Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 225 of 325
Found at i:70874610 original size:100 final size:100
Alignment explanation
Indices: 70874437--70874628 Score: 312
Period size: 100 Copynumber: 1.9 Consensus size: 100
70874427 CCATCAATTC
* * * * *
70874437 TTCCTTAATCGTAAATTAACCACAGGAACCACGTAACAATTAAGCCTTATCAAACAAATAGCCCT
1 TTCCTTAATCATAAAATAACCACAAGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCC
*
70874502 GAAAGTCGCTTCCATGGTTTAATCCTTCTGGATAT
66 AAAAGTCGCTTCCATGGTTTAATCCTTCTGGATAT
*
70874537 TTCCTTAATCATAAAATAACCACAAGAACCACCTGACAATTAAGCCTTATCAAACAAATAGCCCC
1 TTCCTTAATCATAAAATAACCACAAGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCC
*
70874602 AAAAGTCGCTTCCATGGTTTTATCCTT
66 AAAAGTCGCTTCCATGGTTTAATCCTT
70874629 TTGCAACTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (100 bp):
TTCCTTAATCATAAAATAACCACAAGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCC
AAAAGTCGCTTCCATGGTTTAATCCTTCTGGATAT
Found at i:70875325 original size:5 final size:6
Alignment explanation
Indices: 70875297--70875322 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
70875287 AATAATATCT
70875297 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
70875323 TAATCTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:70879956 original size:22 final size:22
Alignment explanation
Indices: 70879902--70879968 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
70879892 TGGTCTGTAT
*
70879902 CTATAACTGATATCTGATATATT
1 CTATAACTG-TATCTGATATATC
* * * *
70879925 ATTTATCTGTATATGATATATC
1 CTATAACTGTATCTGATATATC
*
70879947 CTATAACTGTATCTAATATATC
1 CTATAACTGTATCTGATATATC
70879969 TTGTTTCTAT
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.45
Consensus pattern (22 bp):
CTATAACTGTATCTGATATATC
Found at i:70890762 original size:2 final size:2
Alignment explanation
Indices: 70890755--70890780 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
70890745 GGCTAAGCCC
70890755 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
70890781 TATATATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:70890943 original size:16 final size:17
Alignment explanation
Indices: 70890919--70890953 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
70890909 GGAAATCAAC
*
70890919 ATCTGTATCTA-ATATG
1 ATCTATATCTATATATG
70890935 ATCTATATCTATATATG
1 ATCTATATCTATATATG
70890952 AT
1 AT
70890954 ATATCCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (17 bp):
ATCTATATCTATATATG
Found at i:70893064 original size:17 final size:17
Alignment explanation
Indices: 70893039--70893072 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
70893029 TCTAACATCT
* *
70893039 TTTTTTTTTTAGTTTTA
1 TTTTGTTTTTAATTTTA
70893056 TTTTGTTTTTAATTTTA
1 TTTTGTTTTTAATTTTA
70893073 GTATACATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTGTTTTTAATTTTA
Found at i:70893658 original size:10 final size:10
Alignment explanation
Indices: 70893643--70893667 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
70893633 TTATTGGTTG
70893643 ATCGTTGTTT
1 ATCGTTGTTT
70893653 ATCGTTGTTT
1 ATCGTTGTTT
70893663 ATCGT
1 ATCGT
70893668 CAGGTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (10 bp):
ATCGTTGTTT
Found at i:70905975 original size:29 final size:30
Alignment explanation
Indices: 70905943--70905999 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
70905933 TGGTTTAATA
*
70905943 TGTAATTATATACATG-AATTTTGATTTTG
1 TGTAATTATATACATGAAAATTTGATTTTG
*
70905972 TGTAATTTTATACATGAAAATTTGATTT
1 TGTAATTATATACATGAAAATTTGATTT
70906000 GATCTAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (30 bp):
TGTAATTATATACATGAAAATTTGATTTTG
Found at i:70906008 original size:30 final size:29
Alignment explanation
Indices: 70905945--70906008 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
70905935 GTTTAATATG
* *
70905945 TAATTATATACATGAATTTTGATTTTGTG
1 TAATTATATACATGAAATTTGATTTTGTC
*
70905974 TAATTTTATACATGAAAATTTGA-TTTGATC
1 TAATTATATACATG-AAATTTGATTTTG-TC
70906004 TAATT
1 TAATT
70906009 CTTGTAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (29 bp):
TAATTATATACATGAAATTTGATTTTGTC
Found at i:70906217 original size:29 final size:31
Alignment explanation
Indices: 70906184--70906252 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
70906174 CAGTTAGAGT
* *
70906184 TTCATGTGTATAATTGCAC-TAAAAT-AAAG
1 TTCATGTATACAATTGCACATAAAATCAAAG
* *
70906213 TTCATATATACAATTGCACATTAAATCAAAG
1 TTCATGTATACAATTGCACATAAAATCAAAG
70906244 TTCATGTAT
1 TTCATGTAT
70906253 CTCAAAACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 16 0.48
30 5 0.15
31 12 0.36
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (31 bp):
TTCATGTATACAATTGCACATAAAATCAAAG
Found at i:70906513 original size:310 final size:309
Alignment explanation
Indices: 70905951--70906554 Score: 834
Period size: 310 Copynumber: 2.0 Consensus size: 309
70905941 TATGTAATTA
* * ***
70905951 TATACATGAATTTTGATTTTGTGTAATTTTATACATGAAAATTTGATTTGATCTAATTCTTGTAA
1 TATACATGAACTTTGATTTTGTGCAATTTTATACATGAAAATTTGATTTGATCTAATTCTCACAA
* * * ** *
70906016 GTTATTAACAGAATTACTGATATAATATCATTTTATATTTATATATTTCATACACAAATAATTAT
66 ATTATTAACACAATTACTGATATAACATCATTTTATATTTATATATCACATACAAAAATAATTAT
* * * * * *
70906081 ATTTATCCAATATAAAGAATAAATTAATTTATTTCTTTCTTTCAATGTGTATGATTAAATAAAAA
131 ATTTATCCAATATAAAGAATAAACTAATGTATTTATATCCTTCAATATGTATGATTAAATAAAAA
* * * * * *
70906146 TTAAAATTTCAAATATATATTTGGATCACAGTTAGAGTTTCATGTGTATAATTGCACTAAAATAA
196 TTAAAATTTCAAATATACATTTGAACCACAATCAAAGTTTCATGTGTATAATTGCACT-AAATAA
* *
70906211 AGTTCATATAT-ACAATTGCACATTAAATCAAAGTTCATGTATCTCAAAAC
260 AGTTCATATATCA-AATTGCAAAATAAATCAAAGTTCATGTATCTCAAAAC
*
70906261 TATACATGAACTTTGATTTTGTGCAATTTTATACATGAAAGTTTTGATTTGATCTAATTCTCACA
1 TATACATGAACTTTGATTTTGTGCAATTTTATACATGAAA-ATTTGATTTGATCTAATTCTCACA
* *
70906326 AATTATTAACACAATTATTGATATAACATCATTTTATGTTTATATATCACATACAAAAATAATTA
65 AATTATTAACACAATTACTGATATAACATCATTTTATATTTATATATCACATACAAAAATAATTA
*
70906391 TATTTATCCAATATAAA-AATAAACTGATGTATTTATATCCTTCAATATGTATGATTAAATAAAA
130 TATTTATCCAATATAAAGAATAAACTAATGTATTTATATCCTTCAATATGTATGATTAAATAAAA
* ** * * *
70906455 ATTAAAGTTTCATGTATACGTTTGAACCACAATCAAAGTTTCATGTGTATGATTGCACTAATTAA
195 ATTAAAATTTCAAATATACATTTGAACCACAATCAAAGTTTCATGTGTATAATTGCACTAAATAA
* *
70906520 AGTTCATGTATCAAATTGCAAAATGAATCAAAGTT
260 AGTTCATATATCAAATTGCAAAATAAATCAAAGTT
70906555 TATATATAAT
Statistics
Matches: 255, Mismatches: 37, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
309 34 0.13
310 127 0.50
311 94 0.37
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (309 bp):
TATACATGAACTTTGATTTTGTGCAATTTTATACATGAAAATTTGATTTGATCTAATTCTCACAA
ATTATTAACACAATTACTGATATAACATCATTTTATATTTATATATCACATACAAAAATAATTAT
ATTTATCCAATATAAAGAATAAACTAATGTATTTATATCCTTCAATATGTATGATTAAATAAAAA
TTAAAATTTCAAATATACATTTGAACCACAATCAAAGTTTCATGTGTATAATTGCACTAAATAAA
GTTCATATATCAAATTGCAAAATAAATCAAAGTTCATGTATCTCAAAAC
Found at i:70911505 original size:29 final size:30
Alignment explanation
Indices: 70911449--70911505 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
70911439 TTGGGAATTT
**
70911449 CCACACAGGCTGGATACATGCCTGTGTGAG
1 CCACACAGGCTGGATACATGCCCATGTGAG
* *
70911479 CCACACGGGCTTGAT-CATGCCCATGTG
1 CCACACAGGCTGGATACATGCCCATGTG
70911506 CCAACCCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (30 bp):
CCACACAGGCTGGATACATGCCCATGTGAG
Found at i:70927090 original size:47 final size:47
Alignment explanation
Indices: 70927032--70927200 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
70927022 ACATTGGCAC
* * *
70927032 TAAGACAAGGATATCATGTAAGACCATATTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
70927079 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
*
70927126 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
** *
70927173 TAAGATGAGGATAACATGTAAAACCATG
1 TAAGACAAGGATACCATGTAAAACCATG
70927201 CCAAGGCATG
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 114 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
Found at i:70927253 original size:54 final size:55
Alignment explanation
Indices: 70927187--70927375 Score: 192
Period size: 55 Copynumber: 3.5 Consensus size: 55
70927177 ATGAGGATAA
* * * *
70927187 CATGTAAAACCATGCCAAGGCATGGCATTGAT-AGGTT-CTTTAAGG-CAAGGAAAT
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGA-GTTACTATAAGGAAAAGG-AAC
* * **
70927241 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTACTATAAGGAAAAGGAAC
* *
70927296 CATGTAAGACCATGCCAAGGCATGGCATTGGTGA-TTTC-ATAAGG-AAAGGATAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTACTATAAGGAAAAGGA-AC
* * *
70927349 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGGCATGGCA
70927376 ATGGTAAGTT
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
52 5 0.04
53 31 0.27
54 35 0.31
55 39 0.34
56 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTACTATAAGGAAAAGGAAC
Found at i:70927308 original size:55 final size:53
Alignment explanation
Indices: 70927180--70927375 Score: 198
Period size: 54 Copynumber: 3.6 Consensus size: 53
70927170 TGGTAAGATG
* * * * * * *
70927180 AGGATAACATGTAAAACCATGCCAAGGCATGGCATTGATAGGTT-CTTTAAGGCA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCATTGAT-GATTAC-ATAAGGAA
* *
70927234 AGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGA-TTAC-ATAAGG-AA
* * * * *
70927290 AGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGATTTCATAAGGAA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGATTACATAAGGAA
*
70927342 AGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AGGATACCATGTAAGACCATGTCAAGACATGGCA
70927376 ATGGTAAGTT
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
52 5 0.04
53 33 0.28
54 39 0.33
55 38 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGATTACATAAGGAA
Found at i:70927399 original size:108 final size:109
Alignment explanation
Indices: 70927187--70927397 Score: 275
Period size: 108 Copynumber: 2.0 Consensus size: 109
70927177 ATGAGGATAA
* * * *
70927187 CATGTAAAACCATGCCAAGGCATGGCATTGATAGGTTCTTTAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAAACCATGCCAAGGCATGGCATTGATAGGTTCTATAAGGAAAGGAAACCACGTAAGACC
* * * *
70927252 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
* * * *
70927296 CATGTAAGACCATGCCAAGGCATGGCATTGGT-GATT-TCATAAGGAAAGGATACCACGTAAGAC
1 CATGTAAAACCATGCCAAGGCATGGCATTGATAGGTTCT-ATAAGGAAAGGAAACCACGTAAGAC
*
70927359 CATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGAAAA
65 CATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAA
70927398 AGTTCCCTAG
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 11 0.12
108 47 0.53
109 30 0.34
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (109 bp):
CATGTAAAACCATGCCAAGGCATGGCATTGATAGGTTCTATAAGGAAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:70938081 original size:20 final size:20
Alignment explanation
Indices: 70938058--70938114 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
70938048 ACATGGTTGA
70938058 TATGATATGCACATG-TCATG
1 TATGATATGCACATGATC-TG
70938078 TATGATATGCACATGATCTG
1 TATGATATGCACATGATCTG
*
70938098 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
70938115 GTATTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 33 0.94
21 2 0.06
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATCTG
Found at i:70938208 original size:25 final size:24
Alignment explanation
Indices: 70938164--70938241 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
70938154 GAGGAAGTGC
70938164 AAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTT-TGCCCCAGTTTATT
* *
70938189 GAAAATGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATT
70938214 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATT
70938237 AAAAG
1 AAAAG
70938242 AGACTCGGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
23 9 0.19
24 17 0.35
25 13 0.27
26 9 0.19
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATT
Found at i:70938257 original size:49 final size:50
Alignment explanation
Indices: 70938163--70938258 Score: 119
Period size: 49 Copynumber: 1.9 Consensus size: 50
70938153 GGAGGAAGTG
**
70938163 CAAAAGGGCTTATGCCCCAGTTTATTGAAAATGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAATGGCTCGGCCCCAGTTTAT
70938213 CAAAAGGGCTT-TGCCCCAG-TTATT-AAAA-GAGACTCGGCCTCCAGTT
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAATG-G-CTCGGCC-CCAGTT
70938259 ACCTGATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
46 1 0.02
47 5 0.12
48 10 0.24
49 14 0.34
50 11 0.27
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (50 bp):
CAAAAGGGCTTATGCCCCAGTTTATTGAAAATGGCTCGGCCCCAGTTTAT
Found at i:70938875 original size:18 final size:18
Alignment explanation
Indices: 70938852--70938886 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70938842 ACTTAGGACG
*
70938852 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
70938870 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
70938887 AACATTACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:70945912 original size:25 final size:25
Alignment explanation
Indices: 70945884--70945931 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
70945874 TTATAATATG
* * *
70945884 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
70945909 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
70945932 GTTTACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:70946033 original size:20 final size:20
Alignment explanation
Indices: 70945977--70946033 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
70945967 ACATGGTTGA
*
70945977 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
70945997 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
70946017 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
70946034 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:70946180 original size:25 final size:26
Alignment explanation
Indices: 70946083--70946217 Score: 208
Period size: 26 Copynumber: 5.3 Consensus size: 26
70946073 GAGGAAGTGC
*
70946083 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
70946109 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
70946135 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
70946161 AAAAGGGCTT-TGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
70946185 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
70946208 AAAAGAGGCT
1 AAAAG-GGCT
70946218 CGGCCTCTAG
Statistics
Matches: 105, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
23 8 0.08
24 24 0.23
25 12 0.11
26 61 0.58
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:70946846 original size:18 final size:18
Alignment explanation
Indices: 70946823--70946857 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70946813 ACTTAGGACA
*
70946823 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
70946841 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
70946858 AGCGTTACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:70950555 original size:19 final size:19
Alignment explanation
Indices: 70950531--70950568 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
70950521 TAATCTGGCA
*
70950531 AAATCTTGTCACGCTATCT
1 AAATCTTGTCACCCTATCT
70950550 AAATCTTGTCACCCTATCT
1 AAATCTTGTCACCCTATCT
70950569 CTAGGCGCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.37
Consensus pattern (19 bp):
AAATCTTGTCACCCTATCT
Found at i:70953028 original size:39 final size:40
Alignment explanation
Indices: 70952832--70953095 Score: 295
Period size: 40 Copynumber: 6.7 Consensus size: 40
70952822 GCTCCTCGTT
* * * * *
70952832 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
70952872 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
70952911 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
70952951 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
70952991 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
70953030 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
70953071 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
70953096 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 65 0.33
40 120 0.61
41 11 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:70953036 original size:119 final size:119
Alignment explanation
Indices: 70952834--70953095 Score: 298
Period size: 119 Copynumber: 2.2 Consensus size: 119
70952824 TCCTCGTTCA
* * * * *
70952834 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGACT
* * *
70952899 TAATAACTCACACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCACACAAATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* *
70952952 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGG-CTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AAGGCCTTCGGGACTTAACCCGG-
* * * ** * *
70953016 ACTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCAC
63 ACTTAATAACTCACACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
70953072 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
70953096 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
118 3 0.03
119 98 0.82
120 19 0.16
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGACT
TAATAACTCACACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:70953079 original size:79 final size:81
Alignment explanation
Indices: 70952832--70953095 Score: 256
Period size: 79 Copynumber: 3.3 Consensus size: 81
70952822 GCTCCTCGTT
* * * ** * *
70952832 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCG
1 CAAAGGCCTTCGGGACTTAACCCGGAACTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
70952895 GATTTAATAACTCA-CA
66 GATATAATAACT-AGCA
* * * *
70952911 CGAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CAAAGGCCTTCGGGACTTAACCCGGAACTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
70952975 GATTTAATAACTCGCA
66 GATATAATAACTAGCA
* * **
70952991 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAAGGCCTTCGGGACTTAACCCGGAACTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
70953053 GGATATAGTCACTTAGCA
65 GGATATAATAAC-TAGCA
*
70953071 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
70953096 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
78 3 0.02
79 87 0.55
80 69 0.43
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (81 bp):
CAAAGGCCTTCGGGACTTAACCCGGAACTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAATAACTAGCA
Found at i:70964612 original size:40 final size:40
Alignment explanation
Indices: 70964412--70964612 Score: 298
Period size: 40 Copynumber: 5.0 Consensus size: 40
70964402 TATTTAACCA
* * *
70964412 GATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCG
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
70964452 AATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
70964492 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
70964532 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
70964572 GA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCG
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
70964612 G
1 G
70964613 TTATCATCCA
Statistics
Matches: 150, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 148 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:70968734 original size:43 final size:42
Alignment explanation
Indices: 70968687--70968819 Score: 108
Period size: 43 Copynumber: 3.1 Consensus size: 42
70968677 GGACGTGGTT
*
70968687 TTACATGTAATTTAATATCGATGCCTCTGTCCCAGACAGGGTC
1 TTACATG-AATTTAATATCGATGCCTATGTCCCAGACAGGGTC
* * * * *
70968730 TTACACGAAATTAGATA-CGATGCCGATGTCCCAGACATGGTTT
1 TTACATGAATTTA-ATATCGATGCCTATGTCCCAGACA-GGGTC
* * * * * *
70968773 TATACATAAATCTCA-ATCGAGGCCTGTGTCCCAGACACGGTC
1 T-TACATGAATTTAATATCGATGCCTATGTCCCAGACAGGGTC
70968815 TTACA
1 TTACA
70968820 CGATGTCTCA
Statistics
Matches: 69, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
41 4 0.06
42 27 0.39
43 31 0.45
44 7 0.10
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
TTACATGAATTTAATATCGATGCCTATGTCCCAGACAGGGTC
Found at i:70968760 original size:42 final size:41
Alignment explanation
Indices: 70968703--70968822 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 41
70968693 GTAATTTAAT
* *
70968703 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAAT-T-A
1 ATCGATGCC-GTGTCCCAGACACGGTCTTACACGAAATCTCA
* * * *
70968743 GATACGATGCCGATGTCCCAGACATGGTTTTATACATAAATCTCA
1 -AT-CGATGCCG-TGTCCCAGACACGGTCTTACAC-GAAATCTCA
*
70968788 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 ATCGATGCC-GTGTCCCAGACACGGTCTTACACGA
70968823 TGTCTCAGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.03
42 27 0.43
43 29 0.46
44 4 0.06
45 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (41 bp):
ATCGATGCCGTGTCCCAGACACGGTCTTACACGAAATCTCA
Found at i:70975610 original size:30 final size:30
Alignment explanation
Indices: 70975576--70975636 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
70975566 CCCTTAACTC
70975576 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
70975606 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
70975636 A
1 A
70975637 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:70978604 original size:12 final size:11
Alignment explanation
Indices: 70978586--70978685 Score: 64
Period size: 10 Copynumber: 9.2 Consensus size: 11
70978576 AATATCACCA
70978586 ATCAATTTCAT
1 ATCAATTTCAT
70978597 ACTCAATTTCAT
1 A-TCAATTTCAT
*
70978609 ATCAA-ATCAT
1 ATCAATTTCAT
* * *
70978619 ACCAAATTGAT
1 ATCAATTTCAT
**
70978630 AT-AACTACCA-
1 ATCAA-TTTCAT
70978640 ATCAATTTCAT
1 ATCAATTTCAT
70978651 ACTCAATTTCAT
1 A-TCAATTTCAT
*
70978663 ATCAA-ATCAT
1 ATCAATTTCAT
* *
70978673 ACCAAATTCAT
1 ATCAATTTCAT
70978684 AT
1 AT
70978686 AACTAACTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
10 23 0.34
11 22 0.33
12 22 0.33
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.35
Consensus pattern (11 bp):
ATCAATTTCAT
Found at i:70978646 original size:54 final size:54
Alignment explanation
Indices: 70978582--70978690 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
70978572 TCACAATATC
*
70978582 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTGATATAACT
1 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
70978636 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
1 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
70978690 A
1 A
70978691 ACTTACCAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (54 bp):
ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
Found at i:70989862 original size:42 final size:42
Alignment explanation
Indices: 70989815--70989906 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
70989805 TGGCCCTTAG
* * ** **
70989815 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACAGGAAATACCAATAAATGTATGCAA
70989857 GCCCATTTCAATATCACAGGAAATACCAATAAATGTATGCAA
1 GCCCATTTCAATATCACAGGAAATACCAATAAATGTATGCAA
*
70989899 TCCCATTT
1 GCCCATTT
70989907 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACAGGAAATACCAATAAATGTATGCAA
Found at i:70990122 original size:26 final size:26
Alignment explanation
Indices: 70990051--70990173 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
70990041 CCTCTTTAAT
**
70990051 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
70990076 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
70990101 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
70990127 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
70990153 AACTAGGGTATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
70990174 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 33 0.37
26 56 0.63
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:70990166 original size:52 final size:51
Alignment explanation
Indices: 70990051--70990173 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
70990041 CCTCTTTAAT
*
70990051 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
*
70990101 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
*
70990153 AACTAGGGTATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
70990174 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 10 0.14
51 25 0.36
52 34 0.49
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (51 bp):
AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:70991066 original size:27 final size:27
Alignment explanation
Indices: 70990975--70991058 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
70990965 GGGCATATTC
* *
70990975 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
70991002 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
70991029 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
70991056 GTC
1 GTC
70991059 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:70991150 original size:27 final size:27
Alignment explanation
Indices: 70991097--70991349 Score: 177
Period size: 27 Copynumber: 9.3 Consensus size: 27
70991087 TTTCATCCTA
* * * *
70991097 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
70991124 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * *
70991151 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* * *
70991180 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * * *
70991207 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
70991234 TAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
70991261 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
70991288 TAGGGGTCTTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
70991315 CAAGGGTATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
70991342 CGAGGGTA
1 CAAGGGTA
70991350 AAACAATAAT
Statistics
Matches: 177, Mismatches: 43, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
26 3 0.02
27 147 0.83
28 14 0.08
29 13 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:70991320 original size:81 final size:81
Alignment explanation
Indices: 70991097--70991334 Score: 221
Period size: 81 Copynumber: 2.9 Consensus size: 81
70991087 TTTCATCCTA
* * * * * *
70991097 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
* *
70991162 CCA-TAATTTTTAGAAAG
66 -CAGTAA-TTTCACAAAG
* ** * ** **
70991179 TCAAGGGTATTTCT-GTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTAT
1 -CAAGGGTATTT-TGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTAT
*
70991243 TTCGGTAATTTCACAAA-
64 TTCAGTAATTTCACAAAG
* * *
70991260 CCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTCTTTTGGTAATTTTGTAAACCAAGGGTATT
1 CAAG-GGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
*
70991325 TTAGTAATTT
65 TCAGTAATTT
70991335 TATAAATCGA
Statistics
Matches: 122, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
80 4 0.03
81 57 0.47
82 8 0.07
83 52 0.43
84 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
CAGTAATTTCACAAAG
Found at i:70991359 original size:27 final size:27
Alignment explanation
Indices: 70991327--70991457 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
70991317 AGGGTATTTT
*
70991327 AGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * * * *
70991354 AATAATTTTGTAGATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
70991381 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
70991408 ATTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
70991435 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
70991458 CTTTGGTAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:70991360 original size:54 final size:54
Alignment explanation
Indices: 70991302--70991457 Score: 213
Period size: 54 Copynumber: 2.9 Consensus size: 54
70991292 GGTCTTTTGG
* **** *
70991302 TAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAA
1 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAA
* *
70991356 TAATTTTGTAGATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAT
1 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAA
* * *
70991410 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
70991458 CTTTGGTAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.31
Consensus pattern (54 bp):
TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAA
Found at i:70994555 original size:16 final size:16
Alignment explanation
Indices: 70994534--70994564 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
70994524 ATGTAACGCT
70994534 CCAAAAATCTCGAAAC
1 CCAAAAATCTCGAAAC
70994550 CCAAAAATCTCGAAA
1 CCAAAAATCTCGAAA
70994565 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.29, G:0.06, T:0.13
Consensus pattern (16 bp):
CCAAAAATCTCGAAAC
Found at i:70996101 original size:29 final size:29
Alignment explanation
Indices: 70996059--70996170 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 29
70996049 ATAATATGAT
*
70996059 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
70996088 TTGGGCCTAGTGGGCCATAAGAATAT-ATA
1 TTGGGCCTAGTGGGCCATATGAATGTGA-A
* * *
70996117 CTGGGCC-AGATGGGCTATATGAATTTG-A
1 TTGGGCCTAG-TGGGCCATATGAATGTGAA
* *
70996145 TTGGGCATAGTGGGCCATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
70996171 ATGTAGGGGT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
28 22 0.33
29 45 0.67
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:71000608 original size:29 final size:29
Alignment explanation
Indices: 71000566--71000677 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
71000556 ATAATATGAT
*
71000566 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
71000595 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
71000624 CTGGGCC-AGATGGGCCATATGAATGAG-A
1 TTGGGCCTAG-TGGGCCATATGAATGTGAA
* *
71000652 TTGGGCCTAGTGGGTCATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
71000678 ATATAGGGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
28 22 0.31
29 48 0.69
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:71000648 original size:58 final size:57
Alignment explanation
Indices: 71000558--71000670 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 57
71000548 GCATGAGTAT
** *
71000558 AATATGATTTGGGCCTAATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCTAATGGGCCATATGAATGAG-ATTGGGCCTAGTGGGCCATAAG
*
71000616 AATATGAACTGGGCC-AGATGGGCCATATGAATGAGATTGGGCCTAGTGGGTCATA
1 AATATGAACTGGGCCTA-ATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
71000671 TGCATGTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 20 0.40
58 30 0.60
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATAAG
Found at i:71003328 original size:19 final size:17
Alignment explanation
Indices: 71003304--71003348 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
71003294 CAGGCCGCGA
*
71003304 TGGGCCGAAAGGGACCATG
1 TGGGCCCAAAGGG-CC-TG
*
71003323 TGGGCCCAATGGGCCTG
1 TGGGCCCAAAGGGCCTG
71003340 TGGGCCCAA
1 TGGGCCCAA
71003349 TTGGATAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 2 0.08
19 11 0.46
ACGTcount: A:0.20, C:0.27, G:0.40, T:0.13
Consensus pattern (17 bp):
TGGGCCCAAAGGGCCTG
Found at i:71003572 original size:27 final size:27
Alignment explanation
Indices: 71003542--71003779 Score: 149
Period size: 27 Copynumber: 8.9 Consensus size: 27
71003532 AATGTCCTGA
* *
71003542 ATTTGTAAAATTACCAAAGTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* * *** *
71003569 ATTTACAGAATTACCGTTTTACCCTTG
1 ATTTATAAAATTACCAAATTACCCTCG
* ***
71003596 ATTTACAAAATTACCGTTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* ** *
71003623 ATTTATAGAATTACCATTTTACCCTCA
1 ATTTATAAAATTACCAAATTACCCTCG
* * ** *
71003650 ATTTACAGAATTACCATTTTACTCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* ***
71003677 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* * *
71003704 ATTTA-AAAATTACTAAAATACCCT-T
1 ATTTATAAAATTACCAAATTACCCTCG
* * *
71003729 AGTTTACAAAATTACCAAAATACCC-CT
1 A-TTTATAAAATTACCAAATTACCCTCG
*
71003756 AGTTTATAAAATTACCAAAATACC
1 A-TTTATAAAATTACCAAATTACC
71003780 AATGGTTTGT
Statistics
Matches: 179, Mismatches: 29, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
25 1 0.01
26 17 0.09
27 161 0.90
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (27 bp):
ATTTATAAAATTACCAAATTACCCTCG
Found at i:71003606 original size:54 final size:54
Alignment explanation
Indices: 71003548--71003744 Score: 218
Period size: 54 Copynumber: 3.7 Consensus size: 54
71003538 CTGAATTTGT
* *
71003548 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
*** * * *
71003602 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
* ** * *
71003656 AGAATTACCATTTTACTCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA-
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
* * * *
71003709 AAAATTACTAAAATACCCT-TAGTTTACAAAATTACC
1 AAAATTACCAAATTACCCTCGA-TTTACAGAATTACC
71003745 AAAATACCCC
Statistics
Matches: 120, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
52 1 0.01
53 25 0.21
54 94 0.78
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
Found at i:71003654 original size:81 final size:80
Alignment explanation
Indices: 71003561--71003716 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 80
71003551 ATTACCAAAG
* * *
71003561 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
*
71003626 TATAGAATTACCATTT
66 TA-AAAATTACCATTT
* * *
71003642 TACCCTCAATTTACAGAATTACCATTTTACTCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
71003707 TAAAAATTAC
66 TAAAAATTAC
71003717 TAAAATACCC
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
80 7 0.10
81 61 0.90
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (80 bp):
TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TAAAAATTACCATTT
Found at i:71003762 original size:80 final size:81
Alignment explanation
Indices: 71003542--71003771 Score: 221
Period size: 81 Copynumber: 2.9 Consensus size: 81
71003532 AATGTCCTGA
* * * * **** * *
71003542 ATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAAT
1 ATTTATAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTAGATTTATAAAAT
71003607 TACCGTTTTACCCTCG
66 TACCGTTTTACCCTCG
* *** * *** * * *
71003623 ATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACTCTCGATTTATAGAAT
1 ATTTATAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTAGATTTATAAAAT
71003688 TACCGTTTTACCCTCG
66 TACCGTTTTACCCTCG
* * *
71003704 ATTTA-AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAG-TTTATAAAA
1 ATTTATAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATA-CCCTAGATTTATAAAA
71003767 TTACC
65 TTACC
71003772 AAAATACCAA
Statistics
Matches: 123, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
80 44 0.36
81 79 0.64
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.37
Consensus pattern (81 bp):
ATTTATAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTAGATTTATAAAAT
TACCGTTTTACCCTCG
Found at i:71003776 original size:54 final size:54
Alignment explanation
Indices: 71003705--71003947 Score: 186
Period size: 54 Copynumber: 4.5 Consensus size: 54
71003695 TTACCCTCGA
* * *
71003705 TTTA-AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAG
** **** * * *
71003758 TTTATAAAATTACCAAAATACCAATGGTTTGTGGAATTACCGAAAGACCCTTAA
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAG
* * * * *
71003812 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGAAATACCTTTGAC
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAATACCCTT-AG
* * * ** *
71003867 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGG
1 TTTAT-AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAG
* * * *
71003922 TTTGTAGATTTACCAAAACACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
71003948 TAGGATGAAA
Statistics
Matches: 143, Mismatches: 40, Indels: 13
0.73 0.20 0.07
Matches are distributed among these distances:
53 5 0.03
54 90 0.63
55 11 0.08
56 37 0.26
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAG
Found at i:71003912 original size:27 final size:27
Alignment explanation
Indices: 71003696--71003947 Score: 143
Period size: 27 Copynumber: 9.3 Consensus size: 27
71003686 ATTACCGTTT
* * *
71003696 TACCCTCGATTTA-AAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
71003722 TACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
71003749 TACCCCTAGTTTATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** **** *
71003776 TACCAATGGTTTGTGGAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** **
71003803 GACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
71003830 TACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* * *
71003857 TACCTTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
71003886 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** * *
71003913 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
71003940 CACCCTTG
1 TACCCTTG
71003948 TAGGATGAAA
Statistics
Matches: 178, Mismatches: 41, Indels: 13
0.77 0.18 0.06
Matches are distributed among these distances:
26 12 0.07
27 139 0.78
28 7 0.04
29 20 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:71004774 original size:20 final size:20
Alignment explanation
Indices: 71004749--71004835 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
71004739 GATATGATAT
*
71004749 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
* *
71004769 ACATGATATCTATAAAATGC
1 ACATGATATGTATGAAATGC
71004789 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
71004809 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
71004829 ACATGAT
1 ACATGAT
71004836 GTATTCATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 60 0.98
21 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:71004983 original size:25 final size:26
Alignment explanation
Indices: 71004885--71005021 Score: 183
Period size: 26 Copynumber: 5.3 Consensus size: 26
71004875 GAGGAAGTGC
71004885 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
71004911 AAAAGGGCTTATGCCCCCAGTTTACTG
1 AAAAGGGCTTATG-CCCCAGTTTATTG
*
71004938 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
71004964 AAAAGGGATT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
71004989 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
71005012 AAAAGAGGCT
1 AAAAG-GGCT
71005022 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 29 0.29
26 33 0.33
27 25 0.25
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:71005307 original size:31 final size:31
Alignment explanation
Indices: 71005269--71005370 Score: 168
Period size: 31 Copynumber: 3.3 Consensus size: 31
71005259 CGTTTACAGT
* *
71005269 AAAGGCTTCAGCACAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
71005300 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
**
71005331 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
71005362 AAAGGCTTC
1 AAAGGCTTC
71005371 GGCCTAGTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:71010535 original size:22 final size:22
Alignment explanation
Indices: 71010510--71010568 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
71010500 CTCATTTATC
* *
71010510 TTTATTTATCTTTTTTAATTTT
1 TTTATTTATCTTTATTAATATT
* *
71010532 TTTATTTCTCTTTATTACTATT
1 TTTATTTATCTTTATTAATATT
*
71010554 TTTACTTCATCTTTA
1 TTTA-TTTATCTTTA
71010569 GGTTTTCCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 22 0.73
23 8 0.27
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATTTATCTTTATTAATATT
Found at i:71012053 original size:9 final size:9
Alignment explanation
Indices: 71012039--71012063 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
71012029 CTTAAACACC
71012039 TGAGTGATT
1 TGAGTGATT
71012048 TGAGTGATT
1 TGAGTGATT
71012057 TGAGTGA
1 TGAGTGA
71012064 ATCTTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (9 bp):
TGAGTGATT
Found at i:71020398 original size:27 final size:27
Alignment explanation
Indices: 71020368--71020679 Score: 376
Period size: 27 Copynumber: 11.6 Consensus size: 27
71020358 TTAGTTTACC
71020368 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
71020395 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
71020422 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * **
71020449 AAATTACC--AATACCTTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
71020474 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * **
71020501 AAATTACTAAAATACCCTTTGTTCATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
71020528 AAATTACCAAAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
71020555 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
71020582 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
71020609 AATTTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
71020636 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
71020663 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
71020680 TCGACCTGTA
Statistics
Matches: 245, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
25 21 0.09
27 224 0.91
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:71020748 original size:27 final size:27
Alignment explanation
Indices: 71020368--71020749 Score: 319
Period size: 27 Copynumber: 14.2 Consensus size: 27
71020358 TTAGTTTACC
* *
71020368 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * * *
71020395 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
71020422 AAATCACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* **
71020449 AAATTACC--AATA-CCTTTAGTTTACA
1 AAATTACCAAAATACCCTTGA-TTTGTA
*
71020474 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCT-TGATTTGTA
* **
71020501 AAATTACTAAAATACCCTTTG-TTCATA
1 AAATTACCAAAATACCC-TTGATTTGTA
*
71020528 AAATTACCAAAATACTCC-TGGTTTGTA
1 AAATTACCAAAATAC-CCTTGATTTGTA
* *
71020555 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
71020582 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
71020609 AATTTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
71020636 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
* * **
71020663 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*** * *
71020690 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
71020717 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
*
71020744 GAATTA
1 AAATTA
71020750 TCGTTTTACC
Statistics
Matches: 298, Mismatches: 47, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
24 3 0.01
25 18 0.06
26 4 0.01
27 265 0.89
28 7 0.02
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:71020805 original size:27 final size:27
Alignment explanation
Indices: 71020772--71021073 Score: 383
Period size: 27 Copynumber: 11.3 Consensus size: 27
71020762 CAATTTATAA
* *
71020772 AATTACCGAAATACCCTTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
71020799 AAATACCGAAATACTCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
71020826 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
71020853 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
71020880 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
71020907 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
71020934 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
71020961 AATTATCGCAATA-CCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
71020987 AATTACCGAAATACCCCTGTAGGGTTG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
71021014 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
71021041 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
71021067 AATTACC
1 AATTACC
71021074 ATTTTGCCCC
Statistics
Matches: 238, Mismatches: 36, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
26 39 0.16
27 199 0.84
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:71021552 original size:22 final size:22
Alignment explanation
Indices: 71021500--71021564 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
71021490 TTAAAGCCTT
* *
71021500 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
71021522 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
71021544 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
71021565 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:71021811 original size:27 final size:27
Alignment explanation
Indices: 71021723--71021818 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
71021713 ATTCTGTTAA
* *
71021723 GTGGCTTTGCCACATTATATAT-TTCTG
1 GTGGCTCTGCCACA-AATATATGTTCTG
* *
71021750 GTGGCTTTGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAAATATATGTTCTG
*
71021777 GTGGCTCTGCTAC-AATATATGTATCTG
1 GTGGCTCTGCCACAAATATATGT-TCTG
* *
71021804 GTGACTCTGTCACAA
1 GTGGCTCTGCCACAA
71021819 TGTCTGATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.22
27 44 0.76
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATATGTTCTG
Found at i:71022002 original size:32 final size:32
Alignment explanation
Indices: 71021961--71022033 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
71021951 TTGCATTCAC
* * *
71021961 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGATTTTTGATTCTGTCACCTAATACTG
*
71021993 ATTCTGATTTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTTGATTCTGTCACCTAATACTG
71022025 ATTCTGATT
1 ATTCTGATT
71022034 CTAATTCTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.52
Consensus pattern (32 bp):
ATTCTGATTTTTGATTCTGTCACCTAATACTG
Found at i:71022039 original size:18 final size:18
Alignment explanation
Indices: 71022016--71022050 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
71022006 ATTCTGTCAC
71022016 CTAATTCT-GATTCTGATT
1 CTAATTCTAG-TTCTGATT
71022034 CTAATTCTAGTTCTGAT
1 CTAATTCTAGTTCTGAT
71022051 AATATTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (18 bp):
CTAATTCTAGTTCTGATT
Found at i:71027758 original size:20 final size:22
Alignment explanation
Indices: 71027719--71027758 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
71027709 AATGTTGCGC
*
71027719 GATTATATATAATTTAAAAATA
1 GATTATATATAATCTAAAAATA
71027741 GATT-TATA-AATCTAAAAA
1 GATTATATATAATCTAAAAA
71027759 GTATAGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (22 bp):
GATTATATATAATCTAAAAATA
Found at i:71035301 original size:16 final size:18
Alignment explanation
Indices: 71035280--71035312 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
71035270 CATACTAGCT
71035280 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
71035296 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
71035313 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:71041928 original size:15 final size:16
Alignment explanation
Indices: 71041899--71041928 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71041889 CAAACATGCT
71041899 TTAACACATTATCAAA
1 TTAACACATTATCAAA
71041915 TTAACACA-TATCAA
1 TTAACACATTATCAA
71041929 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:71044417 original size:42 final size:42
Alignment explanation
Indices: 71044266--71044419 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
71044256 TACTATACCA
* * **
71044266 ATGCCATATCCCATATATGGTCTTATATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * * *
71044308 ATGCAAATAGCCCAGCTATGGTCTTGCACGAAATCTCATATCG
1 ATGC-CATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* **
71044351 ATGCCATATCTCAGATATCATCTTACATGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAT-ATCG
* *
71044393 AAGCCATATCCCAAATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
71044420 CATACTCTCG
Statistics
Matches: 88, Mismatches: 22, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 53 0.60
43 35 0.40
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:71044756 original size:72 final size:72
Alignment explanation
Indices: 71044638--71044781 Score: 236
Period size: 72 Copynumber: 2.0 Consensus size: 72
71044628 AATCATCAAA
* *
71044638 TACTTTGTTTTTCTCCTGATCTAGGTCTAAACCTTGTTTCTATTGAGCTATAATAGCAAA-TATA
1 TACTTTGTTTTTCCCCTGATCTAGGTCTAAACCTCGTTTCTATTGAGCTATAATAG-AAATTATA
71044702 ACTCATTT
65 ACTCATTT
* *
71044710 TACTTTGTTTTTCCCCTGATCTAGGTCTAAACCTCGTTTCTCTTGAGCTATAATAGAAATTTTAA
1 TACTTTGTTTTTCCCCTGATCTAGGTCTAAACCTCGTTTCTATTGAGCTATAATAGAAATTATAA
71044775 CTCATTT
66 CTCATTT
71044782 ATTAATCACA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 3 0.04
72 64 0.96
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (72 bp):
TACTTTGTTTTTCCCCTGATCTAGGTCTAAACCTCGTTTCTATTGAGCTATAATAGAAATTATAA
CTCATTT
Found at i:71045915 original size:25 final size:25
Alignment explanation
Indices: 71045868--71045952 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 25
71045858 ACGAGCTATA
*
71045868 AATC-GTAAGCTTATATGAGCTGAG
1 AATCGGTAAGCTTATAAGAGCTGAG
* *
71045892 AATCGGTAAGCTTTTAAGACCTGA-
1 AATCGGTAAGCTTATAAGAGCTGAG
* *
71045916 AATCGCTAAGCTTATACGAGCTGAG
1 AATCGGTAAGCTTATAAGAGCTGAG
*
71045941 ATTCGGTAAGCT
1 AATCGGTAAGCT
71045953 CTCACGATCT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
24 24 0.48
25 26 0.52
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (25 bp):
AATCGGTAAGCTTATAAGAGCTGAG
Found at i:71045965 original size:49 final size:48
Alignment explanation
Indices: 71045842--71045968 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 48
71045832 TATGAGCTAT
* * * *
71045842 GAATCGGTATGCTCTCACGAGCTATAAATCGTAAGCTTATATGAGCTGA
1 GAATCGGTAAGCTCTCACGACCT-GAAATCGTAAGCTTATACGAGCTGA
* * *
71045891 GAATCGGTAAGCTTTTAAGACCTGAAATCGCTAAGCTTATACGAGCTGA
1 GAATCGGTAAGCTCTCACGACCTGAAATCG-TAAGCTTATACGAGCTGA
* *
71045940 GATTCGGTAAGCTCTCACGATCTGAAATC
1 GAATCGGTAAGCTCTCACGACCTGAAATC
71045969 AGTTATCCCT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 6 0.09
49 59 0.91
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (48 bp):
GAATCGGTAAGCTCTCACGACCTGAAATCGTAAGCTTATACGAGCTGA
Found at i:71047764 original size:77 final size:78
Alignment explanation
Indices: 71047505--71047777 Score: 374
Period size: 78 Copynumber: 3.5 Consensus size: 78
71047495 TAATAAATCC
* *
71047505 GTTGAACGGTCG-GAATCAATCCTGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAAACAAA
1 GTTGAACGGT-GAGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTTGAAATAAAA-AAA
71047569 ATTTGGAAT-AAATT
64 ATTTGGAATAAAATT
* * ** *
71047583 CGTTGAACAGTGGGAATCAATCCCGAAATGGATTTTATTTTACT-TTTTTTTGAAATAAAAAAAA
1 -GTTGAACGGTGAGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTTGAAAT-AAAAAAA
*
71047647 ATTTGGAATAAAATA
64 ATTTGGAATAAAATT
* **
71047662 ATTGAACGACGAGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTTGAAAT-AAAAAAAT
1 GTTGAACGGTGAGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTTGAAATAAAAAAAAT
71047726 TTGGAATAAAATT
66 TTGGAATAAAATT
*
71047739 GTTGAATGGTGAGAATCAATCCCGAAACAGATTTTATTT
1 GTTGAACGGTGAGAATCAATCCCGAAACAGATTTTATTT
71047778 ACCTTTAATT
Statistics
Matches: 170, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
77 55 0.32
78 59 0.35
79 56 0.33
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (78 bp):
GTTGAACGGTGAGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTTGAAATAAAAAAAAT
TTGGAATAAAATT
Found at i:71050064 original size:16 final size:18
Alignment explanation
Indices: 71050043--71050075 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
71050033 CATACTAGCT
71050043 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
71050059 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
71050076 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:71050711 original size:45 final size:45
Alignment explanation
Indices: 71050605--71050821 Score: 325
Period size: 45 Copynumber: 4.9 Consensus size: 45
71050595 CCGAGTTTAT
* * * *
71050605 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCTCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* *
71050647 TCACAGGCATTATATCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
71050692 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
71050737 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
71050782 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
71050822 ATACTGCGCG
Statistics
Matches: 162, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
42 10 0.06
43 15 0.09
44 4 0.02
45 132 0.81
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:71056966 original size:16 final size:18
Alignment explanation
Indices: 71056945--71056977 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
71056935 CATACTAGGT
71056945 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
71056961 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
71056978 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:71064865 original size:16 final size:18
Alignment explanation
Indices: 71064844--71064876 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
71064834 CATACTAGGT
71064844 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
71064860 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
71064877 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:71078230 original size:100 final size:100
Alignment explanation
Indices: 71078048--71078237 Score: 294
Period size: 100 Copynumber: 1.9 Consensus size: 100
71078038 TCTAGTTCGC
*
71078048 AAGGTTGCAGAAGGATTAAACCATGGAAGCAATTTCCGGGGCTATTTGTTTGATAAGGCTTCATT
1 AAGGTTGCAGAAGGATTAAACCATGGAAGCAATTTCCGGGGCTATTTGTTTGATAAGGCTTAATT
* *
71078113 GTCATGTGTTTCCTGTGGTTAATTTACGATTAAGG
66 GTCAGGTGGTTCCTGTGGTTAATTTACGATTAAGG
*
71078148 AAGGTT-CTAGAAGGATTAAACCATGGAAGCAAATTT-TGGGGCTATTTGTTTGATAAGGCTTAA
1 AAGGTTGC-AGAAGGATTAAACCATGGAAGC-AATTTCCGGGGCTATTTGTTTGATAAGGCTTAA
* *
71078211 TTGTTAGGTGGTTCTTGTGGTTAATTT
64 TTGTCAGGTGGTTCCTGTGGTTAATTT
71078238 TGATTAAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 1 0.01
100 76 0.93
101 5 0.06
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (100 bp):
AAGGTTGCAGAAGGATTAAACCATGGAAGCAATTTCCGGGGCTATTTGTTTGATAAGGCTTAATT
GTCAGGTGGTTCCTGTGGTTAATTTACGATTAAGG
Found at i:71083479 original size:93 final size:93
Alignment explanation
Indices: 71083350--71083521 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
71083340 CGCCCATAAG
*
71083350 CGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71083415 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
** *
71083443 CGAACTCGGACTCAACTCAATGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
71083507 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
71083522 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:71083516 original size:46 final size:46
Alignment explanation
Indices: 71083343--71083518 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
71083333 TGTAACCCGC
* * *
71083343 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
71083389 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
71083439 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
71083482 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
71083519 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:71083537 original size:46 final size:44
Alignment explanation
Indices: 71083394--71083537 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
71083384 CGCATCCATA
71083394 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
71083441 CA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
71083487 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
71083533 AGTGA
1 AGTGA
71083538 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.41
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:71083599 original size:17 final size:17
Alignment explanation
Indices: 71083573--71083608 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
71083563 CCTAAGGTTC
71083573 AAACGAGATTTTTCTCG
1 AAACGAGATTTTTCTCG
*
71083590 AAACGGGATTTTTCTCG
1 AAACGAGATTTTTCTCG
71083607 AA
1 AA
71083609 CACTTATCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (17 bp):
AAACGAGATTTTTCTCG
Found at i:71083987 original size:29 final size:29
Alignment explanation
Indices: 71083955--71084010 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
71083945 ATTTAATACG
71083955 AACTTTGGAAAAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
* * *
71083984 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
71084011 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:71110488 original size:25 final size:25
Alignment explanation
Indices: 71110455--71110505 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
71110445 ATATGAATCC
71110455 AAACATGGATATACCAAAATATGAA
1 AAACATGGATATACCAAAATATGAA
71110480 AAACATGGATATACCAAAATATGAA
1 AAACATGGATATACCAAAATATGAA
71110505 A
1 A
71110506 TGGTGCGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.20
Consensus pattern (25 bp):
AAACATGGATATACCAAAATATGAA
Found at i:71112961 original size:23 final size:23
Alignment explanation
Indices: 71112932--71112977 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
71112922 TGTGGCATAC
71112932 CCCTAAAGCCACCTTAAACCTAA
1 CCCTAAAGCCACCTTAAACCTAA
*
71112955 CCCTAAAGCCACCTTGAACCTAA
1 CCCTAAAGCCACCTTAAACCTAA
71112978 GTATACTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.39, G:0.07, T:0.17
Consensus pattern (23 bp):
CCCTAAAGCCACCTTAAACCTAA
Found at i:71117373 original size:24 final size:24
Alignment explanation
Indices: 71117346--71117402 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
71117336 AATCCTAATT
*
71117346 CTAATCAATGCAAAATATATTATG
1 CTAATAAATGCAAAATATATTATG
* *
71117370 CTAATAAATGCTAAATATATTATA
1 CTAATAAATGCAAAATATATTATG
*
71117394 CTACTAAAT
1 CTAATAAAT
71117403 CTTCTAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (24 bp):
CTAATAAATGCAAAATATATTATG
Found at i:71128604 original size:51 final size:51
Alignment explanation
Indices: 71128545--71128649 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
71128535 GAAAGGAAAG
*
71128545 TATGTGATGTTTATGCATGATAGACGTTAGTATGTGTAATTGTTGTATTGA
1 TATGTGATGTTTATGCATGATAGACGTTAATATGTGTAATTGTTGTATTGA
71128596 TATGTGATGTTTATGCATGATAGACGTTAATATGTGTAATTGTTGTATTGA
1 TATGTGATGTTTATGCATGATAGACGTTAATATGTGTAATTGTTGTATTGA
71128647 TAT
1 TAT
71128650 CTTGTTTGTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.46
Consensus pattern (51 bp):
TATGTGATGTTTATGCATGATAGACGTTAATATGTGTAATTGTTGTATTGA
Found at i:71130000 original size:31 final size:32
Alignment explanation
Indices: 71129953--71130023 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 32
71129943 ATGAGTTCTT
*
71129953 TGAT-GTTTGATGATGGATTATTAAAGCTTGG
1 TGATAGTTTGATGATGGATTATTAAAGCTTGA
71129984 TGATAGTTT-ATGATGGATTATTAAAGCTTGA
1 TGATAGTTTGATGATGGATTATTAAAGCTTGA
71130015 TGATAGTTT
1 TGATAGTTT
71130024 TACATGTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.44
Consensus pattern (32 bp):
TGATAGTTTGATGATGGATTATTAAAGCTTGA
Found at i:71130528 original size:11 final size:11
Alignment explanation
Indices: 71130496--71130530 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
71130486 TATGAACTTG
71130496 TTCGACCATGA
1 TTCGACCATGA
**
71130507 TTCGAAAATGA
1 TTCGACCATGA
71130518 TTCGACCATGA
1 TTCGACCATGA
71130529 TT
1 TT
71130531 TGGTATTGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (11 bp):
TTCGACCATGA
Found at i:71135739 original size:17 final size:17
Alignment explanation
Indices: 71135717--71135752 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
71135707 TATTGGTAGC
71135717 ATGGCATGAAATGAGAT
1 ATGGCATGAAATGAGAT
71135734 ATGGCATGAAATGAGAT
1 ATGGCATGAAATGAGAT
71135751 AT
1 AT
71135753 CTCAGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGGCATGAAATGAGAT
Found at i:71137615 original size:35 final size:35
Alignment explanation
Indices: 71137569--71137642 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
71137559 GAAAATATAT
71137569 TTTGTTTAACTTAACTTGCAAGCAATCTCTTAGAA
1 TTTGTTTAACTTAACTTGCAAGCAATCTCTTAGAA
* *
71137604 TTTGTTTAACTTGACTTGCAAGCAATTTCTTAGAA
1 TTTGTTTAACTTAACTTGCAAGCAATCTCTTAGAA
71137639 TTTG
1 TTTG
71137643 GGTCACAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (35 bp):
TTTGTTTAACTTAACTTGCAAGCAATCTCTTAGAA
Found at i:71148882 original size:44 final size:43
Alignment explanation
Indices: 71148741--71148897 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
71148731 AGCTCATACA
* ** *
71148741 ATGCCAATGTCCCAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAT-TCG
* * * * * * *
71148784 ATG-CATCTATCCCATATAGGGTCTTACACG-AAATCGAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAATTCG
*
71148826 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAATTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AATTCG
*
71148870 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
71148898 TGATAACACA
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
42 25 0.28
43 34 0.38
44 31 0.34
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATTCG
Found at i:71155472 original size:120 final size:121
Alignment explanation
Indices: 71155256--71155473 Score: 287
Period size: 120 Copynumber: 1.8 Consensus size: 121
71155246 TTTTTCTATC
* ** ** *
71155256 ATTTAATTTGCATTCTTAAGTTAGTTATCATACATTTTATGTTAAATCATGTTATTAGGAACACC
1 ATTTAATTTGCATTCCTAAGTTAGTTATCATACATTCCATGTTAAAT-ATGAGATTAGGAAAACC
*
71155321 TCATACCCATGACATTACTATGTTTATTCTCATGCTATTACTATGCCAATATATATA
65 TCATACCCATGACATTACTATGTTCATTCTCATGCTATTACTATGCCAATATATATA
* * * *
71155378 ATTTAATTTGCATTCCTAATTTAGTTATCATACGTTCCGTGTTATAT-TGAGATTAGGAAAACCT
1 ATTTAATTTGCATTCCTAAGTTAGTTATCATACATTCCATGTTAAATATGAGATTAGGAAAACCT
* *
71155442 CATACCCATTACATTTCTAT-TCTCATTCTCAT
66 CATACCCATGACATTACTATGT-TCATTCTCAT
71155474 TGTTATTGTG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
119 1 0.01
120 41 0.50
122 40 0.49
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (121 bp):
ATTTAATTTGCATTCCTAAGTTAGTTATCATACATTCCATGTTAAATATGAGATTAGGAAAACCT
CATACCCATGACATTACTATGTTCATTCTCATGCTATTACTATGCCAATATATATA
Found at i:71158035 original size:16 final size:16
Alignment explanation
Indices: 71158014--71158044 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71158004 TTCACTTGGT
71158014 AGTTTATCTCATAGCC
1 AGTTTATCTCATAGCC
*
71158030 AGTTTATCTCGTAGC
1 AGTTTATCTCATAGC
71158045 TCTCTTGTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (16 bp):
AGTTTATCTCATAGCC
Found at i:71158086 original size:44 final size:44
Alignment explanation
Indices: 71158023--71158106 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
71158013 TAGTTTATCT
71158023 CATAGCCAGTTTATCTCGTAGCTCTCTTGTAC-ACATGGTGAACA
1 CATAGCCAGTTTATCTCGTAGCTCTCTTGT-CTACATGGTGAACA
71158067 CATAGCCAGTTTATCTCGTAGCTCTCTTGTCTACATGGTG
1 CATAGCCAGTTTATCTCGTAGCTCTCTTGTCTACATGGTG
71158107 TCCTTCACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (44 bp):
CATAGCCAGTTTATCTCGTAGCTCTCTTGTCTACATGGTGAACA
Found at i:71167239 original size:15 final size:15
Alignment explanation
Indices: 71167215--71167250 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
71167205 TTTTTATAAG
71167215 AATAAAATAAAAGAA
1 AATAAAATAAAAGAA
*
71167230 AATAACATAAAAG-A
1 AATAAAATAAAAGAA
71167244 AATAAAA
1 AATAAAA
71167251 GTTCAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.14
Consensus pattern (15 bp):
AATAAAATAAAAGAA
Found at i:71169447 original size:26 final size:26
Alignment explanation
Indices: 71169412--71169462 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
71169402 AATGTGAAAG
*
71169412 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
71169438 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
71169463 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:71169474 original size:103 final size:103
Alignment explanation
Indices: 71169334--71169555 Score: 349
Period size: 103 Copynumber: 2.2 Consensus size: 103
71169324 TGTATATAAA
** * *
71169334 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
71169398 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
* * *
71169437 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCATCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
71169502 TGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
71169540 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
71169556 GATATCCATT
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
102 20 0.18
103 89 0.81
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:71169619 original size:26 final size:26
Alignment explanation
Indices: 71169584--71169635 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
71169574 GAAATAAAAG
* *
71169584 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
71169610 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
71169636 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:71169622 original size:69 final size:70
Alignment explanation
Indices: 71169475--71169623 Score: 230
Period size: 71 Copynumber: 2.1 Consensus size: 70
71169465 TCATTGGTGG
* *
71169475 TGCTAAGTGCGATATCCATCATATCTTTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCATCATATATTTGAAA-GTAAAAGGGGTTGCTATGTGCTGATTCCCCCG
71169540 AGGGGT
65 AGGGGT
**
71169546 TGCTAAGTGCGATATCCATTGTATATTTGAAA-TAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
1 TGCTAAGTGCGATATCCATCATATATTTGAAAGTAAAA-GGGGTTGCTATGTGCTGATTCCCCCG
71169609 AGGGGT
65 AGGGGT
71169615 TGCTAAGTG
1 TGCTAAGTG
71169624 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
69 24 0.33
70 20 0.27
71 29 0.40
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCATCATATATTTGAAAGTAAAAGGGGTTGCTATGTGCTGATTCCCCCGA
GGGGT
Found at i:71176989 original size:26 final size:26
Alignment explanation
Indices: 71176953--71177004 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
71176943 GAAATGTGAA
*
71176953 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
71176979 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
71177005 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:71177015 original size:101 final size:101
Alignment explanation
Indices: 71176878--71177095 Score: 343
Period size: 101 Copynumber: 2.2 Consensus size: 101
71176868 TTGTATATAA
** * *
71176878 AGGGGTTGCTGTGTGCTGATTCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
71176942 TGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCG
*
71176979 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATT-CCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
71177043 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCG
71177080 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
71177096 GATATCCATA
Statistics
Matches: 109, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
101 84 0.77
102 25 0.23
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCG
Found at i:71177149 original size:67 final size:69
Alignment explanation
Indices: 71176980--71177170 Score: 248
Period size: 67 Copynumber: 2.7 Consensus size: 69
71176970 GATTCCCCGA
*
71176980 GGGGTTGCTAAGTGCTGATTCCCCGTTCATTGGTGG-TGCTAAGTGCGATATCCACCATATCTTT
1 GGGGTTGCTATGTGCTGATTCCCCG---A--GG-GGTTGCTAAGTGCGATAT-C-CCATATCTTT
*
71177044 GAAATGTGAAAG
58 GAAATGTAAAAG
71177056 GGGGTTGCTATGTGCTGATT-CCCGAGGGGTTGCTAAGTGCGATAT-CCATATCTTTGAAATG-A
1 GGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCGATATCCCATATCTTTGAAATGTA
71177118 AAAG
66 AAAG
71177122 GGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGAT-TCCC
1 GGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGC-GATATCCC
71177171 CGATTCAGTG
Statistics
Matches: 109, Mismatches: 2, Indels: 16
0.86 0.02 0.13
Matches are distributed among these distances:
66 24 0.22
67 37 0.34
68 5 0.05
69 2 0.02
70 17 0.16
72 1 0.01
75 4 0.04
76 19 0.17
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (69 bp):
GGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCGATATCCCATATCTTTGAAATGTA
AAAG
Found at i:71177157 original size:26 final size:26
Alignment explanation
Indices: 71177122--71177173 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
71177112 AAATGAAAAG
*
71177122 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
71177148 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
71177174 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:71182154 original size:1 final size:1
Alignment explanation
Indices: 71182150--71182188 Score: 69
Period size: 1 Copynumber: 39.0 Consensus size: 1
71182140 GTTTTTGCAT
*
71182150 AAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
71182189 TAGGGTGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:71187516 original size:27 final size:27
Alignment explanation
Indices: 71187481--71187532 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
71187471 ACCATGAATC
* *
71187481 GGGGAATCATCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
*
71187508 GGGGAATCAGCACATAGCACCCCCT
1 GGGGAATCAGCACATAGCAACCCCT
71187533 TTTTATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.35, G:0.23, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:71187934 original size:19 final size:19
Alignment explanation
Indices: 71187910--71187948 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
71187900 ATTTAATTCC
* *
71187910 AAATAAATCTCAACATAAT
1 AAATAAATATCAAAATAAT
*
71187929 AAATAATTATCAAAATAAT
1 AAATAAATATCAAAATAAT
71187948 A
1 A
71187949 CATTAGTCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATAAATATCAAAATAAT
Found at i:71195029 original size:68 final size:71
Alignment explanation
Indices: 71194904--71195044 Score: 184
Period size: 68 Copynumber: 2.0 Consensus size: 71
71194894 ACTAGCAACC
** *
71194904 CCTCGGGGGAATCAGCACAATAGCAACCCTTTTTTATTTCAAATATACAATCGGATATCG-ACTT
1 CCTCGGGGGAATCAGCACAATAGCAACCCTTTTCAATTTCAAAGATACAATCGGATATCGCAC-T
71194968 TAGCACA
65 TAGCACA
**
71194975 CCTC-GGGGAATCAGCAC-ATAGCAACCC-TTTCAATTTCAAAAGATATGAT-GGATATCGCACT
1 CCTCGGGGGAATCAGCACAATAGCAACCCTTTTCAATTTC-AAAGATACAATCGGATATCGCACT
71195036 TAGCACA
65 TAGCACA
71195043 CC
1 CC
71195045 ACTGAACCGG
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
68 26 0.41
69 20 0.32
70 13 0.21
71 4 0.06
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (71 bp):
CCTCGGGGGAATCAGCACAATAGCAACCCTTTTCAATTTCAAAGATACAATCGGATATCGCACTT
AGCACA
Found at i:71195180 original size:103 final size:99
Alignment explanation
Indices: 71194975--71195180 Score: 242
Period size: 103 Copynumber: 2.0 Consensus size: 99
71194965 CTTTAGCACA
71194975 CCTCGGGGAATCAGCACATAGCAACCCTTTCAATTTCAAAAGATATGATGGATATCGCACTTAGC
1 CCTCGGGGAATCAGCACATAGCAACCCTTTCAATTTCAAAAGATATGATGGATATCGCACTTAGC
* *
71195040 ACACCACTGAACCGGGGAATCAGCACTTAGCAACC
66 ACACCACTAAACCGGGGAATCAACAC-TAGCAACC
*
71195075 CCTCGAGGGAATCAGCACATAGCAACCCCCTTTCACATTTC-AAAGATATGGTGGATCA-CGCCA
1 CCTCG-GGGAATCAGCACATAGCAA--CCCTTTCA-ATTTCAAAAGATATGATGGAT-ATCG-CA
* *
71195138 C-TAGCACCACC-CATAAATCGGGGAATGCAACAC-AGCACCC
60 CTTAGCA-CACCAC-TAAACCGGGGAAT-CAACACTAGCAACC
71195178 CCT
1 CCT
71195181 TTTTATACAC
Statistics
Matches: 92, Mismatches: 5, Indels: 15
0.82 0.04 0.13
Matches are distributed among these distances:
100 5 0.05
101 19 0.21
103 39 0.42
104 24 0.26
105 5 0.05
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.18
Consensus pattern (99 bp):
CCTCGGGGAATCAGCACATAGCAACCCTTTCAATTTCAAAAGATATGATGGATATCGCACTTAGC
ACACCACTAAACCGGGGAATCAACACTAGCAACC
Found at i:71197252 original size:16 final size:16
Alignment explanation
Indices: 71197214--71197248 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
71197204 ATCTCTGAAC
71197214 TTTTATTTTCTTTTTA
1 TTTTATTTTCTTTTTA
*
71197230 TGTTATTTTC-TTTTA
1 TTTTATTTTCTTTTTA
71197245 TTTT
1 TTTT
71197249 TATTCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTATTTTCTTTTTA
Found at i:71198896 original size:18 final size:17
Alignment explanation
Indices: 71198873--71198906 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
71198863 GGAAATTTAA
71198873 TAGTTAAAAATATGAGTT
1 TAGTTAAAAAT-TGAGTT
*
71198891 TAGTTAAGAATTGAGT
1 TAGTTAAAAATTGAGT
71198907 AGAAATAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (17 bp):
TAGTTAAAAATTGAGTT
Found at i:71208838 original size:19 final size:19
Alignment explanation
Indices: 71208811--71208849 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
71208801 AATCAATAGT
* *
71208811 TGACTGCCTTCGGACGTAC
1 TGACCGCCTCCGGACGTAC
71208830 TGACCGCCTCCGGACGTAC
1 TGACCGCCTCCGGACGTAC
71208849 T
1 T
71208850 AACATCTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (19 bp):
TGACCGCCTCCGGACGTAC
Found at i:71211853 original size:41 final size:41
Alignment explanation
Indices: 71211808--71211921 Score: 192
Period size: 41 Copynumber: 2.8 Consensus size: 41
71211798 TATTCGGGCT
*
71211808 TTATTGCCTAGCAGGCTTTGGGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
71211849 TTATTGCCTAGCAGGCTTTGTGCCAGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
*
71211890 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATT
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
71211922 GTACTAGGCT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:71211931 original size:41 final size:40
Alignment explanation
Indices: 71211808--71211943 Score: 177
Period size: 41 Copynumber: 3.3 Consensus size: 40
71211798 TATTCGGGCT
* *
71211808 TTATTGCCTAGCAGGCTTTGGGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT-TATCAGGC
*
71211849 TTATTGCCTAGCAGGCTTTGTGCCAGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT-TATCAGGC
*
71211890 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTGTA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT-TATC-AGGC
71211931 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
71211944 AATTTTATGT
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 2 0.02
41 85 0.98
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (40 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTTATCAGGC
Found at i:71228223 original size:32 final size:32
Alignment explanation
Indices: 71228187--71228252 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
71228177 CATACCTAAA
71228187 TCTGAGTGGATAGCGGACTATGTATTTGTGAC
1 TCTGAGTGGATAGCGGACTATGTATTTGTGAC
71228219 TCTGAGTGGATAGCGGACTATGTATTTGTGAC
1 TCTGAGTGGATAGCGGACTATGTATTTGTGAC
71228251 TC
1 TC
71228253 ATACACTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (32 bp):
TCTGAGTGGATAGCGGACTATGTATTTGTGAC
Found at i:71231118 original size:19 final size:21
Alignment explanation
Indices: 71231091--71231129 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
71231081 AATGAAATAG
71231091 ATTTAGCAA-AATTA-AACAC
1 ATTTAGCAACAATTATAACAC
*
71231110 ATTTTGCAACAATTATAACA
1 ATTTAGCAACAATTATAACA
71231130 TAAATAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (21 bp):
ATTTAGCAACAATTATAACAC
Found at i:71234867 original size:47 final size:47
Alignment explanation
Indices: 71234758--71234953 Score: 275
Period size: 47 Copynumber: 4.1 Consensus size: 47
71234748 GAAATGATAG
71234758 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
71234809 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
71234856 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
71234903 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
71234950 TAAG
1 TAAG
71234954 TCCCGAAGGG
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 98 0.74
51 35 0.26
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:71235128 original size:37 final size:37
Alignment explanation
Indices: 71235072--71235150 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
71235062 CCGAGCTCTA
* * *
71235072 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
71235109 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
71235146 AAGAC
1 AAGAC
71235151 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:71239566 original size:28 final size:29
Alignment explanation
Indices: 71239535--71239589 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
71239525 ATCCAAAATA
* *
71239535 CTGATAT-CATGGCCCGAATCCAAATCAG
1 CTGATATGCATGGCCCAAAGCCAAATCAG
71239563 CTGATATGCATGGCCCAAAGCCAAATC
1 CTGATATGCATGGCCCAAAGCCAAATC
71239590 GGTATATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (29 bp):
CTGATATGCATGGCCCAAAGCCAAATCAG
Found at i:71240229 original size:21 final size:20
Alignment explanation
Indices: 71240205--71240244 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
71240195 ACTTGTTTAA
71240205 CTATCAACAACCATTCAAAAT
1 CTATCAACAACCA-TCAAAAT
* *
71240226 CTATCATCAATCATCAAAA
1 CTATCAACAACCATCAAAA
71240245 ATCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTATCAACAACCATCAAAAT
Done.