:90120165 original size:42 final size:42
Alignment explanation
Indices: 90120062--90120170 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
90120052 GGCTTTATTG
* *
90120062 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAAGCACCTCGTGTGTCAT
* ** *
90120106 ATCAGGCACCTCGTGTGTTGTATCAAGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGTATCAAGCACCTCGTGTGTCAT
* *
90120148 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
90120171 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 35 0.66
44 18 0.34
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAAGCACCTCGTGTGTCAT
Found at i:90121375 original size:11 final size:11
Alignment explanation
Indices: 90121359--90121390 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
90121349 TACATGCCAT
*
90121359 AATTGAGTTGA
1 AATTGAGTCGA
90121370 AATTGAGTCGA
1 AATTGAGTCGA
90121381 AATTGAGTCG
1 AATTGAGTCG
90121391 GGATCGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (11 bp):
AATTGAGTCGA
Found at i:90125145 original size:15 final size:15
Alignment explanation
Indices: 90125125--90125181 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
90125115 CGATGAATTT
90125125 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
90125140 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
90125155 ATTGAATTTATATTG
1 ATTGAATTTATATTG
90125170 ATTGAA-TTATAT
1 ATTGAATTTATAT
90125182 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:90125602 original size:21 final size:21
Alignment explanation
Indices: 90125578--90125660 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 21
90125568 GTCGTATTTT
90125578 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
*
90125599 AGGCACCTCGTGTGTTGTATC
1 AGGCACCTCGTGTGTCGTATC
* *
90125620 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCGTGTGTCGTATC
* **
90125641 AGGCACTTTATGTGTCGTAT
1 AGGCACCTCGTGTGTCGTAT
90125661 ACTGATCAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.14, C:0.23, G:0.28, T:0.35
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTATC
Found at i:90125655 original size:42 final size:42
Alignment explanation
Indices: 90125552--90125660 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
90125542 GGCTTTATCG
*
90125552 ATCAGGCACTTTATGTGTCGTATTTTAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
* ** *
90125596 ATCAGGCACCTCGTGTGTTGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
* *
90125638 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
90125661 ACTGATCAAG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.38
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:90129535 original size:8 final size:8
Alignment explanation
Indices: 90129522--90129551 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
90129512 AGATTGGCAC
90129522 AAGCCGAA
1 AAGCCGAA
90129530 AAGCCGAA
1 AAGCCGAA
*
90129538 ATGCCGAA
1 AAGCCGAA
90129546 AAGCCG
1 AAGCCG
90129552 GTATTTTGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:90130023 original size:32 final size:27
Alignment explanation
Indices: 90129941--90130027 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
90129931 AGGAAGCGTC
*
90129941 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
90129968 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
90129995 CTGGTGGCTCTGCTACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
90130022 CTGGTG
1 CTGGTG
90130028 ACTTCGTCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 7 0.13
27 46 0.85
28 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:90131537 original size:23 final size:22
Alignment explanation
Indices: 90131478--90131548 Score: 61
Period size: 27 Copynumber: 2.9 Consensus size: 22
90131468 AAAATTATTA
90131478 AAAATCTATAAAAATATTTAAATATGT
1 AAAA-CTA-AAAAAT-TTTAAA-AT-T
*
90131505 ATAAATCTAAAAATTTCTTAAAATT
1 A-AAA-CTAAAAAATT-TTAAAATT
90131530 AAAACTAAAAAATTTTAAA
1 AAAACTAAAAAATTTTAAA
90131549 CTAACATTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 5 0.12
23 9 0.22
24 3 0.08
25 2 0.05
26 3 0.08
27 11 0.28
28 7 0.17
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (22 bp):
AAAACTAAAAAATTTTAAAATT
Found at i:90139863 original size:10 final size:10
Alignment explanation
Indices: 90139848--90139897 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
90139838 TAATTTTAGG
90139848 ATTTAT-TTT
1 ATTTATCTTT
90139857 CATTTATCTTT
1 -ATTTATCTTT
90139868 ATTTATCTTT
1 ATTTATCTTT
90139878 ATTTAT-TTGT
1 ATTTATCTT-T
90139888 ATTTATCTTT
1 ATTTATCTTT
90139898 TAGTATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:90145448 original size:24 final size:24
Alignment explanation
Indices: 90145380--90145475 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 24
90145370 GTAGTTTCGC
90145380 TTGAATAAAATGAAAAGGACTAAA
1 TTGAATAAAATGAAAAGGACTAAA
**
90145404 TTG--T-AAAT-ATTAGAGACTAAA
1 TTGAATAAAATGAAAAG-GACTAAA
* *
90145425 TTGAGTAAAATGAAAAGGATTAAA
1 TTGAATAAAATGAAAAGGACTAAA
*
90145449 TTGAATAAAATGAAAAAGACTAAA
1 TTGAATAAAATGAAAAGGACTAAA
90145473 TTG
1 TTG
90145476 TAAATATTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.05
21 14 0.24
22 1 0.02
23 1 0.02
24 37 0.63
25 3 0.05
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.26
Consensus pattern (24 bp):
TTGAATAAAATGAAAAGGACTAAA
Found at i:90147691 original size:15 final size:15
Alignment explanation
Indices: 90147667--90147699 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
90147657 ATAATGGTCC
90147667 TATCCCGGCATGACA
1 TATCCCGGCATGACA
*
90147682 TATCCTGGCATGACA
1 TATCCCGGCATGACA
90147697 TAT
1 TAT
90147700 GAAATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (15 bp):
TATCCCGGCATGACA
Found at i:90152486 original size:46 final size:46
Alignment explanation
Indices: 90152410--90152807 Score: 546
Period size: 46 Copynumber: 8.6 Consensus size: 46
90152400 TGATGTCATA
* * * *
90152410 GTATCTTTCAACTATAGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATG
* *
90152456 GTATCTTTCAACCATGGTCTTATTCATTTTCTTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
* * *
90152503 GTATCTTTCAAACATGATCTTACTCATTTCATGTCATGTTTCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* **
90152549 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
*
90152596 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
90152642 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
90152688 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
90152734 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* *
90152780 GTATTTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
90152808 CCATATCAGA
Statistics
Matches: 322, Mismatches: 27, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
46 242 0.75
47 80 0.25
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
Found at i:90152538 original size:93 final size:92
Alignment explanation
Indices: 90152410--90152807 Score: 555
Period size: 93 Copynumber: 4.3 Consensus size: 92
90152400 TGATGTCATA
* * * * *
90152410 GTATCTTTCAACTATAGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGT
* *
90152474 CTTATTCATTTTCTTGTCATGTTGCCATG
65 CTTATTCA-TTTCATATCATGTTGCCATG
* * * *
90152503 GTATCTTTCAAACATGATCTTACTCATTTCATGTCATGTTTCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTC
***
90152568 TTATTCATTTTCCCGTCATGTTGCCATG
66 TTATTCA-TTTCATATCATGTTGCCATG
* *
90152596 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTC
*
90152661 TTATTCATTTCATATCACGTTGCCATG
66 TTATTCATTTCATATCATGTTGCCATG
* *
90152688 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTC
** *
90152753 TTACACATTTCATATCAGGTTGCCATG
66 TTATTCATTTCATATCATGTTGCCATG
*
90152780 GTATTTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACACATT
90152808 CCATATCAGA
Statistics
Matches: 280, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
92 133 0.47
93 147 0.52
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTC
TTATTCATTTCATATCATGTTGCCATG
Found at i:90161267 original size:23 final size:24
Alignment explanation
Indices: 90161238--90161290 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
90161228 CAAAATTATT
*
90161238 ATAAAT-ATATAGAATTTTAA-AAA
1 ATAAATAATAT-GAATTATAACAAA
*
90161261 TTAAATAATATGAATTATAACAAA
1 ATAAATAATATGAATTATAACAAA
90161285 ATAAAT
1 ATAAAT
90161291 TTATGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
ATAAATAATATGAATTATAACAAA
Found at i:90164556 original size:13 final size:13
Alignment explanation
Indices: 90164517--90164564 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
90164507 AGCCAAAAAG
* *
90164517 AAAAATAAAAAAA
1 AAAAATAATACAA
90164530 TAAAAATCAATACAA
1 -AAAAAT-AATACAA
*
90164545 AATAATAATACAA
1 AAAAATAATACAA
90164558 AAAAATA
1 AAAAATA
90164565 TAAATGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 13 0.45
14 11 0.38
15 5 0.17
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAATACAA
Found at i:90165515 original size:22 final size:22
Alignment explanation
Indices: 90165487--90165536 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
90165477 CCAAAAACCA
*
90165487 ACTCAACCTAGGTATATGTCAT
1 ACTCAACCTAGGTATATGCCAT
90165509 ACTCAACCTAGGTATATGCCAT
1 ACTCAACCTAGGTATATGCCAT
90165531 ACTCAA
1 ACTCAA
90165537 AACGAAACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (22 bp):
ACTCAACCTAGGTATATGCCAT
Found at i:90171992 original size:26 final size:26
Alignment explanation
Indices: 90171951--90172022 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
90171941 TCTCATCCCT
* *
90171951 ATTTTA-CCCTTATAAAATTTTGACG
1 ATTTTACCCCTGATAAAATTTTAACG
*
90171976 ATTTTACCCCTGATAAAATTTTAATG
1 ATTTTACCCCTGATAAAATTTTAACG
* * *
90172002 ATTTTGCCCTTGGTAAAATTT
1 ATTTTACCCCTGATAAAATTT
90172023 CAAAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 6 0.15
26 34 0.85
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (26 bp):
ATTTTACCCCTGATAAAATTTTAACG
Found at i:90176386 original size:20 final size:19
Alignment explanation
Indices: 90176361--90176412 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
90176351 AGAAAACATA
*
90176361 AAAAATTATTAAGAATTATC
1 AAAAATTATTAA-AAGTATC
*
90176381 AAAAA-T-TTAAAAGTATT
1 AAAAATTATTAAAAGTATC
90176398 AAAAATTATTTAAAA
1 AAAAATTA-TTAAAA
90176413 CAACAACCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 1 0.04
20 11 0.41
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAATTATTAAAAGTATC
Found at i:90176494 original size:20 final size:20
Alignment explanation
Indices: 90176469--90176525 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
90176459 TTTCTAAATT
*
90176469 AATTATAAAAAATGATAGAA
1 AATTATAAAAAATGATAAAA
*
90176489 AATTATTAAGAAAT-ATAAAA
1 AATTA-TAAAAAATGATAAAA
*
90176509 AATATATAAATAATGAT
1 AAT-TATAAAAAATGAT
90176526 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AATTATAAAAAATGATAAAA
Found at i:90176538 original size:30 final size:29
Alignment explanation
Indices: 90176504--90176577 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
90176494 TTAAGAAATA
90176504 TAAAAAATATATAAATAATGATTAATTTTTT
1 TAAAAAATATATAAA-AATGA-TAATTTTTT
* * *
90176535 AAAAAAAT-TATAAAATTTATAATTTTTT
1 TAAAAAATATATAAAAATGATAATTTTTT
90176563 TAAAAAAT-TATAAAA
1 TAAAAAATATATAAAA
90176578 TTTATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 23 0.59
29 3 0.08
30 6 0.15
31 7 0.18
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (29 bp):
TAAAAAATATATAAAAATGATAATTTTTT
Found at i:90176558 original size:28 final size:28
Alignment explanation
Indices: 90176526--90176583 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
90176516 AAATAATGAT
90176526 TAATTTTTTAAAAAAATTATAAAATTTA
1 TAATTTTTTAAAAAAATTATAAAATTTA
*
90176554 TAATTTTTTTAAAAAATTATAAAATTTA
1 TAATTTTTTAAAAAAATTATAAAATTTA
90176582 TA
1 TA
90176584 TATATGCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TAATTTTTTAAAAAAATTATAAAATTTA
Found at i:90176750 original size:11 final size:11
Alignment explanation
Indices: 90176691--90176757 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
90176681 CCTACTTTGT
*
90176691 TAATTTTTTAA
1 TAATTATTTAA
*
90176702 TAACTT-TTAAA
1 TAA-TTATTTAA
*
90176713 TAATT-TTCAA
1 TAATTATTTAA
*
90176723 TAATTATAT-A
1 TAATTATTTAA
*
90176733 CAATTATTTAA
1 TAATTATTTAA
90176744 TAATTATTTAA
1 TAATTATTTAA
90176755 TAA
1 TAA
90176758 ACAAACTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
10 19 0.41
11 25 0.54
12 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (11 bp):
TAATTATTTAA
Found at i:90176786 original size:10 final size:10
Alignment explanation
Indices: 90176771--90176852 Score: 68
Period size: 10 Copynumber: 8.5 Consensus size: 10
90176761 AACTGAACTT
90176771 TTTTTAATAA
1 TTTTTAATAA
90176781 TTTTTAATAA
1 TTTTTAATAA
90176791 -TTTTAA-AA
1 TTTTTAATAA
*
90176799 -TTTT-ATATT
1 TTTTTAATA-A
*
90176808 TTTTTTATAA
1 TTTTTAATAA
90176818 TTTTTAAT-A
1 TTTTTAATAA
*
90176827 TTTTAAAATAA
1 TTTT-TAATAA
90176838 -TTTTATATAA
1 TTTTTA-ATAA
90176848 TTTTT
1 TTTTT
90176853 TTCATAATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
7 1 0.02
8 7 0.12
9 12 0.20
10 31 0.53
11 8 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:90176802 original size:28 final size:28
Alignment explanation
Indices: 90176771--90176851 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 28
90176761 AACTGAACTT
90176771 TTTTTAATAATTTTTAATAATTTTAAAA
1 TTTTTAATAATTTTTAATAATTTTAAAA
* * *
90176799 -TTTT-ATATTTTTTTTATAATTTTTAATA
1 TTTTTAATA-ATTTTTAATAA-TTTTAAAA
*
90176827 TTTTAAAATAA-TTTTATATAATTTT
1 TTTT-TAATAATTTTTA-ATAATTTT
90176852 TTTCATAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
26 3 0.07
27 13 0.32
28 7 0.17
29 11 0.27
30 4 0.10
31 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTTAATAATTTTTAATAATTTTAAAA
Found at i:90176818 original size:37 final size:38
Alignment explanation
Indices: 90176769--90176867 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 38
90176759 CAAACTGAAC
*
90176769 TTTTTTTAATAATTTTTAATAATTTT-AA-AATTTTATA
1 TTTTTTTTATAATTTTTAAT-ATTTTAAATAATTTTATA
90176806 TTTTTTTTATAATTTTTAATATTTTAAAATAATTTTATA
1 TTTTTTTTATAATTTTTAATATTTT-AAATAATTTTATA
90176845 TAATTTTTTTCATAATTATTTAA
1 T--TTTTTTT-ATAATT-TTTAA
90176868 AAAAACCACA
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
36 5 0.09
37 19 0.35
38 2 0.04
39 10 0.19
41 7 0.13
42 6 0.11
43 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (38 bp):
TTTTTTTTATAATTTTTAATATTTTAAATAATTTTATA
Found at i:90176968 original size:32 final size:32
Alignment explanation
Indices: 90176932--90177034 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
90176922 ATTGGACAAC
*
90176932 TGTCTAGGTTCATTTGAATATAGACAATTATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
* *
90176964 TGTCTAGGTTCATTTGAATATAAACAACCATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
90176996 TGTCTAGGTTCATTTGAATATAGACAACTATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
90177028 TGTCTAG
1 TGTCTAG
90177035 ATTCGTCTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTCTAGGTTCATTTGAATATAGACAACTATT
Found at i:90178134 original size:16 final size:17
Alignment explanation
Indices: 90178102--90178134 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90178092 TTTATAAGTA
*
90178102 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
90178119 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
90178135 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:90178693 original size:46 final size:46
Alignment explanation
Indices: 90178415--90178692 Score: 380
Period size: 46 Copynumber: 6.0 Consensus size: 46
90178405 TTATCTTTGA
* * * * *
90178415 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* *
90178461 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* **
90178507 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
90178553 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
90178599 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
90178645 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
90178691 CA
1 CA
90178693 GAGAGCACAC
Statistics
Matches: 216, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 212 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:90180420 original size:10 final size:11
Alignment explanation
Indices: 90180398--90180430 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
90180388 CTCTACACTA
90180398 TTTCTCTTCAT
1 TTTCTCTTCAT
90180409 TTTCTCTT-AT
1 TTTCTCTTCAT
90180419 TTTCTCTTCAT
1 TTTCTCTTCAT
90180430 T
1 T
90180431 AACATATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTCTCTTCAT
Found at i:90182363 original size:26 final size:27
Alignment explanation
Indices: 90182299--90182364 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
90182289 CAATGATAAG
* *
90182299 GAAAGAAATAAAGAAAGAAAAGAAGGA
1 GAAAGAAACAAAGAAAGAAAAGAAGAA
*
90182326 GAAA-AAACAAAGAAAGTAAAGAA-AA
1 GAAAGAAACAAAGAAAGAAAAGAAGAA
90182351 GAAAGATAA-AAAGA
1 GAAAGA-AACAAAGA
90182365 GAAAAGGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 5 0.15
26 23 0.68
27 6 0.18
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.05
Consensus pattern (27 bp):
GAAAGAAACAAAGAAAGAAAAGAAGAA
Found at i:90184064 original size:90 final size:90
Alignment explanation
Indices: 90183898--90184077 Score: 263
Period size: 90 Copynumber: 2.0 Consensus size: 90
90183888 ATTTGATAAG
* * *
90183898 TCAAATTAGGCTTCCCCTTTATACTTAAGGAGCTTTGTAACACCGTTTACCCAGTTCAGTTGCTG
1 TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCGTTTACCCAGTTCAGTTACTG
*
90183963 GGCTCAGGCTACAAGATGCTACAGT
66 GACTCAGGCTACAAGATGCTACAGT
* ** *
90183988 TCAAATTAGGCTTCCCCGTTATACTTAGGGAGCTTTGCAACACTTTTTACCCGGTTCAGTTACTG
1 TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCGTTTACCCAGTTCAGTTACTG
*
90184053 GACTC-GAGCTACAGGATGCTACAGT
66 GACTCAG-GCTACAAGATGCTACAGT
90184078 AAATAACATA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 1 0.01
90 79 0.99
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (90 bp):
TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCGTTTACCCAGTTCAGTTACTG
GACTCAGGCTACAAGATGCTACAGT
Found at i:90184851 original size:23 final size:22
Alignment explanation
Indices: 90184807--90184851 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
90184797 AAATGCACCA
**
90184807 ATTCAACATCTCAAATTGTAAC
1 ATTCAACATCTCAAATACTAAC
*
90184829 ATTCAAGCCTCTCAAATACTAAC
1 ATTCAA-CATCTCAAATACTAAC
90184852 CAACATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (22 bp):
ATTCAACATCTCAAATACTAAC
Found at i:90186282 original size:10 final size:10
Alignment explanation
Indices: 90186267--90186294 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
90186257 ATTAGAGGAA
90186267 AAAGTAAAAC
1 AAAGTAAAAC
90186277 AAAGTAAAAC
1 AAAGTAAAAC
90186287 AAAGTAAA
1 AAAGTAAA
90186295 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:90186968 original size:25 final size:25
Alignment explanation
Indices: 90186940--90186991 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
90186930 TTTGGCTTGA
**
90186940 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
90186965 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
90186990 CA
1 CA
90186992 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:90193675 original size:19 final size:20
Alignment explanation
Indices: 90193648--90193685 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
90193638 TTTCATGATG
*
90193648 AAAATCTTCT-AAGTTTTCC
1 AAAAGCTTCTAAAGTTTTCC
90193667 AAAAGCTTCTAAAGTTTTC
1 AAAAGCTTCTAAAGTTTTC
90193686 GGTTTGGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAAGCTTCTAAAGTTTTCC
Found at i:90205418 original size:17 final size:17
Alignment explanation
Indices: 90205391--90205423 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
90205381 TGCATTTTTC
90205391 TGAATTGTG-AATAAAG
1 TGAATTGTGAAATAAAG
90205407 TGAATGTGTGAAATAAA
1 TGAAT-TGTGAAATAAA
90205424 ATTGTAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (17 bp):
TGAATTGTGAAATAAAG
Found at i:90211365 original size:44 final size:44
Alignment explanation
Indices: 90211303--90211397 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 44
90211293 TTAGCTCTCG
*
90211303 ATATAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATAT-ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
90211348 ATATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
*
90211392 CTATAT
1 ATATAT
90211398 CCGGACTTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 44 0.92
45 4 0.08
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (44 bp):
ATATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
Found at i:90219034 original size:131 final size:131
Alignment explanation
Indices: 90218795--90219077 Score: 304
Period size: 131 Copynumber: 2.2 Consensus size: 131
90218785 GAATTCTTTA
* * * * *
90218795 AAACAAAGGCGATATTCGATTCTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTAGGTTGCAAT
1 AAACGAAGGCGATATTTGATTCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAAT
** * * * * *
90218860 TTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGTCCTT-TGAAAATCCC
66 TTCTCGTTCACTCAAAATAATCAAAGATCCCTTTAAAATTTCACCCATGT-CTTCTAAAAATCCC
90218924 TT
130 TT
* * *
90218926 AAACGAAGGCGATATTTGATAT-TTGGTAACTCGCGGAATCGTGCCCTAAGGTGCTGGGTTGCAA
1 AAACGAAGGCGATATTTGAT-TCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAA
* * *
90218990 TTTCGT-GTTCACTTAAAATAATCAAATAT-CCTTTCAAAATTTCACTCATGTCTTCTAAAAATC
65 TTTC-TCGTTCACTCAAAATAATCAAAGATCCCTTT-AAAATTTCACCCATGTCTTCTAAAAATC
*
90219053 CTTT
128 CCTT
* *
90219057 AAGACGAAGGCAATACTTGAT
1 AA-ACGAAGGCGATATTTGAT
90219078 GTTCGAAAAT
Statistics
Matches: 126, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
130 8 0.06
131 100 0.79
132 18 0.14
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (131 bp):
AAACGAAGGCGATATTTGATTCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAAT
TTCTCGTTCACTCAAAATAATCAAAGATCCCTTTAAAATTTCACCCATGTCTTCTAAAAATCCCT
T
Found at i:90219095 original size:131 final size:131
Alignment explanation
Indices: 90218822--90219129 Score: 300
Period size: 131 Copynumber: 2.4 Consensus size: 131
90218812 GATTCTTGGC
* * ** * * *
90218822 AATTCGTGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGG
1 AATTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAATTTCTCGTTCACTCAAAATAATCAAAGA
* * * * * *
90218887 TCCCTTTAGAATTTCACCCATGTCCTTTGAAAATCCCTTAAACGAAGGCGATATTTGATATTTGG
66 TCCCTTTAAAATTTCACCCATGTCCTTTAAAAATCCCTTAAACGAAGGCAATACTTGATATTCGA
*
90218952 T
131 A
* * * * *
90218953 AACTCGCGGAATCGTGCCCTAAGGTGCTGGGTTGCAATTTCGT-GTTCACTTAAAATAATCAAAT
1 AATTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAATTTC-TCGTTCACTCAAAATAATCAAAG
* * *
90219017 AT-CCTTTCAAAATTTCACTCATGT-CTTCTAAAAATCCTTTAAGACGAAGGCAATACTTGATGT
65 ATCCCTTT-AAAATTTCACCCATGTCCTT-TAAAAATCCCTTAA-ACGAAGGCAATACTTGATAT
90219080 TCGAA
127 TCGAA
* * ** **
90219085 AATTCG-GGAATCATGCCCTATCGTGCCGGGTTGTGATTTCTCGTT
1 AATTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAATTTCTCGTT
90219130 TGTTCAAAAC
Statistics
Matches: 143, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
130 9 0.06
131 109 0.76
132 25 0.17
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (131 bp):
AATTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAATTTCTCGTTCACTCAAAATAATCAAAGA
TCCCTTTAAAATTTCACCCATGTCCTTTAAAAATCCCTTAAACGAAGGCAATACTTGATATTCGA
A
Found at i:90228253 original size:81 final size:81
Alignment explanation
Indices: 90228118--90228290 Score: 319
Period size: 81 Copynumber: 2.1 Consensus size: 81
90228108 CTACGAGCCT
* *
90228118 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGTTTCAACCGCTGAAGAAGGTGATCCGGA
1 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGTTGCAACCGCTGAAGAAGGTGATCCAGA
90228183 AGAACTTCCCTGGAAA
66 AGAACTTCCCTGGAAA
*
90228199 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGTTGCAACCGTTGAAGAAGGTGATCCAGA
1 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGTTGCAACCGCTGAAGAAGGTGATCCAGA
90228264 AGAACTTCCCTGGAAA
66 AGAACTTCCCTGGAAA
90228280 CTGAACTTCGA
1 CTGAACTTCGA
90228291 TAGGGCATCA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 89 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (81 bp):
CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGTTGCAACCGCTGAAGAAGGTGATCCAGA
AGAACTTCCCTGGAAA
Found at i:90231378 original size:131 final size:132
Alignment explanation
Indices: 90230950--90231460 Score: 767
Period size: 132 Copynumber: 3.9 Consensus size: 132
90230940 TACAGATATC
* *
90230950 GTTTCCCTGAAGTTGCAGTGAAGTAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCA
1 GTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCA
* * * * *
90231015 AATCAGAATTAGGCCACCAACCTAGCTCCTTAAAGTTGTAGTAGAATAGGCTAAAATTTTAGATC
66 AAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGATC
90231080 TT
131 TT
* *
90231082 GTTTCCCTGAAGTTGCAGTGAAGCGGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCA
1 GTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCA
*
90231147 AAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGATC
66 AAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGATC
90231212 TT
131 TT
* * *
90231214 GTTTCCCTGAAGTTGCAGTGAAG-AGGATTAAAGACGGCGAATCTTGGCTTCCTTAAGTTGCAGC
1 GTTTCCCTGAAGTTGCAGTGAAGCA-GATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGC
* *
90231278 GAAGCAGATTTAGGCCACCAACCTA-CTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGAT
65 AAAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGAT
90231342 CTT
130 CTT
* * * * *
90231345 GTTTCCCTGAAGTTGCAGTGGAA-CAGATCAAAGACGGTGGATCTAGTCTTCCTGAAGTTGCAGT
1 GTTTCCCTGAAGTTGCAGT-GAAGCAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGC
* ** *
90231409 GAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
65 AAAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
90231461 CGAAGATTGC
Statistics
Matches: 349, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
131 113 0.32
132 236 0.68
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
GTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCA
AAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGATC
TT
Found at i:90231431 original size:263 final size:264
Alignment explanation
Indices: 90230950--90231459 Score: 783
Period size: 263 Copynumber: 1.9 Consensus size: 264
90230940 TACAGATATC
* *
90230950 GTTTCCCTGAAGTTGCAGTGAAGTAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCA
1 GTTTCCCTGAAGTTGCAGTGAAGTAGATCAAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGCA
* *
90231015 AATCAGAATTAGGCCACCAACCTAGCTCCTTAAAGTTGTAGTAGAATAGGCTAAAATTTTAGATC
66 AAGCAGAATTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAATAGGCTAAAATTTTAGATC
* * *
90231080 TTGTTTCCCTGAAGTTGCAGTGAAGCGGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAG
131 TTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGTGAATCTAGGCTTCCTAAAGTTGCAG
** *
90231145 CAAAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGA
196 CAAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGA
90231210 TCTT
261 TCTT
* *
90231214 GTTTCCCTGAAGTTGCAGTGAAG-AGGATTAAAGACGGCGAATCTTGGCTTCCTTAAGTTGCAGC
1 GTTTCCCTGAAGTTGCAGTGAAGTA-GATCAAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGC
* * * * *
90231278 GAAGCAGATTTAGGCCACCAACCTA-CTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGAT
65 AAAGCAGAATTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAATAGGCTAAAATTTTAGAT
* * *
90231342 CTTGTTTCCCTGAAGTTGCAGTGGAA-CAGATCAAAGACGGTGGATCTAGTCTTCCTGAAGTTGC
130 CTTGTTTCCCTGAAGTTGCAGT-GAAGCAGATCAAAGACGGTGAATCTAGGCTTCCTAAAGTTGC
**
90231406 AGTGAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
194 AGCAAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
90231460 CCGAAGATTG
Statistics
Matches: 222, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
263 139 0.63
264 83 0.37
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (264 bp):
GTTTCCCTGAAGTTGCAGTGAAGTAGATCAAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGCA
AAGCAGAATTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAATAGGCTAAAATTTTAGATC
TTGTTTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACGGTGAATCTAGGCTTCCTAAAGTTGCAG
CAAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGA
TCTT
Found at i:90234854 original size:131 final size:131
Alignment explanation
Indices: 90234609--90234881 Score: 332
Period size: 131 Copynumber: 2.1 Consensus size: 131
90234599 GAATTCTTTA
* * * *
90234609 AAACAAAGGCGATATTCGATTCTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
1 AAACGAAGGCGATATTCGATTCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAAT
* ** * * * * * * * *
90234674 TTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTTACCCATGTCTTTTGAAAATCCCT
66 TTCGCGTTCACTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATCCCT
90234739 T
131 T
* *
90234740 AAACGAAGGCGATATTTGATAT-TTGGTAACTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAA
1 AAACGAAGGCGATATTCGAT-TCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAA
* * * *
90234804 TTTCGCGTTCACTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATCCT
65 TTTCGCGTTCACTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATCCC
90234869 TT
130 TT
90234871 AAGACGAAGGC
1 AA-ACGAAGGC
90234882 AATACTCGGT
Statistics
Matches: 119, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
131 110 0.92
132 9 0.08
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (131 bp):
AAACGAAGGCGATATTCGATTCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAAT
TTCGCGTTCACTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATCCCT
T
Found at i:90234909 original size:131 final size:131
Alignment explanation
Indices: 90234643--90234931 Score: 301
Period size: 131 Copynumber: 2.2 Consensus size: 131
90234633 GGCAATTCGT
* * ** * * * *
90234643 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTT
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTCACTCAAAATAATCAAAGATCCCTTC
* * * * * * * * **
90234708 AGAATTTTACCCATGTCTTTTGAAAATCCCTTAAACGAAGGCGATATTTGATATTTGGTAACTCG
66 AAAATTTCACCCATGTCTTCTAAAAATCCCTTAAACGAAGGCAATACTCGATATTCGACAACTCG
90234773 C
131 C
* *
90234774 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTCACTTAAAATAATCAAATATCCCTTC
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTCACTCAAAATAATCAAAGATCCCTTC
* * * * * *
90234839 AAAATTTCACTCATGTCTTCTAAAAATCCTTTAAGACGAAGGCAATACTCGGTGTTCGACAATTT
66 AAAATTTCACCCATGTCTTCTAAAAATCCCTTAA-ACGAAGGCAATACTCGATATTCGACAACTC
90234904 G-
130 GC
* * *
90234905 GGAATCATGCCCTATCGTGCTCGGTTG
1 GGAATCGTGCCCTAACGTGCTGGGTTG
90234932 TGATTTCTCG
Statistics
Matches: 128, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
131 107 0.84
132 21 0.16
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (131 bp):
GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTCACTCAAAATAATCAAAGATCCCTTC
AAAATTTCACCCATGTCTTCTAAAAATCCCTTAAACGAAGGCAATACTCGATATTCGACAACTCG
C
Found at i:90244961 original size:30 final size:30
Alignment explanation
Indices: 90244925--90244987 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
90244915 ACTTATTTTA
*
90244925 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
90244955 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
90244985 TTG
1 TTG
90244988 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:90245106 original size:18 final size:18
Alignment explanation
Indices: 90245071--90245110 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
90245061 GAGATATTTA
*
90245071 TTTTGATATTTTTAATAT
1 TTTTGATATTTATAATAT
90245089 TTTTGATATATTATATATAT
1 TTTTGATAT-TTATA-ATAT
90245109 TT
1 TT
90245111 AAAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTGATATTTATAATAT
Found at i:90249944 original size:56 final size:56
Alignment explanation
Indices: 90249877--90249989 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
90249867 GCATCAATCA
90249877 ATGCCTTAGTTTCGTCTAGTTAGTGTATGGAATGCAGAAGATCAAAGGCCAAAATT
1 ATGCCTTAGTTTCGTCTAGTTAGTGTATGGAATGCAGAAGATCAAAGGCCAAAATT
90249933 ATGCCTTAGTTTCGTCTAGTTAGTGTATGGAATGCAGAAGATCAAAGGCCAAAATT
1 ATGCCTTAGTTTCGTCTAGTTAGTGTATGGAATGCAGAAGATCAAAGGCCAAAATT
90249989 A
1 A
90249990 ATTGCAGCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (56 bp):
ATGCCTTAGTTTCGTCTAGTTAGTGTATGGAATGCAGAAGATCAAAGGCCAAAATT
Found at i:90251821 original size:29 final size:31
Alignment explanation
Indices: 90251779--90251853 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 31
90251769 AATATCTTAG
* *
90251779 GTTACATTTTAGTCACTTATGTT-TGAAA-T
1 GTTACATTTTAGTCACTTACGTTATCAAATT
*
90251808 GTTACGTTTTAGTCACTTACGTTATCAAATT
1 GTTACATTTTAGTCACTTACGTTATCAAATT
*
90251839 GTAACATTTTAGTCA
1 GTTACATTTTAGTCA
90251854 TTAAGCCGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 21 0.54
30 4 0.10
31 14 0.36
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCAAATT
Found at i:90265999 original size:24 final size:23
Alignment explanation
Indices: 90265961--90266009 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
90265951 GAATTATATT
90265961 TATTTTAATAGTAATTAATATTTA
1 TATTTTAATAGTAATTAAT-TTTA
** *
90265985 TATTTTAATTTTAATTTATTTTA
1 TATTTTAATAGTAATTAATTTTA
90266008 TA
1 TA
90266010 GATTTAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTTAATAGTAATTAATTTTA
Found at i:90267131 original size:21 final size:21
Alignment explanation
Indices: 90267107--90267146 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
90267097 TTTAATAGTT
*
90267107 AAGATTATATTTTTATTTGTA
1 AAGATTATATTTGTATTTGTA
90267128 AAGATTATATTTGTATTTG
1 AAGATTATATTTGTATTTG
90267147 AGTTTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
AAGATTATATTTGTATTTGTA
Found at i:90267219 original size:14 final size:16
Alignment explanation
Indices: 90267188--90267227 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
90267178 TTAATTTGTA
90267188 ATAATAATTTGTATATT
1 ATAAT-ATTTGTATATT
90267205 ATAATATTT-TA-ATT
1 ATAATATTTGTATATT
90267219 ATAATATTT
1 ATAATATTT
90267228 AGATTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 4 0.17
17 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATAATATTTGTATATT
Found at i:90267236 original size:13 final size:14
Alignment explanation
Indices: 90267202--90267249 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
90267192 TAATTTGTAT
90267202 ATTATAATATTTTA-
1 ATTATAATA-TTTAG
90267216 ATTATAATATTTAG
1 ATTATAATATTTAG
*
90267230 ATT-TAATGTTTAAG
1 ATTATAATATTT-AG
90267244 ATTATA
1 ATTATA
90267250 TTTTAGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.37
14 17 0.57
15 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATTATAATATTTAG
Found at i:90276172 original size:6 final size:6
Alignment explanation
Indices: 90276161--90276191 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
90276151 TAGTTTCCAA
90276161 AAAATG AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG A
90276192 TCCATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:90276394 original size:25 final size:26
Alignment explanation
Indices: 90276340--90276400 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
90276330 TATTTTTTTC
* *
90276340 TCAAAATTTTACTAGGGGCAAAATCG
1 TCAAAATTTTACCAGGGGCAAAATCA
*
90276366 TCAAAATTTTACCA-GGGTAAAATCA
1 TCAAAATTTTACCAGGGGCAAAATCA
90276391 TCAAAATTTT
1 TCAAAATTTT
90276401 GTTGGGAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.59
26 13 0.41
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGCAAAATCA
Found at i:90280284 original size:35 final size:35
Alignment explanation
Indices: 90280235--90280371 Score: 150
Period size: 35 Copynumber: 3.9 Consensus size: 35
90280225 AACGTAGATT
90280235 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
* * *
90280270 CCTTACTGAGTTGTGAAATGTAGGTATGGTATTAT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
* ** * * * **
90280305 CCATATTGAGTT-AAAAACGAAGGTATAGCATTTC
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
* *
90280339 CCATACTGAGTTGTGAAATGTAGGTATGATATT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATT
90280372 TCAATGAGGA
Statistics
Matches: 80, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
34 25 0.31
35 55 0.69
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
Found at i:90282697 original size:329 final size:329
Alignment explanation
Indices: 90282099--90282760 Score: 1297
Period size: 329 Copynumber: 2.0 Consensus size: 329
90282089 ACCCTATTTA
90282099 TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
1 TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
*
90282164 ATCACGGATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
66 ATCACGAATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
90282229 TTTGTCCTATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTATT
131 TTTGTCCTATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTATT
90282294 ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
196 ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
*
90282359 CTTGAATATGATACTTGGCTGACTAAATTAACACTCTCTCTTACCCGTGGTAATCCCACATTTCC
261 CTTGAATATGATACTTGGCTGACTAAATTAACACCCTCTCTTACCCGTGGTAATCCCACATTTCC
90282424 TTCC
326 TTCC
90282428 TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
1 TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
90282493 ATCACGAATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
66 ATCACGAATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
*
90282558 TTTGTCCTATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTCTT
131 TTTGTCCTATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTATT
90282623 ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
196 ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
90282688 CTTGAATATGATACTTGGCTGACTAAATTAACACCCTCTCTTACCCGTGGTAATCCCACATTTCC
261 CTTGAATATGATACTTGGCTGACTAAATTAACACCCTCTCTTACCCGTGGTAATCCCACATTTCC
90282753 TTCC
326 TTCC
90282757 TCGT
1 TCGT
90282761 GCTATATAAC
Statistics
Matches: 330, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
329 330 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (329 bp):
TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
ATCACGAATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
TTTGTCCTATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTATT
ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
CTTGAATATGATACTTGGCTGACTAAATTAACACCCTCTCTTACCCGTGGTAATCCCACATTTCC
TTCC
Found at i:90283404 original size:68 final size:68
Alignment explanation
Indices: 90283290--90283432 Score: 180
Period size: 68 Copynumber: 2.1 Consensus size: 68
90283280 CCATATTAGT
* * * **
90283290 GGACTTTATTTGATGCCATAGCCCAACTATAGTCTTACACACTATGATCTGATGTTTACTATCCT
1 GGACTTTATATGATGCCATAGCCCAACTAGAGCCTTACACACTATGATCCCATGTTTACTATCCT
90283355 AGC
66 AGC
* * *
90283358 GGACTTTATATGTTGCCATAGCCCAACTAGGGCCTTACACTA-TATGATCCCATGTTTACTGTCC
1 GGACTTTATATGATGCCATAGCCCAACTAGAGCCTTACAC-ACTATGATCCCATGTTTACTATCC
* *
90283422 TGGG
65 TAGC
90283426 GGACTTT
1 GGACTTT
90283433 TGATTCTGAG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 63 0.98
69 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (68 bp):
GGACTTTATATGATGCCATAGCCCAACTAGAGCCTTACACACTATGATCCCATGTTTACTATCCT
AGC
Found at i:90285680 original size:43 final size:43
Alignment explanation
Indices: 90285608--90285726 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
90285598 CATAAAGCTC
* * * * *
90285608 ATACAATGCC-ATATCCCAGATATAGTCTTACATGTTATCTC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * *
90285649 ATATCGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
90285693 ATACAATGCCAATGTCCCAGACATGGTCTTACAT
1 ATACAATGCCAATGTCCCAGACATGGTCTTACAT
90285727 ACAATCTCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.05
42 6 0.09
43 52 0.81
44 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
Found at i:90290837 original size:46 final size:46
Alignment explanation
Indices: 90290777--90291004 Score: 368
Period size: 46 Copynumber: 5.0 Consensus size: 46
90290767 TTTGACATGA
* * * * * *
90290777 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
90290823 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
90290869 TGCCATGGTATCTTTCAACCATGGTCTTACAAATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
90290915 TGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
90290961 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
90291005 AGAGCACACT
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 167 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:90293495 original size:30 final size:30
Alignment explanation
Indices: 90293428--90293495 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
90293418 CACCCTTAAA
* *
90293428 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAGTCCTTCAAATTTTC
*
90293458 ATATTTACACT-TTAGTCCTTCAAATTTTG
1 ATATTTACACTATTAGTCCTTCAAATTTTC
90293487 AGTATTTAC
1 A-TATTTAC
90293496 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAGTCCTTCAAATTTTC
Found at i:90296045 original size:93 final size:93
Alignment explanation
Indices: 90295886--90296072 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
90295876 GAGGTGTTAC
90295886 ACCCCAATGTTTGTCGATGAATGATGAGAATGTAGGTTCATGCGAGGACAACATTGAGCTCCTGA
1 ACCCCAATGTTTGTCGATGAATGATGAGAATGTAGGTTCATGCGAGGACAACATTGAGCTCCTGA
90295951 TTGAATATCGCAGACAACCTAAATGCCA
66 TTGAATATCGCAGACAACCTAAATGCCA
90295979 ACCCCAATGTTTGTCGATGAATGATGAGAATGTAGGTTCATGCGAGGACAACATTGAGCTCCTGA
1 ACCCCAATGTTTGTCGATGAATGATGAGAATGTAGGTTCATGCGAGGACAACATTGAGCTCCTGA
90296044 TTGAATATCGCAGACAACCTAAATGCCA
66 TTGAATATCGCAGACAACCTAAATGCCA
90296072 A
1 A
90296073 TAAAGGGAAA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (93 bp):
ACCCCAATGTTTGTCGATGAATGATGAGAATGTAGGTTCATGCGAGGACAACATTGAGCTCCTGA
TTGAATATCGCAGACAACCTAAATGCCA
Found at i:90299258 original size:45 final size:45
Alignment explanation
Indices: 90299166--90299328 Score: 170
Period size: 45 Copynumber: 3.6 Consensus size: 45
90299156 TGCCATAGTG
* * * * **
90299166 TCTTTCAGCTATGGTCTTACACA-TTTTATCATGGCGCCATAGTA
1 TCTTTCAACTATGGTCTTACTCATTTTTATCATGACACCATAACA
* * *
90299210 TCTTTCAACTATGATCTTACTCATTTTTATTATGACTCCATAACA
1 TCTTTCAACTATGGTCTTACTCATTTTTATCATGACACCATAACA
* * * *
90299255 TCTTTTAGCTATGG-CATTACTTATTTTTATGATGACACCATAACA
1 TCTTTCAACTATGGTC-TTACTCATTTTTATCATGACACCATAACA
90299300 TCTTT-AAGCTATGGTCTTACTCATTTTTA
1 TCTTTCAA-CTATGGTCTTACTCATTTTTA
90299329 GGCTTATAAC
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
44 22 0.22
45 76 0.77
46 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCATTTTTATCATGACACCATAACA
Found at i:90303153 original size:2 final size:2
Alignment explanation
Indices: 90303146--90303183 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
90303136 TGAGACTAAC
90303146 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
90303184 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:90307576 original size:24 final size:24
Alignment explanation
Indices: 90307540--90307586 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
90307530 CGGAAAGATG
90307540 TAATCAGGGTTATAGTTGACAAAT
1 TAATCAGGGTTATAGTTGACAAAT
*
90307564 TAATCAGGTTTATAGTTGACAAA
1 TAATCAGGGTTATAGTTGACAAA
90307587 CTAACCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (24 bp):
TAATCAGGGTTATAGTTGACAAAT
Found at i:90308870 original size:15 final size:15
Alignment explanation
Indices: 90308847--90308899 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
90308837 CTAATTAAGC
*
90308847 TTAAATTTTTGTTAA
1 TTAAGTTTTTGTTAA
**
90308862 TTAAGTTTTAATTAA
1 TTAAGTTTTTGTTAA
90308877 TTAA--TTTTGATTAA
1 TTAAGTTTTTG-TTAA
90308891 TTAAGTTTT
1 TTAAGTTTT
90308900 AGTATATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 3 0.10
14 8 0.27
15 16 0.53
16 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (15 bp):
TTAAGTTTTTGTTAA
Found at i:90308884 original size:14 final size:15
Alignment explanation
Indices: 90308858--90308900 Score: 70
Period size: 14 Copynumber: 2.9 Consensus size: 15
90308848 TAAATTTTTG
90308858 TTAATTAAGTTTTAA
1 TTAATTAAGTTTTAA
*
90308873 TTAATTAA-TTTTGA
1 TTAATTAAGTTTTAA
90308887 TTAATTAAGTTTTA
1 TTAATTAAGTTTTA
90308901 GTATATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
TTAATTAAGTTTTAA
Found at i:90311702 original size:19 final size:19
Alignment explanation
Indices: 90311662--90311703 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
90311652 TATGTTAATT
*
90311662 TAAAGTTAAATTAATAAGAA
1 TAAAGTTAAA-TAATAAAAA
90311682 TAAAGTTAAA-ACATAAAAA
1 TAAAGTTAAATA-ATAAAAA
90311701 TAA
1 TAA
90311704 TGGTCATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 9 0.45
20 10 0.50
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (19 bp):
TAAAGTTAAATAATAAAAA
Found at i:90312302 original size:28 final size:28
Alignment explanation
Indices: 90312243--90312298 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
90312233 GAATTGAATT
*
90312243 ATTGAATAAATAAAAAAAATTGGACCAA
1 ATTGAATAAATAAAAAAAATTGGACAAA
*
90312271 ATTGAATAATATTAAAAAAA-T-GACAAA
1 ATTGAATAA-ATAAAAAAAATTGGACAAA
90312298 A
1 A
90312299 ATTGTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 10 0.40
29 9 0.36
ACGTcount: A:0.62, C:0.05, G:0.09, T:0.23
Consensus pattern (28 bp):
ATTGAATAAATAAAAAAAATTGGACAAA
Found at i:90319671 original size:26 final size:26
Alignment explanation
Indices: 90319641--90319696 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
90319631 TGAAATGCCC
90319641 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90319667 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90319693 ATCA
1 ATCA
90319697 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90324929 original size:12 final size:12
Alignment explanation
Indices: 90324895--90324929 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
90324885 AATTTTTCGT
*
90324895 GAAATTTCAAAA
1 GAAATTTCAAGA
90324907 GAAATTTCAAGA
1 GAAATTTCAAGA
90324919 GAAATTTCAAG
1 GAAATTTCAAG
90324930 GTGTATGGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (12 bp):
GAAATTTCAAGA
Found at i:90334713 original size:32 final size:32
Alignment explanation
Indices: 90334667--90334727 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
90334657 TTAGATATTG
*
90334667 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATATTTCAAGCTTGTTAGATATTGAATTT
* *
90334699 ATTATATTTTAAGCTTGTTGGATATTGAA
1 ATTATATTTCAAGCTTGTTAGATATTGAA
90334728 ATGATTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (32 bp):
ATTATATTTCAAGCTTGTTAGATATTGAATTT
Done.