Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 63 of 218
Found at i:19062049 original size:23 final size:24
Alignment explanation
Indices: 19062008--19062052 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
19061998 AAATCACAAT
*
19062008 AAAAAAATAACTTTAAAACAAAAC
1 AAAAAAATAACATTAAAACAAAAC
19062032 AAAAAAATAACATT-AAACAAA
1 AAAAAAATAACATTAAAACAAA
19062053 CTATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAAAAATAACATTAAAACAAAAC
Found at i:19062665 original size:15 final size:15
Alignment explanation
Indices: 19062645--19062674 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19062635 ACTTAGACCC
*
19062645 ATTAAACCCCAAATT
1 ATTAAACCCAAAATT
19062660 ATTAAACCCAAAATT
1 ATTAAACCCAAAATT
19062675 CAAGCCCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTAAACCCAAAATT
Found at i:19062989 original size:6 final size:6
Alignment explanation
Indices: 19062978--19063012 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
19062968 TGAGGATAAC
*
19062978 AGAAAA AGAAAA CGAAAA AGAAAA AGAAAA TAGAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -AGAA
19063013 TAGAGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:19064535 original size:40 final size:41
Alignment explanation
Indices: 19064482--19064566 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 41
19064472 AATATATTTA
* * *
19064482 TTTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAAAACATTTTTTAAT
19064522 TTTTTTTAATTTTAAAATATTTTTAAAAAACATTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAAAACATTTTTTAAT
19064563 TTTT
1 TTTT
19064567 AAAAATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 28 0.68
41 13 0.32
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTAAAAAACATTTTTTAAT
Found at i:19067147 original size:2 final size:2
Alignment explanation
Indices: 19067142--19067166 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19067132 GTTATATACG
19067142 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 T
19067167 GTACATACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19068471 original size:41 final size:40
Alignment explanation
Indices: 19068426--19068528 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 40
19068416 TGATTCAGTA
*
19068426 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA-T
1 CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTG-AAT-TACT
*
19068467 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTACTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC-T
19068508 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
19068529 GTACATAACC
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
39 2 0.04
40 5 0.09
41 50 0.88
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTACT
Found at i:19068542 original size:41 final size:40
Alignment explanation
Indices: 19068466--19068543 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
19068456 CTGAAATGTA
**
19068466 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTACT
1 TCACCGGCATTAAGCCTGCTAGA-GTAAAACCTGAATTACT
19068507 TCACCGGCATTAAGCCTGCTAG-GTACATAACCTGAAT
1 TCACCGGCATTAAGCCTGCTAGAGTA-A-AACCTGAAT
19068544 AGCATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 3 0.09
40 1 0.03
41 29 0.88
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGAGTAAAACCTGAATTACT
Found at i:19084269 original size:50 final size:50
Alignment explanation
Indices: 19084094--19084571 Score: 295
Period size: 50 Copynumber: 9.6 Consensus size: 50
19084084 GCAATTTAAA
* * * * * ** *
19084094 AGATTGAGGCCACAACGACGAATCTTACTTTCTCAAGCGGTGCAGCAGAAT
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGGCGTTGCAGTGGAAC
* * * * * * * *
19084145 AGATTGAAGCTACAACGGCGGATCTCACTTCCCTA-ACATTGCAAT-CAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCC-AGGCGTTGCAGTGGAAC
* *
19084194 AGATTGAAGCCACAACGGCGGATCTTACTTCCCAGGCGTTGTAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * * * * **
19084244 AAATTGAAGCTACAACAGCGAATCTTACTTCTCTGACATTGCAGTTTAA-
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * **
19084293 AGGATCGAAGCCACAACGGCGAATCTTACTT-TCAGGCGATGCAACGGAAC
1 A-GATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * * * ** *
19084343 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * *
19084393 AGATTGAGGCCACAACGGCAAATCTTACTTTCCTA-GCATTACAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGGCGTTGCAGTGGAAC
* * * * * * * * *
19084443 AGATTGAAGCTACAAAGGCGAATCTCGA-TTCCCCGACATTGCAAT-TAAA
1 AGATTGAAGCCACAACGGCGAATCT-TACTTCCCAGGCGTTGCAGTGGAAC
* * * * *
19084492 AGATTGAGGCCACAACGGGGAATCTTACTTCTCAGGCGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * *
19084542 AGATTGAAGCTACGATGGCGAATCTTACTT
1 AGATTGAAGCCACAACGGCGAATCTTACTT
19084572 TCCCGATATT
Statistics
Matches: 317, Mismatches: 99, Indels: 23
0.72 0.23 0.05
Matches are distributed among these distances:
48 2 0.01
49 113 0.36
50 173 0.55
51 29 0.09
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
Found at i:19084329 original size:99 final size:99
Alignment explanation
Indices: 19084082--19084616 Score: 578
Period size: 99 Copynumber: 5.4 Consensus size: 99
19084072 TAACCATAGT
* * * * *
19084082 TTGCAATTTAAAAGATTGAGGCCACAACGACGAATCTTACTTTCTCAAGCGGTGCAGCAGAATAG
1 TTGC-ATTTAAAAGATTGAGGCCACAACGGCGAATCTTAC-TTCTCAGGCGATGCAGCGGAACAG
* **
19084147 ATTGAAGCTACAACGGCGGATCTCACTTCCCTAACA
64 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGACA
* * * * * * * * *
19084183 TTGCAATCAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCAGGCGTTGTAGTGGAACAAAT
1 TTGCATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* * * *
19084248 TGAAGCTACAACAGCGAATCTTACTTCTCTGACA
66 TGAAGCTACAACGGCGAATCTCACTTCCCCGACA
* * * *
19084282 TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTT-TCAGGCGATGCAACGGAACAGA
1 TTGCA-TTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
19084346 TTGAAGCTACAACGGCGAATCTCACTTCCCCGACA
65 TTGAAGCTACAACGGCGAATCTCACTTCCCCGACA
* * * *
19084381 TTGCAATTCAAAAGATTGAGGCCACAACGGCAAATCTTACTT-TCCTA-GC-ATTACAGTGGAAC
1 TTGC-ATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCT-C-AGGCGA-TGCAGCGGAAC
*
19084443 AGATTGAAGCTACAAAGGCGAATCTCGA-TTCCCCGACA
62 AGATTGAAGCTACAACGGCGAATCTC-ACTTCCCCGACA
* *
19084481 TTGCAATTAAAAGATTGAGGCCACAACGGGGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
1 TTGCATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* * * * *
19084546 TGAAGCTACGATGGCGAATCTTACTTTCCCGATA
66 TGAAGCTACAACGGCGAATCTCACTTCCCCGACA
* ** * *
19084580 TTACAACT-AAAGATTGAAGCCGCAACGGCGAATCTTA
1 TTGCATTTAAAAGATTGAGGCCACAACGGCGAATCTTA
19084617 TTTCCTCGGC
Statistics
Matches: 366, Mismatches: 58, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
98 28 0.08
99 218 0.60
100 114 0.31
101 6 0.02
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (99 bp):
TTGCATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
TGAAGCTACAACGGCGAATCTCACTTCCCCGACA
Found at i:19084451 original size:199 final size:199
Alignment explanation
Indices: 19084082--19084622 Score: 682
Period size: 199 Copynumber: 2.7 Consensus size: 199
19084072 TAACCATAGT
* * * * *
19084082 TTGCAATTTAAAAGATTGAGGCCACAACGACGAATCTTACTTTCTCAAGCGGTGCAGCAGAATAG
1 TTGC-ATTTAAAAGATTGAGGCCACAACGGCGAATCTTAC-TTCTCAGGCGATGCAGCGGAACAG
* **
19084147 ATTGAAGCTACAACGGCGGATCTCACTTCCCTAACATTGCAATCAAAAGATTGAAGCCACAACGG
64 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATCAAAAGATTGAAGCCACAACGG
* * * ** *
19084212 CGGATCTTAC-TTCCCAGGCGTTGTAGTGGAACAAATTGAAGCTACAACA-GCGAATCT-TACTT
129 CGAATCTTACTTTCCTAGGCATTACAGTGGAACAAATTGAAGCTACAA-AGGCGAATCTCGA-TT
* *
19084274 CTCTGACA
192 CCCCGACA
* * * *
19084282 TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTT-TCAGGCGATGCAACGGAACAGA
1 TTGCA-TTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
*
19084346 TTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAGGCCACAACGG
65 TTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAA-TCAAAAGATTGAAGCCACAACGG
* *
19084411 CAAATCTTACTTTCCTA-GCATTACAGTGGAACAGATTGAAGCTACAAAGGCGAATCTCGATTCC
129 CGAATCTTACTTTCCTAGGCATTACAGTGGAACAAATTGAAGCTACAAAGGCGAATCTCGATTCC
19084475 CCGACA
194 CCGACA
* *
19084481 TTGCAATTAAAAGATTGAGGCCACAACGGGGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
1 TTGCATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* * * * * * * *
19084546 TGAAGCTACGATGGCGAATCTTACTTTCCCGATATTACAA-CTAAAGATTGAAGCCGCAACGGCG
66 TGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATCAAAAGATTGAAGCCACAACGGCG
19084610 AATCTTA-TTTCCT
131 AATCTTACTTTCCT
19084623 CGGCGAGACC
Statistics
Matches: 296, Mismatches: 39, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
196 6 0.02
197 27 0.09
198 87 0.29
199 136 0.46
200 40 0.14
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (199 bp):
TTGCATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
TGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATCAAAAGATTGAAGCCACAACGGCG
AATCTTACTTTCCTAGGCATTACAGTGGAACAAATTGAAGCTACAAAGGCGAATCTCGATTCCCC
GACA
Found at i:19084546 original size:149 final size:149
Alignment explanation
Indices: 19084094--19084573 Score: 413
Period size: 149 Copynumber: 3.2 Consensus size: 149
19084084 GCAATTTAAA
* * * ** *
19084094 AGATTGAGGCCACAACGACGAATCTTACTTTCTCAAGCGGTGCAGCAGAATAGATTGAAGCTACA
1 AGATTGAAGCCACAACGGCGAATCTTACTTTCTCTAGCATTGCAGTAGAA-AGATTGAAGCTACA
*
19084159 ACGGCGGATCTCACTTCCCTA-ACATTGCAATCAAAAGATTGAAGCCACAACGGCGG-ATCTTAC
65 ACGGCGAATCTCACTTCCC-AGACATTGCAATCAAAAGATTGAAGCCACAACGG-GGAATCTTAC
* *
19084222 TTCCCAGGCGTTGTAGTGGAAC
128 TTCCCAGGCGATGCAGTGGAAC
* * * ** * *
19084244 AAATTGAAGCTACAACAGCGAATCTTAC-TTCTCT-GACATTGCAGTTTAAAGGATCGAAGCCAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTTCTCTAG-CATTGCAGTAGAAA-GATTGAAGCTAC
* * * * * * *
19084307 AACGGCGAATCTTACTT-TCAGGCGA-TGCAA-CGGAACAGATTGAAGCTACAACGGCGAATCTC
64 AACGGCGAATCTCACTTCCCAGAC-ATTGCAATC--AAAAGATTGAAGCCACAACGGGGAATCTT
* * * ** *
19084369 ACTTCCCCGAC-ATTGCAATTCAAA
126 ACTTCCCAGGCGA-TGCAGTGGAAC
* * * *
19084393 AGATTGAGGCCACAACGGCAAATCTTACTTTC-CTAGCATTACAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCCACAACGGCGAATCTTACTTTCTCTAGCATTGCAGTAGAA-AGATTGAAGCTACA
* * * *
19084457 AAGGCGAATCTCGA-TTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGGGAATCTTACT
65 ACGGCGAATCTC-ACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGGGAATCTTACT
* *
19084521 TCTCAGGCGATGCAGCGGAAC
129 TCCCAGGCGATGCAGTGGAAC
* * *
19084542 AGATTGAAGCTACGATGGCGAATCTTACTTTC
1 AGATTGAAGCCACAACGGCGAATCTTACTTTC
19084574 CCGATATTAC
Statistics
Matches: 251, Mismatches: 63, Indels: 33
0.72 0.18 0.10
Matches are distributed among these distances:
147 2 0.01
148 10 0.04
149 201 0.80
150 38 0.15
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (149 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTTCTCTAGCATTGCAGTAGAAAGATTGAAGCTACAA
CGGCGAATCTCACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGGGAATCTTACTTC
CCAGGCGATGCAGTGGAAC
Found at i:19085351 original size:17 final size:17
Alignment explanation
Indices: 19085318--19085352 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19085308 AGTCTACAGC
19085318 AATATTAAATATATATA
1 AATATTAAATATATATA
19085335 AATATATAAATAT-TATA
1 AATAT-TAAATATATATA
19085352 A
1 A
19085353 CCTTTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATTAAATATATATA
Found at i:19086130 original size:41 final size:40
Alignment explanation
Indices: 19086032--19086176 Score: 132
Period size: 41 Copynumber: 3.5 Consensus size: 40
19086022 TTAAACAGAT
* * * * * * *
19086032 TCACTGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTTAG
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
* *
19086072 TACACCAGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA-
1 T-CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTG-AAT-TAC
**
19086114 TCACCGGCATTAAGCCTGCTAGATGTAAAGTCTGAATTAC
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
19086154 TTCACCGGCATTAAGCCTGCTAG
1 -TCACCGGCATTAAGCCTGCTAG
19086177 GTACATAACC
Statistics
Matches: 87, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.07
41 72 0.83
42 5 0.06
43 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
Found at i:19086190 original size:41 final size:40
Alignment explanation
Indices: 19086114--19086191 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
19086104 CTGAAATGTA
**
19086114 TCACCGGCATTAAGCCTGCTAGATGTAAAGTCTGAATTACT
1 TCACCGGCATTAAGCCTGCTAGA-GTAAAACCTGAATTACT
19086155 TCACCGGCATTAAGCCTGCTAG-GTACATAACCTGAAT
1 TCACCGGCATTAAGCCTGCTAGAGTA-A-AACCTGAAT
19086192 ACATAAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 3 0.09
40 1 0.03
41 29 0.88
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGAGTAAAACCTGAATTACT
Found at i:19093960 original size:41 final size:40
Alignment explanation
Indices: 19093873--19094017 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 40
19093863 TTAAACAGAT
* * * * * * *
19093873 TCACTGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTTAG
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
*
19093913 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA-
1 T-CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTG-AAT-TAC
* *
19093955 TCACCGGCATTAAGCCTGCTAAACGTAAAGTCTGAATTAC
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
19093995 TTCACCGGCATTAAGCCTGCTAG
1 -TCACCGGCATTAAGCCTGCTAG
19094018 GTACATAACC
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.07
41 73 0.83
42 5 0.06
43 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
Found at i:19094865 original size:18 final size:18
Alignment explanation
Indices: 19094842--19094883 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
19094832 GCAGACGCGA
19094842 TCGACTATTCGTTTACTT
1 TCGACTATTCGTTTACTT
19094860 TCGACTATTCGTTTACTT
1 TCGACTATTCGTTTACTT
19094878 TCGACT
1 TCGACT
19094884 TTCCCCGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.12, T:0.48
Consensus pattern (18 bp):
TCGACTATTCGTTTACTT
Found at i:19096112 original size:24 final size:24
Alignment explanation
Indices: 19096070--19096141 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
19096060 TGAGAGGTGA
19096070 TTTTCTCT-CA-TTTCTGTTTAGTTT
1 TTTTCTCTCCATTTTCTGTTT--TTT
19096094 TTTTC-CTCCATTTTC-GTTTTTT
1 TTTTCTCTCCATTTTCTGTTTTTT
* *
19096116 TTTTCTCTTCATTTGTATGTTTTTT
1 TTTTCTCTCCATTT-TCTGTTTTTT
19096141 T
1 T
19096142 GCATAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 12 0.29
25 12 0.29
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (24 bp):
TTTTCTCTCCATTTTCTGTTTTTT
Found at i:19097120 original size:39 final size:43
Alignment explanation
Indices: 19097077--19097160 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
19097067 TATACATGTC
*
19097077 TATACTTCAT-TTTCATAA-ATA-CTTATATATATAC-TTACA
1 TATACTTCATATTTCAAAATATATCTTATATATATACTTTACA
* *
19097116 TATACTTTATACTTTCAAAATATATCTTATATATATTCTTTACA
1 TATACTTCATA-TTTCAAAATATATCTTATATATATACTTTACA
19097160 T
1 T
19097161 TTTATGATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
39 9 0.24
41 7 0.19
42 3 0.08
43 12 0.32
44 6 0.16
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (43 bp):
TATACTTCATATTTCAAAATATATCTTATATATATACTTTACA
Found at i:19098946 original size:23 final size:22
Alignment explanation
Indices: 19098920--19098971 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
19098910 TAACATGAAA
19098920 TTAATTGGTAATAAGATTTTAAT
1 TTAATTGGTAA-AAGATTTTAAT
* * *
19098943 TTAATATGTTTAAATATTTTAAT
1 TTAAT-TGGTAAAAGATTTTAAT
19098966 TTAATT
1 TTAATT
19098972 CAAACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 20 0.80
24 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (22 bp):
TTAATTGGTAAAAGATTTTAAT
Found at i:19101814 original size:14 final size:14
Alignment explanation
Indices: 19101795--19101824 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19101785 ATAATTTAAC
*
19101795 TAAAAACTTTTGAA
1 TAAAAACTTTCGAA
19101809 TAAAAACTTTCGAA
1 TAAAAACTTTCGAA
19101823 TA
1 TA
19101825 TGCTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (14 bp):
TAAAAACTTTCGAA
Found at i:19102296 original size:34 final size:32
Alignment explanation
Indices: 19102250--19102315 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
19102240 AATAATTAAT
* *
19102250 TAAATTTTATAACATTTTTTACATTTTTTGAAAA
1 TAAATTTAATAAC-TTTTATA-ATTTTTTGAAAA
*
19102284 TAAATTTAATAACTTTTATATTTTTTTGAAAA
1 TAAATTTAATAACTTTTATAATTTTTTGAAAA
19102316 CATTTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 11 0.38
33 6 0.21
34 12 0.41
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (32 bp):
TAAATTTAATAACTTTTATAATTTTTTGAAAA
Found at i:19102321 original size:21 final size:20
Alignment explanation
Indices: 19102288--19102335 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
19102278 TGAAAATAAA
19102288 TTTAATAAC-TTTTATATTTT
1 TTTAA-AACATTTTATATTTT
*
19102308 TTTGAAAACATTTTTTATTTT
1 TTT-AAAACATTTTATATTTT
19102329 TTTAAAA
1 TTTAAAA
19102336 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTAAAACATTTTATATTTT
Found at i:19106516 original size:3 final size:3
Alignment explanation
Indices: 19106510--19106540 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19106500 GATGATGATG
19106510 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19106541 ACCTATACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:19107108 original size:20 final size:19
Alignment explanation
Indices: 19107065--19107108 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
19107055 TTAATTTATA
19107065 TTAAAATTAAAATTAAAAT
1 TTAAAATTAAAATTAAAAT
* * *
19107084 ATAAAGATTAAATTTTAAAT
1 TTAAA-ATTAAAATTAAAAT
19107104 TTAAA
1 TTAAA
19107109 TATATTAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TTAAAATTAAAATTAAAAT
Found at i:19113837 original size:22 final size:22
Alignment explanation
Indices: 19113810--19113859 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
19113800 TTATTTCAAT
19113810 ATAATACCAGAAACAAAAGAAA
1 ATAATACCAGAAACAAAAGAAA
19113832 ATAATACCAGAAACAAAAGAAA
1 ATAATACCAGAAACAAAAGAAA
*
19113854 ACAATA
1 ATAATA
19113860 GTGAATCAAA
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:0.68, C:0.14, G:0.08, T:0.10
Consensus pattern (22 bp):
ATAATACCAGAAACAAAAGAAA
Found at i:19118406 original size:44 final size:44
Alignment explanation
Indices: 19118356--19118507 Score: 252
Period size: 44 Copynumber: 3.5 Consensus size: 44
19118346 TTCTTATTCC
* *
19118356 TAATTTAAAACACGTTAAATTATAATACAATATACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
19118400 TAATTTAAAGA-ACATTAAATTATAATATAATATACATACATATT
1 TAATTTAAA-ACACATTAAATTATAATACAATATACATACATATT
*
19118444 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
19118488 TAATTTAAAACACATTAAAT
1 TAATTTAAAACACATTAAAT
19118508 GAAATAAATT
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
43 1 0.01
44 98 0.98
45 1 0.01
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.38
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:19118502 original size:22 final size:22
Alignment explanation
Indices: 19118389--19118502 Score: 67
Period size: 22 Copynumber: 5.2 Consensus size: 22
19118379 AATACAATAT
*
19118389 ACATGCATATTTAATTTAAAGA-
1 ACATACATATTTAATTTAAA-AC
* * *
19118411 ACATTA-A-ATTATAATATAATAT
1 ACA-TACATATT-TAATTTAAAAC
*
19118433 ACATACATATTTATTTTAAAAC
1 ACATACATATTTAATTTAAAAC
** * *
19118455 ACATTA-A-ATTATAATACAATAT
1 ACA-TACATATT-TAATTTAAAAC
19118477 ACATACATATTTAATTTAAAAC
1 ACATACATATTTAATTTAAAAC
19118499 ACAT
1 ACAT
19118503 TAAATGAAAT
Statistics
Matches: 67, Mismatches: 16, Indels: 18
0.66 0.16 0.18
Matches are distributed among these distances:
21 11 0.16
22 47 0.70
23 9 0.13
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.38
Consensus pattern (22 bp):
ACATACATATTTAATTTAAAAC
Found at i:19118580 original size:22 final size:22
Alignment explanation
Indices: 19118555--19118629 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 22
19118545 AAAACGTAAA
*
19118555 TTAAAATGGCAAGAAAGATAAT
1 TTAAAATGGAAAGAAAGATAAT
* *
19118577 TTAAATGAAATGAGAAAAAAAG-TAAA
1 TT--A--AAATG-GAAAGAAAGATAAT
19118603 TTAAAATGGAAAGAAAGATAAT
1 TTAAAATGGAAAGAAAGATAAT
19118625 TTAAA
1 TTAAA
19118630 TGAAATGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
21 8 0.19
22 15 0.36
24 2 0.05
26 10 0.24
27 7 0.17
ACGTcount: A:0.60, C:0.01, G:0.16, T:0.23
Consensus pattern (22 bp):
TTAAAATGGAAAGAAAGATAAT
Found at i:19118581 original size:27 final size:26
Alignment explanation
Indices: 19118551--19118878 Score: 119
Period size: 26 Copynumber: 13.5 Consensus size: 26
19118541 AAAAAAAACG
19118551 TAAATTAAAATGGCAAGAAAGATAATT
1 TAAATTAAAATGG-AAGAAAGATAATT
* **
19118578 TAAA-TGAAAT-G-AGAAA-A-AAAG
1 TAAATTAAAATGGAAGAAAGATAATT
19118599 TAAATTAAAATGGAAAGAAAGATAATT
1 TAAATTAAAATGG-AAGAAAGATAATT
*
19118626 TAAA-TGAAAT-G-AGAAA-A-AA-T
1 TAAATTAAAATGGAAGAAAGATAATT
* * * *
19118646 AAAATTTAAATGGAAAAAAGGACAATT
1 TAAATTAAAATGGAAGAAA-GATAATT
*
19118673 TAAA-TGAAAT-G-AGAAA-A-AA-T
1 TAAATTAAAATGGAAGAAAGATAATT
* *
19118693 TAAATTTAAATGGAAAAAAAGAGATAATT
1 TAAATTAAAATGG--AAGAA-AGATAATT
*
19118722 TAAA-TGAAAT-G-AGAAA-A-AA-T
1 TAAATTAAAATGGAAGAAAGATAATT
* *
19118742 TAAATTTAAATGGAAAAAAAGATAATT
1 TAAATTAAAATGG-AAGAAAGATAATT
* * *
19118769 TAAA-TGAAATGAGAA-AAA-AAAAAT
1 TAAATTAAAATG-GAAGAAAGATAATT
* *
19118793 TAAATTTAAATGGAAAGAAACATAATT
1 TAAATTAAAATGG-AAGAAAGATAATT
* *
19118820 TAAA-TGAAAT-TAA-AAA-A-AA-T
1 TAAATTAAAATGGAAGAAAGATAATT
* * *
19118840 TAAATTTAAATGAAAAAAAGATAATT
1 TAAATTAAAATGGAAGAAAGATAATT
*
19118866 TAAA-TGAAATGGA
1 TAAATTAAAATGGA
19118879 TATGGAAATG
Statistics
Matches: 230, Mismatches: 31, Indels: 82
0.67 0.09 0.24
Matches are distributed among these distances:
20 19 0.08
21 34 0.15
22 15 0.07
23 22 0.10
24 23 0.10
25 33 0.14
26 42 0.18
27 30 0.13
28 7 0.03
29 5 0.02
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (26 bp):
TAAATTAAAATGGAAGAAAGATAATT
Found at i:19118602 original size:21 final size:21
Alignment explanation
Indices: 19118578--19118644 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 21
19118568 AAAGATAATT
19118578 TAAATGAAATGAGAAAAAAAG
1 TAAATGAAATGAGAAAAAAAG
* **
19118599 TAAATTAAAATGGAAAGAAAGATAATT
1 TAAA-TGAAAT-G--AGAAA-A-AAAG
19118626 TAAATGAAATGAGAAAAAA
1 TAAATGAAATGAGAAAAAA
19118645 TAAAATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
21 6 0.17
22 6 0.17
23 6 0.17
25 6 0.17
26 6 0.17
27 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.19
Consensus pattern (21 bp):
TAAATGAAATGAGAAAAAAAG
Found at i:19118643 original size:96 final size:95
Alignment explanation
Indices: 19118551--19118876 Score: 485
Period size: 96 Copynumber: 3.4 Consensus size: 95
19118541 AAAAAAAACG
* * * * *
19118551 TAAATTAAAATGGCAAGAAAGATAATTTAAATGAAATGAGAAAAAAAGTAAATTAAAATGGAAAG
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGGAAAG
19118616 AAAGATAATTTAAATGAAATGAGAAAAAAT
66 AAAGATAATTTAAATGAAATGAGAAAAAAT
* * *
19118646 AAAATTTAAATGGAAAAAAGGACAATTTAAATGAAATGAG-AAAAAATTAAATTTAAATGGAAAA
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGG-AAA
*
19118710 AAAGAGATAATTTAAATGAAATGAGAAAAAAT
65 GAA-AGATAATTTAAATGAAATGAGAAAAAAT
19118742 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAAAATTAAATTTAAATGGA
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAG---AAAAAAATTAAATTTAAATGGA
* * *
19118807 AAGAAACATAATTTAAATGAAATTAAAAAAAAT
63 AAGAAAGATAATTTAAATGAAATGAGAAAAAAT
19118840 TAAATTTAAAT-GAAAAAAAGATAATTTAAATGAAATG
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATG
19118877 GATATGGAAA
Statistics
Matches: 209, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
94 18 0.09
95 39 0.19
96 65 0.31
97 26 0.12
98 36 0.17
99 5 0.02
100 20 0.10
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (95 bp):
TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGGAAAG
AAAGATAATTTAAATGAAATGAGAAAAAAT
Found at i:19118661 original size:47 final size:47
Alignment explanation
Indices: 19118551--19118876 Score: 465
Period size: 47 Copynumber: 6.8 Consensus size: 47
19118541 AAAAAAAACG
* * * *
19118551 TAAATTAAAATGGCAAGAAAGATAATTTAAATGAAATGAGAAAAAAAG
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAG-AAAAAAT
* *
19118599 TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAT
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAT
* * *
19118646 AAAATTTAAATGGAAAAAAGGACAATTTAAATGAAATGAGAAAAAAT
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAT
19118693 TAAATTTAAATGGAAAAAAAGAGATAATTTAAATGAAATGAGAAAAAAT
1 TAAATTTAAATGG-AAAAAA-AGATAATTTAAATGAAATGAGAAAAAAT
19118742 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAAAAT
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAG----AAAAAAT
* * * *
19118793 TAAATTTAAATGGAAAGAAACATAATTTAAATGAAATTAAAAAAAAT
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAT
19118840 TAAATTTAAAT-GAAAAAAAGATAATTTAAATGAAATG
1 TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATG
19118877 GATATGGAAA
Statistics
Matches: 255, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
46 23 0.09
47 99 0.39
48 51 0.20
49 39 0.15
51 43 0.17
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (47 bp):
TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAT
Found at i:19118757 original size:20 final size:21
Alignment explanation
Indices: 19118728--19118775 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
19118718 AATTTAAATG
*
19118728 AAATGAGAAAAAATTAAATTT
1 AAATGAGAAAAAATAAAATTT
19118749 AAATG-GAAAAAA-AGATAATTT
1 AAATGAGAAAAAATA-A-AATTT
19118770 AAATGA
1 AAATGA
19118776 AATGAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (21 bp):
AAATGAGAAAAAATAAAATTT
Found at i:19118840 original size:21 final size:21
Alignment explanation
Indices: 19118794--19118876 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
19118784 AAAAAAAATT
*
19118794 AAATTTAAATGGAAA-GAAACA
1 AAATTTAAAT-GAAATGAAAAA
* *
19118815 TAATTTAAATGAAATTAAAAA
1 AAATTTAAATGAAATGAAAAA
*
19118836 AAA-TTAAATTTAAATGAAAAAAA
1 AAATTTAAA-TGAAATG--AAAAA
19118859 GATAATTTAAATGAAATG
1 -A-AATTTAAATGAAATG
19118877 GATATGGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
20 9 0.19
21 20 0.42
23 5 0.10
24 1 0.02
25 8 0.17
26 5 0.10
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (21 bp):
AAATTTAAATGAAATGAAAAA
Found at i:19118891 original size:5 final size:5
Alignment explanation
Indices: 19118867--19118923 Score: 69
Period size: 5 Copynumber: 10.6 Consensus size: 5
19118857 AAGATAATTT
*
19118867 AAATG AAATGG ATATGG AAATG AAATG AAATG AAATGG AAATAG AAATG
1 AAATG AAAT-G AAAT-G AAATG AAATG AAATG AAAT-G AAAT-G AAATG
19118916 AAATG AAA
1 AAATG AAA
19118924 AGAAGAAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
5 28 0.60
6 19 0.40
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:19118898 original size:27 final size:27
Alignment explanation
Indices: 19118867--19118923 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
19118857 AAGATAATTT
* *
19118867 AAATGAAATGGATATGGAAATGAAATG
1 AAATGAAATGGAAATAGAAATGAAATG
19118894 AAATGAAATGGAAATAGAAATGAAATG
1 AAATGAAATGGAAATAGAAATGAAATG
19118921 AAA
1 AAA
19118924 AGAAGAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (27 bp):
AAATGAAATGGAAATAGAAATGAAATG
Found at i:19118921 original size:22 final size:21
Alignment explanation
Indices: 19118867--19118923 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 21
19118857 AAGATAATTT
*
19118867 AAATGAAATGGATATGGAAATG
1 AAATGAAAT-GAAATGGAAATG
19118889 AAATGAAATGAAATGGAAATAG
1 AAATGAAATGAAATGGAAAT-G
19118911 AAATGAAATGAAA
1 AAATGAAATGAAA
19118924 AGAAGAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 10 0.30
22 23 0.70
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (21 bp):
AAATGAAATGAAATGGAAATG
Found at i:19118964 original size:16 final size:16
Alignment explanation
Indices: 19118943--19118979 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
19118933 AGATGAAAGG
19118943 ACAGGTCAGGCCTGCC
1 ACAGGTCAGGCCTGCC
19118959 ACAGGTCAGGCCTGCC
1 ACAGGTCAGGCCTGCC
*
19118975 GCAGG
1 ACAGG
19118980 CTTGATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.35, T:0.11
Consensus pattern (16 bp):
ACAGGTCAGGCCTGCC
Found at i:19120244 original size:19 final size:17
Alignment explanation
Indices: 19120213--19120263 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
19120203 CTTGCTGCTA
19120213 TTATTTCTTTATTTTTGT
1 TTATTT-TTTATTTTTGT
*
19120231 TCATATTTTTTATTTTGGT
1 T--TATTTTTTATTTTTGT
19120250 TTA-TTTTTATTTTT
1 TTATTTTTTATTTTT
19120264 TCGGTCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 10 0.34
17 2 0.07
18 1 0.03
19 11 0.38
20 5 0.17
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (17 bp):
TTATTTTTTATTTTTGT
Found at i:19120493 original size:3 final size:3
Alignment explanation
Indices: 19120485--19120550 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
19120475 ATTGTTTGTC
* *
19120485 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
19120533 GTT ATTT ATT -TT ATT ATT
1 ATT A-TT ATT ATT ATT ATT
19120551 TATTTCATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:19126467 original size:24 final size:24
Alignment explanation
Indices: 19126432--19126489 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
19126422 ATGTCCCAAA
*
19126432 ATTACAAGTGGATTGAACCTTGAAG
1 ATTAC-AGTGGATTGAACCCTGAAG
19126457 ATTACAGTGGATTGAACCCTGAAG
1 ATTACAGTGGATTGAACCCTGAAG
19126481 ATTACAGTG
1 ATTACAGTG
19126490 AGGGCAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCCTGAAG
Found at i:19126989 original size:88 final size:88
Alignment explanation
Indices: 19126791--19126989 Score: 245
Period size: 88 Copynumber: 2.3 Consensus size: 88
19126781 GGAATGGATT
* *** ** * *
19126791 GTTGAAGATTGTAGATCTTGTCTTCCTGTACCGGTAGTGAAGCAGATTGAAAACATCAGCCTTAT
1 GTTGAAGATTGTAGATCTTGTCTTACTGTACCAACAGTGAAGCAGATAAAAAAAATCAACCTTAT
* *
19126856 CTCCCTGAGCAGTAGTGGAGTAG
66 CTCCCTGAGCAGCAGTGGAGGAG
* * * *
19126879 GTTAAAGATTATAAATCTTGTCTTACTGTACTAACAGTGAAGCAGATAAAAAAAATCAACCTTAT
1 GTTGAAGATTGTAGATCTTGTCTTACTGTACCAACAGTGAAGCAGATAAAAAAAATCAACCTTAT
*
19126944 CTCCTTGAGCAGCAGTGGAGGAG
66 CTCCCTGAGCAGCAGTGGAGGAG
* *
19126967 GTTGAAGATTGCAGATCCTGTCT
1 GTTGAAGATTGTAGATCTTGTCT
19126990 CCCTAAGTAG
Statistics
Matches: 91, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (88 bp):
GTTGAAGATTGTAGATCTTGTCTTACTGTACCAACAGTGAAGCAGATAAAAAAAATCAACCTTAT
CTCCCTGAGCAGCAGTGGAGGAG
Found at i:19127254 original size:21 final size:21
Alignment explanation
Indices: 19127228--19127271 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19127218 CTGGCATTGT
*
19127228 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
*
19127249 AGTGGAACGGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
19127270 AG
1 AG
19127272 GCAGCGAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.20
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:19127367 original size:52 final size:52
Alignment explanation
Indices: 19127252--19127392 Score: 167
Period size: 52 Copynumber: 2.7 Consensus size: 52
19127242 AAGCTGAAGT
* * * * *
19127252 GGAACGGATTAAAGCTGAAGGCAGCGAATCTT-ATTTCCTTGGCGTTACAGT
1 GGAACAGATTAAAGCTGAAGGCAGCGAATCTTGTTTTCCCTGGCATTACAGC
* * * *
19127303 GGAACAGATTAAAGATAAAGGTAGCGAATCTTGTTTTCCCTGGCATTGCAGC
1 GGAACAGATTAAAGCTGAAGGCAGCGAATCTTGTTTTCCCTGGCATTACAGC
* * *
19127355 GGAGCAGATTAAAGCTGAAGACAACGAATCTTGTTTTC
1 GGAACAGATTAAAGCTGAAGGCAGCGAATCTTGTTTTC
19127393 GATTGAAGAC
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
51 28 0.38
52 46 0.62
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (52 bp):
GGAACAGATTAAAGCTGAAGGCAGCGAATCTTGTTTTCCCTGGCATTACAGC
Found at i:19127506 original size:44 final size:44
Alignment explanation
Indices: 19127411--19127850 Score: 291
Period size: 44 Copynumber: 9.8 Consensus size: 44
19127401 ACTGACTACA
* * * *
19127411 AATCTTATCTCCCTGAAGTTGCGGTGGAGCATATTAAAGCTA-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
* *
19127454 AGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
* * * * * *
19127499 AATCTTATCTCCTTGAAG-TACAGTGGTGCAGATTAAAAATAAATC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT--ACC
* * * *
19127544 AATCTTATCTTCTTGAAGTTGCAGTGGAGTAGATTGAAGTTACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
* * * * **
19127588 AAGTCCTATCTCCCTGAAGTTGCAGTAGAGCGGATT-AAAATGATG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACC
* * * * * * *
19127633 AATCCTATAC-CTCGGAAGTTACAGTAGG-TCGGATT-AAGTCTACCATAAC
1 AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAG------ATACC
* * *
19127682 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGACAACC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACC
* *
19127728 AACCTTATCTTCCTGAAGTTGCAGTGGAGCATG-TTGAAGATACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATACC
** * * **
19127772 AATCTTATCTCCCTGAAGTTGCAGTTAAGGAGATTGAAGCTATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
* ** *
19127816 AATCTTATTTCCCTGAAGTCACAGTGGAGCGGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
19127851 AAAACGGATC
Statistics
Matches: 305, Mismatches: 70, Indels: 43
0.73 0.17 0.10
Matches are distributed among these distances:
43 19 0.06
44 148 0.49
45 86 0.28
46 21 0.07
49 6 0.02
50 22 0.07
51 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
Found at i:19127810 original size:89 final size:89
Alignment explanation
Indices: 19127411--19127796 Score: 311
Period size: 89 Copynumber: 4.3 Consensus size: 89
19127401 ACTGACTACA
* * * *
19127411 AATCTTATCTCCCTGAAGTTGCGGTGGAGCATATTAAAG-CTA-CAGACCTTATCTCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATCA-ACCTTATCTTCCTGAAGT
*
19127474 TGCAGTGGAGCAGGTTGAAGATACC
65 TGCAGTGGAGCATGTTGAAGATACC
* * * * * * *
19127499 AATCTTATCTCCTTGAAG-TACAGTGGTGCAGATTAAAAATAAATCAATCTTATCTTCTTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA-CAATCAACCTTATCTTCCTGAAGT
* *
19127563 TGCAGTGGAGTA-GATTGAAGTTACC
65 TGCAGTGGAGCATG-TTGAAGATACC
* * * ** * * *
19127588 AAGTCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAA-ATGATGAATCC-TATACCT-CGGAA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATCAA-CCTTAT-CTTCCTGAA
* * * ** *
19127650 GTTACAGTAGGTCGGATTAAGTCT-ACCATAAC
63 GTTGCAGT-GG-AGCA-T--GT-TGAAGATACC
* * * *
19127682 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGACAACCAACCTTATCTTCCTGAAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATCAACCTTATCTTCCTGAAGT
19127747 TGCAGTGGAGCATGTTGAAGATACC
65 TGCAGTGGAGCATGTTGAAGATACC
19127772 AATCTTATCTCCCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
19127797 TAAGGAGATT
Statistics
Matches: 227, Mismatches: 52, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
87 15 0.07
88 18 0.08
89 79 0.35
90 31 0.14
91 17 0.07
92 1 0.00
93 2 0.01
94 44 0.19
95 20 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATCAACCTTATCTTCCTGAAGTT
GCAGTGGAGCATGTTGAAGATACC
Found at i:19129361 original size:19 final size:17
Alignment explanation
Indices: 19129330--19129380 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
19129320 GTTGCTGCTA
19129330 TTATTTCTTTATTTTTGT
1 TTATTT-TTTATTTTTGT
*
19129348 TCATATTTTTTATTTTGGT
1 T--TATTTTTTATTTTTGT
19129367 TTA-TTTTTATTTTT
1 TTATTTTTTATTTTT
19129381 TTGGTCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 10 0.34
17 2 0.07
18 1 0.03
19 11 0.38
20 5 0.17
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (17 bp):
TTATTTTTTATTTTTGT
Found at i:19129586 original size:3 final size:3
Alignment explanation
Indices: 19129578--19129637 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
19129568 ACTGTTTGTC
* * *
19129578 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT TTT GTT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
19129627 ATT -TT ATT ATT
1 ATT ATT ATT ATT
19129638 TATTTCATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:19130484 original size:21 final size:21
Alignment explanation
Indices: 19130452--19130492 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19130442 AACGATATTT
19130452 AAATTGAGAAAAATTTAAATA
1 AAATTGAGAAAAATTTAAATA
*
19130473 AAATATGA-AAAATTTTAAAT
1 AAAT-TGAGAAAAATTTAAAT
19130493 GACCCTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (21 bp):
AAATTGAGAAAAATTTAAATA
Found at i:19130575 original size:15 final size:16
Alignment explanation
Indices: 19130541--19130579 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
19130531 ATATGAAATG
*
19130541 AATTGAAAAAAAATTG
1 AATTGAAAAAAAATTA
*
19130557 AATTGAAAAAAGA-TA
1 AATTGAAAAAAAATTA
19130572 AATTGAAA
1 AATTGAAA
19130580 TGAGACTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (16 bp):
AATTGAAAAAAAATTA
Found at i:19130686 original size:28 final size:28
Alignment explanation
Indices: 19130654--19130742 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
19130644 AAAAAAAATT
* *
19130654 AATGAAATGAAATGTT-AAATGAATATGA
1 AATGAAATGTAAT-TTGTAATGAATATGA
19130682 AATGAAATGTAATTTGTAATGAATATGA
1 AATGAAATGTAATTTGTAATGAATATGA
19130710 AATGAAATGTAATTTGTAATGAATATGA
1 AATGAAATGTAATTTGTAATGAATATGA
19130738 AATGA
1 AATGA
19130743 TGATTATGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 2 0.03
28 56 0.97
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (28 bp):
AATGAAATGTAATTTGTAATGAATATGA
Found at i:19130704 original size:17 final size:17
Alignment explanation
Indices: 19130682--19130732 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
19130672 ATGAATATGA
19130682 AATGAAATGTAATTTGT
1 AATGAAATGTAATTTGT
*
19130699 AATG-AA--T-A--TGA
1 AATGAAATGTAATTTGT
19130710 AATGAAATGTAATTTGT
1 AATGAAATGTAATTTGT
19130727 AATGAA
1 AATGAA
19130733 TATGAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 12
0.65 0.05 0.30
Matches are distributed among these distances:
11 6 0.23
12 2 0.08
13 1 0.04
14 2 0.08
15 1 0.04
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
AATGAAATGTAATTTGT
Found at i:19130810 original size:18 final size:18
Alignment explanation
Indices: 19130789--19130832 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
19130779 AATTATAAAT
19130789 TGAAATGAAA-ACAAAAAC
1 TGAAATGAAAGA-AAAAAC
*
19130807 TGAAATGAAAGAAAAAAT
1 TGAAATGAAAGAAAAAAC
19130825 TGAAATGA
1 TGAAATGA
19130833 GAAAAACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.64, C:0.05, G:0.16, T:0.16
Consensus pattern (18 bp):
TGAAATGAAAGAAAAAAC
Found at i:19130894 original size:22 final size:22
Alignment explanation
Indices: 19130866--19130926 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
19130856 AAATAATAAT
*
19130866 TTAAATGAAATGAAAATGTAAA
1 TTAAATGAAATGAAAATGGAAA
*
19130888 TTAAATGAAATGGAAATGGAAA
1 TTAAATGAAATGAAAATGGAAA
*
19130910 TGAAATGAAAT-AAAATG
1 TTAAATGAAATGAAAATG
19130927 AAAAAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.57, C:0.00, G:0.18, T:0.25
Consensus pattern (22 bp):
TTAAATGAAATGAAAATGGAAA
Found at i:19130930 original size:6 final size:5
Alignment explanation
Indices: 19130654--19130929 Score: 72
Period size: 5 Copynumber: 52.4 Consensus size: 5
19130644 AAAAAAAATT
* *
19130654 AATGA AATGA AATGTTA AATGA ATATGA AATGA AATGTA ATTTGT AATGA
1 AATGA AATGA AATG--A AATGA A-ATGA AATGA AATG-A A-ATGA AATGA
* * *
19130704 ATATGA AATGA AATGTA ATTTGT AATGA ATATGA AATG- -ATGA TTATGA
1 A-ATGA AATGA AATG-A A-ATGA AATGA A-ATGA AATGA AATGA -AATGA
* * * **
19130752 AATGG AATGA AAGTTTA AATGA ACAT-A AATTATA AATTGA AATGA AAACA
1 AATGA AATGA AA--TGA AATGA A-ATGA AA-T-GA AA-TGA AATGA AATGA
* *
19130802 AA--A ACTGA AATGA AA-GA AA--A AATTGA AATGA GAA--A AACTTA
1 AATGA AATGA AATGA AATGA AATGA AA-TGA AATGA -AATGA AA-TGA
* * * * *
19130843 AATTTA AATGGA AA-AA TAAT-A ATTTA AATGA AATGAA AATGTA AATTA
1 AA-TGA AAT-GA AATGA -AATGA AATGA AATGA AATG-A AATG-A AATGA
*
19130891 AATGA AATGGA AATGGA AATGA AATGA AATAA AATGA AA
1 AATGA AAT-GA AAT-GA AATGA AATGA AATGA AATGA AA
19130930 AAAAAAGGTT
Statistics
Matches: 209, Mismatches: 29, Indels: 66
0.69 0.10 0.22
Matches are distributed among these distances:
3 10 0.05
4 9 0.04
5 106 0.51
6 66 0.32
7 18 0.09
ACGTcount: A:0.55, C:0.01, G:0.16, T:0.27
Consensus pattern (5 bp):
AATGA
Found at i:19140002 original size:13 final size:12
Alignment explanation
Indices: 19139988--19140042 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 12
19139978 GATAAACCAT
*
19139988 TAAATAAAGAAAT
1 TAAAT-AAGAAAA
* *
19140001 TAGATAAAAAAA
1 TAAATAAGAAAA
19140013 TAAATAAGAAAAA
1 TAAATAAG-AAAA
19140026 TAAATAAGAAAAA
1 TAAATAAG-AAAA
19140039 TAAA
1 TAAA
19140043 CAGACGATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
12 11 0.31
13 25 0.69
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (12 bp):
TAAATAAGAAAA
Found at i:19140017 original size:17 final size:17
Alignment explanation
Indices: 19139989--19140032 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
19139979 ATAAACCATT
* *
19139989 AAATAAAGAAATTAGATA
1 AAATAAATAAATAAGA-A
19140007 AAA-AAATAAATAAGAA
1 AAATAAATAAATAAGAA
19140023 AAATAAATAA
1 AAATAAATAA
19140033 GAAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.70
18 3 0.13
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (17 bp):
AAATAAATAAATAAGAA
Found at i:19140438 original size:17 final size:17
Alignment explanation
Indices: 19140416--19140452 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
19140406 GATTTAGTCA
19140416 CTCATGTTATTCATAAT
1 CTCATGTTATTCATAAT
19140433 CTCATGTTATTCATAAT
1 CTCATGTTATTCATAAT
19140450 CTC
1 CTC
19140453 TATATCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (17 bp):
CTCATGTTATTCATAAT
Found at i:19141764 original size:17 final size:17
Alignment explanation
Indices: 19141740--19141783 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
19141730 TAATTTAATT
19141740 AACTAAATTAATTTCTC
1 AACTAAATTAATTTCTC
* * *
19141757 AGCTAAATGATTTTCTC
1 AACTAAATTAATTTCTC
19141774 AACTAAATTA
1 AACTAAATTA
19141784 TAATTCTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.39
Consensus pattern (17 bp):
AACTAAATTAATTTCTC
Found at i:19144707 original size:19 final size:20
Alignment explanation
Indices: 19144673--19144710 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19144663 TATAATAATA
*
19144673 TTTTAATTGTTATCAATATG
1 TTTTAAATGTTATCAATATG
19144693 TTTTAAATG-TATCAATAT
1 TTTTAAATGTTATCAATAT
19144711 TATTTAAAAA
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:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTTAAATGTTATCAATATG
Found at i:19157329 original size:44 final size:44
Alignment explanation
Indices: 19157281--19157627 Score: 120
Period size: 44 Copynumber: 7.5 Consensus size: 44
19157271 CTAGTAATCC
19157281 TATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCT
1 TATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCT
* **
19157325 TATCTCTCTGAAG-TTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAA--ATCT
1 TATCTCCCT-AAGATTACAGT-G-G-AG--CG-----GATT-AAAACA-AAGGATCT
* * * * * * * * *
19157379 TAGCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-TAGTAATCC
1 TATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAG-GATCT
* *
19157423 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCT
* **
19157467 TATCTCTCTGAAG-TTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAA--ATCT
1 TATCTCCCT-AAGATTACAGT-G-G-AG--CG-----GATT-AAAACA-AAGGATCT
* * * * * * * *
19157521 TATCTCCCTGAGATTACAG-CGAGCAGATTGAAGC-TAGTAATCC
1 TATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAG-GATCT
*
19157564 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCT
1 TATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCT
*
19157608 TATCTCTCTGAAG-TTACAGT
1 TATCTCCCT-AAGATTACAGT
19157628 AGAGTAGATC
Statistics
Matches: 220, Mismatches: 45, Indels: 76
0.65 0.13 0.22
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 2 0.01
43 28 0.13
44 98 0.45
45 13 0.06
46 2 0.01
47 4 0.02
48 1 0.00
49 5 0.02
50 2 0.01
51 3 0.01
52 1 0.00
53 5 0.02
54 43 0.20
55 7 0.03
56 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCT
Found at i:19157473 original size:142 final size:142
Alignment explanation
Indices: 19157217--19157928 Score: 1264
Period size: 142 Copynumber: 5.0 Consensus size: 142
19157207 TGTAAGAAAG
* * ** *
19157217 CAGATTAAAGTCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGCCTAAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
19157282 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19157347 AGTAGATCGCAT
131 AGTAGATCGCAT
*
19157359 CAGATTGAAGCCAGAAATCTTAGCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
19157424 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19157489 AGTAGATCGCAT
131 AGTAGATCGCAT
19157501 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGC-GAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
19157565 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19157630 AGTAGATCGCAT
131 AGTAGATCGCAT
*
19157642 CAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
19157707 ATCTCCTTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19157772 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
19157784 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
19157849 ATCTTCCTGAGATTACAGTGGAGTGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
19157914 AGTAGATCACAT
131 AGTAGATCGCAT
19157926 CAG
1 CAG
19157929 GTCTTATCTC
Statistics
Matches: 546, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
141 139 0.25
142 407 0.75
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:19157710 original size:44 final size:44
Alignment explanation
Indices: 19157642--19157871 Score: 173
Period size: 44 Copynumber: 5.0 Consensus size: 44
19157632 TAGATCGCAT
* *
19157642 CAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCTTGAGATTACAGCGGAG
* * *
19157686 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTATAGTGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCTTGAGATTACAGCGGAG
* ** * *
19157730 CGGATT-AAAATA-AAGGATCTTATCT-CTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCCTATCTCCT-TGAGA-TTAC---AGCG--GA--G
*
19157781 CATCAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCCTATCTCCTTGAGATTACAGCGGAG
* *
19157828 CAGATTGAAGCTAGTAATCCTATCTTCC-TGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCCTATC-TCCTTGAGATTACAGCGGAG
19157872 TGGATTAAAA
Statistics
Matches: 147, Mismatches: 20, Indels: 38
0.72 0.10 0.19
Matches are distributed among these distances:
42 1 0.01
43 7 0.05
44 96 0.65
45 3 0.02
47 4 0.03
49 4 0.03
51 4 0.03
54 20 0.14
55 6 0.04
56 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCCTATCTCCTTGAGATTACAGCGGAG
Found at i:19157775 original size:283 final size:284
Alignment explanation
Indices: 19157217--19157928 Score: 1282
Period size: 283 Copynumber: 2.5 Consensus size: 284
19157207 TGTAAGAAAG
* * ** *
19157217 CAGATTAAAGTCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGCCTAAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
19157282 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19157347 AGTAGATCGCATCAGATTGAAGCCAGAAATCTTAGCTCCCTGAGATTACAGCGGAGCAGATTGAA
131 AGTAGATCGCATCAGATTGAAGCCAGAAATCTTAGCTCCCTGAGATTACAGCGGAGCAGATTGAA
19157412 GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTG
196 GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTG
19157477 AAGTTACAGTAGAGTAGATCGCAT
261 AAGTTACAGTAGAGTAGATCGCAT
19157501 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGC-GAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
19157565 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
* *
19157630 AGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAA
131 AGTAGATCGCATCAGATTGAAGCCAGAAATCTTAGCTCCCTGAGATTACAGCGGAGCAGATTGAA
* *
19157695 GCTAGTAATCCTATCTCCTTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTG
196 GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTG
19157760 AAGTTACAGTAGAGTAGATCGCAT
261 AAGTTACAGTAGAGTAGATCGCAT
* *
19157784 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
19157849 ATCTTCCTGAGATTACAGTGGAGTGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
19157914 AGTAGATCACATCAG
131 AGTAGATCGCATCAG
19157929 GTCTTATCTC
Statistics
Matches: 412, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
283 273 0.66
284 139 0.34
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (284 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCATCAGATTGAAGCCAGAAATCTTAGCTCCCTGAGATTACAGCGGAGCAGATTGAA
GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTG
AAGTTACAGTAGAGTAGATCGCAT
Found at i:19158422 original size:27 final size:27
Alignment explanation
Indices: 19158383--19158435 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
19158373 CCATTTATAG
* *
19158383 AAATTTAAACCCAGATTATTAA-ACCCA
1 AAATTCAAACCCA-AATATTAAGACCCA
*
19158410 AAATTCAAGCCCAAATATTAAGACCC
1 AAATTCAAACCCAAATATTAAGACCC
19158436 GAATAGCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.23
Consensus pattern (27 bp):
AAATTCAAACCCAAATATTAAGACCCA
Found at i:19159867 original size:19 final size:20
Alignment explanation
Indices: 19159833--19159870 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19159823 AATAATAATA
*
19159833 TTTTAATTGTTATCAATATG
1 TTTTAAATGTTATCAATATG
19159853 TTTTAAATG-TATCAATAT
1 TTTTAAATGTTATCAATAT
19159871 TATTTAAAAA
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:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTTAAATGTTATCAATATG
Found at i:19165350 original size:236 final size:235
Alignment explanation
Indices: 19164877--19165537 Score: 726
Period size: 236 Copynumber: 2.8 Consensus size: 235
19164867 GTACTAATCG
* * * * **
19164877 CATCTAATGCTCATCCAAGATGAACATATCTATTTGTGACAAGTTACCTGTCTGGATTAAACCTT
1 CATCTGATGCTCATCCAAGCTGAACATATC-ATTTGTGTCAAGTTACCTGTCCGGGCTAAACCTT
* * * * *
19164942 TTATCGACACATCAAATAGCTTAGG-CAAAGCTGTAAATATATATCTTAGGTTACCTGTC-CAGG
65 TTATCGACACATCAAATAGCTT-GGCCAAAGCTATAAATATACAT-GTAAGTTACCTGTCTGA-G
* * * *
19165005 CTAAACCTTTAAAACGACTATCATGTTACTCG-TCTGAGCAAAACCTGTGTCACATGTATCTTCA
127 CTAAACCTTTAAAAC-AATATCAAGTTACTTGTTC-GAGCTAAACCTGTGTCACATGTATCTTCA
* * * * *
19165069 AGTTTGCAACAAATGTTGGATCTTAGTAATCATCGGTAATTAACCA
190 AGTCTGCAAAAAATGTTGAATCTCAGTAATCATCAGTAATTAACCA
* * * * **
19165115 TATCTGATGCTCGTCCGAGCTGAACAGATCCATTTGTGTCAAGTTACCCATCCGGGCTAAACCTT
1 CATCTGATGCTCATCCAAGCTGAACATAT-CATTTGTGTCAAGTTACCTGTCCGGGCTAAACCTT
19165180 TTATCGACACAT-AAATAGCTTGGCCAAAGCTATAAATATACATGTCAAGTTACCTGTCTGAGCT
65 TTATCGACACATCAAATAGCTTGGCCAAAGCTATAAATATACATGT-AAGTTACCTGTCTGAGCT
* * *
19165244 AAACCTTTAAAACAATATCAGGTTACTTGTTCGAGCTAAACCTGTGTCACGTGTATCTTCGAGTC
129 AAACCTTTAAAACAATATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTCAAGTC
*
19165309 TGCAAAAAATGTTGAATCTCGGTAATCATCAGTAATTAACCA
194 TGCAAAAAATGTTGAATCTCAGTAATCATCAGTAATTAACCA
* * * ** * * *
19165351 CATTTGTTGCTCATCCAAGCCGAACATAT-ATTCATGTCAGGTTACCTGTACAGGCTAAACCTTT
1 CATCTGATGCTCATCCAAGCTGAACATATCATTTGTGTCAAGTTACCTGTCCGGGCTAAACCTTT
* * * ** * *
19165415 ATATCGACACATCAAATAGTTTGTCTACGGCTAT--ATATACATGTAAGGTTACCCGT-TCGGGC
66 -TATCGACACATCAAATAGCTTGGCCAAAGCTATAAATATACATGTAA-GTTACCTGTCT-GAGC
* * * *
19165477 TAAACCTTTAAAACGAGATCAAGTTACTTGTCCGAGCTAAACCTATGTCACATGTATCTTC
128 TAAACCTTTAAAACAATATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTC
19165538 TAGCCAACAA
Statistics
Matches: 358, Mismatches: 56, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
233 3 0.01
234 104 0.29
235 11 0.03
236 120 0.34
237 55 0.15
238 64 0.18
239 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (235 bp):
CATCTGATGCTCATCCAAGCTGAACATATCATTTGTGTCAAGTTACCTGTCCGGGCTAAACCTTT
TATCGACACATCAAATAGCTTGGCCAAAGCTATAAATATACATGTAAGTTACCTGTCTGAGCTAA
ACCTTTAAAACAATATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTCAAGTCTG
CAAAAAATGTTGAATCTCAGTAATCATCAGTAATTAACCA
Found at i:19167818 original size:145 final size:147
Alignment explanation
Indices: 19167512--19167858 Score: 407
Period size: 145 Copynumber: 2.4 Consensus size: 147
19167502 ATTTCAACAT
* * * * * *
19167512 GTGTACCTAATTTTATGGTATATTATAATATATACAATCAACATTATATAATTAAGGTATATTAT
1 GTGTAACTAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATT-AGGTAGATTAT
** ** * ** *
19167577 TAATGATATATAACCCCATATACAACTATTTTTTTTATAATGTACATTTTTATGTTTTTGATTTG
65 TAATGATATATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATG
*
19167642 TAAACTTAAACTCTAAGC
130 TAAACTTAAACTCTAAAC
* * *
19167660 ATATAACTAATTTTATGGTAGATTATAATA-ATATAATTAGCGTTATATAATTAGGTAGATTATT
1 GTGTAACTAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATTAGGTAGATTATT
* * * *
19167724 AATGATATCTAACCCTATATACAATTA-TGATACTATAATGTATATTTTTATATTAATGATATGT
66 AATGATATATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATGT
*
19167788 -AACTTTATAC-CTTAAAC
131 AAAC-TTAAACTC-TAAAC
*
19167805 GTGTAACTAATTTTATGGTAGATCATAATATATATAATT-GACATTATATAATTA
1 GTGTAACTAATTTTATGGTAGATTATAATATATATAATTAG-CATTATATAATTA
19167859 TGGTTAAGTA
Statistics
Matches: 168, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
144 4 0.02
145 65 0.39
146 55 0.33
147 18 0.11
148 26 0.15
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (147 bp):
GTGTAACTAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATTAGGTAGATTATT
AATGATATATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATGT
AAACTTAAACTCTAAAC
Found at i:19167925 original size:24 final size:24
Alignment explanation
Indices: 19167898--19167961 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
19167888 TTATGGAACT
*
19167898 TTTAATTTATTTGAAATTCGTATG
1 TTTAATTTGTTTGAAATTCGTATG
* **
19167922 TTTAAATTGTTCTGAAATTTTTATG
1 TTTAATTTGTT-TGAAATTCGTATG
19167947 TTTAATTTGTTTGAA
1 TTTAATTTGTTTGAA
19167962 TTGTTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 13 0.38
25 21 0.62
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (24 bp):
TTTAATTTGTTTGAAATTCGTATG
Found at i:19169209 original size:12 final size:12
Alignment explanation
Indices: 19169192--19169216 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19169182 TATTTTTCCA
19169192 TGTATGTATATT
1 TGTATGTATATT
19169204 TGTATGTATATT
1 TGTATGTATATT
19169216 T
1 T
19169217 ATGTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TGTATGTATATT
Found at i:19172800 original size:25 final size:25
Alignment explanation
Indices: 19172766--19172832 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
19172756 TTTACAGCAT
19172766 TGCTCACACGAGCTGTGAAATAGCC
1 TGCTCACACGAGCTGTGAAATAGCC
19172791 TGCTCACACGAGCTGTGAAATAGCC
1 TGCTCACACGAGCTGTGAAATAGCC
* *
19172816 TGTTCACACGAGTTGTG
1 TGCTCACACGAGCTGTG
19172833 GGTCGGAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAAATAGCC
Found at i:19179999 original size:21 final size:21
Alignment explanation
Indices: 19179961--19180000 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19179951 AAAAGGAATG
*
19179961 AAAATGAAAAAATAAAAAATC
1 AAAATGAAAAAAAAAAAAATC
19179982 AAAAT-AAAAAAAACAAAAA
1 AAAATGAAAAAAAA-AAAAA
19180001 GAAGAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAATGAAAAAAAAAAAAATC
Found at i:19180045 original size:12 final size:12
Alignment explanation
Indices: 19180007--19180048 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
19179997 AAAAGAAGAG
19180007 AAAA-GAAAATC
1 AAAATGAAAATC
* *
19180018 AAAATCAAGATC
1 AAAATGAAAATC
*
19180030 AAAATGAAAATG
1 AAAATGAAAATC
19180042 AAAATGA
1 AAAATGA
19180049 GAAAAAGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.67, C:0.07, G:0.12, T:0.14
Consensus pattern (12 bp):
AAAATGAAAATC
Found at i:19180986 original size:7 final size:7
Alignment explanation
Indices: 19180974--19181024 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
19180964 AAAAAAAGGG
19180974 ATGAAAA
1 ATGAAAA
19180981 ATGAAAAA
1 ATG-AAAA
19180989 ATG-AAA
1 ATGAAAA
19180995 ATGAAAA
1 ATGAAAA
19181002 ATG-AAA
1 ATGAAAA
19181008 ATGAAAA
1 ATGAAAA
19181015 A-GTAAAA
1 ATG-AAAA
19181022 ATG
1 ATG
19181025 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 13 0.33
7 18 0.46
8 8 0.21
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
ATGAAAA
Found at i:19181021 original size:13 final size:13
Alignment explanation
Indices: 19180978--19181015 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
19180968 AAAGGGATGA
19180978 AAAATGAAAAAATG
1 AAAATG-AAAAATG
19180992 AAAATGAAAAATG
1 AAAATGAAAAATG
19181005 AAAATGAAAAA
1 AAAATGAAAAA
19181016 GTAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:19182412 original size:80 final size:80
Alignment explanation
Indices: 19182279--19182642 Score: 353
Period size: 80 Copynumber: 4.5 Consensus size: 80
19182269 TAAGCGGCGA
* * * * *
19182279 ATCTTATTTTCTCCAGGAGTAGGGAAACAGATTTAAGCTACAAGTCCTATGTCCTTGATCAACAG
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCTTGGTCAACAA
19182344 TGGGATAGGTTGAAG
66 TGGGATAGGTTGAAG
19182359 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCTTGGT-AAGCA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCTTGGTCAA-CA
*
19182423 ATGAGATAGGTTGAAG
65 ATGGGATAGGTTGAAG
* * *** * * *
19182439 ATCTTATCTTCCCCAGAAGTAGGGAAACAGATCTAAGCGGTGAA-TCTTATCTTCCCCAGGAGTA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC-CACAAGTCCTAT-GT--CC-----TT
** ** *
19182503 GGGAAACAGAT-CTA-AGCGGTG-A-
57 GGTCAACA-ATGGGATAG-GTTGAAG
* *
19182525 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAACAA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCTTGGTCAACAA
*
19182590 TAGGATAGGTTGAAG
66 TGGGATAGGTTGAAG
* * *
19182605 ATTTTATCTTCTCCAGGAGTAGGGAAACAGATCTAAGC
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC
19182643 GGCGAATCTT
Statistics
Matches: 229, Mismatches: 37, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
77 2 0.01
78 10 0.04
79 5 0.02
80 146 0.64
81 3 0.01
83 4 0.02
85 3 0.01
86 40 0.17
87 3 0.01
88 9 0.04
89 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (80 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCTTGGTCAACAA
TGGGATAGGTTGAAG
Found at i:19182503 original size:43 final size:43
Alignment explanation
Indices: 19182439--19182562 Score: 221
Period size: 43 Copynumber: 2.9 Consensus size: 43
19182429 TAGGTTGAAG
*
19182439 ATCTTATCTTCCCCAGAAGTAGGGAAACAGATCTAAGCGGTGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGTGA
19182482 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGTGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGTGA
* *
19182525 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGC
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGC
19182563 CACAAGTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (43 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGTGA
Found at i:19182548 original size:166 final size:166
Alignment explanation
Indices: 19182359--19182685 Score: 541
Period size: 166 Copynumber: 2.0 Consensus size: 166
19182349 TAGGTTGAAG
* *
19182359 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCTTGGT-AAGCA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAA-CA
*
19182423 AT-GAGATAGGTTGAAGATCTTATCTTCCCCAGAAGTAGGGAAACAGATCTAAGCGGTGAATCTT
65 ATAG-GATAGGTTGAAGATCTTATCTTCCCCAGAAGTAGGGAAACAGATCTAAGCGGCGAATCTT
*
19182487 ATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGTGA
129 ATCTTCCCCAGGAGTAGGGAAACAAATCTAAGCGGTGA
19182525 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAACAA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAACAA
* * *
19182590 TAGGATAGGTTGAAGATTTTATCTTCTCCAGGAGTAGGGAAACAGATCTAAGCGGCGAATCTTAT
66 TAGGATAGGTTGAAGATCTTATCTTCCCCAGAAGTAGGGAAACAGATCTAAGCGGCGAATCTTAT
* *
19182655 CTTCCCTAGGAGTAGGGAAACAAATTTAAGC
131 CTTCCCCAGGAGTAGGGAAACAAATCTAAGC
19182686 CACAAGTCCT
Statistics
Matches: 150, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
166 147 0.98
167 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (166 bp):
ATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAACAA
TAGGATAGGTTGAAGATCTTATCTTCCCCAGAAGTAGGGAAACAGATCTAAGCGGCGAATCTTAT
CTTCCCCAGGAGTAGGGAAACAAATCTAAGCGGTGA
Found at i:19182721 original size:123 final size:124
Alignment explanation
Indices: 19182482--19182724 Score: 382
Period size: 123 Copynumber: 2.0 Consensus size: 124
19182472 TAAGCGGTGA
* * *
19182482 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGTGAATCTTATCTTCCCCAAGAGTAG
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTTCCCTAGGAGTAG
** *
19182547 GGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAACAATAGG-ATAGGTTGAAG
66 GGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTAGGAATAGGTTGAAG
* *
19182605 ATTTTATCTTCTCCAGGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTTCCCTAGGAGTAG
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTTCCCTAGGAGTAG
* *
19182670 GGAAACAAATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGT-GGAATAGGTTG
66 GGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTAGGAATAGGTTG
19182725 GAAATTACAG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
122 2 0.02
123 107 0.98
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (124 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTTCCCTAGGAGTAG
GGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTAGGAATAGGTTGAAG
Found at i:19188040 original size:24 final size:24
Alignment explanation
Indices: 19188013--19188061 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19188003 CCTTAATTTT
19188013 CTCCCCTAATTCCCACTACACATC
1 CTCCCCTAATTCCCACTACACATC
19188037 CTCCCCTAATTCCCACTACACATC
1 CTCCCCTAATTCCCACTACACATC
19188061 C
1 C
19188062 ACTACTCAAA
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:0.51, G:0.00, T:0.24
Consensus pattern (24 bp):
CTCCCCTAATTCCCACTACACATC
Found at i:19191510 original size:53 final size:53
Alignment explanation
Indices: 19191430--19191536 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
19191420 TTAACCCAAA
19191430 TTTAACAGAAAAGCTGATGTGATTGTCAGTCAACTAACGGTCAACAGCTTTGT
1 TTTAACAGAAAAGCTGATGTGATTGTCAGTCAACTAACGGTCAACAGCTTTGT
19191483 TTTAACAGAAAAGCTGATGTGATTGTCAGTCAACTAACGGTCAACAGCTTTGT
1 TTTAACAGAAAAGCTGATGTGATTGTCAGTCAACTAACGGTCAACAGCTTTGT
19191536 T
1 T
19191537 GATCTGGGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (53 bp):
TTTAACAGAAAAGCTGATGTGATTGTCAGTCAACTAACGGTCAACAGCTTTGT
Found at i:19193577 original size:17 final size:17
Alignment explanation
Indices: 19193521--19193578 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 17
19193511 TTTATTAAAA
19193521 TATACAATAAAAATATTAT
1 TATAC-ATAAAAATATT-T
19193540 TATA-ATAATATAATTTATTT
1 TATACATAA-A-AA--TATTT
19193560 TATACATAAAAATATTT
1 TATACATAAAAATATTT
19193577 TA
1 TA
19193579 ATTATTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
17 11 0.32
18 1 0.03
19 8 0.24
20 6 0.18
21 8 0.24
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TATACATAAAAATATTT
Found at i:19193632 original size:49 final size:48
Alignment explanation
Indices: 19193499--19193633 Score: 150
Period size: 49 Copynumber: 3.0 Consensus size: 48
19193489 TATATGAATT
19193499 TTTTTAATTAATTTTATTAAAATATACAATAAAAATATTATTA-TA-A
1 TTTTTAATTAATTTTATTAAAATATACAATAAAAATATTATTATTATA
*
19193545 ----TAATATAA-TTTATT---TTATAC-ATAAAAATATT-TTAATTATTA
1 TTTTTAAT-TAATTTTATTAAAATATACAATAAAAATATTATT-ATTA-TA
19193586 TTTTTAATTAATTTTATTAAAATATACAATAAAAATATTATTATTATA
1 TTTTTAATTAATTTTATTAAAATATACAATAAAAATATTATTATTATA
19193634 ATATAATTTA
Statistics
Matches: 72, Mismatches: 2, Indels: 28
0.71 0.02 0.27
Matches are distributed among these distances:
37 2 0.03
38 12 0.17
39 7 0.10
41 1 0.01
42 10 0.14
43 3 0.04
44 3 0.04
45 10 0.14
48 7 0.10
49 15 0.21
50 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (48 bp):
TTTTTAATTAATTTTATTAAAATATACAATAAAAATATTATTATTATA
Found at i:19203264 original size:16 final size:16
Alignment explanation
Indices: 19203240--19203270 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19203230 GTCACGTAAT
*
19203240 ATGACTAAATAACATA
1 ATGAATAAATAACATA
19203256 ATGAATAAATAACAT
1 ATGAATAAATAACAT
19203271 TTTGATATGA
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:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (16 bp):
ATGAATAAATAACATA
Found at i:19204902 original size:15 final size:15
Alignment explanation
Indices: 19204863--19204902 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19204853 CCAATAAATG
19204863 ATAAAATAAA-ATAAA
1 ATAAAA-AAACATAAA
*
19204878 ATAAAGAAACATAAA
1 ATAAAAAAACATAAA
19204893 ATAAAAAAAC
1 ATAAAAAAAC
19204903 GAGTCAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (15 bp):
ATAAAAAAACATAAA
Found at i:19206745 original size:13 final size:13
Alignment explanation
Indices: 19206727--19206777 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
19206717 TATGCTATTA
19206727 TTTTTTATAACAT
1 TTTTTTATAACAT
*
19206740 TTTTTTATAATAT
1 TTTTTTATAACAT
19206753 TATTTTTATAA-ATT
1 T-TTTTTATAACA-T
19206767 TTTTTTATAAC
1 TTTTTTATAAC
19206778 CTTAATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
13 23 0.68
14 11 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTTATAACAT
Found at i:19206769 original size:27 final size:28
Alignment explanation
Indices: 19206722--19206776 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
19206712 CATAATATGC
19206722 TATTATTTTTTATAACATTTTTTTATAA
1 TATTATTTTTTATAACATTTTTTTATAA
19206750 TATTA-TTTTTATAA-ATTTTTTTTATAA
1 TATTATTTTTTATAACA-TTTTTTTATAA
19206777 CCTTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 1 0.04
27 20 0.77
28 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTATTTTTTATAACATTTTTTTATAA
Found at i:19206786 original size:27 final size:27
Alignment explanation
Indices: 19206729--19206786 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
19206719 TGCTATTATT
* *
19206729 TTTTATAACATTTTTTTATAATATTAT
1 TTTTATAACATTTTTTTATAACATTAA
*
19206756 TTTTATAA-ATTTTTTTTATAACCTTAA
1 TTTTATAACA-TTTTTTTATAACATTAA
19206783 TTTT
1 TTTT
19206787 CTTTTTGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTTATAACATTTTTTTATAACATTAA
Found at i:19209537 original size:14 final size:14
Alignment explanation
Indices: 19209520--19209558 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
19209510 AAAATGTGCA
19209520 AAAATGGAAAAATG
1 AAAATGGAAAAATG
19209534 AAAATGG-AAAATG
1 AAAATGGAAAAATG
*
19209547 AAAAAGGAAAAA
1 AAAATGGAAAAA
19209559 GTAAAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (14 bp):
AAAATGGAAAAATG
Found at i:19210932 original size:88 final size:88
Alignment explanation
Indices: 19210809--19211347 Score: 720
Period size: 88 Copynumber: 6.1 Consensus size: 88
19210799 AGATTAGTGA
* ** *
19210809 AGATCGAAGATACCAGCCTTACCTCAATCGGTTGCAGTGGAGCAGGTTGAAGATAGCATATCTTG
1 AGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
19210874 CCTTCTTGCGCTGACAGCGAAGC
66 CCTTCCTGCGCTGACAGCGAAGC
* * *
19210897 ATATCAAAGATACCAGCCTCGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* *
19210962 CCTTCCTACGCTGACAGCGAAGT
66 CCTTCCTGCGCTGACAGCGAAGC
* * * *
19210985 AGATCGAAGATACCAGCCTTGCCTCCCTCGGTTACAGTAGAGCAGGTTGAGGATAGCAGATTTTG
1 AGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
19211050 CCTTCCTGCGCTGACAGCGAAGC
66 CCTTCCTGCGCTGACAGCGAAGC
* * *
19211073 AGATTGAAGATACCAGCCTTGCCTCCCTCGGTTGCAATGGAGCAGATTGAAGATAGCAGATCTTG
1 AGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* *
19211138 CCTCCCTGCACTGACAGCGAAGC
66 CCTTCCTGCGCTGACAGCGAAGC
* * * * * *
19211161 AGATCGAAGATACCAGCCTTGCTTCCCTGGGTTACAGTGGAGCAGGTTGAAAATTGCAGATCTTA
1 AGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* *
19211226 CCTTCCTGTGCTGACAGTGAAGC
66 CCTTCCTGCGCTGACAGCGAAGC
* * * * * * *
19211249 AGATCGAAGACACTAGTCTTGCCTCCTTGGGTTGCAGTGGAGCAGGTTGAATATAAC-GAATCTT
1 AGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAG-ATCTT
* **
19211313 GCCTTCTTGTACTGACAGCGAAGC
65 GCCTTCCTGCGCTGACAGCGAAGC
*
19211337 AGATTGAAGAT
1 AGATCGAAGAT
19211348 TACAAGTCCT
Statistics
Matches: 394, Mismatches: 56, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
87 1 0.00
88 393 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
AGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
CCTTCCTGCGCTGACAGCGAAGC
Found at i:19211051 original size:44 final size:44
Alignment explanation
Indices: 19210836--19211224 Score: 218
Period size: 45 Copynumber: 8.8 Consensus size: 44
19210826 CTTACCTCAA
* * * * * *
19210836 TCGGTTGCAGTGGAGCAGGTTGAAGATAGCATATCTTGCCTTCT
1 TCGGTTACAGTCGAGCAGATTGAAGATAGCAGATCTTGCCTCCC
* * * ** * * *
19210880 TGCGCTGACAG-CGAAGCATATCAAAGATACCAG-CCTCGCCTCCC
1 T-CGGTTACAGTCG-AGCAGATTGAAGATAGCAGATCTTGCCTCCC
* * * *
19210924 TCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCC
1 TCGGTTACAGTCGAGCAGATTGAAGATAGCAGATCTTGCCTCCC
* * * * * *
19210968 TACGCTGACAG-CGAAGTAGATCGAAGATACCAG-CCTTGCCTCCC
1 T-CGGTTACAGTCG-AGCAGATTGAAGATAGCAGATCTTGCCTCCC
* * * * *
19211012 TCGGTTACAGTAGAGCAGGTTGAGGATAGCAGATTTTGCCTTCC
1 TCGGTTACAGTCGAGCAGATTGAAGATAGCAGATCTTGCCTCCC
* * * *
19211056 TGCGCTGACAG-CGAAGCAGATTGAAGATACCAG-CCTTGCCTCCC
1 T-CGGTTACAGTCG-AGCAGATTGAAGATAGCAGATCTTGCCTCCC
* * *
19211100 TCGGTTGCAATGGAGCAGATTGAAGATAGCAGATCTTGCCTCCC
1 TCGGTTACAGTCGAGCAGATTGAAGATAGCAGATCTTGCCTCCC
** * * * * *
19211144 TGCACTGACAG-CGAAGCAGATCGAAGATACCAG-CCTTGCTTCCC
1 T-CGGTTACAGTCG-AGCAGATTGAAGATAGCAGATCTTGCCTCCC
* * * * *
19211188 TGGGTTACAGTGGAGCAGGTTGAAAATTGCAGATCTT
1 TCGGTTACAGTCGAGCAGATTGAAGATAGCAGATCTT
19211225 ACCTTCCTGT
Statistics
Matches: 245, Mismatches: 84, Indels: 32
0.68 0.23 0.09
Matches are distributed among these distances:
43 83 0.34
44 78 0.32
45 84 0.34
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (44 bp):
TCGGTTACAGTCGAGCAGATTGAAGATAGCAGATCTTGCCTCCC
Found at i:19211388 original size:44 final size:44
Alignment explanation
Indices: 19211340--19211430 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
19211330 GCGAAGCAGA
** * *
19211340 TTGAAGATTACAAGTCCTATCTCCCTGAACAGCAGTGGAATAGG
1 TTGAAGATTACAAAACCTAGCTCCCTGAACAGCAGTGAAATAGG
* *
19211384 TTGAAGATTGCAAAACCTAGCTCCCTGACCAGCAGTGAAATAGG
1 TTGAAGATTACAAAACCTAGCTCCCTGAACAGCAGTGAAATAGG
19211428 TTG
1 TTG
19211431 GGAAATTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (44 bp):
TTGAAGATTACAAAACCTAGCTCCCTGAACAGCAGTGAAATAGG
Found at i:19211422 original size:176 final size:176
Alignment explanation
Indices: 19210886--19211422 Score: 440
Period size: 176 Copynumber: 3.1 Consensus size: 176
19210876 TTCTTGCGCT
* * * * * * *
19210886 GACAGCGAAGCATATCAAAGATACCAGCCTCGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGAT
1 GACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAATGGAGCAGATTGAAGAT
* * * * * * *
19210951 AGCAGATCTTGCCTTCCTACGCTGACAGCGAAGTAGATCGAAGATACCAGCCTTGCCTCCCTCGG
66 AACAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACAAGCCTTGCTTCCCT-GG
** * * ** * * *** * * *
19211016 -TTACAGTAGAGCAGGTTGAGGATAGCAGATTTTGCCTTCCTG-CGCT
130 AACACAGTGGAACAGGTTGAAAATTGCAAAACCTACCTCCCTGAC-CA
* * *
19211062 GACAGCGAAGCAGATTGAAGATACCAGCCTTGCCTCCCTCGGTTGCAATGGAGCAGATTGAAGAT
1 GACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAATGGAGCAGATTGAAGAT
* * *
19211127 AGCAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCTTCCCTGGG
66 AACAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACAAGCCTTGCTTCCCTGGA
** * * * * * ** *
19211192 TTACAGTGGAGCAGGTTGAAAATTGCAGATCTTACCTTCCTGTGCT
131 ACACAGTGGAACAGGTTGAAAATTGCAAAACCTACCTCCCTGACCA
* * * * * * *
19211238 GACAGTGAAGCAGATCGAAGACACTAGTCTTGCCTCCTTGGGTTGCAGTGGAGCAGGTTGAATAT
1 GACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAATGGAGCAGATTGAAGAT
* * * *
19211303 AAC-GAATCTTGCCTTCTTGTACTGACAGCGAAGCAGATTGAAGATTACAAGTCCTAT-C-TCCC
66 AACAG-ATCTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGA-TACAAG-CCT-TGCTTCCC
* * *
19211365 T-GAACAGCAGTGGAATAGGTTGAAGATTGCAAAACCTAGCTCCCTGACCA
127 TGGAACA-CAGTGGAACAGGTTGAAAATTGCAAAACCTACCTCCCTGACCA
19211415 G-CAGTGAA
1 GACAGTGAA
19211423 ATAGGTTGGG
Statistics
Matches: 306, Mismatches: 48, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
175 3 0.01
176 255 0.83
177 43 0.14
178 4 0.01
179 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (176 bp):
GACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAATGGAGCAGATTGAAGAT
AACAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGATCGAAGATACAAGCCTTGCTTCCCTGGA
ACACAGTGGAACAGGTTGAAAATTGCAAAACCTACCTCCCTGACCA
Found at i:19211684 original size:44 final size:43
Alignment explanation
Indices: 19211614--19211726 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
19211604 GAATATGGCA
** *
19211614 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAAT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAG-CAAT
* * * *
19211658 AATCCTATCTCCCTGAAATTGTAGTGGAGCGGATTAAAGTAAT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCAAT
* *
19211701 AGATCTTATCTCTCTGAAGTTGCAGT
1 A-ATCTTATCTCCCTGAAATTGCAGT
19211727 AGAGTGGATC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 4 0.07
44 53 0.93
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCAAT
Found at i:19211795 original size:44 final size:45
Alignment explanation
Indices: 19211745--19211839 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
19211735 TCGCATCAGG
* * * *
19211745 TCTTATCTCCTTGAGGTTGCAGCGGAGCAGACCGAAGA-AGCAGA
1 TCTTATCCCCCTGAAGTTGCAGCGGAGCAGACCGAAGATAGCAAA
* * *
19211789 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATAGCAAA
1 TCTTATCCCCCTGAAGTTGCAGCGGAGCAGACCGAAGATAGCAAA
19211834 TCTTAT
1 TCTTAT
19211840 TTCCCAGGCG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 32 0.74
45 11 0.26
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (45 bp):
TCTTATCCCCCTGAAGTTGCAGCGGAGCAGACCGAAGATAGCAAA
Found at i:19211916 original size:50 final size:50
Alignment explanation
Indices: 19211862--19211970 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 50
19211852 GCAGTGGAAC
** * *
19211862 AGATTAAAGCCACAATGGCGAATCTCGCTTCCCCGACATTGCTGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTCACTTCCCCGACATTGCAGTTAAAA
* * * * *
19211912 AGATTAAAGCTATAACAGCGAATCTTACTTCCCTGACATTGCAGTTAAAC
1 AGATTAAAGCCACAACAGCGAATCTCACTTCCCCGACATTGCAGTTAAAA
19211962 AGATTAAAG
1 AGATTAAAG
19211971 TTACAGATCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTCACTTCCCCGACATTGCAGTTAAAA
Found at i:19213868 original size:12 final size:13
Alignment explanation
Indices: 19213852--19213900 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
19213842 TATGCTATTA
19213852 TTTTTTATAACA-
1 TTTTTTATAACAT
*
19213864 TTTTTTATAATAT
1 TTTTTTATAACAT
19213877 TATTTTTATAA-AT
1 T-TTTTTATAACAT
19213890 TTTTTTATAAC
1 TTTTTTATAAC
19213901 CTTAATTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 20 0.61
13 4 0.12
14 9 0.27
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTTATAACAT
Found at i:19213893 original size:26 final size:27
Alignment explanation
Indices: 19213847--19213899 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
19213837 CATAATATGC
19213847 TATTATTTTTTATAACATTTTTTATAA
1 TATTATTTTTTATAACATTTTTTATAA
19213874 TATTA-TTTTTATAA-ATTTTTTTATAA
1 TATTATTTTTTATAACA-TTTTTTATAA
19213900 CCTTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 1 0.04
26 19 0.76
27 5 0.20
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (27 bp):
TATTATTTTTTATAACATTTTTTATAA
Found at i:19213909 original size:26 final size:26
Alignment explanation
Indices: 19213854--19213909 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
19213844 TGCTATTATT
* *
19213854 TTTTATAACATTTTTTATAATATTAT
1 TTTTATAACATTTTTTATAACATTAA
*
19213880 TTTTATAA-ATTTTTTTATAACCTTAA
1 TTTTATAACA-TTTTTTATAACATTAA
19213906 TTTT
1 TTTT
19213910 CTTTTTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTATAACATTTTTTATAACATTAA
Found at i:19215228 original size:14 final size:14
Alignment explanation
Indices: 19215206--19215272 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 14
19215196 AGATATGTAT
19215206 ATATATATGTAAAA
1 ATATATATGTAAAA
*
19215220 ATATGTATGTATATAA
1 ATATATATGTA-A-AA
*
19215236 ATATATATATAAAA
1 ATATATATGTAAAA
* *
19215250 TGAAATATATATATAAA
1 --ATATATATGTA-AAA
19215267 ATATAT
1 ATATAT
19215273 GTATATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 12 0.28
15 7 0.16
16 21 0.49
17 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
ATATATATGTAAAA
Found at i:19215255 original size:18 final size:17
Alignment explanation
Indices: 19215232--19215286 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
19215222 ATGTATGTAT
19215232 ATAAATATATATATAAA
1 ATAAATATATATATAAA
19215249 ATGAAATATATATATAAA
1 AT-AAATATATATATAAA
* *
19215267 ATATATGTATATATAAA
1 ATAAATATATATATAAA
19215284 ATA
1 ATA
19215287 TAGGAAATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 18 0.51
18 17 0.49
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (17 bp):
ATAAATATATATATAAA
Found at i:19218358 original size:19 final size:19
Alignment explanation
Indices: 19218331--19218372 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19218321 TTCGTAACAG
* *
19218331 AAAATAAAAAAAAAGTAAA
1 AAAAAAAAAAAAAAGGAAA
*
19218350 AAAAAAAAAGAAAAGGAAA
1 AAAAAAAAAAAAAAGGAAA
19218369 AAAA
1 AAAA
19218373 CAAACTAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAAAAAAGGAAA
Found at i:19218885 original size:15 final size:15
Alignment explanation
Indices: 19218865--19218894 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19218855 ATTTGTGTCA
*
19218865 ATGGTGATTTTGTTG
1 ATGGTGAGTTTGTTG
19218880 ATGGTGAGTTTGTTG
1 ATGGTGAGTTTGTTG
19218895 TGTTATTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (15 bp):
ATGGTGAGTTTGTTG
Found at i:19226999 original size:12 final size:12
Alignment explanation
Indices: 19226976--19227017 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
19226966 TTAGGTTCTT
*
19226976 ACACGTCCTAGC
1 ACACGGCCTAGC
*
19226988 ACATGGCCTAGC
1 ACACGGCCTAGC
*
19227000 ACACGGCCTGGC
1 ACACGGCCTAGC
19227012 ACACGG
1 ACACGG
19227018 GCATGTGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.24, C:0.38, G:0.26, T:0.12
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:19229456 original size:29 final size:28
Alignment explanation
Indices: 19229424--19229480 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
19229414 TTGTATGAAA
*
19229424 ATATGTATGCATGCCATATA-ATTTATGAT
1 ATATGTAAGCATG--ATATATATTTATGAT
*
19229453 ATATGTAAGTATGATATATATTTATGAT
1 ATATGTAAGCATGATATATATTTATGAT
19229481 TTGTTTGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 9 0.36
29 11 0.44
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (28 bp):
ATATGTAAGCATGATATATATTTATGAT
Found at i:19232068 original size:8 final size:9
Alignment explanation
Indices: 19232045--19232077 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
19232035 GAATCTCACA
19232045 TTTTATTTC
1 TTTTATTTC
19232054 TTTTATTTC
1 TTTTATTTC
*
19232063 -TTTATTTA
1 TTTTATTTC
19232071 TTTTATT
1 TTTTATT
19232078 ATTAATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATTTC
Found at i:19234159 original size:12 final size:12
Alignment explanation
Indices: 19234144--19234177 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19234134 CAGAAGGATA
*
19234144 TGCAAGATCAGT
1 TGCAAGAGCAGT
*
19234156 TGCAAGCGCAGT
1 TGCAAGAGCAGT
19234168 TGCAAGAGCA
1 TGCAAGAGCA
19234178 ATTAGCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (12 bp):
TGCAAGAGCAGT
Found at i:19236848 original size:20 final size:22
Alignment explanation
Indices: 19236823--19236870 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
19236813 CGAATCTGTC
19236823 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
19236843 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGCAAAATTCACT
19236865 AAAAAT
1 AAAAAT
19236871 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:19243155 original size:6 final size:6
Alignment explanation
Indices: 19243144--19243171 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19243134 TGCCTCCCTC
19243144 GGTTTT GGTTTT GGTTTT GGTTTT GGTT
1 GGTTTT GGTTTT GGTTTT GGTTTT GGTT
19243172 ACCCATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (6 bp):
GGTTTT
Found at i:19249224 original size:46 final size:46
Alignment explanation
Indices: 19249164--19249280 Score: 216
Period size: 46 Copynumber: 2.5 Consensus size: 46
19249154 CATATCAAAC
* *
19249164 CTTATCTCCTTGAAGTTGCAGTGGAACAGGTTAAAAATAAACCAAT
1 CTTATCTCCCTGAAGTTACAGTGGAACAGGTTAAAAATAAACCAAT
19249210 CTTATCTCCCTGAAGTTACAGTGGAACAGGTTAAAAATAAACCAAT
1 CTTATCTCCCTGAAGTTACAGTGGAACAGGTTAAAAATAAACCAAT
19249256 CTTATCTCCCTGAAGTTACAGTGGA
1 CTTATCTCCCTGAAGTTACAGTGGA
19249281 GCGTTACAGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (46 bp):
CTTATCTCCCTGAAGTTACAGTGGAACAGGTTAAAAATAAACCAAT
Found at i:19249288 original size:13 final size:13
Alignment explanation
Indices: 19249270--19249295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19249260 TCTCCCTGAA
19249270 GTTACAGTGGAGC
1 GTTACAGTGGAGC
19249283 GTTACAGTGGAGC
1 GTTACAGTGGAGC
19249296 AGATTGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.23
Consensus pattern (13 bp):
GTTACAGTGGAGC
Found at i:19249375 original size:44 final size:44
Alignment explanation
Indices: 19249307--19249752 Score: 331
Period size: 44 Copynumber: 9.9 Consensus size: 44
19249297 GATTGAAGAC
* *
19249307 AAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCATATTA
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * * *
19249351 AAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTGA
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
** * *
19249395 AAAATAAACCAATCTTACCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 AAGCT--ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A
* *
19249443 GACAGACTACAAATCTTATC-CCCTTAAAGTTG-ATGTGGAGCAGATTG
1 -A-AG-CTACAAATCTTATCTCCC-TGAAGTTGCA-GTGGAGCAGATTA
* * * *
19249490 AAGCAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * *
19249534 AAGATTCCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAA
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A
* *
19249580 GACAGACTACAAATCTTAT-TCCCTTGAAGTTGCAGTGGAGCATATTG
1 -A-AG-CTACAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTA
* * * * * * *
19249627 AAGCGATAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGGTTG
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * * * * * *
19249671 AAGATTCCAATCTTGTCTCTCTGAAGTTGTAGTGGAGTAGATTG
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* *** * * *
19249715 AAGATATTGATCCTATCTCCCTGAAGTTGTAGTTGAGC
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
19249753 GGATAAAATG
Statistics
Matches: 315, Mismatches: 69, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
44 195 0.62
45 12 0.04
46 34 0.11
47 1 0.00
48 11 0.03
49 60 0.19
50 1 0.00
51 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
Found at i:19249527 original size:93 final size:92
Alignment explanation
Indices: 19249289--19249718 Score: 345
Period size: 93 Copynumber: 4.7 Consensus size: 92
19249279 GAGCGTTACA
* * *
19249289 GTGGAGCAGATTGAAGACAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCATATTAAAG
1 GTGGAGCAGATTGAAG-C-A--TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * *
19249354 -C-CA-CAAACCTTATCTCCCTGAAGTTGCA-
62 ACAGATCAAATCTTATCTCCCTAAAGTTG-AT
* * ** * *
19249382 GTGGAACAG-GTGAAAAATAAACCAATCTTACCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC
1 GTGGAGCAGATTGAAGCAT--ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAC
19249446 AGACTACAAATCTTATC-CCCTTAAAGTTGAT
64 AGA-T-CAAATCTTATCTCCC-TAAAGTTGAT
* *
19249477 GTGGAGCAGATTGAAGCA-ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG--A-
1 GTGGAGCAGATTGAAGCATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAG
* * *
19249538 TTCCAATCTTATCTCCCTGAAGTTG-T
66 ATCAAATCTTATCTCCCTAAAGTTGAT
*
19249564 AGTGGAGCAGATTGAAGACAGACTACAAATCTTAT-TCCCTTGAAGTTGCAGTGGAGCATATTGA
1 -GTGGAGCAGATTGAAG-C--A-TACAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGA
*
19249628 AG-C-GAT-AAACCTTATCTCCCTAAAGTTGCA-
60 AGACAGATCAAATCTTATCTCCCTAAAGTTG-AT
* * * * * * * *
19249658 GTGGAACAGGTTGAAG-ATTCCAATCTTGTCTCTCTGAAGTTGTAGTGGAGTAGATTGAAGA
1 GTGGAGCAGATTGAAGCATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
19249719 TATTGATCCT
Statistics
Matches: 274, Mismatches: 39, Indels: 52
0.75 0.11 0.14
Matches are distributed among these distances:
87 1 0.00
88 66 0.24
89 9 0.03
90 38 0.14
91 3 0.01
92 9 0.03
93 113 0.41
94 5 0.02
95 25 0.09
96 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (92 bp):
GTGGAGCAGATTGAAGCATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAG
ATCAAATCTTATCTCCCTAAAGTTGAT
Found at i:19249604 original size:137 final size:136
Alignment explanation
Indices: 19249288--19249718 Score: 616
Period size: 137 Copynumber: 3.1 Consensus size: 136
19249278 GGAGCGTTAC
* *
19249288 AGTGGAGCAGATTGAAGACA-AGCTACAAATCTTATCTCCC-TGAAGTTACAGTGGAGCATATTA
1 AGTGGAGCAGATTGAAGACAGA-CTACAAATCTTAT-TCCCTTGAAGTT-GAGTGGAGCATATTG
* * * *
19249351 AAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGG-TGAAAAATAAACCAATCTTACCT
63 AAGCAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTG-AAGAT--TCCAATCTTATCT
*
19249415 CCCTGAAGTTGC
125 CCCTGAAGTTGT
* * *
19249427 AGTGGAGCAGATTGAAGACAGACTACAAATCTTATCCCCTTAAAGTTGATGTGGAGCAGATTGAA
1 AGTGGAGCAGATTGAAGACAGACTACAAATCTTATTCCCTTGAAGTTGA-GTGGAGCATATTGAA
*
19249492 GCAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATTCCAATCTTATCTCCCTG
65 GCAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATTCCAATCTTATCTCCCTG
19249557 AAGTTGT
130 AAGTTGT
19249564 AGTGGAGCAGATTGAAGACAGACTACAAATCTTATTCCCTTGAAGTTGCAGTGGAGCATATTGAA
1 AGTGGAGCAGATTGAAGACAGACTACAAATCTTATTCCCTTGAAGTTG-AGTGGAGCATATTGAA
* * * * *
19249629 GCGATAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGATTCCAATCTTGTCTCTCTG
65 GCAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATTCCAATCTTATCTCCCTG
19249694 AAGTTGT
130 AAGTTGT
*
19249701 AGTGGAGTAGATTGAAGA
1 AGTGGAGCAGATTGAAGA
19249719 TATTGATCCT
Statistics
Matches: 266, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
137 165 0.62
138 5 0.02
139 93 0.35
140 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (136 bp):
AGTGGAGCAGATTGAAGACAGACTACAAATCTTATTCCCTTGAAGTTGAGTGGAGCATATTGAAG
CAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATTCCAATCTTATCTCCCTGA
AGTTGT
Found at i:19259977 original size:37 final size:38
Alignment explanation
Indices: 19259869--19259999 Score: 113
Period size: 39 Copynumber: 3.4 Consensus size: 38
19259859 AAAAGATCTT
* * *
19259869 ATTCAATATGATCAGTGGATAATGCTCGTTTGAGCAAAC
1 ATTCAATATAATCAGTAGATATTGCTCGTTTGAGC-AAC
* * * * * *
19259908 ATTTAGTATAATCAATAGACATTGCTCTTTTGAGC-TC
1 ATTCAATATAATCAGTAGATATTGCTCGTTTGAGCAAC
19259945 ATTCAATAT-ATCCAGTAGATATTGCTCGTTTGAGCATAC
1 ATTCAATATAAT-CAGTAGATATTGCTCGTTTGAGCA-AC
* * *
19259984 TTTCAGTAGAATCAGT
1 ATTCAATATAATCAGT
19260000 GGGTATGGCT
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
36 2 0.03
37 28 0.40
39 38 0.54
40 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (38 bp):
ATTCAATATAATCAGTAGATATTGCTCGTTTGAGCAAC
Found at i:19260022 original size:39 final size:39
Alignment explanation
Indices: 19259968--19260073 Score: 169
Period size: 39 Copynumber: 2.7 Consensus size: 39
19259958 AGTAGATATT
*
19259968 GCTCGTTTGAGCATACTTTCAGTAGAATCAGTGGGTATG
1 GCTCGATTGAGCATACTTTCAGTAGAATCAGTGGGTATG
* *
19260007 GCTCGATTGAACATACCTTT-AGTACAATCAGTGGGTATG
1 GCTCGATTGAGCATA-CTTTCAGTAGAATCAGTGGGTATG
19260046 GCTCGATTGAGCATACTTTCAGTAGAAT
1 GCTCGATTGAGCATACTTTCAGTAGAAT
19260074 ATAATATTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 4 0.07
39 52 0.87
40 4 0.07
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (39 bp):
GCTCGATTGAGCATACTTTCAGTAGAATCAGTGGGTATG
Found at i:19260088 original size:12 final size:12
Alignment explanation
Indices: 19260071--19260098 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19260061 CTTTCAGTAG
19260071 AATATAATATTT
1 AATATAATATTT
19260083 AATATAATATTT
1 AATATAATATTT
19260095 AATA
1 AATA
19260099 AAATTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATATAATATTT
Found at i:19260224 original size:13 final size:13
Alignment explanation
Indices: 19260206--19260231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19260196 CAGTGATCGA
19260206 CATTATTTCAATT
1 CATTATTTCAATT
19260219 CATTATTTCAATT
1 CATTATTTCAATT
19260232 TTCAATTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
CATTATTTCAATT
Found at i:19264004 original size:16 final size:18
Alignment explanation
Indices: 19263983--19264015 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19263973 AAATAAAAAA
19263983 AATTAAA-C-AAATTTAC
1 AATTAAATCTAAATTTAC
19263999 AATTAAATCTAAATTTA
1 AATTAAATCTAAATTTA
19264016 TTCTATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAAATCTAAATTTAC
Found at i:19272567 original size:8 final size:8
Alignment explanation
Indices: 19272550--19272590 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
19272540 TTGTATAAGC
19272550 ATATAT-T
1 ATATATGT
19272557 ATATATGT
1 ATATATGT
19272565 ATATATGT
1 ATATATGT
*
19272573 ATATCTGT
1 ATATATGT
*
19272581 ATATTTGT
1 ATATATGT
19272589 AT
1 AT
19272591 TTTGTATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (8 bp):
ATATATGT
Done.