Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 53 of 213
Found at i:14274359 original size:23 final size:25
Alignment explanation
Indices: 14274292--14274360 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
14274282 ACACCATTAA
* * *
14274292 AATA-TAATTAAAAATATTTTATATT
1 AATATTAAATAAAAATA-ATTATATC
14274317 AATATTAAATAAAAATAATTATATC
1 AATATTAAATAAAAATAATTATATC
14274342 AAT-TTAAATAAAAA-AATTA
1 AATATTAAATAAAAATAATTA
14274361 CGTCTCCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.12
24 11 0.28
25 13 0.32
26 11 0.28
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (25 bp):
AATATTAAATAAAAATAATTATATC
Found at i:14279390 original size:16 final size:16
Alignment explanation
Indices: 14279369--14279403 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14279359 TGAATTACTG
14279369 ATTACAG-CTCTATTCC
1 ATTACAGCCT-TATTCC
14279385 ATTACAGCCTTATTCC
1 ATTACAGCCTTATTCC
14279401 ATT
1 ATT
14279404 CCAATAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACAGCCTTATTCC
Found at i:14284064 original size:7 final size:7
Alignment explanation
Indices: 14284032--14284063 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14284022 TTACTCTAGT
14284032 GGAGCTG
1 GGAGCTG
14284039 GGAGCTG
1 GGAGCTG
14284046 GGAGCTG
1 GGAGCTG
*
14284053 GGAGTTG
1 GGAGCTG
14284060 GGAG
1 GGAG
14284064 TGACGGTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.09, G:0.59, T:0.16
Consensus pattern (7 bp):
GGAGCTG
Found at i:14287048 original size:34 final size:34
Alignment explanation
Indices: 14286975--14287066 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
14286965 CATATCATTC
* *
14286975 CAGTAGCATTTAATATGCTTTTAATAAAATAATA
1 CAGTAGCAATTAATATGCTTATAATAAAATAATA
* * **
14287009 TAGTAGCAATTAATATGCTTATAAT-AATTCGTTA
1 CAGTAGCAATTAATATGCTTATAATAAAAT-AATA
*
14287043 CAGTAGCCATTAATATGCTTATAA
1 CAGTAGCAATTAATATGCTTATAA
14287067 GAGATCAACT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 3 0.06
34 46 0.94
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (34 bp):
CAGTAGCAATTAATATGCTTATAATAAAATAATA
Found at i:14291202 original size:15 final size:15
Alignment explanation
Indices: 14291173--14291210 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
14291163 AAATATGATG
14291173 AAATA-AAAGGGGAA
1 AAATAGAAAGGGGAA
14291187 AAA-AGAAAGAGGGAA
1 AAATAGAAAG-GGGAA
14291202 AAATAGAAA
1 AAATAGAAA
14291211 AGATGAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.05
14 7 0.33
15 8 0.38
16 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.05
Consensus pattern (15 bp):
AAATAGAAAGGGGAA
Found at i:14298094 original size:6 final size:6
Alignment explanation
Indices: 14298085--14298112 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
14298075 AGTTTTAATT
14298085 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
14298113 TCTCTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:14298096 original size:14 final size:14
Alignment explanation
Indices: 14298067--14298113 Score: 62
Period size: 12 Copynumber: 3.4 Consensus size: 14
14298057 TGGAGTGGGG
*
14298067 ATTTTGTAAGTTTTA
1 ATTTTTTAA-TTTTA
14298082 ATTTTTTAATTTTA
1 ATTTTTTAATTTTA
14298096 A--TTTTAATTTTA
1 ATTTTTTAATTTTA
14298108 ATTTTT
1 ATTTTT
14298114 CTCTCTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 12 0.41
14 9 0.31
15 8 0.28
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (14 bp):
ATTTTTTAATTTTA
Found at i:14302377 original size:43 final size:43
Alignment explanation
Indices: 14302265--14302417 Score: 171
Period size: 43 Copynumber: 3.6 Consensus size: 43
14302255 GTGGAAAAAT
* * * * * *
14302265 GCCGCTATAGAACACGATTTTTAGCGACACTTCTCATAAAAAC
1 GCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTCATACAAAC
* * *
14302308 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCTACAAAT
1 GCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTCATACAAAC
* **
14302351 GCCGCTATAGAACATGATTTTTAGCGGCGCTTTTTTTACAAAC
1 GCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTCATACAAAC
* * *
14302394 GCCGCAAAAGATCATGTTTTTTAG
1 GCCGCTAAAGAACATGATTTTTAG
14302418 TGGCATTTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
GCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTCATACAAAC
Found at i:14302556 original size:43 final size:42
Alignment explanation
Indices: 14302301--14302554 Score: 210
Period size: 43 Copynumber: 5.9 Consensus size: 42
14302291 ACACTTCTCA
* * * **
14302301 TAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCC
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTTTTG
* * * *
14302344 TACAAA-TGCCGCTATAGAACATGATT-TTTAGCGGCGCTTTTTT
1 TA-AAAGCGCCGCTAAAGATCATG-TTCTTTAGCGGCG-TTTTTG
* * * *
14302387 TACAAA-CGCCGCAAAAGATCATGTTTTTTAGTGGCATTTTTAG
1 TA-AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTT-G
* * **
14302430 TAAAAGCGCAGCTAAAGATCATGTTCTATAGCGGCGTTTCTAA
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT-TTG
* *
14302473 TAAAAGCGTCGCTAAAGATCATG-TCATTTAACGGCGTTTGTTG
1 TAAAAGCGCCGCTAAAGATCATGTTC-TTTAGCGGCGTTT-TTG
* *
14302516 TAAAAGCGCCGCTAAAGACCATGTTCTATAGCGGCGTTT
1 TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
14302555 GTGGGAAAAT
Statistics
Matches: 172, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
42 12 0.07
43 153 0.89
44 7 0.04
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTG
Found at i:14306214 original size:24 final size:24
Alignment explanation
Indices: 14306166--14306212 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
14306156 ACTGGTCACA
*
14306166 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
14306190 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
14306213 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:14306852 original size:27 final size:26
Alignment explanation
Indices: 14306821--14307041 Score: 226
Period size: 27 Copynumber: 8.2 Consensus size: 26
14306811 TTACACTGTT
* *
14306821 ATGACCGAAATAGCCCCATAAGGTAGA
1 ATGACCGAAATA-CCCCATAGGGTAAA
*
14306848 ATGACTGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCC-CATAGGGTAAA
*
14306875 ATGACTGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
14306902 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
* ** * *
14306929 ATAACTAAAATACCCTCACAGGGTAGA
1 ATGACCGAAATACCC-CATAGGGTAAA
*
14306956 ATGACTGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCC-ATAGGGTAAA
* * * * *
14306983 ATGATCGAAATACCCTCACAAGATAGA
1 ATGACCGAAATACCC-CATAGGGTAAA
*
14307010 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
14307037 ATGAC
1 ATGAC
14307042 TGTTATATCC
Statistics
Matches: 164, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.04
27 150 0.91
28 7 0.04
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.19
Consensus pattern (26 bp):
ATGACCGAAATACCCCATAGGGTAAA
Found at i:14306905 original size:54 final size:54
Alignment explanation
Indices: 14306821--14307043 Score: 279
Period size: 54 Copynumber: 4.1 Consensus size: 54
14306811 TTACACTGTT
* * * *
14306821 ATGACCGAAATAGCCCCATAAGGTAGAATGACTGAAATACCCTCATAGGGTAAA
1 ATGACTGAAATACCCCCACAAGGTAGAATGACTGAAATACCCCCATAGGGTAAA
* * * *
14306875 ATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAA
1 ATGACTGAAATACCCCCACAAGGTAGAATGACTGAAATACCCCCATAGGGTAAA
* * * * *
14306929 ATAACTAAAATACCCTCACAGGGTAGAATGACTGAAATACCCCTATAGGGTAAA
1 ATGACTGAAATACCCCCACAAGGTAGAATGACTGAAATACCCCCATAGGGTAAA
* *
14306983 ATGA-TCGAAATACCCTCACAAGATAGAATGA-TCGAAATACCCCCATAGGGTAAA
1 ATGACT-GAAATACCCCCACAAGGTAGAATGACT-GAAATACCCCCATAGGGTAAA
14307037 ATGACTG
1 ATGACTG
14307044 TTATATCCCT
Statistics
Matches: 148, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
53 2 0.01
54 145 0.98
55 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (54 bp):
ATGACTGAAATACCCCCACAAGGTAGAATGACTGAAATACCCCCATAGGGTAAA
Found at i:14307054 original size:81 final size:80
Alignment explanation
Indices: 14306821--14307043 Score: 304
Period size: 81 Copynumber: 2.8 Consensus size: 80
14306811 TTACACTGTT
14306821 ATGACCGAAATAGCCCCATAAGGTAGAATGACTGAAATACCCTCATAGGGTAAAATGACTGAAAT
1 ATGACCGAAATA-CCCCATAAGGTAGAATGACTGAAATACCCTCATAGGGTAAAATGACTGAAAT
*
14306886 ACCCCCATAGGGTAAA
65 ACCCCTATAGGGTAAA
* * * * * *
14306902 ATGACCGAAATACCCCCATAGGGTAAAATAACTAAAATACCCTCACAGGGTAGAATGACTGAAAT
1 ATGACCGAAATA-CCCCATAAGGTAGAATGACTGAAATACCCTCATAGGGTAAAATGACTGAAAT
14306967 ACCCCTATAGGGTAAA
65 ACCCCTATAGGGTAAA
* * * *
14306983 ATGATCGAAATACCCTCACAAGATAGAATGA-TCGAAATACCCCCATAGGGTAAAATGACTG
1 ATGACCGAAATACCC-CATAAGGTAGAATGACT-GAAATACCCTCATAGGGTAAAATGACTG
14307044 TTATATCCCT
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.03
81 118 0.97
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (80 bp):
ATGACCGAAATACCCCATAAGGTAGAATGACTGAAATACCCTCATAGGGTAAAATGACTGAAATA
CCCCTATAGGGTAAA
Found at i:14315978 original size:42 final size:42
Alignment explanation
Indices: 14315860--14316014 Score: 127
Period size: 42 Copynumber: 3.7 Consensus size: 42
14315850 ACATGGCTTG
* * * ***
14315860 GACACATGCCCATGTCCTTGTCCGTGTGGCTT-ACATGGCCTA
1 GACACACGCCCATATCCTTGCCCGTGTGG-TTCACACAACCTA
* * * * * *
14315902 GACATACACCTATATCCTTGCCCGTATAGCTCACACAACCT-
1 GACACACGCCCATATCCTTGCCCGTGTGGTTCACACAACCTA
*
14315943 GAACACACGCCCATATCCTTGCCCGTGTGGTTCACACAGCCTA
1 G-ACACACGCCCATATCCTTGCCCGTGTGGTTCACACAACCTA
* * *
14315986 GGCACACGCCCATGTCCCTG-CCGTGTGGT
1 GACACACGCCCATATCCTTGCCCGTGTGGT
14316015 CTTAAATCAT
Statistics
Matches: 88, Mismatches: 22, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
41 11 0.12
42 76 0.86
43 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (42 bp):
GACACACGCCCATATCCTTGCCCGTGTGGTTCACACAACCTA
Found at i:14316122 original size:61 final size:61
Alignment explanation
Indices: 14316042--14316174 Score: 230
Period size: 61 Copynumber: 2.2 Consensus size: 61
14316032 AAGTTACAAG
* *
14316042 GCCTAGACACATGCCCGTGTCTATTTCCTGTGTGAACCTTGTACTAACATGGCCACACACA
1 GCCTGGACACATGCCCGTGTCTATTTCCTGTGTGAACCCTGTACTAACATGGCCACACACA
* *
14316103 GCCTGGACACATGCCCGTGTCTGTTTCCTGTGTGAACCCTGTACTAACATTGCCACACACA
1 GCCTGGACACATGCCCGTGTCTATTTCCTGTGTGAACCCTGTACTAACATGGCCACACACA
14316164 GCCTGGACACA
1 GCCTGGACACA
14316175 CGTTCGTGTC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (61 bp):
GCCTGGACACATGCCCGTGTCTATTTCCTGTGTGAACCCTGTACTAACATGGCCACACACA
Found at i:14316197 original size:61 final size:61
Alignment explanation
Indices: 14316042--14316197 Score: 177
Period size: 61 Copynumber: 2.6 Consensus size: 61
14316032 AAGTTACAAG
* * ** * * *
14316042 GCCTAGACACATGCCCGTGTCTATTTCCTGTGTGAACCTTGTACTAACATGGCCACACACA
1 GCCTGGACACACGCCCGTGTCCCTTGCCCGTGTGAACCCTGTACTAACATGGCCACACACA
* ** * * *
14316103 GCCTGGACACATGCCCGTGTCTGTTTCCTGTGTGAACCCTGTACTAACATTGCCACACACA
1 GCCTGGACACACGCCCGTGTCCCTTGCCCGTGTGAACCCTGTACTAACATGGCCACACACA
**
14316164 GCCTGGACACACGTTCGTGTCCCTTGCCCGTGTG
1 GCCTGGACACACGCCCGTGTCCCTTGCCCGTGTG
14316198 TTCAAATTCA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 84 1.00
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (61 bp):
GCCTGGACACACGCCCGTGTCCCTTGCCCGTGTGAACCCTGTACTAACATGGCCACACACA
Found at i:14321303 original size:61 final size:61
Alignment explanation
Indices: 14321208--14321331 Score: 194
Period size: 61 Copynumber: 2.0 Consensus size: 61
14321198 TGCATTGTAA
* * *
14321208 CACCCCATACCCGGCCTAGATACCGGGCTGAATATCGAGATGCCACACCATCGTCTCATGT
1 CACCCCATACCCGGCCTAGATACCAGGCTAAATATCGAGATGCCACACCATCATCTCATGT
* * *
14321269 CACCCCATACCCGGCTTGGATGCCAGGCTAAATATCGAGATGCCACACCATCATCTCATGT
1 CACCCCATACCCGGCCTAGATACCAGGCTAAATATCGAGATGCCACACCATCATCTCATGT
14321330 CA
1 CA
14321332 ACTTCATTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.20
Consensus pattern (61 bp):
CACCCCATACCCGGCCTAGATACCAGGCTAAATATCGAGATGCCACACCATCATCTCATGT
Found at i:14334493 original size:13 final size:13
Alignment explanation
Indices: 14334475--14334500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14334465 CTATACTTAA
14334475 GGGAAATAAATTC
1 GGGAAATAAATTC
14334488 GGGAAATAAATTC
1 GGGAAATAAATTC
14334501 TAAGTGACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
GGGAAATAAATTC
Found at i:14341168 original size:5 final size:5
Alignment explanation
Indices: 14341158--14341186 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
14341148 CCAGACTATT
14341158 CTTTC CTTTC CTTTC CTTTC CTTTC CTTT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTT
14341187 GCTTCTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
CTTTC
Found at i:14350955 original size:72 final size:72
Alignment explanation
Indices: 14350838--14350981 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
14350828 AAGCCAGGAG
14350838 AAAGTGAAATTCAGTGGTTTAACTATGGCAGAATAGAAGATGACTCATGCTTGACCACAAAAACA
1 AAAGTGAAATTCAGTGGTTTAACTATGGCAGAATAGAAGATGACTCATGCTTGACCACAAAAACA
14350903 AGTGGAA
66 AGTGGAA
* *
14350910 AAAGTGAAATTCAGTGGTTTAACTATGGTAGAATAGAAGATGACTCATGCTTGACCACAAAACCA
1 AAAGTGAAATTCAGTGGTTTAACTATGGCAGAATAGAAGATGACTCATGCTTGACCACAAAAACA
14350975 AGTGGAA
66 AGTGGAA
14350982 CTTGCCTGAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (72 bp):
AAAGTGAAATTCAGTGGTTTAACTATGGCAGAATAGAAGATGACTCATGCTTGACCACAAAAACA
AGTGGAA
Found at i:14351116 original size:30 final size:31
Alignment explanation
Indices: 14351080--14351152 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
14351070 TGTAATACAC
* **
14351080 AAACTTTAATTT-GATACAATTATACACATG
1 AAACTTTGATTTGGATACAACCATACACATG
*
14351110 AAACTTTGATTTGGATTCAACCATACACATG
1 AAACTTTGATTTGGATACAACCATACACATG
*
14351141 AAAATTTGATTT
1 AAACTTTGATTT
14351153 TGATTTTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 11 0.30
31 26 0.70
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (31 bp):
AAACTTTGATTTGGATACAACCATACACATG
Found at i:14351179 original size:21 final size:21
Alignment explanation
Indices: 14351149--14351188 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14351139 TGAAAATTTG
14351149 ATTTTGATTTTG-ATTCAATAA
1 ATTTTGA-TTTGAATTCAATAA
*
14351170 ATTTTTATTTGAATTCAAT
1 ATTTTGATTTGAATTCAAT
14351189 TATACACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTTGATTTGAATTCAATAA
Found at i:14353629 original size:20 final size:20
Alignment explanation
Indices: 14353604--14353644 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14353594 AGTCTTCCTT
14353604 AGTTCATTCTTAAAACCCTG
1 AGTTCATTCTTAAAACCCTG
14353624 AGTTCATTCTTAAAACCCTG
1 AGTTCATTCTTAAAACCCTG
14353644 A
1 A
14353645 TAAATAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (20 bp):
AGTTCATTCTTAAAACCCTG
Found at i:14360220 original size:24 final size:23
Alignment explanation
Indices: 14360145--14360226 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
14360135 CTCGAGGTCA
* * * *
14360145 AATGATTGTTTTGTCTGTGGTTA
1 AATGATTGATTTGTCTATGTTTG
14360168 AATGATTGATTTGTCTATGTTTGG
1 AATGATTGATTTGTCTATGTTT-G
*
14360192 TATGATTGATTTGTCTATGATTTG
1 AATGATTGATTTGTCTATG-TTTG
*
14360216 AATGACTGATT
1 AATGATTGATT
14360227 CTGAGTATGG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 19 0.38
24 28 0.56
25 3 0.06
ACGTcount: A:0.22, C:0.05, G:0.23, T:0.50
Consensus pattern (23 bp):
AATGATTGATTTGTCTATGTTTG
Found at i:14360407 original size:26 final size:26
Alignment explanation
Indices: 14360352--14360407 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
14360342 ATACTATTAC
* * ** *
14360352 TGGCTGCTTTACTGCGATATTGTTGC
1 TGGCAGCTTTACTGCGATACTACTGA
14360378 TGGCAGCTTTACTGCGATACTACTGA
1 TGGCAGCTTTACTGCGATACTACTGA
14360404 TGGC
1 TGGC
14360408 TTTGTGCCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.21, G:0.27, T:0.36
Consensus pattern (26 bp):
TGGCAGCTTTACTGCGATACTACTGA
Found at i:14360619 original size:32 final size:32
Alignment explanation
Indices: 14360398--14360621 Score: 254
Period size: 32 Copynumber: 7.0 Consensus size: 32
14360388 ACTGCGATAC
* * *
14360398 TACTGATGGCTTTGTGCCGATCATAGTACCGA
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
14360430 TACTGATGGCTTTATGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
14360462 TACTGATGGCTATGTACCGATCAT-TTCATTGT
1 TACTGATGGCTTTGTGCCGATCATATT-ACTGT
* *
14360494 TACTGATGG-TTGTGTCCCGATCATATCACTGT
1 TACTGATGGCTT-TGTGCCGATCATATTACTGT
* *
14360526 TACTAATGGCTTTGTGCCGATCATGTTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * **
14360558 TATTGATGGCTATGTGCCGATCATATTACTAC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
14360590 TACTGATGGCTTTGTGCCAATCACATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
14360622 ACTTATGACT
Statistics
Matches: 160, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
31 3 0.02
32 154 0.96
33 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:14360711 original size:26 final size:26
Alignment explanation
Indices: 14360682--14360734 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
14360672 AGCTCTTAGC
* *
14360682 CATTCTGACTACTGACAGCTCTGCTG
1 CATTATGACTACTGACAGCTATGCTG
* *
14360708 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTGACAGCTATGCTG
14360734 C
1 C
14360735 GATATTAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (26 bp):
CATTATGACTACTGACAGCTATGCTG
Found at i:14366262 original size:43 final size:43
Alignment explanation
Indices: 14366200--14366314 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
14366190 AAGCGTTTCT
* * *
14366200 ATGTAAGACCACGTCTGGGACGTTGGCATAGA-CTTGTGTTTTC
1 ATGTAAGACCACGTCTGGGACGTTGGCATAGATC-AGTGATTAC
* * *
14366243 GTGTAAGACC-CTGTTTGGGACAG-TGGCATCGATCAGTGATTAC
1 ATGTAAGACCAC-GTCTGGGAC-GTTGGCATAGATCAGTGATTAC
14366286 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATGTAAGACCACGTCTGGGACGTTGGCAT
14366315 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.03
43 54 0.92
44 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
ATGTAAGACCACGTCTGGGACGTTGGCATAGATCAGTGATTAC
Found at i:14369699 original size:17 final size:18
Alignment explanation
Indices: 14369667--14369700 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14369657 AATTTCTTTT
14369667 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
14369685 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
14369701 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:14370196 original size:3 final size:3
Alignment explanation
Indices: 14370178--14370236 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
14370168 ATATATTAGT
* * *
14370178 TAA TAA TAT TAT TAA TAA TAA TACA TTA TAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
14370222 T-A TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TA
14370237 TTTAATTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
2 8 0.17
3 37 0.79
4 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:14370210 original size:10 final size:8
Alignment explanation
Indices: 14370178--14370237 Score: 52
Period size: 8 Copynumber: 7.1 Consensus size: 8
14370168 ATATATTAGT
14370178 TAATAATA
1 TAATAATA
*
14370186 TTATTAATAA
1 -TAATAAT-A
14370196 TAATACATTA
1 TAATA-A-TA
14370206 TAATAATA
1 TAATAATA
14370214 TAAT-ATA
1 TAATAATA
14370221 -ATATAATA
1 TA-ATAATA
14370229 TAATAATA
1 TAATAATA
14370237 T
1 T
14370238 TTAATTCATA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
6 1 0.02
7 5 0.12
8 16 0.37
9 12 0.28
10 8 0.19
11 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (8 bp):
TAATAATA
Found at i:14370210 original size:13 final size:13
Alignment explanation
Indices: 14370168--14370237 Score: 65
Period size: 13 Copynumber: 5.3 Consensus size: 13
14370158 TTTATTTTAT
14370168 ATATATTAGTTAATA
1 ATATATTA--TAATA
14370183 ATATTATTAATAATA
1 ATA-TATT-ATAATA
*
14370198 ATACATTATAATA
1 ATATATTATAATA
14370211 ATATA--AT-ATA
1 ATATATTATAATA
*
14370221 ATATAATATAATA
1 ATATATTATAATA
14370234 ATAT
1 ATAT
14370238 TTAATTCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
10 8 0.17
11 2 0.04
12 2 0.04
13 17 0.35
14 3 0.06
15 11 0.23
16 4 0.08
17 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (13 bp):
ATATATTATAATA
Found at i:14370218 original size:5 final size:5
Alignment explanation
Indices: 14370208--14370233 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14370198 ATACATTATA
14370208 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
14370234 ATATTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:14371742 original size:70 final size:70
Alignment explanation
Indices: 14371593--14371734 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
14371583 TTCAATAGCA
14371593 ATCAAAGCAAATCAATTCATACAAAAATTATATTTTCACCTATATATTCAATCATGCAATTAATA
1 ATCAAAGCAAATCAATTCATACAAAAATTATATTTTCACCTATATATTCAATCATGCAATTAATA
14371658 TGTAT
66 TGTAT
14371663 ATCAAAGCAAATCAATTCATACAAAAATTATATTTTCACCTATATATTCAATCATGCAATTAATA
1 ATCAAAGCAAATCAATTCATACAAAAATTATATTTTCACCTATATATTCAATCATGCAATTAATA
14371728 TGTAT
66 TGTAT
14371733 AT
1 AT
14371735 GTAAGCAATT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.36
Consensus pattern (70 bp):
ATCAAAGCAAATCAATTCATACAAAAATTATATTTTCACCTATATATTCAATCATGCAATTAATA
TGTAT
Found at i:14385683 original size:12 final size:13
Alignment explanation
Indices: 14385666--14385697 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
14385656 AGAGAAATAA
14385666 AATTTAAGTA-AG
1 AATTTAAGTAGAG
14385678 AATTTAA-TAGAG
1 AATTTAAGTAGAG
14385690 AATTTAAG
1 AATTTAAG
14385698 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 16 0.89
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (13 bp):
AATTTAAGTAGAG
Found at i:14395036 original size:41 final size:40
Alignment explanation
Indices: 14394986--14395189 Score: 209
Period size: 41 Copynumber: 5.0 Consensus size: 40
14394976 GCATGTATAT
* *
14394986 TGCCAGTGAATCAATTCAGGCTTAAAGCTTAGCAGGCTAAG
1 TGCCGGTGAATCAA-TCAGGCTTAAAGCCTAGCAGGCTAAG
*
14395027 TGCCGGTGAACTGAATCAGG-TTATAAGCCTAGCAGGCTAAG
1 TGCCGGTGAA-TCAATCAGGCTTA-AAGCCTAGCAGGCTAAG
*
14395068 TGCCGGTG-ATCTGAATCAGGCTTTAAGCCTAGCAGGCTAAG
1 TGCCGGTGAATC--AATCAGGCTTAAAGCCTAGCAGGCTAAG
* *
14395109 TGCCGGTAAACTGAATCAGGC-TATAAGCCTAGCAGGCTAAG
1 TGCCGGTGAA-TCAATCAGGCTTA-AAGCCTAGCAGGCTAAG
* * * *
14395150 TGCCGGTG-ATCTGAATCAGACTTTAAGCTTAGTAGGCTAA
1 TGCCGGTGAATC--AATCAGGCTTAAAGCCTAGCAGGCTAA
14395190 CTGTCAGTGA
Statistics
Matches: 138, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
39 2 0.01
40 6 0.04
41 122 0.88
42 7 0.05
43 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
TGCCGGTGAATCAATCAGGCTTAAAGCCTAGCAGGCTAAG
Found at i:14395101 original size:82 final size:82
Alignment explanation
Indices: 14395001--14395189 Score: 324
Period size: 82 Copynumber: 2.3 Consensus size: 82
14394991 GTGAATCAAT
* * *
14395001 TCAGGCTTAAAGCTTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTA
1 TCAGGCTTTAAGCTTAGCAGGCTAAGTGCCGGTAAACTGAATCAGGCTATAAGCCTAGCAGGCTA
14395066 AGTGCCGGTGATCTGAA
66 AGTGCCGGTGATCTGAA
*
14395083 TCAGGCTTTAAGCCTAGCAGGCTAAGTGCCGGTAAACTGAATCAGGCTATAAGCCTAGCAGGCTA
1 TCAGGCTTTAAGCTTAGCAGGCTAAGTGCCGGTAAACTGAATCAGGCTATAAGCCTAGCAGGCTA
14395148 AGTGCCGGTGATCTGAA
66 AGTGCCGGTGATCTGAA
* *
14395165 TCAGACTTTAAGCTTAGTAGGCTAA
1 TCAGGCTTTAAGCTTAGCAGGCTAA
14395190 CTGTCAGTGA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 100 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (82 bp):
TCAGGCTTTAAGCTTAGCAGGCTAAGTGCCGGTAAACTGAATCAGGCTATAAGCCTAGCAGGCTA
AGTGCCGGTGATCTGAA
Found at i:14395421 original size:40 final size:38
Alignment explanation
Indices: 14395373--14395453 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
14395363 AAATTGTTTG
*
14395373 ATATATATATGTATGCATTCGGCATATGTGAATT-ATAAGT
1 ATATATATATG--TGCATTCGGCACATGTG-ATTGATAAGT
*
14395413 ATATATATATGTGCATTCGGCACATGTGGTTGATAAGT
1 ATATATATATGTGCATTCGGCACATGTGATTGATAAGT
14395451 ATA
1 ATA
14395454 ATTATTTGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 2 0.05
38 25 0.66
40 11 0.29
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (38 bp):
ATATATATATGTGCATTCGGCACATGTGATTGATAAGT
Found at i:14396609 original size:13 final size:13
Alignment explanation
Indices: 14396569--14396624 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
14396559 TTGGGTTGAG
14396569 AAATTAATTAGA--
1 AAATTAATTA-ATT
*
14396581 AAATTAATTTAGTT
1 AAATTAA-TTAATT
14396595 AAATTAATTAATT
1 AAATTAATTAATT
*
14396608 AAATTAATTGATT
1 AAATTAATTAATT
14396621 AAAT
1 AAAT
14396625 AAATAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 7 0.18
13 24 0.63
14 7 0.18
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:14396622 original size:26 final size:26
Alignment explanation
Indices: 14396569--14396624 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14396559 TTGGGTTGAG
*
14396569 AAATTAATTAGAAAATTAATTTAGTT
1 AAATTAATTAGAAAATTAATTGAGTT
14396595 AAATTAATTA-ATTAAATTAATTGA-TT
1 AAATTAATTAGA--AAATTAATTGAGTT
14396621 AAAT
1 AAAT
14396625 AAATAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 1 0.04
26 16 0.59
27 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (26 bp):
AAATTAATTAGAAAATTAATTGAGTT
Found at i:14399274 original size:7 final size:7
Alignment explanation
Indices: 14399262--14399292 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
14399252 AGGACTCAGA
14399262 ATTATAG
1 ATTATAG
14399269 ATTATAG
1 ATTATAG
14399276 ATTATAG
1 ATTATAG
14399283 ATTATAG
1 ATTATAG
14399290 ATT
1 ATT
14399293 TATTGATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (7 bp):
ATTATAG
Found at i:14402438 original size:12 final size:11
Alignment explanation
Indices: 14402405--14402440 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
14402395 TTGCTTAGCT
14402405 AGAAAAG-AAA
1 AGAAAAGAAAA
14402415 AGAAAAGAAAA
1 AGAAAAGAAAA
14402426 AGAAAATGAAAA
1 AGAAAA-GAAAA
14402438 AGA
1 AGA
14402441 TGATTAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.29
11 9 0.38
12 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:14402523 original size:6 final size:6
Alignment explanation
Indices: 14402506--14402545 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
14402496 GTGGGGGGCA
* * *
14402506 AAGTGC ATGTGC AAGTGC AAGTGC ATGTGC AAGTTC AAGT
1 AAGTGC AAGTGC AAGTGC AAGTGC AAGTGC AAGTGC AAGT
14402546 TCAATGCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (6 bp):
AAGTGC
Found at i:14402529 original size:18 final size:18
Alignment explanation
Indices: 14402506--14402545 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
14402496 GTGGGGGGCA
14402506 AAGTGCATGTGCAAGTGC
1 AAGTGCATGTGCAAGTGC
*
14402524 AAGTGCATGTGCAAGTTC
1 AAGTGCATGTGCAAGTGC
14402542 AAGT
1 AAGT
14402546 TCAATGCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (18 bp):
AAGTGCATGTGCAAGTGC
Found at i:14414822 original size:16 final size:16
Alignment explanation
Indices: 14414801--14414831 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14414791 TGTAACACCC
14414801 CCTAACCCCAAACCGG
1 CCTAACCCCAAACCGG
14414817 CCTAACCCCAAACCG
1 CCTAACCCCAAACCG
14414832 TGGCCGAAAC
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:0.32, C:0.52, G:0.10, T:0.06
Consensus pattern (16 bp):
CCTAACCCCAAACCGG
Found at i:14416382 original size:50 final size:50
Alignment explanation
Indices: 14416266--14416556 Score: 411
Period size: 50 Copynumber: 5.8 Consensus size: 50
14416256 GATCATAATA
* * * ** *
14416266 TGCCAAAGCCATGTCCCAGACGTGGTCTTACATTGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
14416317 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
14416367 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
14416417 AGCCCATGCCATGTCCCAAACATGGTCTTACAGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14416467 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14416517 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
14416557 TTTTACCCAA
Statistics
Matches: 212, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
50 180 0.85
51 32 0.15
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14416945 original size:29 final size:31
Alignment explanation
Indices: 14416895--14416952 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
14416885 CCTCGACTCT
* *
14416895 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTGCAAAATTATCATTTTTGCCCCTA
*
14416925 AACTTTTGCATAATTA-CATTTTTGCCCC
1 AACTTTTGCAAAATTATCATTTTTGCCCC
14416953 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (31 bp):
AACTTTTGCAAAATTATCATTTTTGCCCCTA
Found at i:14434652 original size:37 final size:37
Alignment explanation
Indices: 14434611--14434786 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
14434601 TTTGAGTACT
14434611 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
14434648 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
14434685 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
14434722 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
14434759 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
14434787 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:14434858 original size:45 final size:46
Alignment explanation
Indices: 14434749--14434872 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
14434739 GTGATAAGTG
* *
14434749 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
14434795 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
14434840 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
14434873 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:14439085 original size:36 final size:38
Alignment explanation
Indices: 14439038--14439111 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 38
14439028 TACTATTTTA
*
14439038 TAATAACTATCAATTT-TTAAAAAAAT-ATGTCCAAAT
1 TAATAACTATCAATTTACTAAAAAAATAATGTCCAAAT
*
14439074 TAATAATTATCAATTTACTAAAAAAATAAATGTCCAAA
1 TAATAACTATCAATTTACTAAAAAAAT-AATGTCCAAA
14439112 ATTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 15 0.45
37 9 0.27
39 9 0.27
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (38 bp):
TAATAACTATCAATTTACTAAAAAAATAATGTCCAAAT
Found at i:14442134 original size:7 final size:8
Alignment explanation
Indices: 14442099--14442132 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
14442089 TTATCAAAAA
14442099 TAAATTTT
1 TAAATTTT
14442107 TAAATATTTT
1 T-AA-ATTTT
14442117 TAAATTTT
1 TAAATTTT
14442125 TAAATTTT
1 TAAATTTT
14442133 AAGAAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 14 0.58
9 4 0.17
10 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TAAATTTT
Found at i:14449039 original size:21 final size:21
Alignment explanation
Indices: 14449015--14449056 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14449005 AAACCCCCTG
*
14449015 CAATTAAAACC-ATATCATTTC
1 CAATCAAAACCAAT-TCATTTC
*
14449036 CAATCACAACCAATTCATTTC
1 CAATCAAAACCAATTCATTTC
14449057 ACATTCTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (21 bp):
CAATCAAAACCAATTCATTTC
Found at i:14449718 original size:45 final size:45
Alignment explanation
Indices: 14449667--14449770 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
14449657 ATGGTAGCAG
* ** *
14449667 TAACAGTAACAGTGACAGTATTCAACACACAAAGTGTTGAATCTA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * *
14449712 TAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
14449757 TAACAGTAACAGTA
1 TAACAGTAACAGTA
14449771 GTCGGCACAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:14450823 original size:11 final size:11
Alignment explanation
Indices: 14450801--14450850 Score: 59
Period size: 10 Copynumber: 4.5 Consensus size: 11
14450791 CTGTTTCGTC
14450801 TCTTTCTCTGTT
1 TCTTT-TCTGTT
14450813 TCTTTTCTG-T
1 TCTTTTCTGTT
*
14450823 TCTTCTTTTGTT
1 TCTT-TTCTGTT
14450835 TCTTTT-TGTT
1 TCTTTTCTGTT
14450845 TCTTTT
1 TCTTTT
14450851 ATTTTACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
10 15 0.43
11 10 0.29
12 10 0.29
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (11 bp):
TCTTTTCTGTT
Found at i:14450826 original size:22 final size:23
Alignment explanation
Indices: 14450801--14450849 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
14450791 CTGTTTCGTC
14450801 TCTTTC-TCTGTTTCTTTTCTG-T
1 TCTTTCTTCTGTTTCTTTT-TGTT
*
14450823 TC-TTCTTTTGTTTCTTTTTGTT
1 TCTTTCTTCTGTTTCTTTTTGTT
14450845 TCTTT
1 TCTTT
14450850 TATTTTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.22
22 16 0.70
23 2 0.09
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.73
Consensus pattern (23 bp):
TCTTTCTTCTGTTTCTTTTTGTT
Found at i:14451010 original size:18 final size:19
Alignment explanation
Indices: 14450987--14451022 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
14450977 ATTATTTATC
14450987 TAATAAATATCT-TTAAAA
1 TAATAAATATCTATTAAAA
14451005 TAATAAATATCTATTAAA
1 TAATAAATATCTATTAAA
14451023 TATACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATAAATATCTATTAAAA
Found at i:14451031 original size:19 final size:18
Alignment explanation
Indices: 14450991--14451032 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
14450981 TTTATCTAAT
*
14450991 AAATATCTTTAAAATAAT
1 AAATATCTTTAAAATAAC
14451009 AAATATCTATT-AAATATAC
1 AAATATCT-TTAAAATA-AC
14451028 AAATA
1 AAATA
14451033 AAAATATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATATCTTTAAAATAAC
Found at i:14454984 original size:97 final size:99
Alignment explanation
Indices: 14454788--14455071 Score: 428
Period size: 97 Copynumber: 2.9 Consensus size: 99
14454778 GATCATAATA
* ** *
14454788 TGCCAAAGCCATGTCCCAGACGTGGTCTTACATGGGATGTACTCATGTCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGGTGCCCATGCCATGT
* *
14454853 CCCAGACATGGTCTTACGGGGACCTCTCATCTCGG
65 CCCAGACATGGTCTTACAGGGACCTATCATCTCGG
* * *
14454888 TGCCAACGCCATGTCCCAGACATGGTCTTATAT-GGACCTCTCATCTCGGAGCCCATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
14454952 CCA-ACATGGTCTTACAGGGACCTATCATCTCGG
66 CCAGACATGGTCTTACAGGGACCTATCATCTCGG
* * *
14454985 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGGTGCCAATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
*
14455050 CCAGACATGGTCTTACATGGAC
66 CCAGACATGGTCTTACAGGGAC
14455072 TTTTTACCCA
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
97 59 0.35
98 57 0.34
99 21 0.13
100 30 0.18
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (99 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACAGGGACCTATCATCTCGG
Found at i:14455032 original size:50 final size:50
Alignment explanation
Indices: 14454788--14455069 Score: 410
Period size: 49 Copynumber: 5.7 Consensus size: 50
14454778 GATCATAATA
* * ** *
14454788 TGCCAAAGCCATGTCCCAGACGTGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* *
14454839 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
14454888 TGCCAACGCCATGTCCCAGACATGGTCTTATAT-GGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
14454937 AGCCCATGCCATGTCCCA-ACATGGTCTTACA-GGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14454985 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
14455035 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
14455070 ACTTTTTACC
Statistics
Matches: 207, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
48 43 0.21
49 81 0.39
50 55 0.27
51 28 0.14
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14455459 original size:29 final size:31
Alignment explanation
Indices: 14455409--14455466 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
14455399 CCTCGACTCT
* *
14455409 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTGCAAAATTATCATTTTTGCCCCTA
*
14455439 AACTTTTGCATAATTA-CATTTTTGCCCC
1 AACTTTTGCAAAATTATCATTTTTGCCCC
14455467 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (31 bp):
AACTTTTGCAAAATTATCATTTTTGCCCCTA
Found at i:14462496 original size:50 final size:50
Alignment explanation
Indices: 14462380--14462670 Score: 420
Period size: 50 Copynumber: 5.8 Consensus size: 50
14462370 GATCATAATA
* * ** *
14462380 TGCCAAAGCCATGTCCCAGACGTGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
14462431 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
14462481 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
14462531 AGCCCATGCCATGTCCCAAACATGGTCTTACAGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14462581 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14462631 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
14462671 TTTTACCCAA
Statistics
Matches: 213, Mismatches: 27, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
50 180 0.85
51 33 0.15
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14463043 original size:29 final size:29
Alignment explanation
Indices: 14463009--14463064 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
14462999 CCTCGACTCT
*
14463009 AACTTTT-CAAAATTATGATTTTGCCCCTA
1 AACTTTTGCAAAATTACG-TTTTGCCCCTA
*
14463038 AACTTTTGCATAATTACGTTTTGCCCC
1 AACTTTTGCAAAATTACGTTTTGCCCC
14463065 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (29 bp):
AACTTTTGCAAAATTACGTTTTGCCCCTA
Found at i:14471677 original size:50 final size:50
Alignment explanation
Indices: 14471623--14471783 Score: 169
Period size: 50 Copynumber: 3.2 Consensus size: 50
14471613 ATTTGCTGTC
* **
14471623 GTAGCTTTAATCTGTTTCATTGCACTGCAAAAGAAGTAAGATTCGCCGTT
1 GTAGCTTTAATCTGTTTCACTGCACTGCAAGGGAAGTAAGATTCGCCGTT
* * * * ** * *
14471673 GTAGCTTTAGTCTTTTTAACTGCAATGCTGGGGAAGCAAGATTCACCGTT
1 GTAGCTTTAATCTGTTTCACTGCACTGCAAGGGAAGTAAGATTCGCCGTT
* * * * **
14471723 GTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAATAAGATTCGCTATT
1 GTAGCTTTAATCTGTTTCACTGCACTGCAAGGGAAGTAAGATTCGCCGTT
14471773 GTAGCTTTAAT
1 GTAGCTTTAAT
14471784 GTCGGGGAAG
Statistics
Matches: 86, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (50 bp):
GTAGCTTTAATCTGTTTCACTGCACTGCAAGGGAAGTAAGATTCGCCGTT
Found at i:14471845 original size:85 final size:85
Alignment explanation
Indices: 14471702--14471868 Score: 289
Period size: 85 Copynumber: 2.0 Consensus size: 85
14471692 CTGCAATGCT
*
14471702 GGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAATAAGATTC
1 GGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTC
14471767 GCTATTGTAGCTTTAATGTC
66 GCTATTGTAGCTTTAATGTC
* **
14471787 GGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCTTGGGAAATAAGATTC
1 GGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTC
*
14471852 GCTGTTGTAGCTTTAAT
66 GCTATTGTAGCTTTAAT
14471869 CTTTTTTAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (85 bp):
GGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTC
GCTATTGTAGCTTTAATGTC
Found at i:14472192 original size:45 final size:45
Alignment explanation
Indices: 14472112--14472212 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
14472102 TTACAACTTC
* * *
14472112 AGGGAGATAGGATTATCTTGTTCAATCTGCTCCACTGCAACCT-T
1 AGGGAGATAAGATTATCTTGTTCAATCTGCCCCACTGCAACCTCA
* *
14472156 AGGGAGATAAGATTTATCATT-TTCGATCTGCCCCACTTCAACCTCA
1 AGGGAGATAAGA-TTATC-TTGTTCAATCTGCCCCACTGCAACCTCA
14472202 AGGG-GATAAGA
1 AGGGAGATAAGA
14472213 CCTGCTTACT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
44 11 0.22
45 32 0.65
46 6 0.12
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (45 bp):
AGGGAGATAAGATTATCTTGTTCAATCTGCCCCACTGCAACCTCA
Found at i:14472710 original size:44 final size:44
Alignment explanation
Indices: 14472662--14472910 Score: 356
Period size: 44 Copynumber: 5.7 Consensus size: 44
14472652 TTCAACCTGC
* * * *
14472662 TCCACTGTTGCTCAAGGAGCTAGGACTTACAATCTTCTACCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* *
14472706 TCCACTGCTGTTCAGGGAGCTAGGACTTACAACCTTCCACTTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* * *
14472750 TCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCGCCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* *
14472794 TCCACTGCTGTTCAGGGAGCTAGGACTTACAGTCTTCTACCTAT
1 TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
* * *
14472838 TCCACTGCTGGTCAGGGAGCTCA-GATTTACAATCTTCCGCCTAT
1 TCCACTGCTGTTCAGGGAGCT-AGGACTTACAATCTTCCACCTAT
14472882 TCCACTGCTGTTCAGGGAGCTAGGACTTA
1 TCCACTGCTGTTCAGGGAGCTAGGACTTA
14472911 TAGTTTCACT
Statistics
Matches: 180, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
43 1 0.01
44 178 0.99
45 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (44 bp):
TCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
Found at i:14472811 original size:88 final size:88
Alignment explanation
Indices: 14472662--14472910 Score: 392
Period size: 88 Copynumber: 2.8 Consensus size: 88
14472652 TTCAACCTGC
* * * * **
14472662 TCCACTGTTGCTCAAGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGCT
1 TCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
*
14472727 AGGACTTACAACCTTCCACTTAT
66 AGGACTTACAACCTTCCACCTAT
14472750 TCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
1 TCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
** *
14472815 AGGACTTACAGTCTTCTACCTAT
66 AGGACTTACAACCTTCCACCTAT
14472838 TCCACTGCTGGTCAGGGAGCTCA-GATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGC
1 TCCACTGCTGGTCAGGGAGCT-AGGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGC
14472902 TAGGACTTA
65 TAGGACTTA
14472911 TAGTTTCACT
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
88 149 0.99
89 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (88 bp):
TCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCCGCCTATTCCACTGCTGTTCAGGGAGCT
AGGACTTACAACCTTCCACCTAT
Found at i:14480628 original size:9 final size:9
Alignment explanation
Indices: 14480614--14480638 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14480604 GAAGCAATGA
14480614 AAAAAAAAG
1 AAAAAAAAG
14480623 AAAAAAAAG
1 AAAAAAAAG
14480632 AAAAAAA
1 AAAAAAA
14480639 TTAAAGCCAC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:14480936 original size:21 final size:22
Alignment explanation
Indices: 14480897--14480938 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
14480887 GTAGGTGTGG
14480897 CGTACGGATGGTGGACGTGGCA
1 CGTACGGATGGTGGACGTGGCA
14480919 CGTACGGA-GGTGCG-CGTGGC
1 CGTACGGATGGTG-GACGTGGC
14480939 TGGGGAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.14, C:0.21, G:0.48, T:0.17
Consensus pattern (22 bp):
CGTACGGATGGTGGACGTGGCA
Found at i:14487134 original size:27 final size:27
Alignment explanation
Indices: 14487104--14487178 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
14487094 AGAAGGCTTG
*
14487104 GCGAGCTAGTATATGCCAGCAGGTCTA
1 GCGAGCTAGTATATGCCAGCAGGTCCA
* * * *
14487131 GCGAGATGGTATACGCTAGCAGGTCCA
1 GCGAGCTAGTATATGCCAGCAGGTCCA
* *
14487158 ACGAGACGA-TATATGCCAGCA
1 GCGAG-CTAGTATATGCCAGCA
14487179 AGCTTGGCAA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (27 bp):
GCGAGCTAGTATATGCCAGCAGGTCCA
Found at i:14487726 original size:27 final size:27
Alignment explanation
Indices: 14487690--14487769 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
14487680 AGCAATAAAA
* *
14487690 ATTCTTACAGAGTACGCCACAAAGGTT
1 ATTCATACAGAGTACGCCACAAAGGTG
*
14487717 ATAT-ATACAGAGTATGCCACAAAGGTG
1 AT-TCATACAGAGTACGCCACAAAGGTG
*
14487744 ATTCATATAGAGTACGCCACAAAGGT
1 ATTCATACAGAGTACGCCACAAAGGT
14487770 AGACAAGATG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
ATTCATACAGAGTACGCCACAAAGGTG
Found at i:14488711 original size:17 final size:17
Alignment explanation
Indices: 14488656--14488712 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 17
14488646 ATAAATATTA
14488656 ATAAATGTCTTGCAATC
1 ATAAATGTCTTGCAATC
14488673 ATAATTATCCAG-CTTGGCAATC
1 ATAA--AT---GTCTT-GCAATC
14488695 ATAAATGTCTTGCAATC
1 ATAAATGTCTTGCAATC
14488712 A
1 A
14488713 CAATATTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
17 12 0.36
18 3 0.09
19 2 0.06
20 2 0.06
21 3 0.09
22 11 0.33
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (17 bp):
ATAAATGTCTTGCAATC
Found at i:14497037 original size:21 final size:20
Alignment explanation
Indices: 14497009--14497050 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
14496999 GATTCCATAA
14497009 TTATTATTTTATTAAATTTT
1 TTATTATTTTATTAAATTTT
* *
14497029 TTATATATTTTTTTAGATTTT
1 TTAT-TATTTTATTAAATTTT
14497050 T
1 T
14497051 AAAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATTATTTTATTAAATTTT
Found at i:14497059 original size:23 final size:23
Alignment explanation
Indices: 14497033--14497077 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14497023 AATTTTTTAT
* *
14497033 ATATTTTTTTAGATTTTTAAAAA
1 ATATTTATATAGATTTTTAAAAA
*
14497056 ATATTTATATATATTTTTAAAA
1 ATATTTATATAGATTTTTAAAA
14497078 TACAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTTATATAGATTTTTAAAAA
Found at i:14497090 original size:24 final size:23
Alignment explanation
Indices: 14497045--14497098 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
14497035 ATTTTTTTAG
*
14497045 ATTTTTAAAAAATATTTATATAT
1 ATTTTTAAAAAAAATTTATATAT
*
14497068 ATTTTTAAAATACAAATTTTATAAAT
1 ATTTTTAAAA-A-AAA-TTTATATAT
14497094 ATTTT
1 ATTTT
14497099 GAATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 2 0.08
26 13 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTTAAAAAAAATTTATATAT
Found at i:14497105 original size:18 final size:19
Alignment explanation
Indices: 14497082--14497143 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
14497072 TTAAAATACA
*
14497082 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
*
14497100 AATTTTAAAAATTATTTTCA
1 AATTTTAAAAATTATTTT-G
* *
14497120 AATTTTGAAAATTACTTTG
1 AATTTTAAAAATTATTTTG
14497139 -ATTTT
1 AATTTT
14497144 TTTTTGTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 15 0.41
19 6 0.16
20 16 0.43
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:14497125 original size:20 final size:20
Alignment explanation
Indices: 14497080--14497133 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
14497070 TTTTAAAATA
*
14497080 CAAATTTTATAAA-TATTTT
1 CAAATTTTAAAAATTATTTT
*
14497099 -GAATTTTAAAAATTATTTT
1 CAAATTTTAAAAATTATTTT
*
14497118 CAAATTTTGAAAATTA
1 CAAATTTTAAAAATTA
14497134 CTTTGATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 10 0.34
19 6 0.21
20 13 0.45
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
CAAATTTTAAAAATTATTTT
Found at i:14497325 original size:9 final size:9
Alignment explanation
Indices: 14497309--14497338 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
14497299 ATTCGAGTTG
14497309 ACTCGAATA
1 ACTCGAATA
*
14497318 ATTCGAATA
1 ACTCGAATA
14497327 ACTCGAATA
1 ACTCGAATA
14497336 ACT
1 ACT
14497339 TGATTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
ACTCGAATA
Found at i:14498550 original size:42 final size:42
Alignment explanation
Indices: 14498439--14498611 Score: 179
Period size: 43 Copynumber: 4.1 Consensus size: 42
14498429 TCCCGAGGTG
* * *
14498439 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCG-ATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATA
*
14498480 TGAGATTACGTATAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTACATATAAGACCATGTCTGGGACATTGGCATCGTATA
* * * * *
14498524 TGATTTCATATAAGACCCTGTTTGGGACAGTGGCATCGATATG
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCG-TATA
* * * * *
14498567 TGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTATA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATA
14498608 TGAT
1 TGAT
14498612 ATATGTGTTT
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 8 0.07
42 39 0.36
43 58 0.53
44 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTACATATAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:14498552 original size:85 final size:84
Alignment explanation
Indices: 14498439--14498611 Score: 229
Period size: 85 Copynumber: 2.0 Consensus size: 84
14498429 TCCCGAGGTG
* * * * *
14498439 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACGTATAAGACCATGTC
1 TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCGATATGAGATAACATATAAGACCATATC
14498504 TGGGACATTGGCATCGTATA
66 TGGGACA-TGGCATCGTATA
* * * * *
14498524 TGATTTCATATAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATATC
1 TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCGATATGAGATAACATATAAGACCATATC
* *
14498589 TGGGATATGGCATTGTATA
66 TGGGACATGGCATCGTATA
14498608 TGAT
1 TGAT
14498612 ATATGTGTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
84 15 0.20
85 61 0.80
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (84 bp):
TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCGATATGAGATAACATATAAGACCATATC
TGGGACATGGCATCGTATA
Found at i:14501655 original size:99 final size:98
Alignment explanation
Indices: 14501575--14501770 Score: 329
Period size: 99 Copynumber: 2.0 Consensus size: 98
14501565 TTAGAAACTC
* *
14501575 AAAAAAATATTTGGGAAACAACCAATAGTAAATTAGTAAATAATTAGATAAAATATGAATTTTAA
1 AAAAAAATATTTGGAAAACAACCAATAGTAAATTAGTAAAAAATTAGATAAAATATGAATTTTAA
14501640 GAAAATAAATTATAATATTAAATTGAAAAAAAGA
66 GAAAATAAATTATAATA-TAAATTGAAAAAAAGA
*
14501674 AAAAAAATATTTGGAAAACAACCAATAGTAAATTAGTAAAAAATTAGATAAAATATTAATTTTAA
1 AAAAAAATATTTGGAAAACAACCAATAGTAAATTAGTAAAAAATTAGATAAAATATGAATTTTAA
* *
14501739 GAAAGTAGATTATAATATTAAATTGAAAAAAA
66 GAAAATAAATTATAATA-TAAATTGAAAAAAA
14501771 AGGTAAAGTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.29
Consensus pattern (98 bp):
AAAAAAATATTTGGAAAACAACCAATAGTAAATTAGTAAAAAATTAGATAAAATATGAATTTTAA
GAAAATAAATTATAATATAAATTGAAAAAAAGA
Found at i:14508152 original size:17 final size:18
Alignment explanation
Indices: 14508130--14508163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14508120 TTGTTTATAA
14508130 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
14508147 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
14508164 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:14510570 original size:2 final size:2
Alignment explanation
Indices: 14510563--14510600 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14510553 GAGACAGGGT
14510563 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14510601 AGAAATTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14511014 original size:41 final size:41
Alignment explanation
Indices: 14510951--14511059 Score: 173
Period size: 41 Copynumber: 2.7 Consensus size: 41
14510941 TTTCGGGACA
* * *
14510951 TTAGCGGCCTTTTTAGAAAAGCGCCGCTAATGCTCTGGTTT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
14510992 TTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
*
14511033 TTAGCAGCGTTTTTGGAAAAGCGCCGC
1 TTAGCGGCGTTTTTGGAAAAGCGCCGC
14511060 AAAAACATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCT
Found at i:14511451 original size:22 final size:21
Alignment explanation
Indices: 14511402--14511479 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
14511392 TATGATTTAG
*
14511402 AGTTTAAGGTTTA-AGAGTTACT
1 AGTTTAAGGTTTATGGA-TTA-T
*
14511424 ATTTTAAGGTTTATGGATTAT
1 AGTTTAAGGTTTATGGATTAT
* * *
14511445 GAGTTTAGGGGTTATGGTTTAT
1 -AGTTTAAGGTTTATGGATTAT
*
14511467 AGTTTATGGTTTA
1 AGTTTAAGGTTTA
14511480 AGATTTAGGG
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 12 0.26
22 32 0.70
23 2 0.04
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (21 bp):
AGTTTAAGGTTTATGGATTAT
Found at i:14511471 original size:7 final size:7
Alignment explanation
Indices: 14511426--14511514 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
14511416 GAGTTACTAT
*
14511426 TTTAAGG
1 TTTATGG
14511433 TTTATGG
1 TTTATGG
*
14511440 ATTATGAG
1 TTTATG-G
*
14511448 TTTAGGG
1 TTTATGG
*
14511455 GTTATGG
1 TTTATGG
*
14511462 TTTATAG
1 TTTATGG
14511469 TTTATGG
1 TTTATGG
* *
14511476 TTTAAGA
1 TTTATGG
*
14511483 TTTAGGG
1 TTTATGG
*
14511490 TTTAAGG
1 TTTATGG
* **
14511497 GTTGCGG
1 TTTATGG
14511504 TTTATGG
1 TTTATGG
14511511 TTTA
1 TTTA
14511515 ATGTTATAGG
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:14511553 original size:21 final size:21
Alignment explanation
Indices: 14511529--14511592 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
14511519 TATAGGTTAA
14511529 GGGTTGAGGTTTAAGGTTTAG
1 GGGTTGAGGTTTAAGGTTTAG
14511550 GGGTTGAGAG-TTAAGAG-TTAG
1 GGGTTGAG-GTTTAAG-GTTTAG
* *
14511571 GGGTTTAGGATTTAGGGTTTAG
1 GGGTTGAGG-TTTAAGGTTTAG
14511593 ATTAATTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
22 10 0.28
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (21 bp):
GGGTTGAGGTTTAAGGTTTAG
Found at i:14511591 original size:7 final size:7
Alignment explanation
Indices: 14511447--14511592 Score: 50
Period size: 7 Copynumber: 20.9 Consensus size: 7
14511437 TGGATTATGA
14511447 GTTTAGG
1 GTTTAGG
* *
14511454 GGTTATG
1 GTTTAGG
**
14511461 GTTTATA
1 GTTTAGG
*
14511468 GTTTATG
1 GTTTAGG
*
14511475 GTTTAAG
1 GTTTAGG
*
14511482 ATTTAGG
1 GTTTAGG
14511489 GTTTAAGG
1 GTTT-AGG
14511497 G-TT-GCG
1 GTTTAG-G
*
14511503 GTTTATG
1 GTTTAGG
**
14511510 GTTTAAT
1 GTTTAGG
14511517 GTTATA-G
1 GTT-TAGG
*
14511524 GTTAAGG
1 GTTTAGG
*
14511531 GTTGA-G
1 GTTTAGG
*
14511537 GTTTAAG
1 GTTTAGG
14511544 GTTTAGGG
1 GTTTA-GG
* *
14511552 GTTGAGA
1 GTTTAGG
* *
14511559 GTTAAGA
1 GTTTAGG
14511566 G-TTAGGG
1 GTTTA-GG
14511573 GTTTAGG
1 GTTTAGG
*
14511580 ATTTAGG
1 GTTTAGG
14511587 GTTTAG
1 GTTTAG
14511593 ATTAATTAGT
Statistics
Matches: 105, Mismatches: 24, Indels: 20
0.70 0.16 0.13
Matches are distributed among these distances:
5 1 0.01
6 10 0.10
7 80 0.76
8 14 0.13
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:14511719 original size:16 final size:17
Alignment explanation
Indices: 14511700--14511738 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
14511690 AAATTCTTTA
14511700 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
14511716 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
14511733 TAAATA
1 TAAATA
14511739 TAGTGTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:14511949 original size:21 final size:22
Alignment explanation
Indices: 14511925--14511965 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14511915 ATGGTTTATT
14511925 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
14511946 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
14511966 GGGGTTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:14511968 original size:8 final size:8
Alignment explanation
Indices: 14511946--14511974 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14511936 GGGATTTAAA
14511946 GTTTAGGG
1 GTTTAGGG
14511954 G-TTAGGG
1 GTTTAGGG
14511961 GTTTAGGG
1 GTTTAGGG
14511969 GTTTAG
1 GTTTAG
14511975 AGTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (8 bp):
GTTTAGGG
Found at i:14512417 original size:39 final size:39
Alignment explanation
Indices: 14512374--14512458 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
14512364 AATAAAATCA
*
14512374 CTAAAAATAAGCATTAGCGGCGCTTTTCGAAAAACGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
* * * *
14512413 CTAAAAATGAGCATTAGTGGCGTTTTTAGAAAAGCGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
*
14512452 CAAAAAA
1 CTAAAAA
14512459 ACTAGGCCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (39 bp):
CTAAAAATAAGCATTAGCGGCGCTTTTAGAAAAACGCCG
Found at i:14513264 original size:38 final size:38
Alignment explanation
Indices: 14513184--14513265 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
14513174 GGTTACAAAC
* * * *
14513184 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
14513222 TTTATCTGCTTTTTACATGTTTATCTCACAAA-GTTCGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTC-G
14513260 TTTATC
1 TTTATC
14513266 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 3 0.08
38 36 0.92
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.55
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
Found at i:14517475 original size:43 final size:43
Alignment explanation
Indices: 14517428--14517725 Score: 407
Period size: 43 Copynumber: 6.9 Consensus size: 43
14517418 TTGTTTAAGT
** * *
14517428 GTCGCTAAAGGTTGTGGTTTTTAGCGGCGTTTTTGGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* * *
14517471 GTCGCTAAAGGTCAGGGTCTTTAGTGGCGTTTGTCGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* * *
14517514 GTCGCTAAAAGTCATCGTCTTTAGCGGCGTTTGTCGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* *
14517557 GCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* ***
14517600 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCAAAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
* * * *
14517643 GTCCCTAAAGATCATGGTCTTTAGCGTCATTTGTGGGAAAAGC
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
*
14517686 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAA
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAA
14517726 GCGCCGCAAA
Statistics
Matches: 222, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 222 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGC
Found at i:14517786 original size:22 final size:21
Alignment explanation
Indices: 14517752--14517794 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
14517742 TAGCGGCGCT
* *
14517752 AAAAACGCTGCTAAAGGCCTA
1 AAAAACGCCGCTAAAAGCCTA
14517773 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAA-CGCCGCTAAAAGCCTA
14517795 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (21 bp):
AAAAACGCCGCTAAAAGCCTA
Found at i:14521864 original size:51 final size:51
Alignment explanation
Indices: 14521797--14521989 Score: 214
Period size: 51 Copynumber: 3.8 Consensus size: 51
14521787 TAATGATGTT
* * * *
14521797 CGGTTCACATAGTAGCCTGCACATAGTACTATACATGTGACAATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAATTACCATC
* * *
14521848 CGATACACGTAGTAGCCTGCACGTAGTACTACACACGTGATCGAA--ACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-C-AATTACCATC
* * * * * *
14521899 TGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGAC--TTATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAATTACCA-TC
14521949 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
14521990 CATCACTTTC
Statistics
Matches: 116, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 72 0.62
52 1 0.01
53 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAATTACCATC
Found at i:14521981 original size:101 final size:101
Alignment explanation
Indices: 14521804--14521988 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
14521794 GTTCGGTTCA
* *
14521804 CATAGTAGCCTGCACATAGTACTATACATGTGACAATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGAC-ATTACCATCCGATACACGTAGTAGCCTGCA
*
14521869 CGTAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* *
14521906 CATAGTAGCCTGCACATAGTACTACACATGCGAC-TTATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACATTACCA-TCCGATACACGTAGTAGCCTGCA
14521970 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
14521989 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 5 0.06
101 40 0.52
102 32 0.42
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACATTACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:14525183 original size:2 final size:2
Alignment explanation
Indices: 14525176--14525204 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14525166 TTGCGTTGTT
14525176 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14525205 AGGTAATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14528080 original size:39 final size:39
Alignment explanation
Indices: 14528014--14528118 Score: 149
Period size: 39 Copynumber: 2.7 Consensus size: 39
14528004 GTATCGAGCC
* * *
14528014 TTGAGCCTAACAAGCCTCATG-CTGGTGACTGATCAGGCT
1 TTGAGCCTAACAGGCTTCGTGTC-GGTGACTGATCAGGCT
* *
14528053 TTGAGCCTAGCAGGCTTCGTGTCGGTGACTTATCAGGCT
1 TTGAGCCTAACAGGCTTCGTGTCGGTGACTGATCAGGCT
14528092 TTGAGCCTAACAGGCTTCGTGTCGGTG
1 TTGAGCCTAACAGGCTTCGTGTCGGTG
14528119 TTTATCGAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 58 0.98
40 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.29
Consensus pattern (39 bp):
TTGAGCCTAACAGGCTTCGTGTCGGTGACTGATCAGGCT
Found at i:14529502 original size:71 final size:72
Alignment explanation
Indices: 14529427--14529666 Score: 191
Period size: 71 Copynumber: 3.3 Consensus size: 72
14529417 CACATGATAT
** **
14529427 ATCTCAGCCAAT-GATAAAGT-ATAATGTGATGCTGCTCACTCAAGCTGTCGAGAATCTGCAACA
1 ATCTCAGCCAATCGATAAA-TAATAATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCCCAACA
14529490 CATGTTGG
65 CATGTTGG
* * * **
14529498 ATCTCAACC-ATCGCTAAATAATGATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCCCAACTT
1 ATCTCAGCCAATCGATAAATAATAATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCCCAACAC
14529562 ATGTTGG
66 ATGTTGG
* * * * * * * *
14529569 ATCTTAGCCATAACAGTTCGTTATATAATAATACGATGTTGCTCACCCAAGCTATCGAGAATCCG
1 ATCTCAGCC---A-A--TCGATAAATAATAATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCC
*** *
14529634 CAATTTATGTTGA
60 CAACACATGTTGG
14529647 ATCTCAGCC-ATCGAATAAAT
1 ATCTCAGCCAATCG-ATAAAT
14529667 CTCTATATCA
Statistics
Matches: 135, Mismatches: 24, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
70 3 0.02
71 67 0.50
72 4 0.03
73 1 0.01
76 1 0.01
78 59 0.44
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (72 bp):
ATCTCAGCCAATCGATAAATAATAATCCGATGCTGCTCACTCAAGCTGTCGAGAATCCCCAACAC
ATGTTGG
Found at i:14531227 original size:21 final size:21
Alignment explanation
Indices: 14531166--14531227 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
14531156 CCTTCATTCC
14531166 TTCATTTCCTCGGTTCCCTC-
1 TTCATTTCCTCGGTTCCCTCT
* * *
14531186 TTCAATTAT-CGCAGTT--TTCT
1 TTC-ATT-TCCTCGGTTCCCTCT
14531206 TTCATTTCCTCGGTTCCCTCT
1 TTCATTTCCTCGGTTCCCTCT
14531227 T
1 T
14531228 CTCCGTATCC
Statistics
Matches: 30, Mismatches: 6, Indels: 11
0.64 0.13 0.23
Matches are distributed among these distances:
18 1 0.03
19 10 0.33
20 6 0.20
21 12 0.40
22 1 0.03
ACGTcount: A:0.10, C:0.32, G:0.10, T:0.48
Consensus pattern (21 bp):
TTCATTTCCTCGGTTCCCTCT
Found at i:14534193 original size:34 final size:35
Alignment explanation
Indices: 14534136--14534202 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14534126 CAAACACCAG
*
14534136 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
*
14534171 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAA
14534203 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
Found at i:14534201 original size:14 final size:15
Alignment explanation
Indices: 14534175--14534219 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
14534165 AAAAGTAAAA
*
14534175 CATTTT-CTAGAAAT
1 CATTTTACTGGAAAT
*
14534189 CATTTTAC-GGAAAA
1 CATTTTACTGGAAAT
14534203 CATTTTACTGGAAAT
1 CATTTTACTGGAAAT
14534218 CA
1 CA
14534220 AACAGACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (15 bp):
CATTTTACTGGAAAT
Found at i:14542736 original size:15 final size:16
Alignment explanation
Indices: 14542699--14542744 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
14542689 ATAATAGTTT
14542699 ATATTATATTATAAAA
1 ATATTATATTATAAAA
*
14542715 ATATTATTTTAT-AAA
1 ATATTATATTATAAAA
* *
14542730 ATTTTATATAATAAA
1 ATATTATATTATAAA
14542745 TATAAAGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTATATTATAAAA
Found at i:14547273 original size:42 final size:42
Alignment explanation
Indices: 14547213--14547361 Score: 156
Period size: 42 Copynumber: 3.5 Consensus size: 42
14547203 CCGAAGGCTG
** * * *
14547213 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTTGTAAGAGCTAAACAGAAACCCATAAGGGTTA
*
14547255 AACGGAAGCTTGTAAGAGCTAAACAGAAACCCATAAGGGTTA
1 AACAGAAGCTTGTAAGAGCTAAACAGAAACCCATAAGGGTTA
** * * * *
14547297 AACAGAAGC-TCAATAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTTGTA-AGAGCTAAACAGAAACCCATAAGGGTTA
* *
14547339 AACAGAAGCTCGTGAGAGCTAAA
1 AACAGAAGCTTGTAAGAGCTAAA
14547362 TGGAAAGTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
41 2 0.02
42 85 0.98
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTTGTAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:14547361 original size:21 final size:21
Alignment explanation
Indices: 14547213--14547361 Score: 102
Period size: 21 Copynumber: 7.1 Consensus size: 21
14547203 CCGAAGGCTG
*
14547213 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * * *
14547234 AATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* **
14547255 AACGGAAGCTTGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * *
14547276 AACAGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
*
14547297 AACAGAAGCTCA-ATAGAGCTG
1 AACAGAAGCTCATA-AGAGCTA
* * *
14547318 AACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
14547339 AACAGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
14547360 AA
1 AA
14547362 TGGAAAGTAA
Statistics
Matches: 89, Mismatches: 37, Indels: 4
0.68 0.28 0.03
Matches are distributed among these distances:
20 1 0.01
21 87 0.98
22 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:14553080 original size:21 final size:21
Alignment explanation
Indices: 14553042--14553082 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14553032 TATTTTTAAT
14553042 AAATATATTATTTGAAATTTG
1 AAATATATTATTTGAAATTTG
*
14553063 AAAT-TATTATTGTTAAATTT
1 AAATATATTATT-TGAAATTT
14553083 TATTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
AAATATATTATTTGAAATTTG
Found at i:14553146 original size:29 final size:29
Alignment explanation
Indices: 14553084--14553148 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
14553074 GTTAAATTTT
*
14553084 ATTATTAAAATAAAATTGTAGTATTAAAA
1 ATTATTAAAATAAAAATGTAGTATTAAAA
14553113 ATTATTAAAATAATAAAT-TA-TATTAATAA
1 ATTATTAAAATAA-AAATGTAGTATTAA-AA
*
14553142 TTTATTA
1 ATTATTA
14553149 TATTATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 6 0.19
29 23 0.72
30 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTATTAAAATAAAAATGTAGTATTAAAA
Found at i:14554463 original size:7 final size:7
Alignment explanation
Indices: 14554451--14554484 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
14554441 CTAGAGCAGT
14554451 GTAAAGA
1 GTAAAGA
14554458 GTAAAGA
1 GTAAAGA
14554465 GTAAAGA
1 GTAAAGA
14554472 GTAAAGA
1 GTAAAGA
14554479 GTAAAG
1 GTAAAG
14554485 GAGTGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.15
Consensus pattern (7 bp):
GTAAAGA
Found at i:14559775 original size:8 final size:8
Alignment explanation
Indices: 14559762--14559799 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
14559752 AAATAAAGAA
14559762 AAATATAT
1 AAATATAT
14559770 AAATATAT
1 AAATATAT
14559778 AAATATAT
1 AAATATAT
*
14559786 ATAT-TAT
1 AAATATAT
14559793 AACATAT
1 AA-ATAT
14559800 GTGTTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 4 0.15
8 21 0.81
9 1 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (8 bp):
AAATATAT
Found at i:14560096 original size:3 final size:3
Alignment explanation
Indices: 14560077--14560115 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
14560067 GCGCATGAAT
* *
14560077 ATA AAA ATA AAA ATA ATA ATAA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT
14560116 GATACAAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:14560102 original size:16 final size:16
Alignment explanation
Indices: 14560077--14560114 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
14560067 GCGCATGAAT
14560077 ATAA-AAATAAAAATA
1 ATAATAAATAAAAATA
*
14560092 ATAATAAATAATAATA
1 ATAATAAATAAAAATA
14560108 ATAATAA
1 ATAATAA
14560115 TGATACAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAATAAATAAAAATA
Found at i:14560598 original size:23 final size:22
Alignment explanation
Indices: 14560555--14560612 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
14560545 AAAAGGTATC
* *
14560555 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
14560576 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
14560599 TGCATATCATATCT
1 TACAAATCATATCT
14560613 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:14561191 original size:45 final size:45
Alignment explanation
Indices: 14561134--14561607 Score: 294
Period size: 45 Copynumber: 10.8 Consensus size: 45
14561124 TTGTTCATTT
* ** * *
14561134 AGTCTGCCCCACTGCAGTTTCAAGGG-GATAAGACTTGATTTCTTG
1 AGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTCGCTTTCTTG
14561179 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
* *
14561224 GGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
* * * ** * *
14561269 GGTCTGTTCCACTGTAACTTCAATGAGATAAGAC-C-CAATGC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGC-TTTCTTG
* *
14561311 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTG-TGATT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTC-GCT--TTCTTG
* ** * ** *
14561353 AATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
* * * *
14561398 AGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGCTTTCTTG
* * * * *
14561442 AGTCTGCTCCATTGCAACTTTAGGGAGATAAGACTAG-ATGC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
* * *
14561484 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGC-TT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGCTTTCTTG
* * * ** * *
14561526 AATCTGCTCCACTGCGACTTCAGGGAGATAGGA-T-TATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-TCTTG
* *
14561570 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGC
14561608 CATCTTCAGT
Statistics
Matches: 336, Mismatches: 60, Indels: 65
0.73 0.13 0.14
Matches are distributed among these distances:
40 41 0.12
41 14 0.04
42 8 0.02
43 16 0.05
44 113 0.34
45 144 0.43
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
Found at i:14561372 original size:44 final size:44
Alignment explanation
Indices: 14561311--14561603 Score: 221
Period size: 44 Copynumber: 6.8 Consensus size: 44
14561301 ACCCAATGCG
* *
14561311 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
** **
14561354 ATCCACTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGAT-TTTA
* * * *
14561399 GTCTGC-CTCACTACAACTTCA-GGAGGATAAG-GCT-TGCTTACTTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TTA
* * * * ***
14561443 GTCTGCTCCATTGCAACTTTAGGGAGATAAGA-CT-AGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * *
14561484 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGCTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
* * * **
14561527 ATCTGCTCCACTGCGACTTCAGGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTA
14561571 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
14561604 TCGCCATCTT
Statistics
Matches: 193, Mismatches: 41, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
40 20 0.10
41 8 0.04
42 2 0.01
43 17 0.09
44 116 0.60
45 30 0.16
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTA
Found at i:14561381 original size:84 final size:84
Alignment explanation
Indices: 14561271--14561555 Score: 285
Period size: 84 Copynumber: 3.3 Consensus size: 84
14561261 CTTTCTTGGG
* * **
14561271 TCTGTTCCACTGTAACTTCAATGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGAGAG
*
14561336 ATAAGATCTGTGATTTTAA
66 ATAAGATCTGTGCTTTTAA
** * * *
14561355 TCCACTCCACTGCAACTTCAGGGAGATAAGATTCGCC-AT-CTTTAGTCTGCCTCACTACAACTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-CCAATGC--GA-TCTG-CTCTCTGCAACTT
* *
14561418 CAG-GAGGATAAG-GCT-TGCTTACTTAG
59 CAGAGA-GATAAGATCTGTGCTT--TTAA
* * *
14561444 TCTGCTCCATTGCAACTTTAGGGAGATAAGA-CTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCA-ATGCGATCTGCTCTCTGCAACTTCAGAGA
14561508 GATAAGATCTGTGCTTTTAA
65 GATAAGATCTGTGCTTTTAA
*
14561528 TCTGCTCCACTGCGACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
14561556 GGATTATTGG
Statistics
Matches: 160, Mismatches: 25, Indels: 32
0.74 0.12 0.15
Matches are distributed among these distances:
84 73 0.46
85 10 0.06
86 9 0.06
87 9 0.06
88 9 0.06
89 50 0.31
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (84 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGCTTTTAA
Found at i:14561504 original size:173 final size:174
Alignment explanation
Indices: 14561185--14561607 Score: 500
Period size: 173 Copynumber: 2.4 Consensus size: 174
14561175 CTTGAGTCTG
* ** * **
14561185 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGTAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTGAGTCTGCTCCACTACAACTTCAGGGA
* * * * *
14561250 GATAAGACTCGCTTTCTTGGGTCTGTTCCACTGTAACTTCAATGAGATAAGACCCAATGCGATCT
66 GATAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACCCAATGCGATCT
14561315 GCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCA
131 GCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCA
*
14561359 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTCTGC-CTCACTACAACTTCA-GG
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTGAGTCTGCTC-CACTACAACTTCAGGG
* * * * * *
14561422 AGGATAAGGCTTGCTTACTT-AGTCTGCTCCATTGCAACTTTAGGGAGATAAGA-CTAGATGCGA
65 A-GATAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACCCA-ATGCGA
* **
14561485 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGCTTTTAATCTG
128 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCA
* * * * * *
14561532 CTCCACTGCGACTTCAGGGAGATAGGATTATTGGC-T-TT-AATCTGCTCCACTGCAACTTCAGG
1 CTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCATCTTGAGTCTGCTCCACTACAACTTCAGG
*
14561594 GAGATAAGATTCGC
64 GAGATAAGACTCGC
14561608 CATCTTCAGT
Statistics
Matches: 212, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
172 29 0.14
173 111 0.52
174 69 0.33
175 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (174 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTGAGTCTGCTCCACTACAACTTCAGGGA
GATAAGACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACCCAATGCGATCT
GCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCA
Found at i:14562016 original size:44 final size:44
Alignment explanation
Indices: 14561968--14562089 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
14561958 ATCTGCTATT
* * *
14561968 TTCAACCTACTCCACTGTTGCTCAGGAAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTT-ACAATC
* *
14562012 TTCAACCTATTCCATTGCTGAC-CAGGGAGATATGACTTACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGACTTACAATC
14562056 TTCAACCTATTCCACTGCTG-TCCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGCT-CAGGGAGATAGG
14562090 GCTGGGGTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
44 64 0.96
45 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTTACAATC
Found at i:14562151 original size:88 final size:88
Alignment explanation
Indices: 14562089--14562666 Score: 823
Period size: 88 Copynumber: 6.6 Consensus size: 88
14562079 AGGGAGATAG
* * * ** *
14562089 GGCTGGGGTCATCGATCTGCTTTGCTGTCGGTGCAGGAAGATAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
14562154 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
14562177 GACTGGTGTCTTCAATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* *
14562242 TCCGCTACAACCCAGAGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * **
14562265 GGTTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* * *
14562330 TTCGCTACAACCCAGAGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
14562353 GGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAATCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* *
14562418 TCTGCTGCAACCCAGGGAGGGAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
14562441 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
*
14562506 TCCGTTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * *
14562529 GGCTAGTGTCTTCGATCTGCTTCGCTGGCAGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* *
14562594 TCCGCTACAACCCAGGGAAGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
14562617 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAAGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
14562667 TTATCTTCAC
Statistics
Matches: 436, Mismatches: 54, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 436 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:14562263 original size:44 final size:43
Alignment explanation
Indices: 14562131--14562353 Score: 117
Period size: 44 Copynumber: 5.1 Consensus size: 43
14562121 GCAGGAAGAT
*
14562131 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCA-GGAGGC
* * * * * * * ****
14562175 AAGA-CTGGTGTCTTCAATCTGCTTCACTATCGGTGCAGGAAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCTA-CAACCCAGG-AGGC
*
14562219 AAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGAGAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAG-GAGGC
* * * * ** * * * ***
14562263 AAGGT-TGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCT-ACAACCCAGG-AGGC
* * *
14562307 AAGATCTGCTATTTTTAATCTGTTTCGCTACAACCCAGAGAGGC
1 AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAG-GAGGC
14562351 AAG
1 AAG
14562354 GCTGGTGTCT
Statistics
Matches: 123, Mismatches: 48, Indels: 16
0.66 0.26 0.09
Matches are distributed among these distances:
43 35 0.28
44 52 0.42
45 36 0.29
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGAGGC
Done.