Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 196 of 427
Found at i:54588474 original size:21 final size:22
Alignment explanation
Indices: 54588429--54588483 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
54588419 TGTAGGGTTC
*
54588429 ACATGCCCGTGTGGTCCAAGGG
1 ACATGCCCGTGTGGACCAAGGG
**
54588451 ACATGCCCGTGT-GACCCTGGG
1 ACATGCCCGTGTGGACCAAGGG
54588472 ACATGCCCGTGT
1 ACATGCCCGTGT
54588484 TAGAGACTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.20
Consensus pattern (22 bp):
ACATGCCCGTGTGGACCAAGGG
Found at i:54594643 original size:15 final size:15
Alignment explanation
Indices: 54594623--54594653 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54594613 AAATATTAAA
54594623 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
54594638 GATATGTTTTGTATT
1 GATATGTTTTGGATT
54594653 G
1 G
54594654 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:54595598 original size:19 final size:18
Alignment explanation
Indices: 54595574--54595617 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
54595564 GATACAAATT
54595574 ATATATGATGCAAATGAAA
1 ATATATG-TGCAAATGAAA
* *
54595593 ATATATGTGTATATGAAA
1 ATATATGTGCAAATGAAA
54595611 AGTATAT
1 A-TATAT
54595618 TCGGAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATATGTGCAAATGAAA
Found at i:54612745 original size:11 final size:11
Alignment explanation
Indices: 54612729--54612754 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
54612719 AACCAAAGCA
54612729 TAGCATTCAAG
1 TAGCATTCAAG
54612740 TAGCATTCAAG
1 TAGCATTCAAG
54612751 TAGC
1 TAGC
54612755 TAAACAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (11 bp):
TAGCATTCAAG
Found at i:54613073 original size:40 final size:40
Alignment explanation
Indices: 54613029--54613211 Score: 192
Period size: 39 Copynumber: 4.7 Consensus size: 40
54613019 GTTCAAAACA
* * ***
54613029 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
54613069 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * * *
54613109 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGAACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* ** *
54613148 CCTTCGGG-CTTAGCCTGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
54613187 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGATATCAC
54613212 TCGAACATTC
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 85 0.68
40 40 0.32
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:54613145 original size:39 final size:39
Alignment explanation
Indices: 54613059--54613211 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
54613049 TATGGTAACC
* *
54613059 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
54613099 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
54613138 CGAACAATTGCCTTCGGGCTTAGCCTGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
54613177 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
54613212 TCGAACATTC
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 85 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:54615093 original size:27 final size:28
Alignment explanation
Indices: 54615063--54615163 Score: 102
Period size: 27 Copynumber: 3.8 Consensus size: 28
54615053 ATTCTGTTAA
*
54615063 GTGGCTTTGCCAC-ATTATCTGTTTCTG
1 GTGGCTATGCCACAATTATCTGTTTCTG
* *
54615090 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTATGCCACAATTATCTGTTTCTG
* *
54615117 GTGGCTCTGCCACAATT-TCTGTATCTG
1 GTGGCTATGCCACAATTATCTGTTTCTG
* * *
54615144 GTGACTCTGTCACAA-TATCT
1 GTGGCTATGCCACAATTATCT
54615164 ATTCTGGCGG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
26 4 0.06
27 52 0.84
28 6 0.10
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (28 bp):
GTGGCTATGCCACAATTATCTGTTTCTG
Found at i:54615128 original size:54 final size:53
Alignment explanation
Indices: 54615063--54615170 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 53
54615053 ATTCTGTTAA
* * *
54615063 GTGGCTTTGCCAC-ATTATCTGTTTCTGGTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTCTGCCACAATT-TCTGTATCTGGTGACTATGCCAC-AATATCTATTCTG
* *
54615117 GTGGCTCTGCCACAATTTCTGTATCTGGTGACTCTGTCACAATATCTATTCTG
1 GTGGCTCTGCCACAATTTCTGTATCTGGTGACTATGCCACAATATCTATTCTG
54615170 G
1 G
54615171 CGGCCATGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 14 0.29
54 31 0.65
55 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (53 bp):
GTGGCTCTGCCACAATTTCTGTATCTGGTGACTATGCCACAATATCTATTCTG
Found at i:54615190 original size:53 final size:54
Alignment explanation
Indices: 54615080--54615191 Score: 129
Period size: 53 Copynumber: 2.1 Consensus size: 54
54615070 TGCCACATTA
* * * *
54615080 TCTGTTTCTGGTGGCTATGCCACAAATATCTATTCTGGTGGCTCTGCCACAATT
1 TCTGTATCTGGTGACTATGCCACAAATATCTATTCTGGCGGCTCTGCCACAAAT
* * **
54615134 TCTGTATCTGGTGACTCTGTCAC-AATATCTATTCTGGCGGC-CATGCTTCAAAT
1 TCTGTATCTGGTGACTATGCCACAAATATCTATTCTGGCGGCTC-TGCCACAAAT
54615187 TCTGT
1 TCTGT
54615192 GGTGTGTAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.02
53 29 0.59
54 19 0.39
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (54 bp):
TCTGTATCTGGTGACTATGCCACAAATATCTATTCTGGCGGCTCTGCCACAAAT
Found at i:54615337 original size:25 final size:25
Alignment explanation
Indices: 54615295--54615355 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
54615285 TCACATTCTA
* * *
54615295 ATTCTAATTCTGTTACCTGATACTG
1 ATTCTAATTCTATCACCTAATACTG
* *
54615320 GTTCTAATTCTATCACCTAATTCTG
1 ATTCTAATTCTATCACCTAATACTG
*
54615345 ATTCTGATTCT
1 ATTCTAATTCT
54615356 GATTCTGTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTAATTCTATCACCTAATACTG
Found at i:54615346 original size:31 final size:31
Alignment explanation
Indices: 54615311--54615386 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
54615301 ATTCTGTTAC
* *
54615311 CTGATACTGGTTCTAATTCTATCACCTAATT
1 CTGATTCTGATTCTAATTCTATCACCTAATT
* * * *
54615342 CTGATTCTGATTCTGATTCTGTCACTTGATT
1 CTGATTCTGATTCTAATTCTATCACCTAATT
54615373 CTGATTCTGATTCT
1 CTGATTCTGATTCT
54615387 CATTTTGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (31 bp):
CTGATTCTGATTCTAATTCTATCACCTAATT
Found at i:54615348 original size:6 final size:6
Alignment explanation
Indices: 54615339--54615407 Score: 70
Period size: 6 Copynumber: 11.3 Consensus size: 6
54615329 CTATCACCTA
* *
54615339 ATTCTG ATTCTG ATTCTG ATTCTG -TCACTTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG
*
54615388 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
54615408 AATGTTTCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 2 0.04
6 45 0.87
7 4 0.08
8 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:54621156 original size:23 final size:22
Alignment explanation
Indices: 54621114--54621156 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
54621104 TGGTACTTGA
54621114 TTATGCATATGGTATATGTGCT
1 TTATGCATATGGTATATGTGCT
54621136 TTATG-ATATGCGATATATGTG
1 TTATGCATATG-G-TATATGTG
54621157 GTAATTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (22 bp):
TTATGCATATGGTATATGTGCT
Found at i:54630326 original size:53 final size:54
Alignment explanation
Indices: 54630104--54630333 Score: 171
Period size: 53 Copynumber: 4.2 Consensus size: 54
54630094 ATTAGGGTTT
* * * * * *
54630104 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC-
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGCA
* * * * * * * **
54630158 AAGGAAATCATGGAAGACCATGTCAAGATATGGCATTGATAA-ACTACTATAAGGCA
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTA--ATAAGGCA
* * * * *
54630214 AAGGTCCCATGTAAGACCATGCCAAGGCATGGCAATCGTGAG-TTCATAAGGCA
1 AAGGTACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGCA
* * * *
54630267 AGGGTACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTAAAAAGG-A
1 AAGGTACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGCA
54630320 AAGGTACCCATGTA
1 AAGGTA-CCATGTA
54630334 TCCTTAGTAT
Statistics
Matches: 133, Mismatches: 37, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
53 50 0.38
54 46 0.35
55 33 0.25
56 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AAGGTACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGCA
Found at i:54633442 original size:32 final size:29
Alignment explanation
Indices: 54633405--54633463 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 29
54633395 CCAAAATTAA
54633405 ATCAGAATATAAAAATAAATATAAAATAAAAC
1 ATCAGAATAT-AAAAT-AATA-AAAATAAAAC
54633437 ATCAGAATATAAAATAATAAAAATAAA
1 ATCAGAATATAAAATAATAAAAATAAA
54633464 CTAACTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.30
30 4 0.15
31 5 0.19
32 10 0.37
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.22
Consensus pattern (29 bp):
ATCAGAATATAAAATAATAAAAATAAAAC
Found at i:54633878 original size:27 final size:25
Alignment explanation
Indices: 54633830--54633907 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 25
54633820 GCGAGGCTGC
*
54633830 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-A-A
* * *
54633857 CAGATATTGTGGCTAGGCCACCAAA
1 CAGATATTGTGACGAAGCCACCAAA
*
54633882 CAGATATATATGTGGCGAAGCCACCA
1 CAG--ATAT-TGTGACGAAGCCACCA
54633908 GATTGCACGA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
25 4 0.10
26 1 0.02
27 23 0.55
28 14 0.33
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (25 bp):
CAGATATTGTGACGAAGCCACCAAA
Found at i:54633972 original size:27 final size:26
Alignment explanation
Indices: 54633924--54633975 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54633914 ACGAGGCTGC
*
54633924 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
54633950 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
54633976 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54634672 original size:27 final size:26
Alignment explanation
Indices: 54634614--54634726 Score: 133
Period size: 27 Copynumber: 4.4 Consensus size: 26
54634604 AGGGCAAAAT
* *
54634614 GTAATTTTACCC--CAGGGTATCTCG
1 GTAATTCTACCCTACAGGGTATTTCG
* *
54634638 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACA-GGGTATTTCG
*
54634665 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTAC-AGGGTATTTCG
*
54634692 GTAATTCTATCCTACAGGGTA-TTCG
1 GTAATTCTACCCTACAGGGTATTTCG
54634717 GTAATTCTAC
1 GTAATTCTAC
54634727 TATGGGCCTA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
24 11 0.15
25 13 0.17
26 7 0.09
27 43 0.57
28 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (26 bp):
GTAATTCTACCCTACAGGGTATTTCG
Found at i:54640147 original size:27 final size:27
Alignment explanation
Indices: 54640099--54640151 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
54640089 GCGAGGCTAC
*
54640099 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
54640126 CAGATATTGTGGCTAGGCCACCAGAT
1 CAGATATTGTGACGAAGCCACCAGAT
54640152 TGCAGCGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:54640204 original size:67 final size:67
Alignment explanation
Indices: 54640083--54640234 Score: 252
Period size: 67 Copynumber: 2.3 Consensus size: 67
54640073 CACCATAGAA
* *
54640083 ATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
54640148 AG
66 AG
*
54640150 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTTACCAGA-ACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCGAGGCCAC
54640214 CAG
65 CAG
*
54640217 ATTGCAGCAAGGCTGCCA
1 ATTGCAGCGAGGCTGCCA
54640235 AAACGCTTCC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 8 0.10
67 72 0.90
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
AG
Found at i:54640917 original size:27 final size:27
Alignment explanation
Indices: 54640887--54641041 Score: 213
Period size: 27 Copynumber: 5.7 Consensus size: 27
54640877 TACCTCACAA
*
54640887 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
54640914 GGGTATTTCGGTATTTCTAACCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
54640941 GGGTATTTCGGTAATTCTATCCC-ACAG
1 GGGTATTTCGGTAATTCTA-CCCTACAG
* *
54640968 GGGTATTTTGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
** *
54640995 GGGTATTTCAATAATTTTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
54641022 GGGTATTTCGGTAATTCTAC
1 GGGTATTTCGGTAATTCTAC
54641042 AACTTATCCA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.03
27 106 0.95
28 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:54640942 original size:54 final size:54
Alignment explanation
Indices: 54640868--54641040 Score: 222
Period size: 54 Copynumber: 3.2 Consensus size: 54
54640858 GGGGCAAAAT
* * *
54640868 GGTAATTTTTACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTAACCT-ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
54640923 GGTATTTCTAACCTACAAGGGTATTTCGGTAATTCTATCCC-ACAGGGGTATTTT
1 GGTAATTCTAACCTACAAGGGTATTTCGGTAATTCTA-CCCTACAGGGGTATTTC
* * * ** *
54640977 GATAATTCTACCCTACAGGGGTATTTCAATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTAACCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
54641031 GGTAATTCTA
1 GGTAATTCTA
54641041 CAACTTATCC
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.03
54 85 0.83
55 14 0.14
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTAACCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:54645975 original size:44 final size:42
Alignment explanation
Indices: 54645909--54646054 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 42
54645899 TCTATTCTGT
* * ** *
54645909 GTGTAATACCACGTCTATGACATTGGCATAG-ACTTCTGTTTTGC
1 GTGTAAGACCATGTCTGGGACATTGGCATAGTA--TCTGATTT-C
*
54645953 GTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATAGTATCTGATTTC
* * * * * * *
54645995 GTGTAAGACCCTGTTTGGGACAGTGGCATCAATGTTTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCAT-AGTATCTGATTTC
*
54646038 ATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTG
54646055 AGATGTTGGC
Statistics
Matches: 83, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.33
43 29 0.35
44 26 0.31
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATAGTATCTGATTTC
Found at i:54646004 original size:42 final size:43
Alignment explanation
Indices: 54645943--54646054 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
54645933 GGCATAGACT
* * *
54645943 TCTGTTTTGCGTGTAAGACCATGTCTGGGACATTGGCATC-GTA
1 TCTGATTT-CGTGTAAGACCATGTCTGGGACAGTGGCATCAATA
* * *
54645986 TCTGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCAATG
1 TCTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCAATA
* * *
54646029 TTTGATTACATGTAAGACCATGTCTG
1 TCTGATTTCGTGTAAGACCATGTCTG
54646055 AGATGTTGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 28 0.49
43 29 0.51
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (43 bp):
TCTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCAATA
Found at i:54646047 original size:43 final size:42
Alignment explanation
Indices: 54645954--54646054 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
54645944 CTGTTTTGCG
* * * *
54645954 TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCATATCTGATTACA
* * * *
54645996 TGTAAGACCCTGTTTGGGACAGTGGCATCAATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATC-ATATCTGATTACA
54646039 TGTAAGACCATGTCTG
1 TGTAAGACCATGTCTG
54646055 AGATGTTGGC
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCATATCTGATTACA
Found at i:54648492 original size:22 final size:22
Alignment explanation
Indices: 54648467--54648540 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
54648457 GGCCTTTAGC
*
54648467 CATCCTGTCTACGATGTTGAGT
1 CATCCTGTCTACGACGTTGAGT
* **
54648489 CATCCTGTTTGTGACGTTGAGT
1 CATCCTGTCTACGACGTTGAGT
* *
54648511 CATCCTGTCTACGGCGTTGAGC
1 CATCCTGTCTACGACGTTGAGT
*
54648533 CGTCCTGT
1 CATCCTGT
54648541 TGACATGGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.35
Consensus pattern (22 bp):
CATCCTGTCTACGACGTTGAGT
Found at i:54651957 original size:22 final size:22
Alignment explanation
Indices: 54651896--54651969 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
54651886 GGCCTTTAGC
* *
54651896 CATCCTGTCTACGATGGTGAGT
1 CATCCTGTCTACGACGTTGAGT
* **
54651918 CATCCTGTTTGTGACGTTGAGT
1 CATCCTGTCTACGACGTTGAGT
* *
54651940 CATCCTGTCTACGGCGTTGAGC
1 CATCCTGTCTACGACGTTGAGT
*
54651962 CGTCCTGT
1 CATCCTGT
54651970 TGACATGGTG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.14, C:0.26, G:0.27, T:0.34
Consensus pattern (22 bp):
CATCCTGTCTACGACGTTGAGT
Found at i:54654930 original size:155 final size:155
Alignment explanation
Indices: 54654648--54654959 Score: 615
Period size: 155 Copynumber: 2.0 Consensus size: 155
54654638 ATGGGGCTAT
54654648 TGTAACGCCCCAAAAATTGGGCCTAGAAGAGTTGGGCTTTGAGTCTGGGATTCGAATAGAAGAAA
1 TGTAACGCCCCAAAAATTGGGCCTAGAAGAGTTGGGCTTTGAGTCTGGGATTCGAATAGAAGAAA
54654713 ACCTGAATATTGAGAAGTTTTGAATATTACTAGTGTTTAAATATATATATTGATAAAATATTTAT
66 ACCTGAATATTGAGAAGTTTTGAATATTACTAGTGTTTAAATATATATATTGATAAAATATTTAT
54654778 GTTAGTACTAATATTTTAATTTTTA
131 GTTAGTACTAATATTTTAATTTTTA
*
54654803 TGTAACGCCCCAAAAATTGGGCCTAGAAGAGTTGGGCTTTGAGTCTGGGATTCGGATAGAAGAAA
1 TGTAACGCCCCAAAAATTGGGCCTAGAAGAGTTGGGCTTTGAGTCTGGGATTCGAATAGAAGAAA
54654868 ACCTGAATATTGAGAAGTTTTGAATATTACTAGTGTTTAAATATATATATTGATAAAATATTTAT
66 ACCTGAATATTGAGAAGTTTTGAATATTACTAGTGTTTAAATATATATATTGATAAAATATTTAT
54654933 GTTAGTACTAATATTTTAATTTTTA
131 GTTAGTACTAATATTTTAATTTTTA
54654958 TG
1 TG
54654960 AAAATTATTA
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 156 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (155 bp):
TGTAACGCCCCAAAAATTGGGCCTAGAAGAGTTGGGCTTTGAGTCTGGGATTCGAATAGAAGAAA
ACCTGAATATTGAGAAGTTTTGAATATTACTAGTGTTTAAATATATATATTGATAAAATATTTAT
GTTAGTACTAATATTTTAATTTTTA
Found at i:54658177 original size:41 final size:41
Alignment explanation
Indices: 54658132--54658249 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54658122 TGAAAGATAA
54658132 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54658173 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54658203 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54658244 ATGTAG
1 ATGTAG
54658250 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54658188 original size:71 final size:71
Alignment explanation
Indices: 54658100--54658263 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54658090 GAGATGTATC
54658100 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54658165 AGGACA
66 AGGACA
54658171 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54658236 AGGACA
66 AGGACA
54658242 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54658264 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54665188 original size:41 final size:41
Alignment explanation
Indices: 54665143--54665260 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54665133 TGAAAGATAA
54665143 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54665184 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54665214 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54665255 ATGTAG
1 ATGTAG
54665261 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54665199 original size:71 final size:71
Alignment explanation
Indices: 54665111--54665274 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54665101 GAGATGTATC
54665111 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54665176 AGGACA
66 AGGACA
54665182 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54665247 AGGACA
66 AGGACA
54665253 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54665275 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54667296 original size:25 final size:25
Alignment explanation
Indices: 54667268--54667315 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54667258 TTATACCATG
* * *
54667268 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
54667293 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
54667316 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:54667408 original size:9 final size:9
Alignment explanation
Indices: 54667358--54667410 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
54667348 ATAAACATGG
54667358 TATGTATGA
1 TATGTATGA
54667367 TATGCTCATGA
1 TATG-T-ATGA
*
54667378 CATGTATGA
1 TATGTATGA
*
54667387 TATGCACATGA
1 TATG--TATGA
54667398 TATGTATGA
1 TATGTATGA
54667407 TATG
1 TATG
54667411 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 19 0.53
10 2 0.06
11 15 0.42
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:54667418 original size:20 final size:20
Alignment explanation
Indices: 54667352--54667418 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
54667342 ATTTTGATAA
*
54667352 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
54667372 TCATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
54667392 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
54667412 ACATGAT
1 ACATGAT
54667419 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:54667523 original size:24 final size:24
Alignment explanation
Indices: 54667467--54667656 Score: 251
Period size: 24 Copynumber: 8.0 Consensus size: 24
54667457 GAGGAAGTGA
*
54667467 AAAAAGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
54667490 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
54667514 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
54667538 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
54667562 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
54667585 TAAAGGGCTTATGCCACAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
54667609 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
54667633 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
54667657 GTGATAAAGC
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
23 41 0.28
24 96 0.65
25 11 0.07
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:54667536 original size:47 final size:47
Alignment explanation
Indices: 54667467--54667635 Score: 266
Period size: 47 Copynumber: 3.6 Consensus size: 47
54667457 GAGGAAGTGA
*
54667467 AAAAAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
54667514 AAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* * *
54667562 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCACAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
54667609 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
54667636 AGAGGCTAGG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 67 0.60
48 44 0.40
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:54667590 original size:71 final size:71
Alignment explanation
Indices: 54667466--54667656 Score: 253
Period size: 71 Copynumber: 2.7 Consensus size: 71
54667456 GGAGGAAGTG
* * *
54667466 AAAAAAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCC-C
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCAC
54667530 TAGTTAT
66 -AGTTAT
* *
54667537 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCA
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCA
54667601 CAGTTAT
65 CAGTTAT
* *
54667608 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
54667657 GTGATAAAGC
Statistics
Matches: 107, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
71 73 0.68
72 34 0.32
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCAC
AGTTAT
Found at i:54667883 original size:31 final size:31
Alignment explanation
Indices: 54667848--54667911 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
54667838 CGTTTACAGT
54667848 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
54667879 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54667910 AA
1 AA
54667912 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:54669316 original size:22 final size:22
Alignment explanation
Indices: 54669273--54669327 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
54669263 TATGGTCTTT
* *
54669273 AGCCATCCTGTCTATAATGTTG
1 AGCCATCCTGTCTACAACGTTG
* *
54669295 AGTCATCCTGTCTACAGCGTTG
1 AGCCATCCTGTCTACAACGTTG
*
54669317 AGCCGTCCTGT
1 AGCCATCCTGT
54669328 TGACTTGGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (22 bp):
AGCCATCCTGTCTACAACGTTG
Found at i:54670558 original size:19 final size:19
Alignment explanation
Indices: 54670534--54670570 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
54670524 CTTTTAAAAG
*
54670534 TTGAAAATTTTTTATGTTT
1 TTGAAAATTTTATATGTTT
*
54670553 TTGAAACTTTTATATGTT
1 TTGAAAATTTTATATGTT
54670571 ATCAAATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (19 bp):
TTGAAAATTTTATATGTTT
Found at i:54671123 original size:34 final size:34
Alignment explanation
Indices: 54671080--54671145 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
54671070 CTCGTTTTCC
*
54671080 TTAATCTAAAATATCACATTTAGTTTAACTATCT
1 TTAATCTAAAATATCACATTTAGCTTAACTATCT
54671114 TTAATCTAAAATATCACATTTAGCTTAACTAT
1 TTAATCTAAAATATCACATTTAGCTTAACTAT
54671146 TAGTCACATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (34 bp):
TTAATCTAAAATATCACATTTAGCTTAACTATCT
Found at i:54673653 original size:30 final size:30
Alignment explanation
Indices: 54673598--54673728 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
54673588 ATAGTGAATC
*
54673598 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
54673627 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
54673657 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
54673685 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
54673715 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54673729 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:54673708 original size:58 final size:58
Alignment explanation
Indices: 54673597--54673728 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
54673587 TATAGTGAAT
* * * * *
54673597 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
54673656 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
54673714 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
54673729 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:54681229 original size:30 final size:30
Alignment explanation
Indices: 54681174--54681304 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
54681164 ATAGTGAATC
*
54681174 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
54681203 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
54681233 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
54681261 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
54681291 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54681305 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:54681284 original size:58 final size:58
Alignment explanation
Indices: 54681173--54681304 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
54681163 TATAGTGAAT
* * * * *
54681173 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
54681232 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
54681290 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
54681305 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:54691114 original size:48 final size:47
Alignment explanation
Indices: 54691039--54691228 Score: 166
Period size: 48 Copynumber: 4.0 Consensus size: 47
54691029 AGGGTAAATT
* ** *
54691039 GCTGATGCCATGTTCCAGACACAGTCTTACACTAGCTCACATGTCGAA
1 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATC-AA
* * * * *
54691087 GCTGATGCCATGTCCCAAACATGGTCTTACAGTAGCTCTCGTCTCAA
1 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * * * * * * *
54691134 TGCCGATGTCATGTTCCACACATGGTCTTACATTTGCTCTCAAAACATT
1 -GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA-A
*
54691183 G-TCGATGCCATGTTCCAAACATTGTCTTACACTAGCTCACATATCA
1 GCT-GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
54691229 CCCAAATGTA
Statistics
Matches: 111, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
47 2 0.02
48 109 0.98
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (47 bp):
GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAA
Found at i:54698145 original size:27 final size:27
Alignment explanation
Indices: 54698061--54698214 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
54698051 GACGAGAATG
* * *
54698061 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
54698090 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
54698119 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
54698146 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
54698174 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
54698201 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54698215 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:54698182 original size:55 final size:55
Alignment explanation
Indices: 54698111--54698214 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
54698101 GCGAGCTCAA
54698111 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
54698166 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
54698215 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:54699929 original size:21 final size:21
Alignment explanation
Indices: 54699903--54699951 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
54699893 TGTAGCATGG
* *
54699903 GCGTGTCTTAGGGTCACGCGA
1 GCGTGTCTTAAGGTCACACGA
*
54699924 GCGTGTCTTAAGGTCACACGG
1 GCGTGTCTTAAGGTCACACGA
54699945 GCGTGTC
1 GCGTGTC
54699952 CTTGGACCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.14, C:0.24, G:0.37, T:0.24
Consensus pattern (21 bp):
GCGTGTCTTAAGGTCACACGA
Found at i:54702650 original size:43 final size:43
Alignment explanation
Indices: 54702583--54702751 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
54702573 TAAGCTCGTA
* * * * *
54702583 CAATGCCA-TATCCCAAATATGGTCTTACATGTTATCACATAT
1 CAATGCCATTGTCCCAGACATGGTCTTACACGTAATCACATAT
* * *
54702625 CAATGCCATTGTCCCAGACAGGGTCTTACACGTAATCGA-TTAA
1 CAATGCCATTGTCCCAGACATGGTCTTACACGTAATC-ACATAT
* *
54702668 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-AT
1 CAATGCCATTGTCCCAGACATGGTCTTACACGTAATCACATAT
* *
54702710 ACAATGCCAATT-TCCTAGACATGGTCTTACATGTAATCACAT
1 -CAATGCC-ATTGTCCCAGACATGGTCTTACACGTAATCACAT
54702752 CTCTATAACC
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 10 0.10
43 91 0.88
44 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
CAATGCCATTGTCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:54706588 original size:14 final size:15
Alignment explanation
Indices: 54706556--54706588 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
54706546 CTTTTCTATC
54706556 AATACAAGAGAATAA
1 AATACAAGAGAATAA
*
54706571 AATACTAGAGAA-AA
1 AATACAAGAGAATAA
54706585 AATA
1 AATA
54706589 GAGCAATGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.15
Consensus pattern (15 bp):
AATACAAGAGAATAA
Found at i:54708777 original size:93 final size:93
Alignment explanation
Indices: 54708663--54708835 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
54708653 CGCCCATAAG
* * *
54708663 CGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
54708728 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
54708756 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
*
54708821 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
54708836 CAAACATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:54708831 original size:46 final size:46
Alignment explanation
Indices: 54708656--54708831 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
54708646 CGTAACCCGC
* * * *
54708656 CCATAAGCGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
54708702 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
54708748 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54708795 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54708832 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:54708850 original size:46 final size:46
Alignment explanation
Indices: 54708711--54708850 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 46
54708701 TCCATAAGTA
* * *
54708711 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAGTG
* * * *
54708758 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGTG
*
54708804 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTG
54708850 A
1 A
54708851 CATGTCACTT
Statistics
Matches: 75, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
44 8 0.11
46 33 0.44
47 30 0.40
49 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTG
Found at i:54712245 original size:68 final size:70
Alignment explanation
Indices: 54712173--54712370 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
54712163 ACACCCTGTA
* * * *
54712173 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
54712235 ATAAAT
65 ATAAAT
*
54712241 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
54712306 ATAAAT
65 ATAAAT
*
54712312 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
54712371 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:54712284 original size:41 final size:41
Alignment explanation
Indices: 54712239--54712356 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54712229 TGAAAGATAA
54712239 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54712280 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54712310 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54712351 ATGTAG
1 ATGTAG
54712357 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54712296 original size:71 final size:71
Alignment explanation
Indices: 54712207--54712370 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54712197 GAGATGTATC
54712207 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54712272 AGGACA
66 AGGACA
54712278 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54712343 AGGACA
66 AGGACA
54712349 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54712371 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54713971 original size:30 final size:30
Alignment explanation
Indices: 54713927--54714015 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
54713917 CAAAGATAAC
*
54713927 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
54713956 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
54713986 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
54714016 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:54713975 original size:15 final size:14
Alignment explanation
Indices: 54713927--54714009 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
54713917 CAAAGATAAC
*
54713927 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
54713941 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
54713956 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
54713971 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
54713986 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
54714001 AAGAAACCC
1 AAGAAACCC
54714010 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:54714015 original size:15 final size:15
Alignment explanation
Indices: 54713938--54714015 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
54713928 AGAAAACCGA
54713938 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
54713953 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
54713967 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
54713982 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
54713998 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
54714013 ATA
1 ATA
54714016 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:54717073 original size:93 final size:93
Alignment explanation
Indices: 54716961--54717132 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54716951 GCCCATAAGT
* *
54716961 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54717026 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
54717054 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
54717119 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
54717133 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54717128 original size:46 final size:46
Alignment explanation
Indices: 54716953--54717128 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
54716943 TGTAACCCGC
* *
54716953 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54716999 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
54717045 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54717092 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54717129 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:54721567 original size:46 final size:46
Alignment explanation
Indices: 54721424--54721567 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 46
54721414 CTCGCCCATA
* * *
54721424 AGTGAACTCGAACTCAACTCAATGAGCTCGGATGCCCAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * * *
54721473 --CGAACTCGGACTCAACTCAACGAGTTTGAACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGCCCATACATCCT
*
54721517 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
54721563 AGTGA
1 AGTGA
54721568 CATGTCACTT
Statistics
Matches: 71, Mismatches: 18, Indels: 15
0.68 0.17 0.14
Matches are distributed among these distances:
44 8 0.11
46 31 0.44
47 27 0.38
49 5 0.07
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:54724403 original size:47 final size:47
Alignment explanation
Indices: 54724349--54724472 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 47
54724339 TGTGTGTGCT
*
54724349 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA-AA-TGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGA-GACAAGAGCC
*
54724396 AGTGTAAGACATGTCTGGGACATGCATCGG-CATTGAGACAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACAAGAGCC
*
54724442 ATTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
54724473 TACGAGATGT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
44 6 0.09
45 3 0.04
46 31 0.44
47 30 0.43
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACAAGAGCC
Found at i:54724653 original size:47 final size:48
Alignment explanation
Indices: 54724349--54724661 Score: 174
Period size: 47 Copynumber: 6.6 Consensus size: 48
54724339 TGTGTGTGCT
*
54724349 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGAAAT--GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGAGATGAGCC
* * * *
54724396 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGA-GACAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGAGATGAGCC
* * * * *
54724442 ATTGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-ACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGAGCC
* * * * * *
54724486 AATATAAGACCATGTCTAGGATATGGCATCGGCAC-GGAT-ATG-TGAGATCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATGA-GATGAG--CC
* * * ** ** *
54724536 AGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTCAATTTTGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TGAGATGAGCC
*
54724585 AGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGAGCC
54724632 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
54724662 AGCATTATAC
Statistics
Matches: 210, Mismatches: 39, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 20 0.10
45 13 0.06
46 41 0.20
47 62 0.30
48 9 0.04
49 32 0.15
50 27 0.13
51 4 0.02
52 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGAGCC
Found at i:54727423 original size:43 final size:43
Alignment explanation
Indices: 54727374--54727528 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
54727364 TCCCAAATAG
* * *
54727374 GGTCTTACACATAATC-GATTAACAATGCCAAT-TATCAAGACAT
1 GGTCTTACACATAATCACAAT-ACAATGCCAATGT-CCAAGACAT
* * *
54727417 GTTCTTACACGTAATCACAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACACATAATCACAATACAATGCCAATGTCCAAGACAT
* *
54727460 GGTCTGACACATAATCACAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACACATAATCACAATACAATGCCAATGTCCAAGACAT
** *
54727503 GGTCTTACATGTAATCACATTACAAT
1 GGTCTTACACATAATCACAATACAAT
54727529 AACCTAATTA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
43 94 0.97
44 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (43 bp):
GGTCTTACACATAATCACAATACAATGCCAATGTCCAAGACAT
Found at i:54727452 original size:86 final size:86
Alignment explanation
Indices: 54727309--54727528 Score: 205
Period size: 86 Copynumber: 2.6 Consensus size: 86
54727299 CATAAGCTCG
* * * * * * * * *
54727309 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCTC-ATATCGATGCCACTGTCCCAAAT
1 TACAATGCCAATGTCCAAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATGTCCCAAAC
* * *
54727372 AGGGTCTTACACATAATC-GAT
65 AGGGTCTGACACATAATCACAA
* * * *
54727393 TAACAATGCCAAT-TATCAAGACATGTTCTTACACGTAATCACAATACAATGCCAATGTCCTAGA
1 T-ACAATGCCAATGT-CCAAGACATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAA
*
54727457 CATGGTCTGACACATAATCACAA
64 CAGGGTCTGACACATAATCACAA
* * *
54727480 TACAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATTACAAT
1 TACAATGCCAATGTCCAAGACATGGTCTTACACGTAATCACAATACAAT
54727529 AACCTAATTA
Statistics
Matches: 109, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
84 1 0.01
85 9 0.08
86 93 0.85
87 6 0.06
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.29
Consensus pattern (86 bp):
TACAATGCCAATGTCCAAGACATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAACA
GGGTCTGACACATAATCACAA
Found at i:54732670 original size:29 final size:28
Alignment explanation
Indices: 54732624--54732689 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
54732614 ATTTCATTTA
* *
54732624 TTTCACAATTTAAACCCTCAATTTACACT
1 TTTCTCAATTTAAACCCT-AATATACACT
* *
54732653 TTTCTCAATTTAATCCCTAATATGCACT
1 TTTCTCAATTTAAACCCTAATATACACT
54732681 TTTACTCAA
1 TTT-CTCAA
54732690 AATCACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.32, C:0.26, G:0.02, T:0.41
Consensus pattern (28 bp):
TTTCTCAATTTAAACCCTAATATACACT
Found at i:54733128 original size:23 final size:23
Alignment explanation
Indices: 54733095--54733141 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
54733085 TGATTAAGAC
*
54733095 AATACCTAAGGAAAAATCCACCT
1 AATACCCAAGGAAAAATCCACCT
54733118 AATACCCAAGGAAAAATCCACCT
1 AATACCCAAGGAAAAATCCACCT
54733141 A
1 A
54733142 GACTTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.15
Consensus pattern (23 bp):
AATACCCAAGGAAAAATCCACCT
Found at i:54739614 original size:26 final size:26
Alignment explanation
Indices: 54739580--54739656 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
54739570 ACCAACACAC
*
54739580 CAATATCGCAGCAAAGTTGCTAGTAA
1 CAATATCGCAGCAAAGTTGCCAGTAA
*
54739606 TAATATCGCAGCAAAGTTGCCAGTAA
1 CAATATCGCAGCAAAGTTGCCAGTAA
* * **
54739632 CAGTAACGCAGCAAAACTGCCAGTA
1 CAATATCGCAGCAAAGTTGCCAGTA
54739657 TCAGTATATA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (26 bp):
CAATATCGCAGCAAAGTTGCCAGTAA
Found at i:54739661 original size:26 final size:26
Alignment explanation
Indices: 54739612--54739662 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
54739602 GTAATAATAT
**
54739612 CGCAGCAAAGTTGCCAGTAACAGTAA
1 CGCAGCAAAACTGCCAGTAACAGTAA
*
54739638 CGCAGCAAAACTGCCAGTATCAGTA
1 CGCAGCAAAACTGCCAGTAACAGTA
54739663 TATATGGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAACTGCCAGTAACAGTAA
Found at i:54739682 original size:27 final size:27
Alignment explanation
Indices: 54739652--54739704 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
54739642 GCAAAACTGC
*
54739652 CAGTATCAGTATATATGGCAAAGCCAT
1 CAGTAACAGTATATATGGCAAAGCCAT
*
54739679 CAGTAACAGTATATGTGGCAAAGCCA
1 CAGTAACAGTATATATGGCAAAGCCA
54739705 CCGGTACAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
CAGTAACAGTATATATGGCAAAGCCAT
Found at i:54739862 original size:27 final size:27
Alignment explanation
Indices: 54739830--54739888 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
54739820 AAATCAGTCA
*
54739830 TTACCCTCGAGAGGTATTTTGGTCATT
1 TTACCCTAGAGAGGTATTTTGGTCATT
* *
54739857 TTACCCTATAGGGGTATTTTGGTCATT
1 TTACCCTAGAGAGGTATTTTGGTCATT
54739884 TTACC
1 TTACC
54739889 TGCCTTGGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
TTACCCTAGAGAGGTATTTTGGTCATT
Found at i:54742567 original size:20 final size:20
Alignment explanation
Indices: 54742544--54742581 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54742534 AAAACCCTTC
54742544 TTAAAT-AAAAGAAACCTTAA
1 TTAAATGAAAA-AAACCTTAA
*
54742564 TTAACTGAAAAAAACCTT
1 TTAAATGAAAAAAACCTT
54742582 TAGTTACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (20 bp):
TTAAATGAAAAAAACCTTAA
Found at i:54743660 original size:29 final size:29
Alignment explanation
Indices: 54743603--54743678 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
54743593 TATCTGGCCA
* *
54743603 GCCCAATCATATTCATATGGCCCTTTTAG
1 GCCCAATCACATTCATATGGCCCTGTTAG
*
54743632 GCCCAAATCACATTTATATGG-CCTGTTAG
1 GCCC-AATCACATTCATATGGCCCTGTTAG
*
54743661 GCCCAGTCACATTCATAT
1 GCCCAATCACATTCATAT
54743679 TCATGCTCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.29
29 15 0.37
30 14 0.34
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (29 bp):
GCCCAATCACATTCATATGGCCCTGTTAG
Found at i:54748155 original size:29 final size:30
Alignment explanation
Indices: 54748090--54748156 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
54748080 AATCATATTC
* * * *
54748090 ATATAGCCCCTTTAGGCCCAAATCACCTGT
1 ATATGGCCCATTTAGGCCCAAATAACATGT
*
54748120 ATATGGCCCATTT-GGCCCAAATAACATTT
1 ATATGGCCCATTTAGGCCCAAATAACATGT
*
54748149 ATTTGGCC
1 ATATGGCC
54748157 TGTTAGGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (30 bp):
ATATGGCCCATTTAGGCCCAAATAACATGT
Found at i:54748165 original size:29 final size:29
Alignment explanation
Indices: 54748101--54748167 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
54748091 TATAGCCCCT
* *
54748101 TTAGGCCCAAATCACCTGTATATGGCCCA
1 TTAGGCCCAAATAACATGTATATGGCCCA
* * * **
54748130 TTTGGCCCAAATAACATTTATTTGGCCTG
1 TTAGGCCCAAATAACATGTATATGGCCCA
54748159 TTAGGCCCA
1 TTAGGCCCA
54748168 GTCACATTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (29 bp):
TTAGGCCCAAATAACATGTATATGGCCCA
Found at i:54751652 original size:40 final size:40
Alignment explanation
Indices: 54751607--54751774 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
54751597 CGGAATATAA
54751607 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
54751647 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
54751687 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
54751727 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54751767 CCGGATAT
1 CCGGATAT
54751775 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54759660 original size:40 final size:40
Alignment explanation
Indices: 54759615--54759781 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
54759605 CGGAATATAA
54759615 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
54759655 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
54759695 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
54759735 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54759774 CCGGATAT
1 CCGGATAT
54759782 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54763370 original size:124 final size:122
Alignment explanation
Indices: 54763150--54763371 Score: 293
Period size: 124 Copynumber: 1.8 Consensus size: 122
54763140 GAATTATGTG
* * * *
54763150 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATACCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
54763215 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
54763272 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
54763336 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
54763372 TCCGGGTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 16 0.19
124 65 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:54763415 original size:40 final size:40
Alignment explanation
Indices: 54763330--54763480 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
54763320 AATTGAATGA
* * * *
54763330 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
54763370 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
54763411 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
54763450 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
54763481 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:54763464 original size:80 final size:80
Alignment explanation
Indices: 54763331--54763480 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
54763321 ATTGAATGAT
* *
54763331 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
54763396 TGTGCTAGTGGCTAC
66 TGTGCTAGTGGCTAC
* * * *
54763411 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
54763474 TTTGTGC
64 ATTGTGC
54763481 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 4 0.07
80 57 0.93
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCTAC
Found at i:54763494 original size:40 final size:40
Alignment explanation
Indices: 54763329--54763496 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
54763319 AAATTGAATG
* * *
54763329 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAA--ATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCGAATGGTT
* * * * *
54763369 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
* * **
54763409 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
*
54763449 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
54763489 ATATCCGG
1 ATATCCGG
54763497 TTATATTCCG
Statistics
Matches: 99, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 4 0.04
40 90 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
Found at i:54763495 original size:80 final size:80
Alignment explanation
Indices: 54763329--54763496 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
54763319 AAATTGAATG
* *
54763329 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
54763394 ATTGTGCTAGTGGCT
66 ATTGTGCTAATGGCT
* * * * *
54763409 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
54763472 CATTTGTGC-ACATGGTT
64 CAATTGTGCTA-ATGGCT
54763489 ATATCCGG
1 ATATCCGG
54763497 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAATGGCT
Found at i:54767289 original size:71 final size:71
Alignment explanation
Indices: 54767203--54767437 Score: 470
Period size: 71 Copynumber: 3.3 Consensus size: 71
54767193 CGATTTGTCT
54767203 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54767268 CTTTCA
66 CTTTCA
54767274 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54767339 CTTTCA
66 CTTTCA
54767345 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54767410 CTTTCA
66 CTTTCA
54767416 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54767438 GATACATCTC
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 164 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54767333 original size:41 final size:41
Alignment explanation
Indices: 54767288--54767405 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54767278 GCTCTCTTGT
54767288 CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
1 CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
* * * * *
54767329 CTACAT-TTATCTTTCAC---G--T-A-GC-T-C--TCTTG
1 CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
54767358 TCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
1 -CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
54767400 CTACAT
1 CTACAT
54767406 TTATCTTTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 3 0.06
30 6 0.11
31 9 0.17
32 1 0.02
33 2 0.04
34 2 0.04
35 1 0.02
36 1 0.02
37 2 0.04
38 2 0.04
39 1 0.02
40 9 0.17
41 12 0.22
42 3 0.06
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (41 bp):
CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
Found at i:54767475 original size:142 final size:141
Alignment explanation
Indices: 54767203--54767471 Score: 445
Period size: 142 Copynumber: 1.9 Consensus size: 141
54767193 CGATTTGTCT
54767203 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
* * * *
54767268 CTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTAC
66 CTTTCACGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTAC
54767333 ATTTATCTTTCA
130 ATTTATCTTTCA
54767345 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
* *
54767410 CTTTCACGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
66 CTTTCACGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54767472 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
139 22 0.18
140 1 0.01
141 1 0.01
142 96 0.80
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (141 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCACGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACA
TTTATCTTTCA
Found at i:54774468 original size:71 final size:71
Alignment explanation
Indices: 54774382--54774545 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54774372 CGATTTGTCT
54774382 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54774447 CTTTCA
66 CTTTCA
54774453 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54774518 CTTTCA
66 CTTTCA
54774524 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54774546 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54774583 original size:71 final size:70
Alignment explanation
Indices: 54774382--54774579 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
54774372 CGATTTGTCT
* * * *
54774382 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54774447 CTTTCA
65 CTTTCA
* * * *
54774453 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54774518 CTTTCA
65 CTTTCA
* *
54774524 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54774580 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54783948 original size:25 final size:23
Alignment explanation
Indices: 54783896--54783950 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
54783886 TATAAATAGT
54783896 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
54783919 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
54783944 AATAGTG
1 AATAGTG
54783951 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:54784069 original size:22 final size:24
Alignment explanation
Indices: 54784011--54784078 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
54784001 ATAGATATAA
* *
54784011 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
54784035 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
54784059 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
54784079 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:54784097 original size:2 final size:2
Alignment explanation
Indices: 54784092--54784179 Score: 87
Period size: 2 Copynumber: 45.5 Consensus size: 2
54784082 GTAGAAAAAA
* *
54784092 AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT AGT AT -T AA AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
54784132 AT AT AC AT A- AA AT AGT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
54784173 AT AT AT A
1 AT AT AT A
54784180 CGTAATATAG
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
1 5 0.07
2 64 0.88
3 4 0.05
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (2 bp):
AT
Found at i:54784780 original size:30 final size:30
Alignment explanation
Indices: 54784744--54784871 Score: 229
Period size: 30 Copynumber: 4.3 Consensus size: 30
54784734 AGGTACAAGT
*
54784744 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
54784774 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
54784804 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
54784834 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
54784864 GGTGGTGG
1 GGTGGTGG
54784872 CAAAGGCTAG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 96 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:54787680 original size:16 final size:17
Alignment explanation
Indices: 54787649--54787681 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54787639 TTCATAAGTA
54787649 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
54787666 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
54787682 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:54788553 original size:46 final size:46
Alignment explanation
Indices: 54787966--54788555 Score: 808
Period size: 46 Copynumber: 12.8 Consensus size: 46
54787956 TTTGATATGA
* * * * * * * *
54787966 TGCCATAGTGTCTTTTAACTATGGTCTTACTCATTTTC-TGTTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGT
*** * * **
54788012 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* ** *
54788058 TGCCATGGTGTCTTTCAACCATGGTCTTATTCA-TTC-TCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ATCATGT
* * *
54788103 TGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* * * *
54788149 TGCCATGGCATCTTTCAACCATGGCCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
54788195 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
54788241 TGCCATGGTCTCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* * * *
54788287 TGCCATGGTGTCTTTCAACCATAGTCTTACAGATTTCATATCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* * *
54788333 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTGATATCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
54788379 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
54788425 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
54788471 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
54788517 TGCCATGGTATCTTTCAACCATGGTGTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
54788556 TTCAGAAAGC
Statistics
Matches: 497, Mismatches: 43, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
44 1 0.00
45 40 0.08
46 455 0.92
47 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
Found at i:54794820 original size:31 final size:30
Alignment explanation
Indices: 54794762--54794821 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
54794752 ATGCCTTGAA
* ** *
54794762 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTAAAAAAAGAGAAATCGAATTTTT
54794792 AATATTTAGAAAAAAGAGAAATCGAATTTT
1 AATATTTA-AAAAAAGAGAAATCGAATTTT
54794822 GAAAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (30 bp):
AATATTTAAAAAAAGAGAAATCGAATTTTT
Found at i:54798422 original size:45 final size:45
Alignment explanation
Indices: 54798371--54798456 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
54798361 TATATAATTT
54798371 GAACTCATTGAGTTGTGGCCTGAA-TTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGGCCT-AAGTTCATGATATATGTGACATCC
* *
54798416 GAACTCATTGAGTTGTGGTCTAAGTTCGTGATATATGTGAC
1 GAACTCATTGAGTTGTGGCCTAAGTTCATGATATATGTGAC
54798457 CCATGTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGCCTAAGTTCATGATATATGTGACATCC
Found at i:54803041 original size:47 final size:47
Alignment explanation
Indices: 54802972--54803336 Score: 218
Period size: 48 Copynumber: 7.7 Consensus size: 47
54802962 AGGGTGTAAT
*
54802972 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
* * * *
54803019 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-GTCGAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATC-AA
* * * * *
54803068 GTCGACGCCATGTCCCTGACATGGTGTTACACTAGCTC-TCACAT-ATCT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCA--A
* * * * *
54803116 GTGCCGATGCCATGTCCCAGACATGGTCTTACATTGACACCTCTAT-AA
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
* * * *
54803164 GTCCCGATGCCATGTCCTAGACATGGTCTTACACTGACACAT-C-TCGTA
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AA
* * *
54803212 GCCGATG-CATGTCCCAGATAT-GTCTTACACTAGCTC-TCGTC-TCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA
* * * * ***
54803257 -TACTAATGCCAAGTCCCAGACATGGTCTTACATTGGCTTTCAT-AATGTG
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTGGC--TCATCCATCAA
54803306 GTCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
54803337 AGCATACAAA
Statistics
Matches: 248, Mismatches: 47, Indels: 47
0.73 0.14 0.14
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 14 0.06
46 24 0.10
47 60 0.24
48 62 0.25
49 37 0.15
50 35 0.14
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
Found at i:54803278 original size:92 final size:93
Alignment explanation
Indices: 54803170--54803339 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 93
54803160 ATAAGTCCCG
* * * *
54803170 ATGCCATGTCCTAGACATGGTCTTACACTGAC-ACAT-CTCGTAGCCGATGCATGTCCCAGATAT
1 ATGCCAAGTCCCAGACATGGTCTTACACTGACTACATAAT-GTAGCCGATGCATGTCCCAGACAT
54803233 GTCTTACACTAGCTCTCGTCTCAATACTA
65 GTCTTACACTAGCTCTCGTCTCAATACTA
* * * * *
54803262 ATGCCAAGTCCCAGACATGGTCTTACATTGGCTTTCATAATGTGGTCGATGCATGTCCCAGACAT
1 ATGCCAAGTCCCAGACATGGTCTTACACTGAC-TACATAATGTAGCCGATGCATGTCCCAGACAT
54803327 GTCTTACACTAGC
65 GTCTTACACTAGC
54803340 ATACAAATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 28 0.42
94 37 0.56
95 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (93 bp):
ATGCCAAGTCCCAGACATGGTCTTACACTGACTACATAATGTAGCCGATGCATGTCCCAGACATG
TCTTACACTAGCTCTCGTCTCAATACTA
Found at i:54808321 original size:42 final size:42
Alignment explanation
Indices: 54808210--54808365 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
54808200 TACCATACCA
* * * ** *
54808210 ATGCCATATCCTAGATATGGTTTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
** * *
54808252 AACACCAATAACCCAGTTATGGTCTTACACGAAATCTCATATCG
1 -ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
** *
54808296 ATGCCATATCCCAGATATGGTCTTACACGAAGCCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
54808338 ATGCCATATCCCAGATATGTTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
54808366 ATAGTCTTAG
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
42 59 0.63
43 6 0.06
44 29 0.31
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:54811700 original size:22 final size:22
Alignment explanation
Indices: 54811657--54811702 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
54811647 CGAAAATGAT
* *
54811657 TAAAATTAATCAATATTTATTA
1 TAAAATTAATCAAAATTCATTA
* *
54811679 TAAAATTATTTAAAATTCATTA
1 TAAAATTAATCAAAATTCATTA
54811701 TA
1 TA
54811703 TTAATAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAATTAATCAAAATTCATTA
Found at i:54813633 original size:40 final size:40
Alignment explanation
Indices: 54813570--54813788 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
54813560 ATTCGGATTG
54813570 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54813609 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54813649 ATAACC-GGCCAAGT-CCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54813687 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54813727 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
54813767 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
54813789 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
38 29 0.17
39 43 0.26
40 94 0.57
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:54813717 original size:78 final size:79
Alignment explanation
Indices: 54813570--54813788 Score: 327
Period size: 78 Copynumber: 2.8 Consensus size: 79
54813560 ATTCGGATTG
* *
54813570 ATAACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAA
54813635 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* * *
54813649 ATAACC-GGCCAAGTCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAA
54813713 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* **
54813727 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
54813789 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
78 73 0.58
79 29 0.23
80 24 0.19
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:54821735 original size:40 final size:40
Alignment explanation
Indices: 54821672--54821892 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
54821662 ATTCGGATTG
54821672 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54821711 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54821751 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54821791 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54821831 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
54821871 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
54821893 TACTTGGTTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 29 0.17
40 141 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:54823673 original size:184 final size:183
Alignment explanation
Indices: 54823340--54823706 Score: 716
Period size: 184 Copynumber: 2.0 Consensus size: 183
54823330 TAGCATATTA
54823340 TCTCAATTCACATATTCACAAACATATAAGCACAGAGTTAAAAAGATAACATAGGTATGAGAAAG
1 TCTCAATTCACATATTCACAAACATATAAGCACAGAGTTAAAAAGATAACATAGGTATGAGAAAG
54823405 CTTACACTTGGATTTACAGTAGGGGTTTAGGCTACTACTAAATTCCCAAATAACGCATTGAATCA
66 CTTACACTTGGATTTACAGTAGGGGTTTAGGCTACTACTAAATTCCCAAATAACGCATTGAATCA
*
54823470 TGTCCACAAGCAATTATTCCAAACACTCACCAATTATGCTTTCGTCGAAAAGT
131 TGTCCACAAGCAATTATTCCAAACACTCACCAATTATGCTTTCGTCAAAAAGT
54823523 TCTCAATTCACATATTCACAAACATATAAGCACAGAGTTAAAAAGATAACATAGGTATGAGAAAG
1 TCTCAATTCACATATTCACAAACATATAAGCACAGAGTTAAAAAGATAACATAGGTATGAGAAAG
54823588 CTTACACTTGGGATTTACAGTAGGGGTTTAGGCTACTACTAAATTCCCAAATAACGCATTGAATC
66 CTTACACTT-GGATTTACAGTAGGGGTTTAGGCTACTACTAAATTCCCAAATAACGCATTGAATC
54823653 ATGTCCACAAGCAATTATTCCAAACACTCACCAATTATGCTTTCGTCAAAAAGT
130 ATGTCCACAAGCAATTATTCCAAACACTCACCAATTATGCTTTCGTCAAAAAGT
54823707 CGAAAGCTCA
Statistics
Matches: 182, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
183 74 0.41
184 108 0.59
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (183 bp):
TCTCAATTCACATATTCACAAACATATAAGCACAGAGTTAAAAAGATAACATAGGTATGAGAAAG
CTTACACTTGGATTTACAGTAGGGGTTTAGGCTACTACTAAATTCCCAAATAACGCATTGAATCA
TGTCCACAAGCAATTATTCCAAACACTCACCAATTATGCTTTCGTCAAAAAGT
Found at i:54831080 original size:16 final size:16
Alignment explanation
Indices: 54831059--54831091 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
54831049 CTGTAACACC
54831059 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
54831075 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
54831091 C
1 C
54831092 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.33, G:0.06, T:0.12
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:54832480 original size:18 final size:19
Alignment explanation
Indices: 54832435--54832482 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
54832425 ACTTGGGTTG
* *
54832435 AGAATTGGCCAAATGGGCC
1 AGAATGGGCTAAATGGGCC
54832454 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGCC
*
54832473 TG-ATGGGCTA
1 AGAATGGGCTA
54832483 TTGGGCCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.17, G:0.35, T:0.19
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGCC
Found at i:54832642 original size:28 final size:30
Alignment explanation
Indices: 54832566--54832643 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
54832556 TATGATTTAG
* *
54832566 GCCTA-ATGGGCCATATGAATGTGAATTGA
1 GCCTAGATGGGCCATATGAATATGAACTGA
*
54832595 GCCTAG-TGGGCCATAAGAATATGAACTG-
1 GCCTAGATGGGCCATATGAATATGAACTGA
*
54832623 GCC-AGATGGGCCATTTGAATA
1 GCCTAGATGGGCCATATGAATA
54832644 AGATTGGGCC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 2 0.05
28 16 0.38
29 24 0.57
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (30 bp):
GCCTAGATGGGCCATATGAATATGAACTGA
Found at i:54832660 original size:28 final size:29
Alignment explanation
Indices: 54832550--54832667 Score: 109
Period size: 28 Copynumber: 4.2 Consensus size: 29
54832540 GTGAGAATGA
* * *
54832550 ATAT-AATATGATTTAGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* *
54832578 ATATGAATGTGAATTGAGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* *
54832607 ATAAGAATATGAACT-GGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTAG-TGGGCC
* * *
54832635 ATTTGAATAAG-ATTGGGCCTAGTGGGTC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
54832663 ATATG
1 ATATG
54832668 CATGTATGTA
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
27 4 0.06
28 34 0.48
29 33 0.46
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Found at i:54836322 original size:17 final size:18
Alignment explanation
Indices: 54836288--54836325 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
54836278 TTGTAATAAA
* *
54836288 TTATTTAATATTTCAAAT
1 TTATTTAATATATAAAAT
54836306 TTATTTAATA-ATAAAAT
1 TTATTTAATATATAAAAT
54836323 TTA
1 TTA
54836326 AAAACAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTTAATATATAAAAT
Found at i:54836400 original size:15 final size:15
Alignment explanation
Indices: 54836374--54836436 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
54836364 GAAAATATAC
54836374 AATAAT-AATATTTT
1 AATAATAAATATTTT
54836388 AATAATAAATATTTATT
1 AATAATAAATA-TT-TT
* *
54836405 AAAATTATAAATATATT
1 --AATAATAAATATTTT
*
54836422 AATAATAAATGTTTT
1 AATAATAAATATTTT
54836437 GTGGTATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 6 0.15
15 16 0.41
16 2 0.05
17 4 0.10
18 1 0.03
19 10 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAATAAATATTTT
Found at i:54837548 original size:7 final size:7
Alignment explanation
Indices: 54837536--54837569 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
54837526 ATATAATAAC
54837536 AAATTTT
1 AAATTTT
54837543 AAATTTT
1 AAATTTT
54837550 AAATTTT
1 AAATTTT
54837557 AAATTTT
1 AAATTTT
54837564 AAATTT
1 AAATTT
54837570 CAATAATATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:54839224 original size:23 final size:25
Alignment explanation
Indices: 54839198--54839262 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 25
54839188 TTTAGGTGTT
54839198 ATAGAATACGCCACAAAGGCT-TA-
1 ATAGAATACGCCACAAAGGCTCTAC
* * *
54839221 ATAGATTATGCCACAATGGCTCTAC
1 ATAGAATACGCCACAAAGGCTCTAC
*
54839246 A-AG-ATACACCACAAAGG
1 ATAGAATACGCCACAAAGG
54839263 TTTCACAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 28 0.85
24 4 0.12
25 1 0.03
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (25 bp):
ATAGAATACGCCACAAAGGCTCTAC
Found at i:54841873 original size:16 final size:17
Alignment explanation
Indices: 54841852--54841884 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54841842 CACATTGAAG
54841852 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
54841868 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
54841885 CTTCTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:54842817 original size:27 final size:27
Alignment explanation
Indices: 54842782--54842855 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
54842772 ATTTAATCAG
*
54842782 CACACAGCCATAGGTAAATATGATCGA
1 CACACAGCCATAGGTAAATATGATAGA
* * *
54842809 CACAGAGCCAATA-ATAAATATGATAGG
1 CACACAGCC-ATAGGTAAATATGATAGA
* * *
54842836 CATATAGCCACAGGTAAATA
1 CACACAGCCATAGGTAAATA
54842856 CGATTGGCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 2 0.05
27 32 0.86
28 3 0.08
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
CACACAGCCATAGGTAAATATGATAGA
Found at i:54842978 original size:9 final size:9
Alignment explanation
Indices: 54842964--54842990 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
54842954 ACAGTCATCT
54842964 CGTGCGACC
1 CGTGCGACC
54842973 CGTGCGACC
1 CGTGCGACC
54842982 CGTGCGACC
1 CGTGCGACC
54842991 TTAACAGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.44, G:0.33, T:0.11
Consensus pattern (9 bp):
CGTGCGACC
Found at i:54843328 original size:27 final size:27
Alignment explanation
Indices: 54843297--54843377 Score: 117
Period size: 28 Copynumber: 3.0 Consensus size: 27
54843287 TTTTACCCTA
*
54843297 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
*
54843324 TAGGGGTATTTCGGTAATTTTTACAAAT
1 CAGGGGTATTTCGGTAA-TTTTACAAAT
* *
54843352 CAGAGGTATTTCGGTAACTTTACAAA
1 CAGGGGTATTTCGGTAATTTTACAAA
54843378 CTGAGATCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 23 0.48
28 25 0.52
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAT
Found at i:54845191 original size:123 final size:123
Alignment explanation
Indices: 54844972--54845310 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
54844962 GAATTATGTG
54844972 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
54845037 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
54845095 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
54845160 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
** * * * *
54845218 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
54845283 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
54845311 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:54845476 original size:40 final size:40
Alignment explanation
Indices: 54845279--54845482 Score: 237
Period size: 40 Copynumber: 5.1 Consensus size: 40
54845269 TGAATGATAC
* * * * **
54845279 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
54845319 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
54845359 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
54845399 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * **
54845439 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
54845479 CCGG
1 CCGG
54845483 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
Done.