Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 125 of 322
Found at i:40884401 original size:40 final size:40
Alignment explanation
Indices: 40884346--40884425 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
40884336 GACTTTCCAC
*
40884346 ATTGACCAAATGCACAATAATCATAGAACATTCTTATTGA
1 ATTGACCAAATGCACAATAATCATAGAACAGTCTTATTGA
40884386 ATTGACCAAATGCACAATAATCATAGAACAGTCTTATTGA
1 ATTGACCAAATGCACAATAATCATAGAACAGTCTTATTGA
40884426 TTTACTCACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.29
Consensus pattern (40 bp):
ATTGACCAAATGCACAATAATCATAGAACAGTCTTATTGA
Found at i:40884889 original size:49 final size:49
Alignment explanation
Indices: 40884764--40885470 Score: 1286
Period size: 49 Copynumber: 14.6 Consensus size: 49
40884754 CCCTTCGGGA
* * * * *
40884764 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40884811 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40884858 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40884907 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40884956 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885005 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885054 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885103 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885152 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885201 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885250 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885299 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885348 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40885397 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40885444 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
40885471 TATTCAAATA
Statistics
Matches: 646, Mismatches: 10, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 108 0.17
49 537 0.83
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40888343 original size:57 final size:58
Alignment explanation
Indices: 40888275--40888383 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
40888265 GCCCACTGAT
* *
40888275 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAATGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAATGCCTCAATTAC
* * * *
40888332 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAATGCCTC
40888384 TAATCATTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 24 0.53
58 21 0.47
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAATGCCTCAATTAC
Found at i:40888627 original size:40 final size:40
Alignment explanation
Indices: 40888595--40889306 Score: 1352
Period size: 40 Copynumber: 17.8 Consensus size: 40
40888585 CCAGCATGAT
* * * *
40888595 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
40888635 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888675 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888715 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888755 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888795 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888835 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888875 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888915 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888955 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40888995 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40889035 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40889075 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40889115 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40889155 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40889195 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40889235 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40889275 TGCTCCTCGGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
40889307 CTCAATTCTC
Statistics
Matches: 662, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 662 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:40894696 original size:40 final size:40
Alignment explanation
Indices: 40894664--40895175 Score: 823
Period size: 40 Copynumber: 12.8 Consensus size: 40
40894654 CCAGCATGAT
* * * * *
40894664 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
40894704 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
*
40894744 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CACGGATATATCACTAGCACGAA
* * *
40894784 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
40894824 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
40894864 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
40894904 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
40894944 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
40894984 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
40895024 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
*
40895064 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CACGGATATATCACTAGCACGAA
* * *
40895104 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCGCGAA
1 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
* * * *
40895144 TGCTTTTCGGGA-TTCAGCCCGGACATATCACT
1 TGCTCTTCGGAACTT-AGCACGGATATATCACT
40895176 CTCAATTCTC
Statistics
Matches: 449, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
39 4 0.01
40 443 0.99
41 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
Found at i:40896779 original size:49 final size:49
Alignment explanation
Indices: 40896605--40897016 Score: 692
Period size: 49 Copynumber: 8.5 Consensus size: 49
40896595 CCCTTCGGGA
* * * * *
40896605 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
40896652 CCTGTCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40896699 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40896746 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40896795 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40896844 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40896893 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40896942 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40896991 CTTATCACATATATATACACTTTCAC
1 CTTATCACATATATATACACTTTCAC
40897017 TCATAAACTT
Statistics
Matches: 350, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 88 0.25
49 261 0.75
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40903565 original size:26 final size:26
Alignment explanation
Indices: 40903536--40903586 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
40903526 AATAAACAGT
*
40903536 TAATAGAACTAATTAGTCAAATCAGC
1 TAATAGAACCAATTAGTCAAATCAGC
* *
40903562 TAATAGAACCAGTTGGTCAAATCAG
1 TAATAGAACCAATTAGTCAAATCAG
40903587 TCACTACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (26 bp):
TAATAGAACCAATTAGTCAAATCAGC
Found at i:40906651 original size:21 final size:21
Alignment explanation
Indices: 40906625--40906664 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
40906615 TATGCCAAAT
*
40906625 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCACAAGAGCTGAAC
*
40906646 AGAAGCTGACAAGAGCTGA
1 AGAAGCTCACAAGAGCTGA
40906665 TCCACCCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.28, T:0.12
Consensus pattern (21 bp):
AGAAGCTCACAAGAGCTGAAC
Found at i:40908994 original size:35 final size:35
Alignment explanation
Indices: 40908955--40909026 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
40908945 CATCTCCGGA
*
40908955 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* *
40908990 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
40909025 GC
1 GC
40909027 GATCCTAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:40914173 original size:35 final size:35
Alignment explanation
Indices: 40914134--40914205 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
40914124 CATCTCCGGA
*
40914134 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* *
40914169 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
40914204 GC
1 GC
40914206 GATCCTAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:40915616 original size:29 final size:29
Alignment explanation
Indices: 40915556--40915617 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
40915546 AATTTATAAT
* *
40915556 AAAGCTTTCCAACCATCCTTCAAAAGGAA
1 AAAGCTTTCCAACAATCCTTCAAAAAGAA
* *
40915585 AAAGCTTTCCAATGAATTCTTCAAAAAGAA
1 AAAGCTTTCCAA-CAATCCTTCAAAAAGAA
40915615 AAA
1 AAA
40915618 CAAGAAAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.23
Consensus pattern (29 bp):
AAAGCTTTCCAACAATCCTTCAAAAAGAA
Found at i:40918353 original size:29 final size:31
Alignment explanation
Indices: 40918297--40918355 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
40918287 TGACCATGCA
* * *
40918297 TGCTCAAAATTTTCTCCATTTGTCACATGTT
1 TGCTCAAAAATTACTCCATTTGGCACATGTT
40918328 TGCTCAAAAATTACT-C-TTTGGCACATGT
1 TGCTCAAAAATTACTCCATTTGGCACATGT
40918356 ACTCTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 1 0.04
31 13 0.52
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (31 bp):
TGCTCAAAAATTACTCCATTTGGCACATGTT
Found at i:40922465 original size:23 final size:23
Alignment explanation
Indices: 40922417--40922467 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
40922407 AATACATTAG
**
40922417 GTAAATTTTCATAAAAATCAGTT
1 GTAAATTTTCATAAAAATCACCT
*
40922440 GTAAATTTTGC-TAAAAATCCCCT
1 GTAAATTTT-CATAAAAATCACCT
40922463 GTAAA
1 GTAAA
40922468 GCTTTGGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (23 bp):
GTAAATTTTCATAAAAATCACCT
Found at i:40938150 original size:32 final size:32
Alignment explanation
Indices: 40938114--40938177 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
40938104 AATTGTATAC
40938114 AACAAAGCTTTTTCTCATAATATGGAATTTAA
1 AACAAAGCTTTTTCTCATAATATGGAATTTAA
40938146 AACAAAGCTTTTTCTCATAATATGGAATTTAA
1 AACAAAGCTTTTTCTCATAATATGGAATTTAA
40938178 CTTCTTTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (32 bp):
AACAAAGCTTTTTCTCATAATATGGAATTTAA
Found at i:40943277 original size:24 final size:24
Alignment explanation
Indices: 40943245--40943295 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
40943235 GCATCTACGA
40943245 GATGGCTTCAACAAAAGGTAAGTT
1 GATGGCTTCAACAAAAGGTAAGTT
40943269 GATGGCTTCAACAAAAGGTAAGTT
1 GATGGCTTCAACAAAAGGTAAGTT
40943293 GAT
1 GAT
40943296 ATGTAATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (24 bp):
GATGGCTTCAACAAAAGGTAAGTT
Found at i:40965392 original size:19 final size:20
Alignment explanation
Indices: 40965368--40965405 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40965358 GGTACCACCA
40965368 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40965387 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40965406 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40965745 original size:93 final size:93
Alignment explanation
Indices: 40965635--40965805 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
40965625 GCCCCTAAGT
* * *
40965635 GAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
40965700 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
40965728 GAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
40965793 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40965806 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40965802 original size:46 final size:46
Alignment explanation
Indices: 40965630--40965802 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
40965620 AACCCGCCCC
* * * *
40965630 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
40965676 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
40965724 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
40965769 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40965803 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:40973007 original size:19 final size:20
Alignment explanation
Indices: 40972983--40973020 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40972973 GGTACCACCA
40972983 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40973002 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40973021 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40973409 original size:93 final size:93
Alignment explanation
Indices: 40973250--40973420 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
40973240 ACCCCTAAGT
* * *
40973250 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCTGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
40973315 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
** * * *
40973343 GAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
40973408 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40973421 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40973413 original size:46 final size:46
Alignment explanation
Indices: 40973245--40973417 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
40973235 AACCCACCCC
* * * * *
40973245 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
40973291 TAAATGAACTCTGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
40973339 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
40973384 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40973418 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:40976312 original size:30 final size:29
Alignment explanation
Indices: 40976273--40976346 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
40976263 ACACATCATG
* *
40976273 AGCATATAAAAAATGTAAAAGCAAACTGAA
1 AGCAAATAAAAAAT-AAAAAGCAAACTGAA
* *
40976303 AGCAAATAAATAAATAAAAAGCAATCTGGA
1 AGCAAATAAA-AAATAAAAAGCAAACTGAA
40976333 AGCAAATTAAAAAA
1 AGCAAA-TAAAAAA
40976347 AGGCGGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 30 0.79
31 8 0.21
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.16
Consensus pattern (29 bp):
AGCAAATAAAAAATAAAAAGCAAACTGAA
Found at i:40977562 original size:15 final size:14
Alignment explanation
Indices: 40977542--40977584 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
40977532 TCTGAAATTG
40977542 AAAATATATAAAATA
1 AAAATATA-AAAATA
*
40977557 AAAATATAATTAATA
1 AAAATATAA-AAATA
40977572 AAAATATAAAAAT
1 AAAATATAAAAAT
40977585 TATTTAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAAATA
Found at i:40978886 original size:15 final size:15
Alignment explanation
Indices: 40978866--40978895 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
40978856 CATTAACATT
40978866 TTTAAAAGAAAGATG
1 TTTAAAAGAAAGATG
40978881 TTTAAAAGAAAGATG
1 TTTAAAAGAAAGATG
40978896 CAATCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (15 bp):
TTTAAAAGAAAGATG
Found at i:40980583 original size:12 final size:12
Alignment explanation
Indices: 40980566--40980600 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
40980556 ATAATAATAA
40980566 TAATTTTTATAT
1 TAATTTTTATAT
40980578 TAATTTTTATA-
1 TAATTTTTATAT
40980589 TAA-TTTTATAT
1 TAATTTTTATAT
40980600 T
1 T
40980601 TAAATCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.32
11 4 0.18
12 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TAATTTTTATAT
Found at i:40983254 original size:31 final size:31
Alignment explanation
Indices: 40983214--40983272 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
40983204 TTTAAATGTG
40983214 TATAATTGAATCAAAATAAAAGTTTCATTTA
1 TATAATTGAATCAAAATAAAAGTTTCATTTA
* * * *
40983245 TATAGTTGAATCACAATCAAATTTTCAT
1 TATAATTGAATCAAAATAAAAGTTTCAT
40983273 AAGTACAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
TATAATTGAATCAAAATAAAAGTTTCATTTA
Found at i:40983642 original size:24 final size:24
Alignment explanation
Indices: 40983592--40983643 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
40983582 TTCGTAGGTC
* **
40983592 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
40983616 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
40983640 AAAT
1 AAAT
40983644 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:40986397 original size:20 final size:23
Alignment explanation
Indices: 40986358--40986401 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
40986348 TTAGATAATA
40986358 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGATATAACAAATTAAAG
40986381 TGTTTTGA-AT-A-AAATTAAAG
1 TGTTTTGATATAACAAATTAAAG
40986401 T
1 T
40986402 TGAGCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 2 0.10
23 8 0.38
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (23 bp):
TGTTTTGATATAACAAATTAAAG
Found at i:40988923 original size:13 final size:13
Alignment explanation
Indices: 40988905--40988929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40988895 ATTTACAAGA
40988905 TTACATAATCAAT
1 TTACATAATCAAT
40988918 TTACATAATCAA
1 TTACATAATCAA
40988930 ATCCAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:41004915 original size:56 final size:56
Alignment explanation
Indices: 41004829--41004948 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
41004819 ACAAGGGATG
41004829 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
**
41004885 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAGCAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
41004941 ATGGGCAA
1 ATGGGCAA
41004949 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:41006213 original size:79 final size:80
Alignment explanation
Indices: 41006077--41006250 Score: 212
Period size: 79 Copynumber: 2.2 Consensus size: 80
41006067 TCGAATGATG
*
41006077 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
41006142 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * * **
41006157 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
41006219 TTGTGCGAGTTACT-AT
64 TTGTGCGAGATACTAAT
* *
41006235 AACCGGGCTATGTCCC
1 -TCCGGGCTAAGTCCC
41006251 AGGTTAAGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.04
79 57 0.70
80 21 0.26
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAT
Found at i:41006250 original size:40 final size:39
Alignment explanation
Indices: 41006078--41006353 Score: 234
Period size: 40 Copynumber: 6.6 Consensus size: 39
41006068 CGAATGATGT
* * * *
41006078 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
41006118 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
41006158 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41006196 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41006237 CCGGGCTATGTCCCAGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTAAA
1 CC-GG----G---C----TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41006288 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41006329 CTGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41006354 AACGAGTAGC
Statistics
Matches: 197, Mismatches: 18, Indels: 42
0.77 0.07 0.16
Matches are distributed among these distances:
39 35 0.18
40 110 0.56
41 14 0.07
45 1 0.01
47 1 0.01
51 4 0.02
52 32 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41006278 original size:52 final size:52
Alignment explanation
Indices: 41006200--41006303 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
41006190 ACTAAATCCG
* *
41006200 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCA
1 GGTTAAGTCCCGAAGACATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCA
*
41006252 GGTTAAGTCCCGAAGACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCA
1 GGTTAAGTCCCGAAGACATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCA
41006304 AAGGCATTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 2 0.04
52 46 0.96
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (52 bp):
GGTTAAGTCCCGAAGACATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCA
Found at i:41006325 original size:92 final size:91
Alignment explanation
Indices: 41006164--41006342 Score: 322
Period size: 92 Copynumber: 2.0 Consensus size: 91
41006154 AATTCCGGGC
* *
41006164 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
1 TAAGCCCGAAGACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGT
41006229 TACTATAACCGGGCTATGTCCCAGGT
66 TACTATAACCGGGCTATGTCCCAGGT
41006255 TAAGTCCCGAAGACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAG
1 TAAG-CCCGAAGACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAG
*
41006320 TTACTATAACTGGGCTATGTCCC
65 TTACTATAACCGGGCTATGTCCC
41006343 GAAGGCATTT
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
91 4 0.05
92 80 0.95
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (91 bp):
TAAGCCCGAAGACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGT
TACTATAACCGGGCTATGTCCCAGGT
Found at i:41009433 original size:16 final size:15
Alignment explanation
Indices: 41009408--41009441 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
41009398 AAAATTGATA
*
41009408 ATAATTAATATATATT
1 ATAATAAATATA-ATT
41009424 ATAATAAATATAATT
1 ATAATAAATATAATT
41009439 ATA
1 ATA
41009442 CACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:41019458 original size:68 final size:64
Alignment explanation
Indices: 41019269--41019467 Score: 168
Period size: 68 Copynumber: 3.0 Consensus size: 64
41019259 CTAGCCAGTT
* * * * * ** *
41019269 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGATG---TACACATAGCACCATACATACGACCTAGCTACA
41019334 TA
63 TA
* * * * *
41019336 TATCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCATCCATGCGACCTAGCTACATCA
1 TATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATACATACGACCTAGCTACAT-A
* *
41019401 TAATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATATGACCTAGCTA
1 T-A--TCTCGTAGCTCTCTTGT-CTACATGATGTACACAT-AGCACCATACATACGACCTAGCTA
41019464 CATA
61 CATA
41019468 CCATCTGTAT
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
64 27 0.24
65 2 0.02
66 1 0.01
67 31 0.28
68 50 0.45
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (64 bp):
TATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATACATACGACCTAGCTACATA
Found at i:41021071 original size:40 final size:39
Alignment explanation
Indices: 41021007--41021100 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 39
41020997 ATTATGTTCT
* *
41021007 GCACTAAGTGTGCGATTCGAAATAGCTTTAGCTACAAATG
1 GCACTAAGTGTGTGATTCGAAATAGCTTCAGC-ACAAATG
* * ***
41021047 GCACTAAGTGTGTGAGTT-GGAATAGCTTCGGCATGTATG
1 GCACTAAGTGTGTGA-TTCGAAATAGCTTCAGCACAAATG
41021086 GCACTAAGTGTGTGA
1 GCACTAAGTGTGTGA
41021101 AATTGAGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 19 0.41
40 25 0.54
41 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (39 bp):
GCACTAAGTGTGTGATTCGAAATAGCTTCAGCACAAATG
Found at i:41027260 original size:25 final size:25
Alignment explanation
Indices: 41027232--41027288 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
41027222 TGTACAAAAT
41027232 AGTCCCTATTAGGGTTTTCATGAGA
1 AGTCCCTATTAGGGTTTTCATGAGA
*
41027257 AGTCCCTATTAGGGTTTTTATGAGA
1 AGTCCCTATTAGGGTTTTCATGAGA
*
41027282 AATCCCT
1 AGTCCCT
41027289 TCACAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (25 bp):
AGTCCCTATTAGGGTTTTCATGAGA
Found at i:41031485 original size:40 final size:40
Alignment explanation
Indices: 41031448--41031672 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
41031438 GCTACTCGTT
* *
41031448 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
41031488 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
41031528 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
41031568 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
41031607 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
41031648 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41031673 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41031632 original size:119 final size:120
Alignment explanation
Indices: 41031450--41031672 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
41031440 TACTCGTTCA
*
41031450 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
41031515 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCACACC
* * **
41031570 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
41031632 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41031673 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCACACC
Found at i:41034126 original size:41 final size:41
Alignment explanation
Indices: 41034077--41034156 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
41034067 TTGACCAATT
*
41034077 TTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTG
1 TTAAGTTCATGGAAAAAATTAGGACATGGAAGGAATTTTTG
41034118 TTAAGTTCATGGAAAAAATTAGGACATGGAAGGAATTTT
1 TTAAGTTCATGGAAAAAATTAGGACATGGAAGGAATTTT
41034157 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (41 bp):
TTAAGTTCATGGAAAAAATTAGGACATGGAAGGAATTTTTG
Found at i:41040704 original size:14 final size:13
Alignment explanation
Indices: 41040681--41040720 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
41040671 TAAATACTTG
41040681 TTATTGTTCTTAA
1 TTATTGTTCTTAA
41040694 TTATGTGTTCTTAA
1 TTAT-TGTTCTTAA
*
41040708 TTCTTGTT-TTAA
1 TTATTGTTCTTAA
41040720 T
1 T
41040721 ATTTTCAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 5 0.20
13 8 0.32
14 12 0.48
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.62
Consensus pattern (13 bp):
TTATTGTTCTTAA
Found at i:41042012 original size:19 final size:17
Alignment explanation
Indices: 41041988--41042053 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 17
41041978 AATATTTTGT
41041988 TTAAAATTGTTAAAAATCA
1 TTAAAATT-TTAAAAAT-A
41042007 TTAAAATTTTTAAAAAATTA
1 TTAAAA-TTTT-AAAAA-TA
* *
41042027 TAGAAAATTATAAAAATA
1 T-TAAAATTTTAAAAATA
41042045 TTAAAATTT
1 TTAAAATTT
41042054 ATTAATTCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
17 6 0.15
18 3 0.08
19 13 0.33
20 12 0.31
21 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (17 bp):
TTAAAATTTTAAAAATA
Found at i:41042056 original size:10 final size:10
Alignment explanation
Indices: 41041990--41042058 Score: 56
Period size: 10 Copynumber: 7.1 Consensus size: 10
41041980 TATTTTGTTT
*
41041990 AAAATTGTTA
1 AAAATTATTA
*
41042000 AAAATCATT-
1 AAAATTATTA
*
41042009 AAAATTTTTAA
1 AAAATTATT-A
41042020 AAAATTA-TA
1 AAAATTATTA
41042029 GAAAATTA-TA
1 -AAAATTATTA
41042039 AAAA-TATTA
1 AAAATTATTA
*
41042048 AAATTTATTA
1 AAAATTATTA
41042058 A
1 A
41042059 TTCAGTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
8 2 0.04
9 17 0.35
10 23 0.48
11 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (10 bp):
AAAATTATTA
Found at i:41043349 original size:15 final size:15
Alignment explanation
Indices: 41043329--41043361 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
41043319 ACTTAAATTT
*
41043329 AATACTTACTTTTTC
1 AATACTTAATTTTTC
41043344 AATACTTAATTTTTC
1 AATACTTAATTTTTC
41043359 AAT
1 AAT
41043362 TTATCAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (15 bp):
AATACTTAATTTTTC
Found at i:41043543 original size:26 final size:26
Alignment explanation
Indices: 41043494--41043544 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
41043484 CGGCCAGGCC
* *
41043494 TATTTTAAAAATAAACATTAAAAATT
1 TATTTTAAAAATAAAAAATAAAAATT
41043520 TATTTTAAAAATAAAAAAATAAAAA
1 TATTTTAAAAAT-AAAAAATAAAAA
41043545 AAATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
TATTTTAAAAATAAAAAATAAAAATT
Found at i:41043553 original size:28 final size:26
Alignment explanation
Indices: 41043494--41043557 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 26
41043484 CGGCCAGGCC
* * **
41043494 TATTTTAAAAATAAACATTAAAAATT
1 TATTTTAAAAATAAAAATAAAAAAAA
41043520 TATTTTAAAAATAAAAAAATAAAAAAAA
1 TATTTTAAAAAT--AAAAATAAAAAAAA
41043548 TATTTTAAAA
1 TATTTTAAAA
41043558 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 12 0.38
28 20 0.62
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
TATTTTAAAAATAAAAATAAAAAAAA
Found at i:41045607 original size:42 final size:41
Alignment explanation
Indices: 41045548--41045632 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 41
41045538 CGGTGGATCT
*
41045548 GATCATAAAGAAGATGTCAAGCCACCGATGGTTGCTGAACC
1 GATCATAAAGAAGATGTCAAGCCACCGATGGTAGCTGAACC
41045589 NGATCATAAAGAAGATGTCAAGCCACCGATGGTAGCTGAACC
1 -GATCATAAAGAAGATGTCAAGCCACCGATGGTAGCTGAACC
41045631 GA
1 GA
41045633 AAGCTGAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 2 0.05
42 40 0.95
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.18
Consensus pattern (41 bp):
GATCATAAAGAAGATGTCAAGCCACCGATGGTAGCTGAACC
Found at i:41049130 original size:21 final size:21
Alignment explanation
Indices: 41049098--41049138 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
41049088 AGGCTCGAGG
41049098 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
41049119 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
41049139 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:41053056 original size:35 final size:36
Alignment explanation
Indices: 41052977--41053056 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 36
41052967 AAGTTTATTC
* *
41052977 CAACCTTTTTAAGGTTGTCTTAGATAAGTCTACTCT
1 CAACCTTTTTAAGGTTGTCTTAGACAAGCCTACTCT
* **
41053013 GATA--TTTTTAAGGTTGTCTTAGACGGGCCTA-TCT
1 CA-ACCTTTTTAAGGTTGTCTTAGACAAGCCTACTCT
41053047 CAACCTTTTT
1 CAACCTTTTT
41053057 TAAAGATTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
33 1 0.03
34 4 0.11
35 28 0.80
36 1 0.03
37 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (36 bp):
CAACCTTTTTAAGGTTGTCTTAGACAAGCCTACTCT
Found at i:41053234 original size:40 final size:40
Alignment explanation
Indices: 41053174--41053252 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
41053164 TAAATAAAGT
*
41053174 TAATTTCACATTTCACTATTATCTCTTTTGTATTTCTATC
1 TAATTTCACATTTCAATATTATCTCTTTTGTATTTCTATC
*
41053214 TAATTTCACATTTCAATATTATGTCTTTTGTATTTCTAT
1 TAATTTCACATTTCAATATTATCTCTTTTGTATTTCTAT
41053253 ATTTTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (40 bp):
TAATTTCACATTTCAATATTATCTCTTTTGTATTTCTATC
Found at i:41064035 original size:18 final size:19
Alignment explanation
Indices: 41063998--41064037 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
41063988 ATTTAGAATC
41063998 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
41064017 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
41064035 AAA
1 AAA
41064038 CTATCAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:41068535 original size:14 final size:14
Alignment explanation
Indices: 41068516--41068558 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
41068506 TCAAAGGGAT
41068516 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
*
41068530 GGAGATTTAGAGAT
1 GGAGATTTAGAGAA
41068544 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
41068558 G
1 G
41068559 CAAGAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (14 bp):
GGAGATTTAGAGAA
Found at i:41068611 original size:19 final size:19
Alignment explanation
Indices: 41068587--41068626 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
41068577 AGATGCTGAG
41068587 GATTACGG-ATCAGTATGGC
1 GATTACGGAAT-AGTATGGC
41068606 GATTACGGAATAGTATGGC
1 GATTACGGAATAGTATGGC
41068625 GA
1 GA
41068627 CACGAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (19 bp):
GATTACGGAATAGTATGGC
Found at i:41068662 original size:14 final size:14
Alignment explanation
Indices: 41068643--41068672 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41068633 AATGGTGGAA
*
41068643 GGATTTTGATTTGG
1 GGATTTCGATTTGG
41068657 GGATTTCGATTTGG
1 GGATTTCGATTTGG
41068671 GG
1 GG
41068673 GAAAAATTAG
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:0.13, C:0.03, G:0.40, T:0.43
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:41068719 original size:14 final size:14
Alignment explanation
Indices: 41068700--41068735 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
41068690 TTGGGGATAC
41068700 AGATTTTAGGGGGG
1 AGATTTTAGGGGGG
41068714 AGATTTTA-GGGGG
1 AGATTTTAGGGGGG
*
41068727 AAATTTTAG
1 AGATTTTAG
41068736 AGGTTCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.39, T:0.33
Consensus pattern (14 bp):
AGATTTTAGGGGGG
Found at i:41069729 original size:21 final size:23
Alignment explanation
Indices: 41069684--41069733 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 23
41069674 GATTTAGGCC
41069684 TAAACCCCTAACCCTTTGAACCA
1 TAAACCCCTAACCCTTTGAACCA
*
41069707 TAAACCCC-AACCC-TTGAATCA
1 TAAACCCCTAACCCTTTGAACCA
41069728 TAAACC
1 TAAACC
41069734 ATAAACCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 13 0.50
22 5 0.19
23 8 0.31
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.20
Consensus pattern (23 bp):
TAAACCCCTAACCCTTTGAACCA
Found at i:41069738 original size:7 final size:7
Alignment explanation
Indices: 41069726--41069844 Score: 62
Period size: 7 Copynumber: 16.7 Consensus size: 7
41069716 ACCCTTGAAT
41069726 CATAAAC
1 CATAAAC
41069733 CATAAAC
1 CATAAAC
41069740 CATAAAC
1 CATAAAC
*
41069747 CATAATC
1 CATAAAC
* *
41069754 CCTAAATG
1 CATAAA-C
*
41069762 CATAATC
1 CATAAAC
41069769 CATAAAC
1 CATAAAC
*
41069776 CTTAAA-
1 CATAAAC
41069782 -ATAGTAAC
1 CATA--AAC
*
41069790 TCTTAAAC
1 -CATAAAC
*
41069798 CTTAAAC
1 CATAAAC
* *
41069805 CTTAAGC
1 CATAAAC
*
41069812 CATATAC
1 CATAAAC
* *
41069819 CCTAAAT
1 CATAAAC
41069826 CATAAAC
1 CATAAAC
*
41069833 CCTAAAC
1 CATAAAC
*
41069840 TATAA
1 CATAA
41069845 TGATAATTAA
Statistics
Matches: 83, Mismatches: 23, Indels: 12
0.70 0.19 0.10
Matches are distributed among these distances:
5 2 0.02
7 72 0.87
8 7 0.08
10 2 0.02
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:41070038 original size:41 final size:41
Alignment explanation
Indices: 41069993--41070265 Score: 291
Period size: 41 Copynumber: 6.7 Consensus size: 41
41069983 TTAATATAAA
* **
41069993 TAATGCTCTGGTTGTTAGCGGCGTTTTACAAAAAGCGCCAT
1 TAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAGCGCCGC
* *
41070034 TAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGCGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAGCGCCGC
* * * *
41070075 TAATGCTCTAGTTTTTAGCGGCGTTTCACCAGAAGCGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAGCGCCGC
* *
41070116 TAATGCTCTGGTTTTTAGCGGCGTTTTACCAGAAGCGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAGCGCCGC
** * *
41070157 TAATGCTCTAACTTTTTAGTGGCGTTTTTAGAAAAA-CGCCGC
1 TAATGCTCT-GGTTTTTAGCGGCG-TTTTACAAAAAGCGCCGC
* * **
41070199 TATTTCTCT-GTTTTTAGCGGCGTTTTAACAAAAAATGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTT-ACAAAAAGCGCCGC
* * **
41070240 TATTGCTC-CGTTTTTAATGGCGTTTT
1 TAATGCTCTGGTTTTTAGCGGCGTTTT
41070266 TGTTAAAACG
Statistics
Matches: 201, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.02
40 17 0.08
41 148 0.74
42 24 0.12
43 8 0.04
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.35
Consensus pattern (41 bp):
TAATGCTCTGGTTTTTAGCGGCGTTTTACAAAAAGCGCCGC
Found at i:41078370 original size:25 final size:27
Alignment explanation
Indices: 41078315--41078369 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
41078305 TTTTAGTCCT
41078315 TTTTAAAATTTTTATATAATTTATTTA
1 TTTTAAAATTTTTATATAATTTATTTA
*
41078342 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAA-ATTTT-TATATAATTTATTT
41078370 TTACTACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.28
28 5 0.20
29 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTAAAATTTTTATATAATTTATTTA
Found at i:41078464 original size:20 final size:21
Alignment explanation
Indices: 41078441--41078489 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
41078431 ATTTATATGC
41078441 TTTATTATATATTATATT-AT
1 TTTATTATATATTATATTCAT
* *
41078461 TTTAATATATATTTTATTCAT
1 TTTATTATATATTATATTCAT
*
41078482 TATATTAT
1 TTTATTAT
41078490 TTTTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTATTATATATTATATTCAT
Found at i:41078477 original size:29 final size:30
Alignment explanation
Indices: 41078445--41078523 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 30
41078435 ATATGCTTTA
41078445 TTATATATTATATTATTTTA-ATATA-TATT
1 TTAT-TATTATATTATTTTATATATATTATT
41078474 TTATTCATTATATTATTTTTTATTATATATTATT
1 TTATT-ATTATATTA--TTTTA-TATATATTATT
41078508 TTATTTATT-TATTATT
1 TTA-TTATTATATTATT
41078524 ATGTACAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
28 1 0.02
29 13 0.30
31 7 0.16
33 10 0.23
34 10 0.23
35 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (30 bp):
TTATTATTATATTATTTTATATATATTATT
Found at i:41078534 original size:26 final size:26
Alignment explanation
Indices: 41078481--41078539 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
41078471 ATTTTATTCA
* **
41078481 TTATATTATTTTTTATTATATATTATT
1 TTAT-TTATTTATTATTATATACAATT
*
41078508 TTATTTATTTATTATTATGTACAATT
1 TTATTTATTTATTATTATATACAATT
41078534 TT-TTTA
1 TTATTTA
41078540 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.14
26 20 0.71
27 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (26 bp):
TTATTTATTTATTATTATATACAATT
Found at i:41081729 original size:17 final size:17
Alignment explanation
Indices: 41081698--41081796 Score: 51
Period size: 17 Copynumber: 6.4 Consensus size: 17
41081688 AATGTAAGGA
**
41081698 ATAATATATGGTAAAAT
1 ATAATATATAATAAAAT
41081715 ATAATATATAATAAAAT
1 ATAATATATAATAAAAT
41081732 -T--TATA-AATAAAAT
1 ATAATATATAATAAAAT
* *
41081745 GT-ATA-ATAAT--GAT
1 ATAATATATAATAAAAT
*
41081758 AT-A-A-ATAATATAAT
1 ATAATATATAATAAAAT
41081772 GATAATATATAAATAAAA-
1 -ATAATATAT-AATAAAAT
41081790 ATAATAT
1 ATAATAT
41081797 GTACTATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
12 6 0.09
13 12 0.18
14 8 0.12
15 7 0.11
16 2 0.03
17 23 0.35
18 2 0.03
19 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
ATAATATATAATAAAAT
Found at i:41081787 original size:11 final size:11
Alignment explanation
Indices: 41081715--41081787 Score: 58
Period size: 11 Copynumber: 6.4 Consensus size: 11
41081705 ATGGTAAAAT
41081715 ATAATATATAA
1 ATAATATATAA
* *
41081726 TAAAATTTATAA
1 -ATAATATATAA
* *
41081738 ATAAAATGTATA
1 ATAATATATA-A
41081750 ATAATGATATAA
1 ATAAT-ATATAA
*
41081762 ATAATATA-ATG
1 ATAATATATA-A
41081773 ATAATATATAA
1 ATAATATATAA
41081784 ATAA
1 ATAA
41081788 AAATAATATG
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
10 1 0.02
11 21 0.45
12 21 0.45
13 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
ATAATATATAA
Found at i:41086827 original size:20 final size:20
Alignment explanation
Indices: 41086799--41086836 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41086789 TCTGCGAAAC
*
41086799 AGGTCTACACGGCCGTGTAA
1 AGGTCTACACGCCCGTGTAA
*
41086819 AGGTTTACACGCCCGTGT
1 AGGTCTACACGCCCGTGT
41086837 GACTGAGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (20 bp):
AGGTCTACACGCCCGTGTAA
Found at i:41088236 original size:41 final size:38
Alignment explanation
Indices: 41088132--41088236 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 38
41088122 TTTGAGTACT
*
41088132 AAATATTTAGTTTGAGTACAAAA-AA-TATTGACTACCA
1 AAATATTAAGTTTGAGTA-AAAATAATTATTGACTACCA
* ***
41088169 AAATATTAGGCAAGAGTAAAACATAATTATGTTGACTACCAA
1 AAATATTAAGTTTGAGTAAAA-ATAATTA--TTGACTACC-A
41088211 AAATATTAAGTTTGAGTAAAAATAAT
1 AAATATTAAGTTTGAGTAAAAATAAT
41088237 AATATCTCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
36 3 0.06
37 14 0.26
38 2 0.04
39 2 0.04
41 14 0.26
42 18 0.34
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (38 bp):
AAATATTAAGTTTGAGTAAAAATAATTATTGACTACCA
Found at i:41091428 original size:22 final size:22
Alignment explanation
Indices: 41091395--41091436 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
41091385 TGGTCCTTCC
41091395 TTTTTTTATATTTTTAATTTCA
1 TTTTTTTATATTTTTAATTTCA
41091417 TTTTATTT-TATTTTTAATTT
1 TTTT-TTTATATTTTTAATTT
41091437 AACCCTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTTTATATTTTTAATTTCA
Found at i:41101540 original size:1 final size:1
Alignment explanation
Indices: 41101534--41101595 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
41101524 CTTCTATTTC
* * * * * * * *
41101534 AAAAAAAAAAAGAAAAAGAAAAGAAAAAAAAAAGAAAAAAGAGAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
41101596 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:41101549 original size:7 final size:7
Alignment explanation
Indices: 41101534--41101595 Score: 65
Period size: 7 Copynumber: 8.6 Consensus size: 7
41101524 CTTCTATTTC
41101534 AAAAA-A
1 AAAAAGA
41101540 AAAAAG-
1 AAAAAGA
41101546 AAAAAGAA
1 AAAAAG-A
*
41101554 AAGAAAAA
1 AA-AAAGA
41101562 AAAAAGAA
1 AAAAAG-A
41101570 AAAAGAGA
1 AAAA-AGA
41101578 AAAAAGA
1 AAAAAGA
41101585 AAAAAGA
1 AAAAAGA
41101592 AAAA
1 AAAA
41101596 TGGAGAGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
6 11 0.23
7 17 0.35
8 15 0.31
9 5 0.10
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:41101560 original size:16 final size:15
Alignment explanation
Indices: 41101537--41101595 Score: 75
Period size: 16 Copynumber: 3.9 Consensus size: 15
41101527 CTATTTCAAA
41101537 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
*
41101552 AAAAGAAAAAAAAAAG
1 AAAA-AAAAGAAAAAG
*
41101568 AAAAAAGAGAAAAA-
1 AAAAAAAAGAAAAAG
*
41101582 AGAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
41101596 TGGAGAGGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
14 12 0.32
15 12 0.32
16 14 0.37
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:41101560 original size:23 final size:22
Alignment explanation
Indices: 41101534--41101595 Score: 88
Period size: 23 Copynumber: 2.8 Consensus size: 22
41101524 CTTCTATTTC
41101534 AAAAAAAAAAAGAAAAAGAAAA
1 AAAAAAAAAAAGAAAAAGAAAA
* *
41101556 GAAAAAAAAAAGAAAAAAGAGAA
1 AAAAAAAAAAAG-AAAAAGAAAA
*
41101579 AAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAGAAAAA
41101596 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAGAAAAAGAAAA
Found at i:41101564 original size:9 final size:9
Alignment explanation
Indices: 41101537--41101589 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
41101527 CTATTTCAAA
41101537 AAAAAAAAG
1 AAAAAAAAG
41101546 AAAAAGAAAAG
1 -AAAA-AAAAG
41101557 AAAAAAAA-
1 AAAAAAAAG
41101565 AAGAAAAAAG
1 AA-AAAAAAG
*
41101575 AGAAAAAAG
1 AAAAAAAAG
41101584 AAAAAA
1 AAAAAA
41101590 GAAAAATGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 2 0.05
9 22 0.58
10 9 0.24
11 5 0.13
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:41102878 original size:88 final size:87
Alignment explanation
Indices: 41102657--41103090 Score: 237
Period size: 87 Copynumber: 5.0 Consensus size: 87
41102647 CTAAAATTAC
* *
41102657 AGATCTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
1 AGATCTGGCATCTCCAT-TTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTT-T
* *
41102722 -AC-T-GAAGCAAATCCAAGAT--
64 CACATCAAAGCAGATCCAAGATAA
* *** * * * * * *
41102741 -GATTTGGCATTCTTGTGTTTAC-AAGGAGCA-AATCGAAGACATAGCAGATCTGACTTTTAGAT
1 AGATCTGGCA-TC-TCCATTT-CGACGGAG-AGCA--G-ATACATAGCAGATCTAACCTTCAGAT
*
41102803 GTTTTCACATCAAAGCAGATCTAAGATAA
59 GTTTTCACATCAAAGCAGATCCAAGATAA
*
41102832 CAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATATTTAT
1 -AGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTT-T
*
41102897 -AC-T-GAAGCAGATCCAAGAT--
64 CACATCAAAGCAGATCCAAGATAA
* * * * * * * *
41102916 -GATTTGGCAT-TCTTATGTTTAC-AAGGA-A-CAAATCGAAGACATAGCAGATTTGACTTTCGG
1 AGATCTGGCATCTC-CA--TTT-CGACGGAGAGC--A--G-ATACATAGCAGATCTAACCTTCAG
* *
41102976 ATGTTCTCACACCAAAGCAGATCCAAGATAA
57 ATGTTTTCACATCAAAGCAGATCCAAGATAA
* *
41103007 TAGATCTGGCATCTCCATTTCGACGGAGAGTAGATTA-ATAGCAGATCTAACCTTTAGATGATTT
1 -AGATCTGGCATCTCCATTTCGACGGAGAGCAGA-TACATAGCAGATCTAACCTTCAGATG-TTT
*
41103071 T-AC-T-GAAGCAGATCCAAGAT
63 TCACATCAAAGCAGATCCAAGAT
41103091 GATTTGGCAT
Statistics
Matches: 259, Mismatches: 52, Indels: 76
0.67 0.13 0.20
Matches are distributed among these distances:
81 2 0.01
82 11 0.04
83 8 0.03
84 18 0.07
85 5 0.02
86 33 0.13
87 54 0.21
88 49 0.19
89 35 0.14
90 3 0.01
91 18 0.07
92 3 0.01
93 18 0.07
94 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (87 bp):
AGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTTCA
CATCAAAGCAGATCCAAGATAA
Found at i:41102950 original size:175 final size:175
Alignment explanation
Indices: 41102655--41103177 Score: 786
Period size: 175 Copynumber: 3.0 Consensus size: 175
41102645 GGCTAAAATT
* * *
41102655 ACAGATCTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTT
1 ACAGATCTGGCATCTCCAT-TTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATATTT
*
41102720 ATACTGAAGCAAATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATAG
65 ATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATAG
* *
41102785 CAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGATCTAAGATA
130 CAGATTTGACTTTCAGATGTTTTCACATCAAAGCAGATCTAAGATA
41102831 ACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATATTTA
1 ACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATATTTA
* *
41102896 TACTGAAGCAGATCCAAGATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAAGACATAGC
66 TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATAGC
* * * *
41102961 AGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATA
131 AGATTTGACTTTCAGATGTTTTCACATCAAAGCAGATCTAAGATA
* * *
41103006 ATAGATCTGGCATCTCCATTTCGACGGAGAGTAGATTA-ATAGCAGATCTAACCTTTAGATGATT
1 ACAGATCTGGCATCTCCATTTCGACGGAGAGCAGA-TACATAGCAGATCTAACCTTCAGAT-ATT
* * *
41103070 T-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCATAAGGAGCAAATCGAAGACATA
64 TATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATA
* * *
41103134 GCAGATTTGGCTTTCATG-TGTTTGCAC-T-GAAGCAGATCTAAGAT
129 GCAGATTTGACTTTCA-GATGTTTTCACATCAAAGCAGATCTAAGAT
41103178 GATTTGGCAT
Statistics
Matches: 317, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
173 14 0.04
175 278 0.88
176 25 0.08
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
ACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATATTTA
TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATAGC
AGATTTGACTTTCAGATGTTTTCACATCAAAGCAGATCTAAGATA
Found at i:41103643 original size:19 final size:19
Alignment explanation
Indices: 41103592--41103670 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
41103582 AATCTTTAAG
41103592 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
41103611 GATA--CAACCTTAGATAT
1 GATATGCAATCTTAGATAT
41103628 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
41103647 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
41103668 GAT
1 GAT
41103671 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
21 9 0.17
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:41104216 original size:17 final size:17
Alignment explanation
Indices: 41104192--41104226 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41104182 TGTTTCCCTG
*
41104192 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
41104210 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
41104227 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:41105220 original size:23 final size:24
Alignment explanation
Indices: 41105188--41105237 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
41105178 TTCATTTTTG
*
41105188 ATTTGTATGT-TCATAATTTTATTT
1 ATTTGTATGTATC-TAATTATATTT
*
41105212 ATTT-TATGTATCTCATTATATTT
1 ATTTGTATGTATCTAATTATATTT
41105235 ATT
1 ATT
41105238 CAATATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (24 bp):
ATTTGTATGTATCTAATTATATTT
Found at i:41117038 original size:43 final size:44
Alignment explanation
Indices: 41116977--41117059 Score: 141
Period size: 43 Copynumber: 1.9 Consensus size: 44
41116967 GATCCAAGAT
*
41116977 GATTTGGCATCTCTGTATT-GTCAGAGAGCAAATCGAAGAAACA
1 GATTTGGCATCTCTGTATTCGACAGAGAGCAAATCGAAGAAACA
*
41117020 GATTTGGCATCTCTGTATTCGACAGAGAGCAGATCGAAGA
1 GATTTGGCATCTCTGTATTCGACAGAGAGCAAATCGAAGA
41117060 CATAGCAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
43 19 0.51
44 18 0.49
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTCGACAGAGAGCAAATCGAAGAAACA
Found at i:41117255 original size:44 final size:44
Alignment explanation
Indices: 41117197--41117422 Score: 214
Period size: 44 Copynumber: 5.2 Consensus size: 44
41117187 GATCTAAGAT
41117197 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * * *
41117241 AATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGATATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAG--ATAGCA
* * * *
41117287 GATTTGGCTTTCACGTGT-TTACGT-TGA-AGCAGATCTAAGAT----
1 GATTTGGC-GTCTC-TGTATT--GTCAGAGAGCAGATCGAAGATAGCA
* *
41117328 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAAATAGTA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* ** * *
41117372 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATAAAAAATAACA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
41117416 GATTTGG
1 GATTTGG
41117423 TATTCCTAAG
Statistics
Matches: 148, Mismatches: 21, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
38 2 0.01
39 5 0.03
40 17 0.11
41 8 0.05
44 80 0.54
45 2 0.01
46 13 0.09
47 14 0.09
48 5 0.03
49 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:41117297 original size:131 final size:131
Alignment explanation
Indices: 41117145--41117401 Score: 451
Period size: 131 Copynumber: 2.0 Consensus size: 131
41117135 GAGCAGATCA
41117145 AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTC
1 AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTC
* *
41117210 TGTATTGTCAGAGAGCAGATCGAAGATAGCAAATTTGGCATCTCTGTATTGTCAGAGAGCAAATT
66 TGTATTGTCAGAGAGCAGATCGAAAATAGCAAATTTGGCATCTCTGTATTGGCAGAGAGCAAATT
41117275 G
131 G
* *
41117276 AAGATATAGCAGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCTAAGATGATTTGGCGTCTC
1 AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTC
* * *
41117341 TGTATTGTCAGAGAGCAGATCGAAAATAGTAGATTTGGCGTCTCTGTATTGGCAGAGAGCA
66 TGTATTGTCAGAGAGCAGATCGAAAATAGCAAATTTGGCATCTCTGTATTGGCAGAGAGCA
41117402 GATAAAAAAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 119 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (131 bp):
AAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTC
TGTATTGTCAGAGAGCAGATCGAAAATAGCAAATTTGGCATCTCTGTATTGGCAGAGAGCAAATT
G
Found at i:41119286 original size:23 final size:24
Alignment explanation
Indices: 41119254--41119303 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
41119244 TTCATTTTTG
*
41119254 ATTTGTATGT-TCATAATTTTATTT
1 ATTTGTATGTATC-TAATTATATTT
*
41119278 ATTT-TATGTATCTCATTATATTT
1 ATTTGTATGTATCTAATTATATTT
41119301 ATT
1 ATT
41119304 CAATATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (24 bp):
ATTTGTATGTATCTAATTATATTT
Found at i:41124472 original size:21 final size:21
Alignment explanation
Indices: 41124446--41124513 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
41124436 GTAGATGGTA
41124446 GAAGAATCTGAAAATTCTTGG
1 GAAGAATCTGAAAATTCTTGG
* * **
41124467 GAAGAATTTGAAATTTCTAAG
1 GAAGAATCTGAAAATTCTTGG
41124488 GAAGAATCTGAAAATTC-TGAG
1 GAAGAATCTGAAAATTCTTG-G
41124509 GAAGA
1 GAAGA
41124514 TCTAAGCAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (21 bp):
GAAGAATCTGAAAATTCTTGG
Found at i:41127723 original size:21 final size:20
Alignment explanation
Indices: 41127694--41127732 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
41127684 TAGAGTTTTA
41127694 TTTTTATTTTATTT-TAATCC
1 TTTTTATTTT-TTTATAATCC
41127714 TTTTTAATTTTTTTATAAT
1 TTTTT-ATTTTTTTATAAT
41127733 TTATTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTTTTATAATCC
Found at i:41127772 original size:22 final size:23
Alignment explanation
Indices: 41127733--41127787 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 23
41127723 TTTTTATAAT
*
41127733 TTATTTATTTTAAATACTATAAATA
1 TTATTTATTTT--ATACTATAAACA
41127758 TTATTTATTTT-TACTATAAACA
1 TTATTTATTTTATACTATAAACA
41127780 TTATTTAT
1 TTATTTAT
41127788 GTATGTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 18 0.62
25 11 0.38
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATTTATTTTATACTATAAACA
Found at i:41127815 original size:12 final size:12
Alignment explanation
Indices: 41127798--41127968 Score: 79
Period size: 12 Copynumber: 15.1 Consensus size: 12
41127788 GTATGTAAAA
41127798 ATTATTATATAT
1 ATTATTATATAT
41127810 ATTATT-T-T-T
1 ATTATTATATAT
*
41127819 ATTTTTATAT-T
1 ATTATTATATAT
41127830 A-T-TTAT-TAT
1 ATTATTATATAT
*
41127839 ATTATT-TACAT
1 ATTATTATATAT
*
41127850 TTTATTATATAT
1 ATTATTATATAT
* *
41127862 TTTGATTTATACAT
1 ATT-A-TTATATAT
*
41127876 TTTATTATATAT
1 ATTATTATATAT
41127888 CATTTTATTATATAT
1 -A--TTATTATATAT
41127903 ATTATTCAT-TAT
1 ATTATT-ATATAT
41127915 ATT-TT-T-TAT
1 ATTATTATATAT
*
41127924 TTTA-T-TATAT
1 ATTATTATATAT
41127934 ATTA-TATA-AT
1 ATTATTATATAT
*
41127944 -TTATTATTATTT
1 ATTATTA-TATAT
*
41127956 ATTATTATGTAT
1 ATTATTATATAT
41127968 A
1 A
41127969 ATTTTAAAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 40
0.71 0.07 0.22
Matches are distributed among these distances:
8 1 0.01
9 23 0.18
10 16 0.13
11 19 0.15
12 36 0.28
13 10 0.08
14 11 0.09
15 11 0.09
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:41127855 original size:19 final size:19
Alignment explanation
Indices: 41127831--41127905 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
41127821 TTTTATATTA
41127831 TTTATTATATTATTTACAT
1 TTTATTATATTATTTACAT
**
41127850 TTTATTATA-TATTTTGAT
1 TTTATTATATTATTTACAT
* *
41127868 TTATACATTTTATTATATATCAT
1 TT-T--ATTATATTATTTA-CAT
41127891 TTTATTATATATATT
1 TTTATTATAT-TATT
41127906 ATTCATTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
18 9 0.21
19 10 0.24
20 6 0.14
21 8 0.19
22 5 0.12
23 4 0.10
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTATTATATTATTTACAT
Found at i:41127857 original size:14 final size:14
Alignment explanation
Indices: 41127838--41127916 Score: 83
Period size: 14 Copynumber: 5.6 Consensus size: 14
41127828 TTATTTATTA
*
41127838 TATTATTTACATTT
1 TATTATATACATTT
41127852 TATTATAT--ATTT
1 TATTATATACATTT
41127864 TGATT-TATACATTT
1 T-ATTATATACATTT
41127878 TATTATATATCATTT
1 TATTATATA-CATTT
*
41127893 TATTATATATATTAT
1 TATTATATACATT-T
41127908 TCATTATAT
1 T-ATTATAT
41127917 TTTTTATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.14
13 6 0.11
14 19 0.34
15 16 0.29
16 7 0.12
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (14 bp):
TATTATATACATTT
Found at i:41127870 original size:36 final size:35
Alignment explanation
Indices: 41127799--41127950 Score: 107
Period size: 33 Copynumber: 4.2 Consensus size: 35
41127789 TATGTAAAAA
* * *
41127799 TTATTATA-TATATTA-TTTTTATT-TTTATATTAT
1 TTATTATATTAT-TTACATTTTATTATATATTTTAT
41127832 TTATTATATTATTTACATTTTATTATATATTTTGATT
1 TTATTATATTATTTACATTTTATTATATATTTT-A-T
* * *
41127869 TATACATTTTATTATATATCATTTTATTATATATATTAT
1 T-T--ATTATATTATTTA-CATTTTATTATATATTTTAT
* *
41127908 TCATTATATT-TTT-TATTTTATTATATATTATATAAT
1 TTATTATATTATTTACATTTTATTATATATT-T-T-AT
41127944 TTATTAT
1 TTATTAT
41127951 TATTTATTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 21
0.74 0.09 0.16
Matches are distributed among these distances:
33 25 0.26
34 11 0.12
35 9 0.09
36 16 0.17
37 2 0.02
38 1 0.01
39 2 0.02
40 12 0.13
41 17 0.18
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (35 bp):
TTATTATATTATTTACATTTTATTATATATTTTAT
Found at i:41127946 original size:76 final size:76
Alignment explanation
Indices: 41127805--41127947 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 76
41127795 AAAATTATTA
* * * *
41127805 TATATATTATTTTTATTTTTATATTATTTATTATATTATTTACATTTTATTATATATTTTGATTT
1 TATATATCATTTTTATTTATATATTATTCATTATATTATTTACATTTTATTATATATTTTAATTT
41127870 ATACATTTTAT
66 ATACATTTTAT
*
41127881 TATATATCA-TTTTATTATATATATTATTCATTATATT-TTT-TATTTTATTATATATTATATAA
1 TATATATCATTTTTATT-TATATATTATTCATTATATTATTTACATTTTATTATATATT-T-TAA
41127943 TTTAT
63 TTTAT
41127948 TATTATTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
74 15 0.25
75 11 0.19
76 33 0.56
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (76 bp):
TATATATCATTTTTATTTATATATTATTCATTATATTATTTACATTTTATTATATATTTTAATTT
ATACATTTTAT
Found at i:41128806 original size:21 final size:21
Alignment explanation
Indices: 41128780--41128820 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41128770 CCTAACATGC
*
41128780 TGGATTGTGATTTCCCGTTTT
1 TGGATTGCGATTTCCCGTTTT
*
41128801 TGGATTGCGGTTTCCCGTTT
1 TGGATTGCGATTTCCCGTTT
41128821 GTCTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.27, T:0.49
Consensus pattern (21 bp):
TGGATTGCGATTTCCCGTTTT
Found at i:41139825 original size:44 final size:44
Alignment explanation
Indices: 41139760--41140341 Score: 750
Period size: 44 Copynumber: 13.4 Consensus size: 44
41139750 GAATCTAAGA
* * *
41139760 AGATTTGGCATTTCTGTATTGTCAGAAAGCAGATCGAAGATAAC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
* * *
41139804 ATATTTGGTATCTCTGTATTGTCAGAGAACAGATCGAAGAT-AGC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGA-C
* *
41139848 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCCAAGAT---
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
* * * *
41139889 -GATTTGGCATCT-TCGTATT-TGACGAGGAGCAAATCCAAGAAG-C
1 AGATTTGGCATCTCT-GTATTGTCA-GA-GAGCAGATCGAAGATGAC
* * *
41139932 AGATTTGGCAT-TC-ATATATGTTCAGCGAGCAGATC-CA-A-G-C
1 AGATTTGGCATCTCTGTAT-TG-TCAGAGAGCAGATCGAAGATGAC
* * * * *
41139972 TGATTTGGCATCT-TCGTATTCGAC-GAGGAGCAAATCCAAGAAG-C
1 AGATTTGGCATCTCT-GTATT-GTCAGA-GAGCAGATCGAAGATGAC
**
41140016 AGATTTGGGGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-AGC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGA-C
41140060 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
41140104 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
41140148 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
41140192 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
41140236 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
41140280 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
41140324 AGATTTGGCATCTCTGTA
1 AGATTTGGCATCTCTGTA
41140342 GATTTGGTGT
Statistics
Matches: 480, Mismatches: 34, Indels: 48
0.85 0.06 0.09
Matches are distributed among these distances:
39 3 0.01
40 31 0.06
41 25 0.05
42 9 0.02
43 26 0.05
44 382 0.80
45 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
Found at i:41139928 original size:41 final size:41
Alignment explanation
Indices: 41139874--41140012 Score: 140
Period size: 41 Copynumber: 3.3 Consensus size: 41
41139864 TATTGTCAGA
*
41139874 GAGCAGATCCAAGATGATTTGGCATCTTCGTATTTGACGAG
1 GAGCAAATCCAAGATGATTTGGCATCTTCGTATTTGACGAG
* * * *
41139915 GAGCAAATCCAAGAAGCAGATTTGGCA--TTCATATATGTTC-AG
1 GAGCAAATCCAAG-A--TGATTTGGCATCTTCGTATTTG-ACGAG
* * *
41139957 CGAGCAGATCCAAGCTGATTTGGCATCTTCGTATTCGACGAG
1 -GAGCAAATCCAAGATGATTTGGCATCTTCGTATTTGACGAG
41139999 GAGCAAATCCAAGA
1 GAGCAAATCCAAGA
41140013 AGCAGATTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
40 9 0.12
41 25 0.33
42 20 0.26
43 13 0.17
44 9 0.12
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (41 bp):
GAGCAAATCCAAGATGATTTGGCATCTTCGTATTTGACGAG
Found at i:41140346 original size:17 final size:17
Alignment explanation
Indices: 41140324--41140358 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
41140314 CGAAGATGAC
41140324 AGATTTGGCATCTCTGT
1 AGATTTGGCATCTCTGT
**
41140341 AGATTTGGTGTCTCTGT
1 AGATTTGGCATCTCTGT
41140358 A
1 A
41140359 TTGACAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (17 bp):
AGATTTGGCATCTCTGT
Found at i:41140357 original size:61 final size:61
Alignment explanation
Indices: 41140280--41140402 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 61
41140270 CGAAGATGAC
* *
41140280 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGT
1 AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGT
** * * * **
41140341 AGATTTGGTGTCTCTGTATTGACAGAGAACATATTGAAGATGGCAGATTTGGTGTCTCTGT
1 AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGT
41140402 A
1 A
41140403 TTGTCAGAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (61 bp):
AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGT
Found at i:41140381 original size:105 final size:105
Alignment explanation
Indices: 41140236--41140446 Score: 341
Period size: 105 Copynumber: 2.0 Consensus size: 105
41140226 CGAAGATGAC
* *
41140236 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
41140301 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGT
66 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGT
** * * * **
41140341 AGATTTGGTGTCTCTGTATTGACAGAGAACATATTGAAGATGGCAGATTTGGTGTCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
41140406 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGT
66 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGT
41140446 A
1 A
41140447 TTGTCAGAGA
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (105 bp):
AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGT
Found at i:41140462 original size:149 final size:149
Alignment explanation
Indices: 41140192--41140489 Score: 481
Period size: 149 Copynumber: 2.0 Consensus size: 149
41140182 CGAAGATGAC
* *
41140192 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
*
41140257 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGAT-
66 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATA
41140321 GACAGATTTGGCATCTCTGT
131 G-CAGATTTGGCATCTCTGT
** * * * **
41140341 AGATTTGGTGTCTCTGTATTGACAGAGAACATATTGAAGATGGCAGATTTGGTGTCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
*
41140406 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGGTA
66 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATA
41140471 GCAGATTTGGCATCTCTGT
131 GCAGATTTGGCATCTCTGT
41140490 GTTGTCAGAG
Statistics
Matches: 137, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
149 136 0.99
150 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (149 bp):
AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATA
GCAGATTTGGCATCTCTGT
Found at i:41140501 original size:44 final size:43
Alignment explanation
Indices: 41140341--41140513 Score: 202
Period size: 44 Copynumber: 4.0 Consensus size: 43
41140331 GCATCTCTGT
** * * * **
41140341 AGATTTGGTGTCTCTGTATTGACAGAGAACATATTGAAGATGGC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGAT-GC
** *
41140385 AGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATG-C
*
41140429 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGGTAGC
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGAT-GC
* *
41140473 AGATTTGGCATCTCTGTGTTGTCAGAGAGTAGATCAAAGAT
1 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGAT
41140514 AGTGTATTTG
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 1 0.01
44 114 0.98
45 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (43 bp):
AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGC
Found at i:41140525 original size:193 final size:193
Alignment explanation
Indices: 41140148--41140513 Score: 590
Period size: 193 Copynumber: 1.9 Consensus size: 193
41140138 CGAAGATGAC
* *
41140148 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
*
41140213 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATG
66 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATG
*
41140278 ACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGT
131 ACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGT
** * * * **
41140341 AGATTTGGTGTCTCTGTATTGACAGAGAACATATTGAAGATGGCAGATTTGGTGTCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
*
41140406 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGGT-
66 TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATG
* *
41140470 AGCAGATTTGGCATCTCTGTGTTGTCAGAGAGTAGATCAAAGAT
131 A-CAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGAT
41140514 AGTGTATTTG
Statistics
Matches: 158, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
192 1 0.01
193 157 0.99
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (193 bp):
AGATTTGGCATCTCTGTATTGACAGAGAACAGATCGAAGATGACAGATTTGGCATCTCTGTATTG
TCAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATG
ACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGT
Found at i:41154282 original size:36 final size:36
Alignment explanation
Indices: 41154235--41154307 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
41154225 TTGTGTCCTA
*
41154235 ACTCACTGGATATGGCGTTTTGTTATTTCGAAATAG
1 ACTCACTGGATATGACGTTTTGTTATTTCGAAATAG
*
41154271 ACTCACTGGATATGACGTTTTGTTGTTTCGAAATAG
1 ACTCACTGGATATGACGTTTTGTTATTTCGAAATAG
41154307 A
1 A
41154308 AATTTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (36 bp):
ACTCACTGGATATGACGTTTTGTTATTTCGAAATAG
Found at i:41164868 original size:59 final size:59
Alignment explanation
Indices: 41164776--41164891 Score: 187
Period size: 59 Copynumber: 2.0 Consensus size: 59
41164766 TATCTAGGGC
* * *
41164776 ATCTAACTTTTGTCATGTTTGCTATCTTTAGATTCTTTTTCTTCTCAAAGATAGGCTAT
1 ATCTAACTTTTATCATGTTTGCTATCTGTAGATTCTATTTCTTCTCAAAGATAGGCTAT
* *
41164835 ATCTAACTTTTATCCTGTTTGCTATCTGTAGATTCTATTTCTTCTTAAAGATAGGCT
1 ATCTAACTTTTATCATGTTTGCTATCTGTAGATTCTATTTCTTCTCAAAGATAGGCT
41164892 TTCAGATTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.48
Consensus pattern (59 bp):
ATCTAACTTTTATCATGTTTGCTATCTGTAGATTCTATTTCTTCTCAAAGATAGGCTAT
Found at i:41165827 original size:133 final size:133
Alignment explanation
Indices: 41165676--41166040 Score: 642
Period size: 133 Copynumber: 2.8 Consensus size: 133
41165666 AATCTAAGAT
* *
41165676 GATTTGGCATCTCTATGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCGTCTCTATGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
* *
41165741 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTCGTATTTGACGAGGAGCAAATCCAAGATA
66 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCCAAGATA
41165806 GCA
131 GCA
*
41165809 GATTTGGCGTCTCTATGTTCGACGGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCGTCTCTATGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
* *
41165874 TTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTTCTTATTCGACGAAGAGCAAATCCAAGATA
66 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCCAAGATA
41165939 GCA
131 GCA
*
41165942 GATTTGGCGTCTCTATGTTCGACGGAGAGCAGATCGAAGACATAGCTGA-TTGGCTTTCCCGTGT
1 GATTTGGCGTCTCTATGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
*
41166006 TTACGTTGAAGCAAATCTAAGAAGATTTGGCATCT
66 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCT
41166041 CTATGTTTGA
Statistics
Matches: 221, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
132 47 0.21
133 174 0.79
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (133 bp):
GATTTGGCGTCTCTATGTTCGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCCAAGATA
GCA
Found at i:41166146 original size:88 final size:88
Alignment explanation
Indices: 41165589--41166169 Score: 447
Period size: 88 Copynumber: 6.6 Consensus size: 88
41165579 CAAGATAGCA
** *
41165589 GATTTGGTGTCTCTGTGTTTGACGAAGAGCAGATCGAAGACATAGCTGA-TTGGCTTTCACGTGT
1 GATTTGGCATCTCTATGTTTGACGAAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41165653 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
*
41165676 GATTTGGCATCTCTATGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTATGTTTGACGAAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41165741 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
* * * * *
41165764 GATTTGGCATCTTCGTA--TTTGACGAGGAGCAAATCCAAG--ATAGCAGATTTGGCGTCTCTA-
1 GATTTGGCATC-TC-TATGTTTGACGAAGAGCAGATCGAAGACATAGCTGATTTGGC-TTTC-AC
* * *
41165824 -TGTTCGACG--GAGAGCAGATCAAAGACATAGCT
62 GTGTT-TACGTTGA-AGCAAATCTAAG----A--T
* ** * *
41165856 GATTTGGC-TTTC-ACGTGTTT-ACGTTGA--AG--C-AAGTC-TAAGATGATTTGGCATCTT--
1 GATTTGGCATCTCTA--TGTTTGACGAAGAGCAGATCGAAGACAT-AGCTGATTTGGC-T-TTCA
* * * ** *
41165910 CTTATTCGACGAAG-AGCAAATCCAAGAT
61 CGTGTT-TACGTTGAAGCAAATCTAAGAT
* * * *
41165938 AGCAGATTTGGCGTCTCTATGTTCGACGGAGAGCAGATCGAAGACATAGCTGA-TTGGCTTTCCC
1 ----GATTTGGCATCTCTATGTTTGACGAAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCAC
*
41166002 GTGTTTACGTTGAAGCAAATCTAAGAA
62 GTGTTTACGTTGAAGCAAATCTAAGAT
* * * *
41166029 GATTTGGCATCTCTATGTTTGACGTAGAGCACATAGAAGTCATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTATGTTTGACGAAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166094 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
* * * * *
41166117 GATTTGGCATCTTCT-TATTCGACGAAGAGCAAATCCAAG--ATAGCAGATTTGGC
1 GATTTGGCATC-TCTATGTTTGACGAAGAGCAGATCGAAGACATAGCTGATTTGGC
41166170 GTCTCTGTGT
Statistics
Matches: 399, Mismatches: 52, Indels: 87
0.74 0.10 0.16
Matches are distributed among these distances:
82 1 0.00
84 1 0.00
85 2 0.01
86 55 0.14
87 104 0.26
88 164 0.41
89 11 0.03
90 11 0.03
91 28 0.07
92 21 0.05
93 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (88 bp):
GATTTGGCATCTCTATGTTTGACGAAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
TTACGTTGAAGCAAATCTAAGAT
Found at i:41166149 original size:353 final size:353
Alignment explanation
Indices: 41165492--41166261 Score: 1292
Period size: 353 Copynumber: 2.2 Consensus size: 353
41165482 GTAATAGGCT
* * * * * * **
41165492 AAGACATAGCAGATCTGACCTTCAAGTGTTTACGTTGAAGC-AGATCCAAGACAATTTGGCATCT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAG-TCTAAGATGATTTGGCATCT
* * *
41165556 TCATATTCGACAAGGAGCAAATCCAAGATAGCAGATTTGGTGTCTCTGTGTTTGACGAAGAGCAG
65 TCATATTCGACAAGGAGCAAATCCAAGATAGCAGATTTGGCGTCTCTATGTTCGACGAAGAGCAG
*
41165621 ATCGAAGACATAGCTGATTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCAT
130 ATCGAAGACATAGCTGATTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAAGATTTGGCAT
* *
41165686 CTCTATGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAA
195 CTCTATGTTTGACGGAGAGCACATAGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAA
* *
41165751 GCAAATCTAAGATGATTTGGCATCTTCGTATTTGACGAGGAGCAAATCCAAGATAGCAGATTTGG
260 GCAAATCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGG
41165816 CGTCTCTATGTTCGACGGAGAGCAGATCA
325 CGTCTCTATGTTCGACGGAGAGCAGATCA
41165845 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTT
* *
41165910 CTTATTCGACGAA-GAGCAAATCCAAGATAGCAGATTTGGCGTCTCTATGTTCGACGGAGAGCAG
66 CATATTCGAC-AAGGAGCAAATCCAAGATAGCAGATTTGGCGTCTCTATGTTCGACGAAGAGCAG
*
41165974 ATCGAAGACATAGCTGATTGGCTTTCCCGTGTTTACGTTGAAGCAAATCTAAGAAGATTTGGCAT
130 ATCGAAGACATAGCTGATTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAAGATTTGGCAT
* *
41166039 CTCTATGTTTGACGTAGAGCACATAGAAGTCATAGCTGATTTGGCTTTCACGTGTTTACGTTGAA
195 CTCTATGTTTGACGGAGAGCACATAGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAA
*
41166104 GCAAATCTAAGATGATTTGGCATCTTCTTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGG
260 GCAAATCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGG
*
41166169 CGTCTCTGTGTTCGACGGAGAGCAGATCA
325 CGTCTCTATGTTCGACGGAGAGCAGATCA
*
41166198 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCT
41166262 CTGTGTTTGA
Statistics
Matches: 391, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
353 387 0.99
354 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (353 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTT
CATATTCGACAAGGAGCAAATCCAAGATAGCAGATTTGGCGTCTCTATGTTCGACGAAGAGCAGA
TCGAAGACATAGCTGATTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGAAGATTTGGCATC
TCTATGTTTGACGGAGAGCACATAGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAG
CAAATCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGGC
GTCTCTATGTTCGACGGAGAGCAGATCA
Found at i:41166608 original size:573 final size:572
Alignment explanation
Indices: 41165492--41167274 Score: 2390
Period size: 573 Copynumber: 3.1 Consensus size: 572
41165482 GTAATAGGCT
* * * * * * * **
41165492 AAGACATAGCAGATCTGACCTTCAAGTGTTTACGTTGAAGCAGATCCAAGACAATTTGGCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTT
* *
41165557 CATATTCGAC-AAGGAGCAAATCCAAGATAGCAGATTTGGTGTCTCTGTGTTTGACGAAGAGCAG
66 CTTATTCGACGAA-GAGCAAATCCAAGATAGCAGATTTGGCGTCTCTGTG-TTGACGAAGAGCAG
*
41165621 ATCGAAGACATAGCTGA-TTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
129 ATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
*
41165685 TCTCTATGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
194 TCTCTGTGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * *
41165750 AGCAAATCTAAGATGATTTGGCATCT-TCGTATTTGAC-GAGGAGCAAATCCAAG--ATAGCAGA
259 AGCAAATCTAAGATGATTTGGCATCTCT-GTGTTTGACGGA-GAGTAGATCGAAGACATAGCTGA
* * * * * *
41165811 TTTGGCGTCTCTA--TGTTCGACG--GAGAGCAGATCAAAGACATAGCTGATTTGGC-TTTCACG
322 TTTGGC-TTTC-ACGTGTT-TACGTTGA-AGCAAATCTAAG----A--TGATTTGGCATCTC-TG
** * * * * * **
41165871 TGTTT-ACGTTGA--AG--C-AAGTC-TAAGATGATTTGGCATCTT--CTTATTCGACGAAG-AG
376 TGTTTGACGGAGAGTAGATCGAAGACAT-AGCTGATTTGGC-T-TTCACGTGTT-TACGTTGAAG
* * * * *
41165926 CAAATCCAAGATAGCAGATTTGGCGTCTCTATGTTCGACGGAGAGCAGATCGAAGACATAGCTGA
437 CAAATCTAAGAT----GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGA
* * * *
41165991 -TTGGCTTTCCCGTGTTTACGTTGAAGCAAATCTAAGAAGATTTGGCATCTCTATGTTTGACGTA
498 TTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGA
* * *
41166055 GAGCACATAG
563 GAGTAGATCG
*
41166065 AAGTCATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTT
*
41166130 CTTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGGCGTCTCTGTGTTCGACGGAGAGCAGA
66 CTTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGGCGTCTCTGTGTT-GACGAAGAGCAGA
41166195 TCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCAT
130 TCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCAT
*
41166260 CTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAA
195 CTCTGTGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAA
41166325 GCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTT
260 GCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTT
41166390 GGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAG
325 GGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAG
41166455 TAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
390 TAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
41166520 GCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGT
455 GCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGT
41166585 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCG
520 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCG
41166638 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATC-T
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTT
* * * * * * * * * * **
41166702 CTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGC-TTTCACGTGTTTACGTTGA--
66 CT-TATTCGACGAAGAGCAAATCCAAG--ATAGCAGATTTGGCGTCTC-TGTGTTGACGAAGAGC
* * * * * *
41166764 AG--CAAA-TC-TATGATGATTTGGCATCTT--CGTATTTGACG-AGGAGCAAATCCAAGATAGC
127 AGATCAAAGACATA-GCTGATTTGGC-T-TTCACGTGTTT-ACGTTGAAGCAAATCTAAGAT---
* * *
41166822 AGATTTGGCGTCTCTGTGTTTGACAGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTG
185 -GATTTGGCATCTCTGTGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTG
41166887 TTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGAC
249 TTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGAC
41166952 ATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGT
314 ATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGT
41167017 TTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCT
379 TTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCT
41167082 AAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCA
444 AAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCA
41167147 CGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCG
509 CGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCG
41167211 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCT
41167275 CTGTGTTTGA
Statistics
Matches: 1103, Mismatches: 71, Indels: 71
0.89 0.06 0.06
Matches are distributed among these distances:
568 2 0.00
569 31 0.03
570 23 0.02
571 10 0.01
572 53 0.05
573 722 0.65
574 167 0.15
575 33 0.03
576 59 0.05
577 3 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (572 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTT
CTTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGGCGTCTCTGTGTTGACGAAGAGCAGAT
CAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATC
TCTGTGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAG
CAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTG
GCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGT
AGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGG
CATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
GAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCG
Found at i:41166801 original size:88 final size:88
Alignment explanation
Indices: 41166162--41166789 Score: 1211
Period size: 88 Copynumber: 7.1 Consensus size: 88
41166152 CAAGATAGCA
* * * *
41166162 GATTTGGCGTCTCTGTGTTCGACGGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166227 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166250 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166315 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166338 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166403 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166426 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166491 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166514 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166579 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166602 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166667 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166690 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
*
41166755 TTACGTTGAAGCAAATCTATGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166778 GATTTGGCATCT
1 GATTTGGCATCT
41166790 TCGTATTTGA
Statistics
Matches: 535, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 535 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (88 bp):
GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
TTACGTTGAAGCAAATCTAAGAT
Found at i:41166853 original size:661 final size:661
Alignment explanation
Indices: 41165589--41167396 Score: 2839
Period size: 661 Copynumber: 2.7 Consensus size: 661
41165579 CAAGATAGCA
** * *
41165589 GATTTGGTGTCTCTGTGTTTGACGAAGAGCAGATCGAAGACATAGCTGA-TTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
* *
41165653 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTATGTTTGACGGAGAGCAGATCGAAGACA
66 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACA
*
41165718 TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCT-TCGTAT
131 TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCT-GTGT
* * * * * *
41165782 TTGAC-GAGGAGCAAATCCAAG--ATAGCAGATTTGGCGTCTCTA--TGTTCGACG--GAGAGCA
195 TTGACGGA-GAGTAGATCGAAGACATAGCTGATTTGGC-TTTC-ACGTGTT-TACGTTGA-AGCA
* * * * ** * *
41165840 GATCAAAGACATAGCTGATTTGGC-TTTCACGTGTTT-ACGTTGA--AG--C-AAGTC-TAAGAT
255 AATCTAAG----A--TGATTTGGCATCTC-TGTGTTTGACGGAGAGTAGATCGAAGACAT-AGCT
* * * ** * * *
41165897 GATTTGGCATCTT--CTTATTCGACGAAG-AGCAAATCCAAGATAGCAGATTTGGCGTCTCTATG
312 GATTTGGC-T-TTCACGTGTT-TACGTTGAAGCAAATCTAAGAT----GATTTGGCATCTCTGTG
* * *
41165959 TTCGACGGAGAGCAGATCGAAGACATAGCTGA-TTGGCTTTCCCGTGTTTACGTTGAAGCAAATC
370 TTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * * * *
41166023 TAAGAAGATTTGGCATCTCTATGTTTGACGTAGAGCACATAGAAGTCATAGCTGATTTGGCTTTC
435 TAAGATGATTTGGCATCTCTATGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTC
*
41166088 ACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTCTTATTCGACGAAGAGCAAATCC
500 ACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCC
*
41166153 AAGATAGCAGATTTGGCGTCTCTGTGTTCGACGGAGAGCAGATCAAAGACATAGCTGATTTGGCT
565 AAGATAGCAGATTTGGCGTCTCTGTGTTCGACAGAGAGCAGATCAAAGACATAGCTGATTTGGCT
41166218 TTCACGTGTTTACGTTGAAGCAAATCTAAGAT
630 TTCACGTGTTTACGTTGAAGCAAATCTAAGAT
41166250 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166315 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACA
66 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACA
41166380 TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTT
131 TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTT
41166445 TGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
196 TGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
41166510 AGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCAC
261 AGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCAC
41166575 GTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAA
326 GTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAA
*
41166640 GACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTG
391 GACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTA
*
41166705 TGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAA
456 TGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAA
* * *
41166770 TCTATGATGATTTGGCATCTTCGTATTTGACGAGGAGCAAATCCAAGATAGCAGATTTGGCGTCT
521 TCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGGCGTCT
*
41166835 CTGTGTTTGACAGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGC
586 CTGTGTTCGACAGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGC
41166900 AAATCTAAGAT
651 AAATCTAAGAT
41166911 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166976 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACA
66 TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACA
41167041 TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTT
131 TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTT
41167106 TGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
196 TGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
41167171 AGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCAC
261 AGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCAC
41167236 GTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAA
326 GTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAA
41167301 GACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTA
391 GACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTA
* ** *
41167366 TATTAAACGGGGAGCAGATCGAAGACATAGC
456 TGTTTGACGGAGAGCAGATCGAAGACATAGC
41167397 AGATCTGACC
Statistics
Matches: 1075, Mismatches: 51, Indels: 42
0.92 0.04 0.04
Matches are distributed among these distances:
658 15 0.01
659 8 0.01
660 46 0.04
661 772 0.72
662 157 0.15
663 15 0.01
664 59 0.05
665 3 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (661 bp):
GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
TTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACA
TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTT
TGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
AGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCAC
GTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAA
GACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTA
TGTTTGACGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAA
TCTAAGATGATTTGGCATCTTCGTATTCGACGAAGAGCAAATCCAAGATAGCAGATTTGGCGTCT
CTGTGTTCGACAGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGC
AAATCTAAGAT
Found at i:41166933 original size:88 final size:88
Alignment explanation
Indices: 41166823--41167396 Score: 1058
Period size: 88 Copynumber: 6.5 Consensus size: 88
41166813 CAAGATAGCA
* * * *
41166823 GATTTGGCGTCTCTGTGTTTGACAGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166888 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166911 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41166976 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41166999 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41167064 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41167087 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41167152 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41167175 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41167240 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
41167263 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
41167328 TTACGTTGAAGCAAATCTAAGAT
66 TTACGTTGAAGCAAATCTAAGAT
* * ** * *
41167351 GATTTGGCATCTCTATATTAAACGGGGAGCAGATCGAAGACATAGC
1 GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGC
41167397 AGATCTGACC
Statistics
Matches: 476, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 476 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (88 bp):
GATTTGGCATCTCTGTGTTTGACGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
TTACGTTGAAGCAAATCTAAGAT
Found at i:41167462 original size:78 final size:75
Alignment explanation
Indices: 41167333--41167547 Score: 268
Period size: 78 Copynumber: 2.8 Consensus size: 75
41167323 CGTGTTTACG
* * *
41167333 TTGAAGCAAATCTAAGATGATTTGGCATCTCTATATTAAACGGGGAGCAGATCGAAGACATAGCA
1 TTGAAGCAAATCCAAGATGATTTGGCATCTCTGTATT-AACGGGGAGCAGATCGAAGACATAACA
41167398 GATCTGACCTT
65 GATCTGACCTT
*
41167409 CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAA
1 --TTGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTA-ACGGGGAGCAGATCGAAGACATAA
41167474 CAGATCTGACCTT
63 CAGATCTGACCTT
* * * * * *
41167487 TGTCAAGGAATATCCAAGATAATTTGGGCATTTATGTATTCAATGGGGAGCAGATCGAAGA
1 T-TGAAGCAA-ATCCAAGATGATTT-GGCATCTCTGTATT-AACGGGGAGCAGATCGAAGA
41167548 AATCAAGACT
Statistics
Matches: 121, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
76 1 0.01
77 6 0.05
78 83 0.69
79 30 0.25
80 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (75 bp):
TTGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTAACGGGGAGCAGATCGAAGACATAACAG
ATCTGACCTT
Found at i:41169245 original size:16 final size:17
Alignment explanation
Indices: 41169224--41169258 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
41169214 AAAAATTGTT
41169224 TTACTTTTC-TATATTA
1 TTACTTTTCATATATTA
41169240 TTACTTTTCATATATTA
1 TTACTTTTCATATATTA
41169257 TT
1 TT
41169259 TCATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
TTACTTTTCATATATTA
Found at i:41169411 original size:20 final size:20
Alignment explanation
Indices: 41169388--41169426 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41169378 CTATATACTT
*
41169388 TTATATTATATATTATATAA
1 TTATATTATATAATATATAA
* *
41169408 TTATCTTATTTAATATATA
1 TTATATTATATAATATATA
41169427 TATTGTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATTATATAATATATAA
Found at i:41171639 original size:19 final size:19
Alignment explanation
Indices: 41171593--41171682 Score: 112
Period size: 19 Copynumber: 4.7 Consensus size: 19
41171583 TTAAATCTCC
41171593 AAGATTACAATATCATATCTT
1 AAGATTAC-ATATCATATC-T
41171614 CAAGATTACATATCATATCT
1 -AAGATTACATATCATATCT
*
41171634 AAGATTGCATATCATATCT
1 AAGATTACATATCATATCT
*
41171653 AAGATT--GTATCATATCT
1 AAGATTACATATCATATCT
*
41171670 AAGATTGCATATC
1 AAGATTACATATC
41171683 CTTAAAGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
17 16 0.25
19 28 0.44
20 1 0.02
21 10 0.16
22 8 0.13
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
AAGATTACATATCATATCT
Found at i:41171646 original size:14 final size:15
Alignment explanation
Indices: 41171626--41171682 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
41171616 AGATTACATA
41171626 TCATATCTAAGATTG
1 TCATATCTAAGATTG
41171641 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
41171660 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
41171677 -CATATC
1 TCATATC
41171683 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:41172328 original size:175 final size:175
Alignment explanation
Indices: 41172126--41172619 Score: 738
Period size: 175 Copynumber: 2.8 Consensus size: 175
41172116 GTAAACACGT
* * *
41172126 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
41172191 ATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGTTATGTATCTACTCTCCGTCGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGTTATGTATCTACTCTCCGTCGAAATGGA
* *
41172255 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
* *
41172301 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATTATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * *
41172366 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTATCTGCTCTCCGTCAAAATGAAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTATCTACTCTCCGTCGAAATGGAG
* *
41172431 ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAATATCT
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
* * * * * * *
41172476 AAAAGTTAGATCTGCTATGTTTTCGATTTTCTCCTTGTAAACACAAGAATGTCAAATCATCTTAG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * * *
41172541 ATCTACTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACTCTCCATCGAATATGGA
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTATCTACTCTCCGTCGAA-ATGGA
*
41172606 GACGCCAGATCTGT
130 GATGCCAGATCTGT
41172620 AATTTTAGCC
Statistics
Matches: 287, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
175 267 0.93
176 20 0.07
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTATCTACTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
Found at i:41172459 original size:86 final size:86
Alignment explanation
Indices: 41172184--41172459 Score: 255
Period size: 86 Copynumber: 3.2 Consensus size: 86
41172174 ATGCCAAATC
* *
41172184 ATCTTGGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGTTATGTATCTACTCTCCGTCG
1 ATCTTGGATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGTTATGTATCTGCTCTCCGTCA
*
41172248 AAATGGAGATGCCAGATCTGTT
65 AAATGAAGATGCCAGATCTGTT
** * * * * * * *
41172270 ATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG-T-T
1 ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAGGTTAGATCTGTTATG---T--ATCTGCTCT
* *
41172333 CCTTGT-AAACA-CAAGAATGCCA-A---ATT
59 CC--GTCAAA-ATGAAG-ATGCCAGATCTGTT
41172359 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTATCTGCTCTCCGTCAA
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTATCTGCTCTCCGTCAA
41172424 AATGAAGATGCCAGATCTGTT
66 AATGAAGATGCCAGATCTGTT
41172445 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
41172460 TGATGTGAAA
Statistics
Matches: 145, Mismatches: 25, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
82 13 0.09
83 8 0.06
84 4 0.03
86 34 0.23
87 21 0.14
88 21 0.14
89 22 0.15
91 4 0.03
92 6 0.04
93 12 0.08
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (86 bp):
ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGTATCTGCTCTCCGTCAA
AATGAAGATGCCAGATCTGTT
Found at i:41173691 original size:7 final size:7
Alignment explanation
Indices: 41173679--41173732 Score: 67
Period size: 7 Copynumber: 7.7 Consensus size: 7
41173669 GGCCTCTCCA
41173679 TTTTTCT
1 TTTTTCT
41173686 TTTTTCTT
1 TTTTTC-T
41173694 TTTTCTCT
1 TTTT-TCT
41173702 TTTTTCT
1 TTTTTCT
41173709 TTTTT-T
1 TTTTTCT
*
41173715 TTCTT-T
1 TTTTTCT
41173721 TTTTTCT
1 TTTTTCT
41173728 TTTTT
1 TTTTT
41173733 TTGAAATAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 10 0.24
7 20 0.48
8 10 0.24
9 2 0.05
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTCT
Found at i:41173704 original size:16 final size:16
Alignment explanation
Indices: 41173679--41173734 Score: 76
Period size: 16 Copynumber: 3.3 Consensus size: 16
41173669 GGCCTCTCCA
41173679 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
*
41173695 TTTCTCTTTTTTCTTTT
1 TTTTTCTTTTTTC-TTT
41173712 TTTTTCTTTTTTTTCTTT
1 TTTTTC--TTTTTTCTTT
41173730 TTTTT
1 TTTTT
41173735 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 12 0.34
17 8 0.23
18 8 0.23
19 7 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:41173716 original size:19 final size:19
Alignment explanation
Indices: 41173692--41173734 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
41173682 TTCTTTTTTC
41173692 TTTTTTCTCTTTTTTCTTT
1 TTTTTTCTCTTTTTTCTTT
*
41173711 TTTTTTCTTTTTTTTCTTT
1 TTTTTTCTCTTTTTTCTTT
41173730 TTTTT
1 TTTTT
41173735 GAAATAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTTCTCTTTTTTCTTT
Found at i:41173733 original size:9 final size:9
Alignment explanation
Indices: 41173685--41173734 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
41173675 TCCATTTTTC
41173685 TTTTTTCTT
1 TTTTTTCTT
*
41173694 TTTTCTCTT
1 TTTTTTCTT
*
41173703 TTTTCT-TT
1 TTTTTTCTT
41173711 TTTTTTCTT
1 TTTTTTCTT
41173720 TTTTTTCTT
1 TTTTTTCTT
41173729 TTTTTT
1 TTTTTT
41173735 GAAATAGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 7 0.18
9 31 0.82
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:41179389 original size:19 final size:19
Alignment explanation
Indices: 41179354--41179413 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
41179344 AGATTAAAAG
41179354 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
41179375 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
41179392 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
41179411 ATC
1 ATC
41179414 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Done.