Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 137 of 332
Found at i:44827208 original size:40 final size:40
Alignment explanation
Indices: 44827118--44827337 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
44827108 ACCCAAGTAT
* ** * *
44827118 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
44827156 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44827196 CTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44827236 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
44827276 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
44827316 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44827338 CATTCGAATA
Statistics
Matches: 153, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 120 0.78
41 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44829947 original size:9 final size:9
Alignment explanation
Indices: 44829933--44829973 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
44829923 ATAGTTAAAT
44829933 AAAGAAAGA
1 AAAGAAAGA
44829942 AAAGAAAGA
1 AAAGAAAGA
44829951 AAA-AAAGA
1 AAAGAAAGA
44829959 ATAA-AAAGA
1 A-AAGAAAGA
*
44829968 ACAGAA
1 AAAGAA
44829974 GGTGGAACGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:44829959 original size:21 final size:22
Alignment explanation
Indices: 44829933--44829973 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
44829923 ATAGTTAAAT
44829933 AAAGAA-AGAAAAGAA-AGAAAA
1 AAAGAATA-AAAAGAACAGAAAA
44829954 AAAGAATAAAAAGAACAGAA
1 AAAGAATAAAAAGAACAGAA
44829974 GGTGGAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAGAATAAAAAGAACAGAAAA
Found at i:44831089 original size:12 final size:12
Alignment explanation
Indices: 44831072--44831105 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44831062 CTGTGTACCA
44831072 CTACTGTTACTG
1 CTACTGTTACTG
44831084 CTACTGTTACTG
1 CTACTGTTACTG
* *
44831096 TTACCGTTAC
1 CTACTGTTAC
44831106 GGTGTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (12 bp):
CTACTGTTACTG
Found at i:44838237 original size:82 final size:83
Alignment explanation
Indices: 44838078--44838242 Score: 251
Period size: 82 Copynumber: 2.0 Consensus size: 83
44838068 TTTGCCTTAG
* *
44838078 AGGTATCACAATAAGTCAAATAGAATACAAGTTGCTAACATTTCTAGGTAGTTGTTTCGCAACAT
1 AGGTATCACAATAAGTCAAACAGAATACAAATTGCTAACATTTCTAGGTAGTTGTTTCGCAACAT
*
44838143 GGAATAGATGTATCGGAA
66 AGAATAGATGTATCGGAA
* * *
44838161 AGGTATCATAATAAGTCAAACAGAATACAAATTGCT-ACATTTCTAGGTGGTTGTTTTGCAACAT
1 AGGTATCACAATAAGTCAAACAGAATACAAATTGCTAACATTTCTAGGTAGTTGTTTCGCAACAT
* *
44838225 AGAATAGTTGTATTGGAA
66 AGAATAGATGTATCGGAA
44838243 CAATTATCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 41 0.55
83 33 0.45
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (83 bp):
AGGTATCACAATAAGTCAAACAGAATACAAATTGCTAACATTTCTAGGTAGTTGTTTCGCAACAT
AGAATAGATGTATCGGAA
Found at i:44840600 original size:16 final size:16
Alignment explanation
Indices: 44840579--44840609 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44840569 CATATGGGTA
*
44840579 ATAATAATAATAAAGT
1 ATAATAATAAAAAAGT
44840595 ATAATAATAAAAAAG
1 ATAATAATAAAAAAG
44840610 GAAATAAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
ATAATAATAAAAAAGT
Found at i:44842338 original size:39 final size:39
Alignment explanation
Indices: 44842284--44842370 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
44842274 AGGATTTAGC
* * * *
44842284 CCGGACATATTTCCAGCACGTAGCCTGCGAACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGAACCCTAAGT
*
44842323 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGAACCCTAAGT
44842362 CCGGATATA
1 CCGGATATA
44842371 CATCACTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGAACCCTAAGT
Found at i:44844317 original size:21 final size:20
Alignment explanation
Indices: 44844278--44844317 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44844268 TTTGTTCTTC
*
44844278 TTTTCTTATTTCAATTAATA
1 TTTTCTTATTTCAAATAATA
*
44844298 TTTTTTTATTTCAAAATAAT
1 TTTTCTTATTTC-AAATAAT
44844318 GCAAATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTCTTATTTCAAATAATA
Found at i:44846694 original size:40 final size:40
Alignment explanation
Indices: 44846620--44846747 Score: 157
Period size: 42 Copynumber: 3.1 Consensus size: 40
44846610 GGGCATGTAA
* ** *
44846620 GTGCATTCAGGGAATACAAAAGTACAAACAGGGGCACTTAT
1 GTGCATTCAGGG-GTACCGAAGTACAAACAGGGGCACATAT
44846661 GTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATACGT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATA--T
* * * *
44846703 GTGCAATCAGGGGTATCGAAGTACAAATAGGGGCACGTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATAT
44846743 GTGCA
1 GTGCA
44846748 ATCATCAATA
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
40 29 0.38
41 12 0.16
42 36 0.47
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.19
Consensus pattern (40 bp):
GTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATAT
Found at i:44846723 original size:42 final size:40
Alignment explanation
Indices: 44846639--44846751 Score: 163
Period size: 42 Copynumber: 2.8 Consensus size: 40
44846629 GGGAATACAA
* *
44846639 AAGTACAAACAGGGGCACTTATGTGCATTCAGGGGTACCG
1 AAGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCG
*
44846679 AAGTACAAACAGGGGCACATACGTGTGCAATCAGGGGTATCG
1 AAGTACAAACAGGGGCACATA--TGTGCAATCAGGGGTACCG
* *
44846721 AAGTACAAATAGGGGCACGTATGTGCAATCA
1 AAGTACAAACAGGGGCACATATGTGCAATCA
44846752 TCAATAATTA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 30 0.45
42 36 0.55
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.19
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACATATGTGCAATCAGGGGTACCG
Found at i:44850711 original size:34 final size:34
Alignment explanation
Indices: 44850662--44850753 Score: 82
Period size: 34 Copynumber: 2.7 Consensus size: 34
44850652 GTTTCAGTTA
* *
44850662 GGGCCTTAGCTCATTTCAGAATCAAAAAT-AGTG
1 GGGCCTAAGCCCATTTCAGAATCAAAAATCAGTG
* * **
44850695 TGGGCCTGAGCCCATTTTAGTAA-C-AGTATCAGTG
1 -GGGCCTAAGCCCATTTCAG-AATCAAAAATCAGTG
*
44850729 GGGCCTAAGCCCATTACAGAATCAA
1 GGGCCTAAGCCCATTTCAGAATCAA
44850754 TACAATATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
32 2 0.04
33 20 0.43
34 22 0.48
35 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGAATCAAAAATCAGTG
Found at i:44856343 original size:20 final size:19
Alignment explanation
Indices: 44856320--44856425 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 19
44856310 TACCGAAGTA
44856320 CAAACAGGGGCACGTATGTG
1 CAAACAGGGGCACG-ATGTG
** * *
44856340 CAAACAGGGATACCGAAGTA
1 CAAACAGGGGCA-CGATGTG
44856360 CAAACAGGGGCACGAATGTG
1 CAAACAGGGGCACG-ATGTG
* * *
44856380 CAAACAGGGGTACCGAAGTA
1 CAAACAGGGGCA-CGATGTG
*
44856400 CAAATAGGGGCACGAATGTG
1 CAAACAGGGGCACG-ATGTG
*
44856420 AAAACA
1 CAAACA
44856426 TTCAATAATT
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
19 4 0.06
20 57 0.88
21 4 0.06
ACGTcount: A:0.40, C:0.19, G:0.30, T:0.11
Consensus pattern (19 bp):
CAAACAGGGGCACGATGTG
Found at i:44856354 original size:40 final size:40
Alignment explanation
Indices: 44856310--44856425 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
44856300 TGTTCAGGAG
*
44856310 TACCGAAGTACAAACAGGGGCACGTATGTGCAAACAGGGA
1 TACCGAAGTACAAACAGGGGCACGAATGTGCAAACAGGGA
*
44856350 TACCGAAGTACAAACAGGGGCACGAATGTGCAAACAGGGG
1 TACCGAAGTACAAACAGGGGCACGAATGTGCAAACAGGGA
* *
44856390 TACCGAAGTACAAATAGGGGCACGAATGTGAAAACA
1 TACCGAAGTACAAACAGGGGCACGAATGTGCAAACA
44856426 TTCAATAATT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.40, C:0.19, G:0.29, T:0.12
Consensus pattern (40 bp):
TACCGAAGTACAAACAGGGGCACGAATGTGCAAACAGGGA
Found at i:44858547 original size:5 final size:5
Alignment explanation
Indices: 44858537--44858564 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
44858527 ACTAAGTAAC
44858537 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
44858565 AACACAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:44859254 original size:28 final size:28
Alignment explanation
Indices: 44859222--44859291 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
44859212 AATGAGATTG
*
44859222 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
44859250 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
44859278 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44859292 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:44872680 original size:30 final size:30
Alignment explanation
Indices: 44872616--44872704 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
44872606 GTGATTAAGT
* * * *
44872616 TGCTCACACAAGCTAACATTATATTAGGGT
1 TGCTCACACAAGCTGACATTATATCAAGGA
*
44872646 TGCTCACACAAGCTGACATTATATCAATGA
1 TGCTCACACAAGCTGACATTATATCAAGGA
* * *
44872676 TGCTCATACAAGTTGAAATTTATATCAAG
1 TGCTCACACAAGCTGACA-TTATATCAAG
44872705 TTACTTGTCC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 40 0.82
31 9 0.18
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (30 bp):
TGCTCACACAAGCTGACATTATATCAAGGA
Found at i:44876802 original size:39 final size:39
Alignment explanation
Indices: 44876748--44876825 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
44876738 ATGTGCATAG
44876748 AGACTATGTTATAAAGCCAATTGAAATCATGCTCTTTGT
1 AGACTATGTTATAAAGCCAATTGAAATCATGCTCTTTGT
44876787 AGACTATGTTATAAAGCCAATTGAAATCATGCTCTTTGT
1 AGACTATGTTATAAAGCCAATTGAAATCATGCTCTTTGT
44876826 GTGTGGCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (39 bp):
AGACTATGTTATAAAGCCAATTGAAATCATGCTCTTTGT
Found at i:44877091 original size:80 final size:80
Alignment explanation
Indices: 44876948--44877098 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
44876938 CATTTGAATG
* * * * * * *
44876948 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCTAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
*
44877013 TTTGTGTGAGTTGAT
66 ATTGTGTGAGTTGAT
* *
44877028 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
44877092 AATTGTG
65 AATTGTG
44877099 CTTGTGGTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 58 0.97
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGTGAGTTGAT
Found at i:44877098 original size:40 final size:40
Alignment explanation
Indices: 44876952--44877099 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
44876942 TGAATGATAT
* * * * *
44876952 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
* * * *
44876992 CCGGGCTAAGTCCCTAAGGCATTTGTGTGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
*
44877032 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
* *
44877072 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
44877100 TTGTGGTTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 92 0.97
41 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
Found at i:44879999 original size:54 final size:54
Alignment explanation
Indices: 44879935--44880042 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
44879925 CATTACTTAG
44879935 AAGATTCCCTTTCACATCCTCGAATGATAGATTATCTCTCCCATAAATCAGATT
1 AAGATTCCCTTTCACATCCTCGAATGATAGATTATCTCTCCCATAAATCAGATT
* *
44879989 AAGATTCCCTTTTACATCCTTGAATGATAGATTATCTCTCCCATAAATCAGATT
1 AAGATTCCCTTTCACATCCTCGAATGATAGATTATCTCTCCCATAAATCAGATT
44880043 GAAAGTTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.35
Consensus pattern (54 bp):
AAGATTCCCTTTCACATCCTCGAATGATAGATTATCTCTCCCATAAATCAGATT
Found at i:44886587 original size:23 final size:23
Alignment explanation
Indices: 44886559--44886605 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
44886549 TGGTAAGTTA
*
44886559 TGTTTTATGTTTTACGAACTTAC
1 TGTTTTATGTTTTACAAACTTAC
44886582 TGTTTTATGTTTTACAAACTTAC
1 TGTTTTATGTTTTACAAACTTAC
44886605 T
1 T
44886606 AAGCATTATG
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:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (23 bp):
TGTTTTATGTTTTACAAACTTAC
Found at i:44890398 original size:20 final size:20
Alignment explanation
Indices: 44890352--44890456 Score: 88
Period size: 20 Copynumber: 5.2 Consensus size: 20
44890342 TTGTATGAGA
*
44890352 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
* * *
44890372 ATACACTTTGGTGTCTCTGT
1 TTGCACTTTGGTGCCTCTGT
** *
44890392 TTGCACTACGGTGCCT-TGA
1 TTGCACTTTGGTGCCTCTGT
* *
44890411 TTGGACATTT-TTGCCTCTGT
1 TTGCAC-TTTGGTGCCTCTGT
*
44890431 TTGCACTTTGGTGCCTTTGT
1 TTGCACTTTGGTGCCTCTGT
44890451 TATGCA
1 T-TGCA
44890457 TCGATGCCTT
Statistics
Matches: 63, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
19 15 0.24
20 44 0.70
21 4 0.06
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGT
Found at i:44893468 original size:47 final size:46
Alignment explanation
Indices: 44893290--44893469 Score: 186
Period size: 47 Copynumber: 3.8 Consensus size: 46
44893280 TTATTTGTGT
* ** *
44893290 GCTAGTGTAAGA-CATGTCTGGGACAT-GTATCGACCACATTGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTGA-TGTGAAA
* *
44893336 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCACTGATATGTGACAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTG--ATGTGA-AA
* *
44893387 GTTAGTGTAAGACTATGTCTGGGACATGGCATCGACTTGATG-GATAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TGATGTGA-AA
44893434 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
44893470 ATTATATCCT
Statistics
Matches: 115, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
46 11 0.10
47 51 0.44
48 7 0.06
49 4 0.03
50 9 0.08
51 33 0.29
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTGATGTGAAA
Found at i:44894653 original size:20 final size:21
Alignment explanation
Indices: 44894614--44894653 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44894604 GTTATAATGA
44894614 CCACACGGGCATGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
44894635 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCATGTTGCCCT
44894654 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:44896475 original size:103 final size:104
Alignment explanation
Indices: 44896296--44896560 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 104
44896286 AACCGTTATT
* * * *
44896296 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
44896361 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
44896399 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
44896463 AATTAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
44896503 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
44896561 TTATGTACAA
Statistics
Matches: 148, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 1 0.01
103 81 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:44896922 original size:30 final size:29
Alignment explanation
Indices: 44896888--44896952 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
44896878 TAATCCACCA
44896888 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
44896918 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
44896948 CCCAA
1 CCCAA
44896953 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:44896926 original size:31 final size:30
Alignment explanation
Indices: 44896895--44896952 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44896885 CCACCCAACT
44896895 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
44896925 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
44896953 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:44903816 original size:22 final size:21
Alignment explanation
Indices: 44903786--44903844 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
44903776 ATACAATCGT
*
44903786 AGATTTGATATGTAATCTTAGG
1 AGATTTGATTTGTAATCTTA-G
*
44903808 AGATATGATTTTGTAAATCTTAG
1 AGATTTGA-TTTGT-AATCTTAG
44903831 AGATTTGATTTGTA
1 AGATTTGATTTGTA
44903845 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:44913923 original size:17 final size:16
Alignment explanation
Indices: 44913896--44913929 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
44913886 ATGTTTGGGG
44913896 GAAATTAAAAATATAA
1 GAAATTAAAAATATAA
*
44913912 GAAATATAAAAATTTAA
1 GAAAT-TAAAAATATAA
44913929 G
1 G
44913930 CATAATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
GAAATTAAAAATATAA
Found at i:44919467 original size:7 final size:7
Alignment explanation
Indices: 44919455--44919492 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
44919445 ATTCTCTCAA
44919455 TTCTTTC
1 TTCTTTC
44919462 TTCTTTC
1 TTCTTTC
44919469 TTCTTTGC
1 TTCTTT-C
*
44919477 TACTTTC
1 TTCTTTC
44919484 TTC-TTC
1 TTCTTTC
44919490 TTC
1 TTC
44919493 CTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.21
7 16 0.57
8 6 0.21
ACGTcount: A:0.03, C:0.29, G:0.03, T:0.66
Consensus pattern (7 bp):
TTCTTTC
Found at i:44919484 original size:15 final size:14
Alignment explanation
Indices: 44919455--44919488 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
44919445 ATTCTCTCAA
*
44919455 TTCTTTCTTCTTTC
1 TTCTTTCTACTTTC
44919469 TTCTTTGCTACTTTC
1 TTCTTT-CTACTTTC
44919484 TTCTT
1 TTCTT
44919489 CTTCCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.68
Consensus pattern (14 bp):
TTCTTTCTACTTTC
Found at i:44925060 original size:10 final size:10
Alignment explanation
Indices: 44925031--44925120 Score: 64
Period size: 10 Copynumber: 9.4 Consensus size: 10
44925021 CATGTGATTA
*
44925031 AAAAATAATT
1 AAAAATTATT
44925041 AAAAA--A-T
1 AAAAATTATT
44925048 AAAAATTATT
1 AAAAATTATT
** *
44925058 AAATTTTAATA
1 AAAAATT-ATT
44925069 AAAAATTATT
1 AAAAATTATT
* *
44925079 TAAAATT-TA
1 AAAAATTATT
44925088 AAAAATTATT
1 AAAAATTATT
* *
44925098 AAAAATCATA
1 AAAAATTATT
44925108 AAAAATTA-T
1 AAAAATTATT
44925117 AAAA
1 AAAA
44925121 TATATAGAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
7 6 0.10
8 1 0.02
9 12 0.20
10 35 0.57
11 7 0.11
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:44925071 original size:19 final size:19
Alignment explanation
Indices: 44925048--44925121 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
44925038 ATTAAAAAAT
*
44925048 AAAAATTATTAAATTTTAATA
1 AAAAATTATTAAAATTT-A-A
44925069 AAAAATTATTTAAAATTT-A
1 AAAAATTA-TTAAAATTTAA
* *
44925088 AAAAATTATTAAAAATCATA
1 AAAAATTATTAAAATTTA-A
44925108 AAAAATTA-TAAAAT
1 AAAAATTATTAAAAT
44925122 ATATAGAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.15
19 14 0.30
20 9 0.20
21 8 0.17
22 8 0.17
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTATTAAAATTTAA
Found at i:44925094 original size:9 final size:10
Alignment explanation
Indices: 44925066--44925120 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
44925056 TTAAATTTTA
44925066 ATAAAAAATT
1 ATAAAAAATT
**
44925076 ATTTAAAATT
1 ATAAAAAATT
44925086 -TAAAAAATT
1 ATAAAAAATT
* *
44925095 ATTAAAAATC
1 ATAAAAAATT
44925105 ATAAAAAATT
1 ATAAAAAATT
44925115 ATAAAA
1 ATAAAA
44925121 TATATAGAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
9 7 0.19
10 29 0.81
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:44925173 original size:21 final size:21
Alignment explanation
Indices: 44925157--44925220 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
44925147 ACAATTTTAT
44925157 AAAGTTGT-AAGAAAATTATAA
1 AAAG-TGTAAAGAAAATTATAA
*
44925178 AAAGTGTAAAG-AAA-TACAA
1 AAAGTGTAAAGAAAATTATAA
**
44925197 AATTTGT-AAGAAAAATTATAA
1 AAAGTGTAAAG-AAAATTATAA
44925218 AAA
1 AAA
44925221 TTATCGTACC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 9 0.26
21 13 0.38
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAGTGTAAAGAAAATTATAA
Found at i:44925420 original size:21 final size:22
Alignment explanation
Indices: 44925375--44925421 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
44925365 TTAAAGGACA
* **
44925375 TTTTTTATGTTTTTTTATAGTT
1 TTTTTTATGTATTTTTATAAAT
44925397 TTTTTTATG-ATTTTTATAAAT
1 TTTTTTATGTATTTTTATAAAT
44925418 TTTT
1 TTTT
44925422 ACAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (22 bp):
TTTTTTATGTATTTTTATAAAT
Found at i:44925420 original size:22 final size:22
Alignment explanation
Indices: 44925375--44925421 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
44925365 TTAAAGGACA
* *
44925375 TTTTTTATGTTTTTTTATAGTT
1 TTTTTTATGTTTTTATATAATT
44925397 TTTTTTATGATTTTTATA-AATT
1 TTTTTTATG-TTTTTATATAATT
44925419 TTT
1 TTT
44925422 ACAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (22 bp):
TTTTTTATGTTTTTATATAATT
Found at i:44925438 original size:10 final size:10
Alignment explanation
Indices: 44925375--44925452 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 10
44925365 TTAAAGGACA
*
44925375 TTTTTTATGT
1 TTTTTTATAT
44925385 TTTTTTATAGT
1 TTTTTTATA-T
44925396 TTTTTT-TAT
1 TTTTTTATAT
* *
44925405 GATTTTTATAA
1 -TTTTTTATAT
* *
44925416 ATTTTTACAAT
1 TTTTTTA-TAT
44925427 TTTTTTATAT
1 TTTTTTATAT
*
44925437 TTCATTTACTAT
1 TT-TTTTA-TAT
44925449 TTTT
1 TTTT
44925453 ATAAAAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
9 1 0.02
10 26 0.49
11 21 0.40
12 5 0.09
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:44925479 original size:19 final size:19
Alignment explanation
Indices: 44925457--44925506 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
44925447 ATTTTTATAA
44925457 AAAAATTCTAATTTTCAA-T
1 AAAAATT-TAATTTTCAATT
* *
44925476 AAAATTTTATATTTTTAATT
1 AAAAATTTA-ATTTTCAATT
44925496 AAAAATTTAAT
1 AAAAATTTAAT
44925507 AATTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 15 0.58
20 9 0.35
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAAATTTAATTTTCAATT
Found at i:44938252 original size:15 final size:16
Alignment explanation
Indices: 44938232--44938261 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44938222 AATTATATCC
44938232 ATATTATA-ATTTTTT
1 ATATTATATATTTTTT
44938247 ATATTATATATTTTT
1 ATATTATATATTTTT
44938262 AACATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTATATATTTTTT
Found at i:44940509 original size:42 final size:42
Alignment explanation
Indices: 44940445--44940533 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
44940435 TCCTAATTGG
* *
44940445 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
* *
44940487 GAAAATAGTTCTCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
44940529 TAAAA
1 GAAAA
44940534 ATATTCCTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:44943359 original size:38 final size:38
Alignment explanation
Indices: 44943308--44943383 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
44943298 CCAAACATCA
44943308 CTATGAATTAACGAAAAAGGTTTGGAGGCTTTATATTT
1 CTATGAATTAACGAAAAAGGTTTGGAGGCTTTATATTT
44943346 CTATGAATTAACGAAAAAGGTTTGGAGGCTTTATATTT
1 CTATGAATTAACGAAAAAGGTTTGGAGGCTTTATATTT
44943384 TTGAGGTGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (38 bp):
CTATGAATTAACGAAAAAGGTTTGGAGGCTTTATATTT
Found at i:44944502 original size:42 final size:42
Alignment explanation
Indices: 44944438--44944526 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
44944428 TCCTAATTGG
* *
44944438 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
44944480 GAAAATAGTTCCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
44944522 TAAAA
1 GAAAA
44944527 ATATTCCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:44946806 original size:3 final size:3
Alignment explanation
Indices: 44946800--44946825 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44946790 ATTACATCCA
44946800 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
44946826 AACATTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44958245 original size:17 final size:17
Alignment explanation
Indices: 44958212--44958245 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44958202 GTACTAAGTG
*
44958212 CAGGCTACTACGTGTAT
1 CAGGCTACTACGCGTAT
*
44958229 CAGGCTACTATGCGTAT
1 CAGGCTACTACGCGTAT
44958246 TAGATAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (17 bp):
CAGGCTACTACGCGTAT
Found at i:44962768 original size:65 final size:65
Alignment explanation
Indices: 44962593--44962757 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 65
44962583 AACTCATCGG
* * * * *
44962593 AACAGAACGCTCATAAAGAGCTACGTTTGTGTCCGCAACATATGTAGGATCACAACCGATCGCAT
1 AACAGGACACTCATAAAGAGCTATGTTTGTGTCCGCAACATATGCAGGATCACAACCGATCGAAT
* * * * * * *
44962658 AACAGGACGCTCATAAAGAGTTGTGTTTGTGTCTGTAACATATGCAGGATCATAACCGAT-TAAT
1 AACAGGACACTCATAAAGAGCTATGTTTGTGTCCGCAACATATGCAGGATCACAACCGATCGAAT
* *
44962722 AAACATGACACTTATAAAGAGCTATGTTTGTGTCCG
1 -AACAGGACACTCATAAAGAGCTATGTTTGTGTCCG
44962758 AGCTATATGC
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
64 2 0.02
65 81 0.98
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (65 bp):
AACAGGACACTCATAAAGAGCTATGTTTGTGTCCGCAACATATGCAGGATCACAACCGATCGAAT
Found at i:44967070 original size:40 final size:40
Alignment explanation
Indices: 44966866--44967126 Score: 354
Period size: 40 Copynumber: 6.5 Consensus size: 40
44966856 ACCCAAGTAT
* *
44966866 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGC
* * **
44966905 CTTCGGGTCTTAGCCC-GATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTTGCACAAATGC
*
44966944 CTT-GGGACTTAGCCCGGATA-AGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTTGCACAAATGC
*
44966982 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACT--T-GCACAAATGC
*
44967025 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGC
44967065 CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGC
44967105 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44967127 CATCCGAATA
Statistics
Matches: 200, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
38 30 0.15
39 53 0.26
40 79 0.40
41 1 0.00
43 37 0.19
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATGC
Found at i:44974948 original size:42 final size:40
Alignment explanation
Indices: 44974780--44974962 Score: 248
Period size: 40 Copynumber: 4.5 Consensus size: 40
44974770 ACCCAAGTAT
* *
44974780 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
44974819 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
44974859 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
44974899 CTTCGGGACTTAGCCCGG-TATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
44974941 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44974963 CATCCGAATA
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 1 0.01
39 20 0.16
40 76 0.59
41 1 0.01
42 28 0.22
43 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44982431 original size:48 final size:48
Alignment explanation
Indices: 44982299--44982424 Score: 198
Period size: 48 Copynumber: 2.6 Consensus size: 48
44982289 TCTCAAATCG
* *
44982299 ATGCCATGTCCCAAACATGGTCTTACATGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCA
* * * *
44982347 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCA
44982395 ATGCCATGTCCCAGACATGGTCTTACATGG
1 ATGCCATGTCCCAGACATGGTCTTACATGG
44982425 TTTCACACCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCA
Found at i:44987502 original size:28 final size:28
Alignment explanation
Indices: 44987462--44987531 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
44987452 ATAGTAAGTC
*
44987462 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
44987490 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
44987518 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44987532 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:44991861 original size:49 final size:50
Alignment explanation
Indices: 44991635--44991878 Score: 211
Period size: 50 Copynumber: 4.8 Consensus size: 50
44991625 ATTTTGAGAA
* * *** *
44991635 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG--TTAGGT
* * ** * *** * *
44991687 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTTAGGT
* * *
44991738 CACATTTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * * *
44991788 CACGTGTGTAGTACTAAGTGCAGGCTATTACTTGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * * *
44991837 CGCATGTGTAGTACTAAGTACAGGCTACTATGAGTACCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
44991879 AGCTTCGGTT
Statistics
Matches: 151, Mismatches: 40, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
49 38 0.25
50 43 0.28
51 37 0.25
52 33 0.22
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:44992099 original size:16 final size:15
Alignment explanation
Indices: 44992078--44992107 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44992068 GAATGTAGCA
44992078 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
44992094 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
44992108 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:44999620 original size:43 final size:43
Alignment explanation
Indices: 44999573--44999737 Score: 167
Period size: 43 Copynumber: 3.8 Consensus size: 43
44999563 CAATGCCAAC
* *
44999573 GTCCCAGACGTGGTCTTACATGTAATCAAATATTGATGCCTCT
1 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCTAT
* *
44999616 GTCCCAGACAG-GGTCTTATATGAAATCAAAT-TCGATG-CTGAT
1 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCT-AT
* * * *
44999658 GTCCCAGACATGGTCTTTCATGTAAATCTCAA-ATCGATGCCAAT
1 GTCCCAGACGTGGTCTTACATGT-AATC-AAATATCGATGCCTAT
* * *
44999702 GTCCCAGACGTGGTCTTACACGAAATCACATATCGA
1 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGA
44999738 AGTCTTATGT
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 25 0.26
43 40 0.41
44 30 0.31
45 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCTAT
Found at i:44999719 original size:86 final size:85
Alignment explanation
Indices: 44999573--44999729 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
44999563 CAATGCCAAC
* * ** * *
44999573 GTCCCAGACGTGGTCTTACATGTAATCAAATATTGATGCCTCTGTCCCAGACAGGGTCTTATATG
1 GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACG
44999638 AAATCAAATTCGATGCTGAT
66 AAATCAAATTCGATGCTGAT
* *
44999658 GTCCCAGACATGGTCTTTCATGTAAATCTCAA-ATCGATGCCAATGTCCCAGAC-GTGGTCTTAC
1 GTCCCAGACATGGTCTTACATGT-AATC-AAATATCGATGCCAATGTCCCAGACAG-GGTCTTAC
44999721 ACGAAATCA
63 ACGAAATCA
44999730 CATATCGAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 22 0.36
86 37 0.61
87 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACG
AAATCAAATTCGATGCTGAT
Found at i:45007338 original size:44 final size:44
Alignment explanation
Indices: 45007245--45007356 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
45007235 GATTCTTCTA
* * *
45007245 TCCCAGACAGGGTCTTATACGAAA--TCAAATACGATGTCAATG
1 TCCCAGACATGGTCTTACACGAAATCTCAAATACGATGCCAATG
*
45007287 TCTCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAATG
1 TCCCAGACATGGTCTTACACG-AAATCTCAAATACGATGCCAATG
* **
45007331 TCCCAGACGTTATCTTACACGAAATC
1 TCCCAGACATGGTCTTACACGAAATC
45007357 ACATATCGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 18 0.31
43 8 0.14
44 27 0.46
45 6 0.10
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGAAATCTCAAATACGATGCCAATG
Found at i:45010291 original size:3 final size:3
Alignment explanation
Indices: 45010283--45010336 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
45010273 AAGGGCCCAA
* * * * *
45010283 ATT ATT ATT ATT ATT ATC ATT ATT ACT ACT ACT ATT ATT AAAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
45010329 ATT ATT AT
1 ATT ATT AT
45010337 CTTCTTCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:45010843 original size:21 final size:19
Alignment explanation
Indices: 45010794--45010839 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
45010784 AATAAAGTTT
*
45010794 TGATTTTTAAGAAAAATAG
1 TGATTTTTAAGAAAAAAAG
45010813 TGATTTTTAAGAAAAAAAG
1 TGATTTTTAAGAAAAAAAG
45010832 TGATTTTT
1 TGATTTTT
45010840 TTAAAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.41
Consensus pattern (19 bp):
TGATTTTTAAGAAAAAAAG
Found at i:45010846 original size:19 final size:19
Alignment explanation
Indices: 45010797--45010846 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
45010787 AAAGTTTTGA
45010797 TTTTTAAGAAAAATAGTGA-
1 TTTTTAA-AAAAATAGTGAT
*
45010816 TTTTTAAGAAAAAAAGTGAT
1 TTTTTAA-AAAAATAGTGAT
*
45010836 TTTTTTAAAAA
1 TTTTTAAAAAA
45010847 GAGAAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
TTTTTAAAAAAATAGTGAT
Found at i:45010934 original size:31 final size:31
Alignment explanation
Indices: 45010899--45010963 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
45010889 TAAAGGAAAA
*
45010899 TTTTTAA-AATTTTAAAACAAAGTTTTGATCT
1 TTTTTAATAATATTAAAACAAAGTTTTGAT-T
* * *
45010930 TTTTTAATTATATTGAAATAAAGTTTTGATT
1 TTTTTAATAATATTAAAACAAAGTTTTGATT
45010961 TTT
1 TTT
45010964 AAGAAAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (31 bp):
TTTTTAATAATATTAAAACAAAGTTTTGATT
Found at i:45027381 original size:42 final size:42
Alignment explanation
Indices: 45027335--45027779 Score: 271
Period size: 42 Copynumber: 10.6 Consensus size: 42
45027325 TCAGCTGTGG
* *
45027335 AGGTCTATTTACTTTACATTGCATTTAGAGACCCAGGCATAC
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* ** **
45027377 AGGTCCATTTACTTTTTATTGCATTTAGAGACCCAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* * ** **
45027419 AGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* * * * ** **
45027461 AGGTTCATTTACTTTTTATTTCATTTAGAGGCCCAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* * * * * ** **
45027503 AGTTTCATTTACTTTTCATTACATTTAAAGGCCCAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* * * ** **
45027545 ATGTCCATTTACTTTTCATTGCATTTAGGGGCCCAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* * * * ** **
45027587 AGGTTCATTTAATTTTCATTGCATTTAAAGACCCATGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* * ** **
45027629 AGGTCCATTTGCTTTTCATTGCATTTAGAGACCTAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* * ** ** **
45027671 AGGTCCATTGACTTTTCATTGCATTTAGAGGCTTAGGTGTGG
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
* * * * **
45027713 AGGTCCGTTTACTTTTCATTGTATTTAAAGTCCCAGGTGTGA-
1 AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCAT-AC
* *
45027755 GGGTCCATTTACTTTTCCTTGCATT
1 AGGTCCATTTACTTTTCATTGCATT
45027780 CTCATTTCAA
Statistics
Matches: 349, Mismatches: 53, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
42 349 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (42 bp):
AGGTCCATTTACTTTTCATTGCATTTAGAGACCCAGGCATAC
Found at i:45027448 original size:84 final size:84
Alignment explanation
Indices: 45027330--45027779 Score: 569
Period size: 84 Copynumber: 5.4 Consensus size: 84
45027320 AATGCTCAGC
* * * ** ** *
45027330 TGTGGAGGTCTATTTACTTTACATTGCATTTAGAGACCCAGGCATACAGGTCCATTTACTTTTTA
1 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCA
45027395 TTGCATTTAGAGACCCAGG
66 TTGCATTTAGAGACCCAGG
* * *
45027414 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTTTA
1 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCA
* *
45027479 TTTCATTTAGAGGCCCAGG
66 TTGCATTTAGAGACCCAGG
* * * * *
45027498 TGTGGAGTTTCATTTACTTTTCATTACATTTAAAGGCCCAGGTGTGGATGTCCATTTACTTTTCA
1 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCA
* *
45027563 TTGCATTTAGGGGCCCAGG
66 TTGCATTTAGAGACCCAGG
* * * * * *
45027582 TGTGGAGGTTCATTTAATTTTCATTGCATTTAAAGACCCATGTGTGGAGGTCCATTTGCTTTTCA
1 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCA
*
45027647 TTGCATTTAGAGACCTAGG
66 TTGCATTTAGAGACCCAGG
* ** *
45027666 TGTGGAGGTCCATTGACTTTTCATTGCATTTAGAGGCTTAGGTGTGGAGGTCCGTTTACTTTTCA
1 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCA
* * *
45027731 TTGTATTTAAAGTCCCAGG
66 TTGCATTTAGAGACCCAGG
*
45027750 TGT-GAGGGTCCATTTACTTTTCCTTGCATT
1 TGTGGA-GGTCCATTTACTTTTCATTGCATT
45027780 CTCATTTCAA
Statistics
Matches: 318, Mismatches: 47, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
83 2 0.01
84 316 0.99
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (84 bp):
TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCA
TTGCATTTAGAGACCCAGG
Found at i:45027472 original size:126 final size:126
Alignment explanation
Indices: 45027330--45027779 Score: 598
Period size: 126 Copynumber: 3.6 Consensus size: 126
45027320 AATGCTCAGC
* * ** ** *
45027330 TGTGGAGG-TCTATTTACTTTACATTGCATTTAGAGACCCAGGCATACAGGTCCATTTACTTTTT
1 TGTGGAGGTTC-ATTTACTTTTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTTACTTTTC
45027394 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
65 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
* * * * * *
45027456 TGTGGAGGTTCATTTACTTTTTATTTCATTTAGAGGCCCAGGTGTGGAGTTTCATTTACTTTTCA
1 TGTGGAGGTTCATTTACTTTTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTTACTTTTCA
* * * * * *
45027521 TTACATTTAAAGGCCCAGGTGTGGATGTCCATTTACTTTTCATTGCATTTAGGGGCCCAGG
66 TTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
* * *
45027582 TGTGGAGGTTCATTTAATTTTCATTGCATTTAAAGACCCATGTGTGGAGGTCCATTTGCTTTTCA
1 TGTGGAGGTTCATTTACTTTTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTTACTTTTCA
* * *
45027647 TTGCATTTAGAGACCTAGGTGTGGAGGTCCATTGACTTTTCATTGCATTTAGAGGCTTAGG
66 TTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
* * * *
45027708 TGTGGAGGTCCGTTTACTTTTCATTGTATTTAAAGTCCCAGGTGT-GAGGGTCCATTTACTTTTC
1 TGTGGAGGTTCATTTACTTTTCATTGCATTTAAAGACCCAGGTGTGGA-GGTCCATTTACTTTTC
*
45027772 CTTGCATT
65 ATTGCATT
45027780 CTCATTTCAA
Statistics
Matches: 279, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
125 2 0.01
126 275 0.99
127 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (126 bp):
TGTGGAGGTTCATTTACTTTTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCATTTACTTTTCA
TTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
Found at i:45028515 original size:24 final size:25
Alignment explanation
Indices: 45028488--45028535 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
45028478 GATCTTAGGA
*
45028488 AAAGTTTTGATTTTTAAAA-AAAAG
1 AAAGTTTAGATTTTTAAAATAAAAG
45028512 AAAGTTTAGATTTTTAAAATAAAA
1 AAAGTTTAGATTTTTAAAATAAAA
45028536 ATATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (25 bp):
AAAGTTTAGATTTTTAAAATAAAAG
Found at i:45028638 original size:131 final size:131
Alignment explanation
Indices: 45028498--45028760 Score: 427
Period size: 131 Copynumber: 2.0 Consensus size: 131
45028488 AAAGTTTTGA
* *
45028498 TTTTTAAAAAAAAGAAAGTTTAGATTTTTAAAATAAAAATATATTTTTTAGTCATATTAAAGGAA
1 TTTTTAAAAAAAAGAAAGTTTAAATTTTTAAAATAAAAATATACTTTTTAGTCATATTAAAGGAA
* *
45028563 AAGTTTAAATTCTTAAAACAAGGTTTTGATCTTTTTCAACTATTCCGAAAATAAAGTTTTAATTT
66 AAGTTTAAATTCTTAAAACAAAGTTTTGATATTTTTCAACTATTCCGAAAATAAAGTTTTAATTT
45028628 T
131 T
* * *
45028629 TTTTTAAAAAAGAGAAAGTTTAAATTTTTAAAATAAAAATATGCTTTTTAGTTATATTAAAGGAA
1 TTTTTAAAAAAAAGAAAGTTTAAATTTTTAAAATAAAAATATACTTTTTAGTCATATTAAAGGAA
* ** *
45028694 AAGTTTAAATTCTTAAAATAAAGTTTTGATATTTTTCAACTATTTTGAAAATAAAGTTTTGATTT
66 AAGTTTAAATTCTTAAAACAAAGTTTTGATATTTTTCAACTATTCCGAAAATAAAGTTTTAATTT
45028759 T
131 T
45028760 T
1 T
45028761 AAGAAAATTA
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 121 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (131 bp):
TTTTTAAAAAAAAGAAAGTTTAAATTTTTAAAATAAAAATATACTTTTTAGTCATATTAAAGGAA
AAGTTTAAATTCTTAAAACAAAGTTTTGATATTTTTCAACTATTCCGAAAATAAAGTTTTAATTT
T
Found at i:45035078 original size:26 final size:26
Alignment explanation
Indices: 45035049--45035156 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
45035039 TGATACAAAT
45035049 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45035075 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45035101 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45035127 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45035153 TGAT
1 TGAT
45035157 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45042155 original size:25 final size:26
Alignment explanation
Indices: 45042114--45042218 Score: 189
Period size: 25 Copynumber: 4.2 Consensus size: 26
45042104 TGATACAAAT
45042114 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45042140 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
45042164 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45042190 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45042215 TGAT
1 TGAT
45042219 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
24 9 0.12
25 52 0.68
26 16 0.21
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45044900 original size:23 final size:25
Alignment explanation
Indices: 45044880--45044929 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45044870 AACAAATAAT
45044880 TGTGACAGAGCCACCAGAATAGATA
1 TGTGACAGAGCCACCAGAATAGATA
* * *
45044905 TGTGGCAGTGCCACCAGATTAGATA
1 TGTGACAGAGCCACCAGAATAGATA
45044930 ATTGTGGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
TGTGACAGAGCCACCAGAATAGATA
Found at i:45044943 original size:27 final size:27
Alignment explanation
Indices: 45044858--45044948 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
45044848 GTGCTAATGA
* * * *
45044858 CAGTGTCACCAGAACAAATAATTGTGA
1 CAGTGCCACCAGAATAGATAATTGTGG
*
45044885 CAGAGCCACCAGAATAGAT-A-TGTGG
1 CAGTGCCACCAGAATAGATAATTGTGG
*
45044910 CAGTGCCACCAGATTAGATAATTGTGG
1 CAGTGCCACCAGAATAGATAATTGTGG
*
45044937 CATTGCCACCAG
1 CAGTGCCACCAG
45044949 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.39
26 2 0.04
27 31 0.57
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGTGCCACCAGAATAGATAATTGTGG
Found at i:45046815 original size:10 final size:9
Alignment explanation
Indices: 45046792--45046816 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45046782 TTGAAAACCA
45046792 CAAAAATCC
1 CAAAAATCC
45046801 CAAAAATCC
1 CAAAAATCC
45046810 CAAAAAT
1 CAAAAAT
45046817 TGGGGCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAAAATCC
Found at i:45052753 original size:27 final size:27
Alignment explanation
Indices: 45052699--45052809 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
45052689 AGCATGGTTG
* * *
45052699 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
45052725 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
45052752 CCAGAACAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
45052779 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
45052806 CCAG
1 CCAG
45052810 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:45052783 original size:54 final size:53
Alignment explanation
Indices: 45052699--45052809 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
45052689 AGCATGGTTG
*
45052699 CCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
* * *
45052752 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
45052806 CCAG
1 CCAG
45052810 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
Found at i:45052985 original size:18 final size:18
Alignment explanation
Indices: 45052962--45052996 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
45052952 CAATAATTTC
45052962 TATACATAGGGGTATTAT
1 TATACATAGGGGTATTAT
45052980 TATACATAGGGGTATTA
1 TATACATAGGGGTATTA
45052997 AGTAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (18 bp):
TATACATAGGGGTATTAT
Found at i:45054299 original size:24 final size:24
Alignment explanation
Indices: 45054272--45054334 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
45054262 TCTAATCGGT
45054272 TCCTAAATCCTCTCCCTTATCAGC
1 TCCTAAATCCTCTCCCTTATCAGC
*
45054296 TCCTAAATCCTCTCTCTTATCAGC
1 TCCTAAATCCTCTCCCTTATCAGC
* *
45054320 TCCCAAATCTTCTCC
1 TCCTAAATCCTCTCC
45054335 TGACAGCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.21, C:0.41, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCTAAATCCTCTCCCTTATCAGC
Found at i:45054341 original size:22 final size:24
Alignment explanation
Indices: 45054258--45054341 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 24
45054248 CCAACACCGT
* * * *
45054258 TCTCTCTAATCGGTTCCTAAATCC
1 TCTCTCTGATCAGCTCCCAAATCC
* * *
45054282 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCTCTGATCAGCTCCCAAATCC
* *
45054306 TCTCTCTTATCAGCTCCCAAATCT
1 TCTCTCTGATCAGCTCCCAAATCC
45054330 TCTC-CTGA-CAGC
1 TCTCTCTGATCAGC
45054342 CTTTCACTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 4 0.08
23 3 0.06
24 45 0.87
ACGTcount: A:0.20, C:0.38, G:0.07, T:0.35
Consensus pattern (24 bp):
TCTCTCTGATCAGCTCCCAAATCC
Found at i:45056575 original size:33 final size:32
Alignment explanation
Indices: 45056536--45056617 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
45056526 AATCTATATT
*
45056536 TTTTTTAAATATTGATTT-GAAAATTTGTAGTCA
1 TTTTTTAAATATT--TTTACAAAATTTGTAGTCA
*
45056569 TTTTTTAAAATATTTTTACAAAATTTTTAGTCA
1 TTTTTT-AAATATTTTTACAAAATTTGTAGTCA
**
45056602 TTTTAAAAATATTTTT
1 TTTTTTAAATATTTTT
45056618 TTAATTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
32 13 0.30
33 23 0.53
34 7 0.16
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (32 bp):
TTTTTTAAATATTTTTACAAAATTTGTAGTCA
Found at i:45056618 original size:33 final size:33
Alignment explanation
Indices: 45056555--45056617 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
45056545 TATTGATTTG
*
45056555 AAAATTTGTAGTCATTTTTTAAAATATTTTTAC
1 AAAATTTGTAGTCATTTTTAAAAATATTTTTAC
*
45056588 AAAATTTTTAGTCA-TTTTAAAAATATTTTT
1 AAAATTTGTAGTCATTTTTAAAAATATTTTT
45056618 TTAATTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (33 bp):
AAAATTTGTAGTCATTTTTAAAAATATTTTTAC
Found at i:45069261 original size:46 final size:46
Alignment explanation
Indices: 45069208--45069387 Score: 199
Period size: 46 Copynumber: 3.9 Consensus size: 46
45069198 TTGTGGGCTA
* *
45069208 GTGTAAGACGTGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCT
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGCCT
* *
45069254 GTGTAAGACCATGTCTAGGACATGGCATCGG-CATCGAGATGAGTG-CT
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGCCT
* *
45069301 AGTGTAAGACATGT-TCGGGACATGCATCGGCCTCGAGATGTA-AGCCA
1 -GTGTAAGACATGTCT-GGGACATGCATCGGCCACGAGATG-AGAGCCT
*
45069348 GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
45069388 TAGTCAGTAT
Statistics
Matches: 114, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
45 1 0.01
46 59 0.52
47 31 0.27
48 22 0.19
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCCT
Found at i:45069401 original size:46 final size:45
Alignment explanation
Indices: 45069207--45069413 Score: 181
Period size: 46 Copynumber: 4.4 Consensus size: 45
45069197 ATTGTGGGCT
* * * *
45069207 AGTGTAAGACGTGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATG-TAGCC
* * *
45069253 TGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATCGAGATG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGTA--GCC
45069301 AGTGTAAGACATGT-TCGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCT-GGGACATGCATCGG-CTACGAGATGT-AGCC
*
45069347 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATG-TAGCC
* *
45069393 AGTATAAGACCATATCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
45069414 TACGGCATCG
Statistics
Matches: 135, Mismatches: 11, Indels: 29
0.77 0.06 0.17
Matches are distributed among these distances:
45 2 0.01
46 72 0.53
47 37 0.27
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAGCC
Found at i:45084182 original size:43 final size:43
Alignment explanation
Indices: 45084069--45084182 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
45084059 TGTCACGTAC
* * * *
45084069 ATCATGAACTCAGACCAACCCAATGAGCTCAAGTGGCGCATGT
1 ATCATGAACTCAGACCAACTCAATGAGTTCAAGTGGCACATAT
* ** *
45084112 ATCATGAACTGAGACCAGTTCAATGAGTTC-GGATGGCACATAT
1 ATCATGAACTCAGACCAACTCAATGAGTTCAAG-TGGCACATAT
45084155 ATCATGAACTCAGACCAACTCAATGAGT
1 ATCATGAACTCAGACCAACTCAATGAGT
45084183 ACAGATCATA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (43 bp):
ATCATGAACTCAGACCAACTCAATGAGTTCAAGTGGCACATAT
Found at i:45084753 original size:158 final size:158
Alignment explanation
Indices: 45084460--45084776 Score: 553
Period size: 158 Copynumber: 2.0 Consensus size: 158
45084450 TATCAAGCAT
* *
45084460 TAACATTCAAGTATAACGTTGCATTATCATTATCACACGAACTTACCTCGATACCAAAAATGGCG
1 TAACATTCAAGTATAACGTCGCATTATCATTATCACACGAACTTACCTCGATACCAAAAATGGCA
* * *
45084525 AAAATGGACCTAACCGTCAATTTCTTATTTTTCCCCCATTCTAGGTTTGAACCTCATTTTCTTTG
66 AAAAGGGACCTAACCGTCAATTTCTTATTTTTCCCCCATTCTAGGTCTGAACCTCATTTTATTTG
*
45084590 TTCTATAATATCACATTTAGTCTATTTA
131 ATCTATAATATCACATTTAGTCTATTTA
*
45084618 TAACATTCAAGTATAACGTCGCATTATTATTATCACACGAACTTACCTCGATACCAAAAATGGCA
1 TAACATTCAAGTATAACGTCGCATTATCATTATCACACGAACTTACCTCGATACCAAAAATGGCA
* *
45084683 AAAAGGGACCTAACTGTCAATTTCTTATTTTTCCCCCGTTCTAGGTCTGAACCTCATTTTATTTG
66 AAAAGGGACCTAACCGTCAATTTCTTATTTTTCCCCCATTCTAGGTCTGAACCTCATTTTATTTG
45084748 ATCTATAATATCACATTTAGTCTATTTA
131 ATCTATAATATCACATTTAGTCTATTTA
45084776 T
1 T
45084777 TAGTCACATT
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
158 150 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (158 bp):
TAACATTCAAGTATAACGTCGCATTATCATTATCACACGAACTTACCTCGATACCAAAAATGGCA
AAAAGGGACCTAACCGTCAATTTCTTATTTTTCCCCCATTCTAGGTCTGAACCTCATTTTATTTG
ATCTATAATATCACATTTAGTCTATTTA
Found at i:45088149 original size:46 final size:46
Alignment explanation
Indices: 45088091--45088263 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
45088081 TGTAACCCGC
** *
45088091 CCATAAGCGAACTCGGACTCAACTCAATAAGCTCGGGAGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGAGTTCGCAT
* *
45088137 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G---AGTTCGCAT
*
45088187 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGA-GTTCGCAT
* *
45088230 CCATAAGTGAACTCGGACTCAACTTAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
45088264 AGATGCTAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.55
47 26 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGAGTTCGCAT
Found at i:45088206 original size:93 final size:93
Alignment explanation
Indices: 45088098--45088269 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
45088088 CGCCCATAAG
*
45088098 CGAACTCGGACTCAACTCAATAAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTC-GGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
*
45088162 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCAGATGCCTAGTTACATCTCA
* * *
45088191 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
45088256 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
45088270 TAAAATATCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:45092530 original size:46 final size:46
Alignment explanation
Indices: 45092478--45092593 Score: 205
Period size: 46 Copynumber: 2.5 Consensus size: 46
45092468 GACGAGTTCT
45092478 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
* *
45092524 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCAAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
*
45092570 AGTGTAAGATATGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
45092594 TATCAGCTAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
Found at i:45094245 original size:41 final size:40
Alignment explanation
Indices: 45094183--45094267 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 40
45094173 TTCATGGAGT
*
45094183 ACATTACCATTACGTACATAGCATCGTAAACATTTAATTTA
1 ACATCACCATTACGTACATAGCATCGTAAACA-TTAATTTA
45094224 ACATCACCATTACGTACATAGCATCGTAAACATTAATTTA
1 ACATCACCATTACGTACATAGCATCGTAAACATTAATTTA
45094264 ACAT
1 ACAT
45094268 ATTCGAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 12 0.28
41 31 0.72
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (40 bp):
ACATCACCATTACGTACATAGCATCGTAAACATTAATTTA
Found at i:45097356 original size:27 final size:27
Alignment explanation
Indices: 45097319--45097479 Score: 216
Period size: 27 Copynumber: 6.0 Consensus size: 27
45097309 ATATATGCAT
* * *
45097319 CACATAGGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
** **
45097346 CATGTAAGGGC-ATTTCAGTCATTTTAC
1 CACATAAGGGCAAAAT-AGTCATTTTAC
* *
45097373 AATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
45097400 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
45097427 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
45097454 CACATAAGGGAAAAATAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
45097480 TCGATTTGGG
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 115 0.97
28 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:45101259 original size:22 final size:22
Alignment explanation
Indices: 45101231--45101275 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
45101221 TCTATTTTAT
45101231 GGACAAAAATAAGCATGAATAA
1 GGACAAAAATAAGCATGAATAA
*
45101253 GGACAAAAATGAGCATGAATAA
1 GGACAAAAATAAGCATGAATAA
45101275 G
1 G
45101276 TAAAAAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.09, G:0.22, T:0.13
Consensus pattern (22 bp):
GGACAAAAATAAGCATGAATAA
Found at i:45102260 original size:42 final size:41
Alignment explanation
Indices: 45102150--45102300 Score: 153
Period size: 41 Copynumber: 3.7 Consensus size: 41
45102140 TGAGTTTACG
* * * *
45102150 TGTAAGACCATATCTGGGATATGGCATTGTTATGAGATTTC-
1 TGTAAGACCATAGCTGGGATATGGCATCGATATGAGA-ATCA
* * * * *
45102191 TATAGGACCGT-GTCTGGAACATGGCATCGATATGAGAATCA
1 TGTAAGACCATAG-CTGGGATATGGCATCGATATGAGAATCA
*
45102232 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGAATCA
1 TGTAAGACCATAGCTGGGATA-TGGCATCGATATGAGAATCA
* *
45102274 TGTAAGACCTTATCTGGGATATGGCAT
1 TGTAAGACCATAGCTGGGATATGGCAT
45102301 TGGTATGATT
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 2 0.02
41 47 0.53
42 39 0.44
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATAGCTGGGATATGGCATCGATATGAGAATCA
Found at i:45105507 original size:18 final size:18
Alignment explanation
Indices: 45105484--45105547 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
45105474 TTAAAATATG
*
45105484 GTTGTATAATTAATTATT
1 GTTGTAAAATTAATTATT
* *
45105502 GTTGTAAAA-TATTTAAT
1 GTTGTAAAATTAATTATT
*
45105519 -TT-TAAAATTAACTATT
1 GTTGTAAAATTAATTATT
45105535 GTTGTAAAATTAA
1 GTTGTAAAATTAA
45105548 ATAAATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.14
16 7 0.19
17 8 0.22
18 17 0.46
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (18 bp):
GTTGTAAAATTAATTATT
Found at i:45105557 original size:33 final size:33
Alignment explanation
Indices: 45105491--45105559 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
45105481 ATGGTTGTAT
* ** *
45105491 AATTAATTATTGTTGTAAAATATTTAATTTTAA
1 AATTAACTATTGTTGTAAAATAAATAATATTAA
45105524 AATTAACTATTGTTGTAAAATTAAATAA-ATTAA
1 AATTAACTATTGTTGTAAAA-TAAATAATATTAA
45105557 AAT
1 AAT
45105560 GAAATTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (33 bp):
AATTAACTATTGTTGTAAAATAAATAATATTAA
Found at i:45105596 original size:32 final size:32
Alignment explanation
Indices: 45105539--45105601 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
45105529 ACTATTGTTG
*
45105539 TAAAATTAAATAAATTAAAATGAAATTAATTT
1 TAAAATTAAATAAATTAAAATGAAATAAATTT
*
45105571 TAAAATTCAAAATTAATT-AAA-GAAATAAATT
1 TAAAATT--AAATAAATTAAAATGAAATAAATT
45105602 AATTACAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 16 0.59
33 3 0.11
34 8 0.30
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (32 bp):
TAAAATTAAATAAATTAAAATGAAATAAATTT
Found at i:45105601 original size:56 final size:58
Alignment explanation
Indices: 45105541--45105651 Score: 133
Period size: 56 Copynumber: 1.9 Consensus size: 58
45105531 TATTGTTGTA
*
45105541 AAATTAAATA-AA-TTAAAATGAAATTAATTTT-AAAATTCAAAATT-AA-TTAAAGAAAT
1 AAATTAAATACAATTTAAAA--AAATT-ATTTTAAAAAATCAAAATTAAATTTAAAGAAAT
* *
45105597 AAATTAATTACAATTTAAAAATATTATTTTAAAAAATCAAAATTAAATTTAAAGA
1 AAATTAAATACAATTTAAAAAAATTATTTTAAAAAATCAAAATTAAATTTAAAGA
45105652 TCAAAATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
55 5 0.11
56 25 0.53
57 4 0.09
58 13 0.28
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (58 bp):
AAATTAAATACAATTTAAAAAAATTATTTTAAAAAATCAAAATTAAATTTAAAGAAAT
Found at i:45105667 original size:17 final size:19
Alignment explanation
Indices: 45105632--45105738 Score: 71
Period size: 19 Copynumber: 5.6 Consensus size: 19
45105622 ATTTTAAAAA
45105632 ATCAAAATTAAATTTAAAG
1 ATCAAAATTAAATTTAAAG
45105651 ATCAAAATT-AA-TTAAAG
1 ATCAAAATTAAATTTAAAG
* * *
45105668 AAACAAGTTAATTACAGTTTTAA-
1 -ATCAA---AATTA-AATTTAAAG
*
45105691 AT-AAAATT-AATTTAAAAA
1 ATCAAAATTAAATTT-AAAG
*
45105709 ATCAAAATTAAATTTAAAA
1 ATCAAAATTAAATTTAAAG
*
45105728 ATCAAATTTAA
1 ATCAAAATTAA
45105739 TTATAGAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
16 4 0.06
17 8 0.11
18 12 0.17
19 29 0.41
20 5 0.07
21 6 0.09
22 1 0.01
23 1 0.01
24 4 0.06
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (19 bp):
ATCAAAATTAAATTTAAAG
Found at i:45105732 original size:77 final size:75
Alignment explanation
Indices: 45105561--45105746 Score: 264
Period size: 77 Copynumber: 2.5 Consensus size: 75
45105551 AATTAAAATG
* * * * *
45105561 AAATTAATTTTAAAATTCAAAATTAATTAAAGAAATAAATTAATTACAATTTAAAAATATTATTT
1 AAATTAAATTTAAAAATCAAAATTAATTAAAGAAACAAATTAATTACAATTTAAAAAAATTAATT
45105626 TAAAAAATCA
66 TAAAAAATCA
* * *
45105636 AAATTAAATTTAAAGATCAAAATTAATTAAAGAAACAAGTTAATTACAGTTTTAAATAAAATTAA
1 AAATTAAATTTAAAAATCAAAATTAATTAAAGAAACAAATTAATTACA-ATTTAAA-AAAATTAA
45105701 TTTAAAAAATCA
64 TTTAAAAAATCA
* *
45105713 AAATTAAATTTAAAAATCAAATTTAATTATAGAA
1 AAATTAAATTTAAAAATCAAAATTAATTAAAGAA
45105747 GATGGGATGA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 43 0.44
76 6 0.06
77 49 0.50
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (75 bp):
AAATTAAATTTAAAAATCAAAATTAATTAAAGAAACAAATTAATTACAATTTAAAAAAATTAATT
TAAAAAATCA
Found at i:45107277 original size:13 final size:13
Alignment explanation
Indices: 45107259--45107283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45107249 GTTTAAAATC
45107259 GAAATTAATTAAA
1 GAAATTAATTAAA
45107272 GAAATTAATTAA
1 GAAATTAATTAA
45107284 TTACAGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
GAAATTAATTAAA
Found at i:45107343 original size:21 final size:21
Alignment explanation
Indices: 45107319--45107359 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
45107309 TAAAAAATAA
*
45107319 AAATTTAAAAATCAATAAATT
1 AAATTTAAAAATCAAGAAATT
45107340 AAATTTAAAAATCAAGAAAT
1 AAATTTAAAAATCAAGAAAT
45107360 AAGTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATTTAAAAATCAAGAAATT
Found at i:45121787 original size:25 final size:24
Alignment explanation
Indices: 45121748--45121839 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 24
45121738 TCATTAGGGA
*
45121748 TTACTGATTCTCAGCTCGTATGAGC
1 TTACCGATT-TCAGCTCGTATGAGC
45121773 TTACCGATTTGCAGCTCGTGA-GAGC
1 TTACCGATTT-CAGCTCGT-ATGAGC
* *
45121798 TTACCAATTCTCAGCTCGTATGAGA
1 TTACCGATT-TCAGCTCGTATGAGC
**
45121823 TTATTGATTTACAGCTC
1 TTACCGATTT-CAGCTC
45121840 ATGAGAGCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
24 3 0.05
25 51 0.91
26 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (24 bp):
TTACCGATTTCAGCTCGTATGAGC
Found at i:45121855 original size:25 final size:25
Alignment explanation
Indices: 45121749--45121876 Score: 73
Period size: 25 Copynumber: 5.1 Consensus size: 25
45121739 CATTAGGGAT
* * *
45121749 TACTGATTCTCAGCTCGTATGAGCT
1 TACTGATTCACAGCTCATATGAGCA
* ** * *
45121774 TACCGATTTGCAGCTCGTGA-GAGCT
1 TACTGATTCACAGCTCAT-ATGAGCA
** * *
45121799 TACCAATTCTCAGCTCGTATGAG-A
1 TACTGATTCACAGCTCATATGAGCA
* *
45121823 TTATTGATTTACAGCTCATGA-GAGCA
1 -TACTGATTCACAGCTCAT-ATGAGCA
*
45121849 TACTGATTCATAGCTCATATGAGCA
1 TACTGATTCACAGCTCATATGAGCA
45121874 TAC
1 TAC
45121877 ATGTATAGGA
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
24 2 0.02
25 76 0.94
26 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (25 bp):
TACTGATTCACAGCTCATATGAGCA
Found at i:45121864 original size:50 final size:50
Alignment explanation
Indices: 45121749--45121871 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
45121739 CATTAGGGAT
* * * *
45121749 TACTGATTCTCAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCT
1 TACTGATTCTCAGCTCGTATGAGATTACCGATTTACAGCTCATGAGAGCA
** **
45121799 TACCAATTCTCAGCTCGTATGAGATTATTGATTTACAGCTCATGAGAGCA
1 TACTGATTCTCAGCTCGTATGAGATTACCGATTTACAGCTCATGAGAGCA
*
45121849 TACTGATTCAT-AGCTCATATGAG
1 TACTGATTC-TCAGCTCGTATGAG
45121872 CATACATGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 60 0.98
51 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (50 bp):
TACTGATTCTCAGCTCGTATGAGATTACCGATTTACAGCTCATGAGAGCA
Found at i:45123156 original size:18 final size:18
Alignment explanation
Indices: 45123130--45123165 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45123120 AAGCTATTGG
*
45123130 TCACGCTTAAACAATCAT
1 TCACCCTTAAACAATCAT
45123148 TCACCCTTAAACAATCAT
1 TCACCCTTAAACAATCAT
45123166 ACACTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.28
Consensus pattern (18 bp):
TCACCCTTAAACAATCAT
Found at i:45128912 original size:92 final size:92
Alignment explanation
Indices: 45128801--45128971 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
45128791 CGCCCATAAG
* *
45128801 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45128866 ACGAGTTCGGATGCCTAGTTACATTCA
66 ACGAGTTCGGATGCCTAGTTACATTCA
*
45128893 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45128958 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
45128972 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTCA
Found at i:45128968 original size:46 final size:46
Alignment explanation
Indices: 45128794--45128968 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
45128784 TGTAACCCGC
* * *
45128794 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
45128840 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *
45128886 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
45128932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
45128969 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 97 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45128987 original size:46 final size:46
Alignment explanation
Indices: 45128802--45128987 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 46
45128792 GCCCATAAGC
* ** * *
45128802 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
45128848 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
45128894 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
45128940 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
45128986 GA
1 GA
45128988 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 28
0.73 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 92 0.81
47 1 0.01
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:45136450 original size:93 final size:92
Alignment explanation
Indices: 45136336--45136506 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 92
45136326 CGCCCATAAG
* *
45136336 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAAATCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-TAAAATCGGACTCAACTCA
45136401 ACGAGCTCGGATGCCTAGTTACATTTCA
65 ACGAGCTCGGATGCCTAGTTACATTTCA
* * * *
45136429 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATAAAATCGGACTCAACTCAA
*
45136494 CGAGTTCGGATGC
66 CGAGCTCGGATGC
45136507 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 30 0.42
93 41 0.58
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATAAAATCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCA
Found at i:45136494 original size:45 final size:45
Alignment explanation
Indices: 45136337--45136503 Score: 160
Period size: 45 Copynumber: 3.6 Consensus size: 45
45136327 GCCCATAAGC
* * *
45136337 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-T
* * * * * *
45136383 AAAATCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT--TTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCATAAT
*
45136430 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAT
*
45136475 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
45136504 TGCTCAACCA
Statistics
Matches: 97, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 31 0.32
46 25 0.26
47 26 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAT
Found at i:45140239 original size:40 final size:40
Alignment explanation
Indices: 45140145--45140289 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
45140135 TACTCGAATG
*
45140145 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
45140186 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
45140226 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
45140266 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
45140290 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:45159174 original size:29 final size:29
Alignment explanation
Indices: 45159114--45159179 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
45159104 GCATGAGTAT
* ** *
45159114 AATGTGATTTGGGCCTACTAGGCCGTATG
1 AATGTGAATTGGGCCTACTAGGCAATAAG
* *
45159143 AATGTGAATTGGGCCTAGTGGGCAATAAG
1 AATGTGAATTGGGCCTACTAGGCAATAAG
*
45159172 AATATGAA
1 AATGTGAA
45159180 CTCGGCCAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (29 bp):
AATGTGAATTGGGCCTACTAGGCAATAAG
Found at i:45163702 original size:29 final size:28
Alignment explanation
Indices: 45163669--45163787 Score: 96
Period size: 28 Copynumber: 4.2 Consensus size: 28
45163659 GCATGAGTAT
*
45163669 AATGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGAATTGGGCC-AATGGGCCATATG
* * *
45163698 AATGTGAATTGGGCCAGTGGGCCTTAAG
1 AATGTGAATTGGGCCAATGGGCCATATG
* * * *
45163726 AATATGAACTAGGCCAGATGGGCCATTTG
1 AATGTGAATTGGGCCA-ATGGGCCATATG
** *
45163755 AATAAG-ATTGGGCCTAGTGGGCCATATG
1 AATGTGAATTGGGCC-AATGGGCCATATG
*
45163783 CATGT
1 AATGT
45163788 ATGTAGGGGT
Statistics
Matches: 69, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
28 41 0.59
29 28 0.41
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
AATGTGAATTGGGCCAATGGGCCATATG
Found at i:45174050 original size:6 final size:6
Alignment explanation
Indices: 45174032--45174113 Score: 71
Period size: 6 Copynumber: 13.3 Consensus size: 6
45174022 AAGAAACATT
*
45174032 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
45174081 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
45174114 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 4 0.06
6 49 0.79
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:45174053 original size:18 final size:18
Alignment explanation
Indices: 45174032--45174113 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 18
45174022 AAGAAACATT
45174032 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
45174050 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* *
45174067 GTGACAGAATCAGAATCAGT
1 AT--CAGAATCAGAATCAGA
*
45174087 ATCAGGTAA-CAGAATCAAA
1 ATCA-G-AATCAGAATCAGA
45174106 ATCAGAAT
1 ATCAGAAT
45174114 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
17 3 0.06
18 18 0.34
19 29 0.55
20 3 0.06
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:45174077 original size:25 final size:25
Alignment explanation
Indices: 45174046--45174113 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
45174036 GAACTAGAAT
*
45174046 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
45174071 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
45174096 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
45174114 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:45174268 original size:27 final size:26
Alignment explanation
Indices: 45174231--45174338 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 26
45174221 AGCATGGCTG
* *
45174231 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
45174257 CCAGATACAGATATTTTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
45174284 CTAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * * *
45174311 CAAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
45174338 C
1 C
45174339 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.17
27 51 0.74
28 6 0.09
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:45174941 original size:27 final size:26
Alignment explanation
Indices: 45174902--45175097 Score: 234
Period size: 27 Copynumber: 7.3 Consensus size: 26
45174892 GGGGCAAAAT
*
45174902 GGTAATT-TCACCCCACGAGGGTATCTT-
1 GGTAATTCT-ACCCTAC-AGGGTAT-TTC
*
45174929 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTA-CAGGGTATTTC
* *
45174956 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
* *
45174983 AGTAATTCTACCCTAGAGGTGTATTTC
1 GGTAATTCTACCCTACAGG-GTATTTC
*
45175010 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
45175037 GGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAG-GGTATTTC
45175064 GGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAG-GGTATTTC
45175091 GGTAATT
1 GGTAATT
45175098 TCACAAATCA
Statistics
Matches: 149, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.04
27 140 0.94
28 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGTATTTC
Found at i:45175113 original size:27 final size:27
Alignment explanation
Indices: 45175083--45175221 Score: 161
Period size: 27 Copynumber: 5.1 Consensus size: 27
45175073 ACCCTACAGA
* * * *
45175083 GGTATTTCGGTAATTTCACAAATCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
45175110 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
** * *
45175137 GGTATTTTGGTAATTTTATTGATCGAG
1 GGTATTTTGGTAATTTTATAAACCAAG
*
45175164 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* * * *
45175191 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTGGTAATTTTATAAACCAAG
45175218 GGTA
1 GGTA
45175222 AAATGGTAAT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTATAAACCAAG
Found at i:45175113 original size:81 final size:81
Alignment explanation
Indices: 45174931--45175124 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
45174921 GGTATCTTGG
** * * * *
45174931 TAATTCTACCCTATAAGGGTATTTCGATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCC
1 TAATTCTACAATACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCC
*
45174996 TAGAGGTGTATTTCGA
66 TACAGGTGTATTTCGA
** * *
45175012 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGGTAATTCTACCC
1 TAATTCTACAATACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCC
*
45175077 TACAGAG-GTATTTCGG
66 TACAG-GTGTATTTCGA
*
45175093 TAATT-TCACAA-ATCAAGGGTATTTTGGTAATT
1 TAATTCT-ACAATA-CAAGGGTATTTCGGTAATT
45175125 TTATAAACCA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
80 2 0.02
81 95 0.97
82 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
TAATTCTACAATACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCC
TACAGGTGTATTTCGA
Found at i:45175124 original size:54 final size:53
Alignment explanation
Indices: 45174920--45175097 Score: 259
Period size: 54 Copynumber: 3.3 Consensus size: 53
45174910 CACCCCACGA
* *
45174920 GGGTATCTT-GGTAATTCTACCCTATAAGGGTATTTCGATAATTCTACCTTACAG
1 GGGTAT-TTCGGTAATTCTACCCTA-CAGGGTATTTCGATAATTCTACCCTACAG
* *
45174974 GGGTATTTCAGTAATTCTACCCTAGAGGTGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGG-GTATTTCGATAATTCTACCCTACAG
*
45175028 GGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG-GGTATTTCGATAATTCTACCCTACAG
*
45175082 AGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
45175098 TCACAAATCA
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
53 5 0.04
54 108 0.95
55 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (53 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAG
Found at i:45175207 original size:54 final size:54
Alignment explanation
Indices: 45175083--45175248 Score: 188
Period size: 54 Copynumber: 3.1 Consensus size: 54
45175073 ACCCTACAGA
** * * * *
45175083 GGTATTTCGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
* **
45175137 GGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
* *** * **
45175191 GGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATTAAG
1 GGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
45175245 GGTA
1 GGTA
45175249 AAACGATAAT
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (54 bp):
GGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
Found at i:45175229 original size:81 final size:81
Alignment explanation
Indices: 45175083--45175232 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
45175073 ACCCTACAGA
* * ***
45175083 GGTATTTCGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGT
1 GGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTATAAACCAAGGGTAAAATGGT
45175148 AATTTTATTGATCGAG
66 AATTTTATTGATCGAG
* *** * * *
45175164 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGT
1 GGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTATAAACCAAGGGTAAAATGGT
45175229 AATT
66 AATT
45175233 CTGTAAATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 57 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (81 bp):
GGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTATAAACCAAGGGTAAAATGGT
AATTTTATTGATCGAG
Found at i:45175230 original size:27 final size:27
Alignment explanation
Indices: 45175102--45175286 Score: 118
Period size: 27 Copynumber: 6.9 Consensus size: 27
45175092 GTAATTTCAC
*** *
45175102 AAATCAAGGGTATTTTGGTAATTTTAT
1 AAATCAAGGGTAAAATGGTAATTTTGT
* *** *
45175129 AAACCAAGGGTATTTTGGTAATTTTAT
1 AAATCAAGGGTAAAATGGTAATTTTGT
** * ***
45175156 TGATCGAGGGTATTTTGGTAATTTTGT
1 AAATCAAGGGTAAAATGGTAATTTTGT
* *** *
45175183 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAATCAAGGGTAAAATGGTAATTTTGT
* *
45175210 AAATCGAGGGTAAAATGGTAATTCTGT
1 AAATCAAGGGTAAAATGGTAATTTTGT
* * * *
45175237 AAATTAAGGGTAAAACGATAATTCTGT
1 AAATCAAGGGTAAAATGGTAATTTTGT
* *
45175264 AAATCGAGAGTAAAATGGTAATT
1 AAATCAAGGGTAAAATGGTAATT
45175287 CTATCTTATT
Statistics
Matches: 131, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (27 bp):
AAATCAAGGGTAAAATGGTAATTTTGT
Found at i:45175287 original size:27 final size:27
Alignment explanation
Indices: 45175200--45175288 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
45175190 GGGTATTTTA
*
45175200 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
** *
45175227 GTAATTCTGTAAATTAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
45175254 ATAATTCTGTAAATCGAGAGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
45175281 GTAATTCT
1 GTAATTCT
45175289 ATCTTATTTC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:45175387 original size:27 final size:27
Alignment explanation
Indices: 45175293--45175379 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
45175283 AATTCTATCT
*
45175293 TATTTCGGTAATTTTACAAATCGAGGA
1 TATTTCGGTAATTTTACAAATCGAGGG
* * *
45175320 TATTTGGGTAATTTTATAAATCGGGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
* * *
45175347 TACTTGGGTAATTTTACAAGTCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
45175374 TATTTC
1 TATTTC
45175380 AGTGATTTGG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCGAGGG
Done.