Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 152 of 356
Found at i:48820427 original size:9 final size:9
Alignment explanation
Indices: 48820410--48820439 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
48820400 AAATTTTATA
*
48820410 AAAATTCAT
1 AAAACTCAT
48820419 AAAACTCAT
1 AAAACTCAT
48820428 AAAACTCAT
1 AAAACTCAT
48820437 AAA
1 AAA
48820440 TAATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAACTCAT
Found at i:48832651 original size:19 final size:20
Alignment explanation
Indices: 48832594--48832672 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
48832584 TTCCTTAAAG
* *
48832594 TAAAGTATTGATACTTTTCT
1 TAAAGTATTGATACCTTTAT
* * *
48832614 CAAAGTTTTGATACTTTTAT
1 TAAAGTATTGATACCTTTAT
48832634 TAAAGTATT-ATACCTTTAT
1 TAAAGTATTGATACCTTTAT
*
48832653 TATAGTATTGATACCTTTAT
1 TAAAGTATTGATACCTTTAT
48832673 CCTAGTATCG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.33
20 34 0.67
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (20 bp):
TAAAGTATTGATACCTTTAT
Found at i:48832672 original size:39 final size:40
Alignment explanation
Indices: 48832594--48832672 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
48832584 TTCCTTAAAG
* * * *
48832594 TAAAGTATTGATACTTTTCTCAAAGTTTTGATACTTTTAT
1 TAAAGTATTGATACCTTTATCAAAGTATTGATACCTTTAT
* *
48832634 TAAAGTATT-ATACCTTTATTATAGTATTGATACCTTTAT
1 TAAAGTATTGATACCTTTATCAAAGTATTGATACCTTTAT
48832673 CCTAGTATCG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 24 0.73
40 9 0.27
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (40 bp):
TAAAGTATTGATACCTTTATCAAAGTATTGATACCTTTAT
Found at i:48832678 original size:20 final size:20
Alignment explanation
Indices: 48832597--48832685 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
48832587 CTTAAAGTAA
* * *
48832597 AGTATTGATACTTTTCTCAA
1 AGTATTGATACCTTTATCAT
* * * *
48832617 AGTTTTGATACTTTTATTAA
1 AGTATTGATACCTTTATCAT
*
48832637 AGTATT-ATACCTTTATTAT
1 AGTATTGATACCTTTATCAT
*
48832656 AGTATTGATACCTTTATCCT
1 AGTATTGATACCTTTATCAT
*
48832676 AGTATCGATA
1 AGTATTGATA
48832686 TCGTTTTATG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.29
20 42 0.71
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (20 bp):
AGTATTGATACCTTTATCAT
Found at i:48833567 original size:18 final size:18
Alignment explanation
Indices: 48833544--48833580 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
48833534 TAAAGTAAAG
48833544 TTCTTGAAGTACTTACCT
1 TTCTTGAAGTACTTACCT
48833562 TTCTTGAAGTACTTACCT
1 TTCTTGAAGTACTTACCT
48833580 T
1 T
48833581 GTCTCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (18 bp):
TTCTTGAAGTACTTACCT
Found at i:48838893 original size:40 final size:40
Alignment explanation
Indices: 48838841--48839072 Score: 349
Period size: 40 Copynumber: 5.8 Consensus size: 40
48838831 AGATGTAGCC
*
48838841 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
**
48838881 GTTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
48838921 ACGCGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
48838961 ACTCGCACAAATACCATCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
48839001 ACTCGCACAAATGCCTTTGGTACTTAGCCCGGA-ATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA
*
48839041 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
48839073 TTATCATCCG
Statistics
Matches: 172, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 171 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:48846962 original size:40 final size:40
Alignment explanation
Indices: 48846915--48847157 Score: 373
Period size: 40 Copynumber: 6.1 Consensus size: 40
48846905 CGGGCTTTAA
** *
48846915 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
48846955 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGATTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48846995 CCGGATATAGTAACTCGCAAAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48847035 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
48847075 CC-GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48847114 CCGGA-AGTAGTTACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
48847154 CCGG
1 CCGG
48847158 TTATCATCCG
Statistics
Matches: 186, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 39 0.21
40 147 0.79
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48847135 original size:79 final size:80
Alignment explanation
Indices: 48846901--48847156 Score: 346
Period size: 79 Copynumber: 3.2 Consensus size: 80
48846891 AAACCAAGTA
* * ** *
48846901 CCTTCGGG-CTTTAACCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGAC-TTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG--ATAG
48846965 TAGTT-C--GCACAAATG
63 TAGTTACTAGCACAAATG
* *
48846980 CCTTCGGGATTTAGCCCGGATATAGTAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGATA-TA
1 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAGTA
*
48847044 GTAACTCA-CACAAATG
65 GTTACT-AGCACAAATG
48847060 CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-AGTAG
1 CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAGTAG
48847124 TTACTAGCACAAATG
66 TTACTAGCACAAATG
48847139 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
48847157 GTTATCATCC
Statistics
Matches: 158, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
77 4 0.03
78 6 0.04
79 87 0.55
80 61 0.39
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAGTAG
TTACTAGCACAAATG
Found at i:48852818 original size:3 final size:3
Alignment explanation
Indices: 48852795--48852834 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
48852785 TCGTAATATA
*
48852795 ATT ATT -TT -TT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48852835 TAAAAACTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:48853577 original size:39 final size:39
Alignment explanation
Indices: 48853518--48853657 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
48853508 ATCGTGATTT
* * *
48853518 GAAGCCTGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
48853557 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACG
1 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
48853596 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
48853635 GAAGCCTGAAGGCTAACTGAAGC
1 GAAGCCTGAAGGCTAACTGAAGC
48853658 TCATCAGAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:48855608 original size:27 final size:27
Alignment explanation
Indices: 48855578--48855639 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
48855568 AACAAAATAT
* **
48855578 TAAACATGGGATAGTCCATTGGGACAC
1 TAAACATGGGATAGCCCATAAGGACAC
*
48855605 TAAACATGGGATAGCCCGTAAGGACAC
1 TAAACATGGGATAGCCCATAAGGACAC
48855632 TAAACATG
1 TAAACATG
48855640 AAGGTCCTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
TAAACATGGGATAGCCCATAAGGACAC
Found at i:48866302 original size:26 final size:26
Alignment explanation
Indices: 48866273--48866354 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
48866263 TGGTACAAAT
*
48866273 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
48866299 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
48866325 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
48866351 TGAT
1 TGAT
48866355 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:48874271 original size:79 final size:81
Alignment explanation
Indices: 48874135--48874319 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
48874125 TTGAATGATG
* *
48874135 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
48874199 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * *
48874214 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-GTCAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACT-AAGAT-CCGAAGGC
*
48874275 AATTGTGCGAGTTACTATA
63 AATTGTGCGAGATACTATA
* *
48874294 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48874320 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:48874333 original size:40 final size:40
Alignment explanation
Indices: 48874136--48874319 Score: 200
Period size: 40 Copynumber: 4.6 Consensus size: 40
48874126 TGAATGATGT
* * * *
48874136 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
48874176 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
48874216 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48874254 TCCGGG-TCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48874295 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48874320 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
38 1 0.01
39 34 0.27
40 78 0.63
41 11 0.09
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:48874350 original size:79 final size:79
Alignment explanation
Indices: 48874187--48874352 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
48874177 CGGACTAAGA
* * **
48874187 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
*
48874252 AATCCGGGTCAAGT
66 AATCCGGGTCAAAT
* * *
48874266 CCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
48874329 CTATATCC-GGTTAAAT
63 CTAAATCCGGGTCAAAT
48874345 TCCGAAGG
1 TCCGAAGG
48874353 TACGTGATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGGTCAAAT
Found at i:48879919 original size:26 final size:26
Alignment explanation
Indices: 48879890--48879962 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
48879880 AATTTTCTCC
48879890 AAATTTTATTAGGGGTAAAATCATCA
1 AAATTTTATTAGGGGTAAAATCATCA
** **
48879916 AAATTTTAACAGGGGATAAAATTGTCA
1 AAATTTTATTAGGGG-TAAAATCATCA
*
48879943 AAATTTTATTA-GAGTAAAAT
1 AAATTTTATTAGGGGTAAAAT
48879963 TTGGATCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 6 0.15
26 15 0.38
27 18 0.46
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.34
Consensus pattern (26 bp):
AAATTTTATTAGGGGTAAAATCATCA
Found at i:48884680 original size:19 final size:19
Alignment explanation
Indices: 48884641--48884680 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
48884631 CACGTTCACC
*
48884641 TTTCTCTCTTTTTTTGGTT
1 TTTCTCTCTTTTTTTAGTT
*
48884660 TTTCTTTCTTTTTTTA-TT
1 TTTCTCTCTTTTTTTAGTT
48884678 TTT
1 TTT
48884681 GGTAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.03, C:0.12, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTCTCTCTTTTTTTAGTT
Found at i:48900911 original size:21 final size:21
Alignment explanation
Indices: 48900885--48900927 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
48900875 TTCCTTGTCC
48900885 CATTCCATACTTTGTCACTTA
1 CATTCCATACTTTGTCACTTA
48900906 CATTCCATACTTTGTCACTTA
1 CATTCCATACTTTGTCACTTA
48900927 C
1 C
48900928 CGCATATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (21 bp):
CATTCCATACTTTGTCACTTA
Found at i:48905851 original size:53 final size:53
Alignment explanation
Indices: 48905751--48905957 Score: 144
Period size: 53 Copynumber: 3.8 Consensus size: 53
48905741 TTCATTTTTA
* * ** *
48905751 AACTTACCATTGCCATGTCTTGGCATAGTCTTATGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGGCATAGTCTTACATGGGATCCTTGCCTTATG
* * *
48905804 AACTCACCATTGCCATGCCTTGGCATGGTTTTACATGGGATCTTTGCCTTATTG
1 AACTCACCATTGCCATGCCTTGGCATAGTCTTACATGGGATCCTTGCCTTA-TG
** * ** * * * * *** * *
48905858 TATTTTATTAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCATTGCCATGCCTTGGCATAGTCTTACATGGGATCCTTGCCTTAT-G
* * * * *
48905913 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTCACCATTGCCATGCCTTGGCATAGTCTTACATGGGATCCTT
48905958 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 43 0.36
54 39 0.33
55 37 0.31
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.40
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGGCATAGTCTTACATGGGATCCTTGCCTTATG
Found at i:48934216 original size:47 final size:47
Alignment explanation
Indices: 48934162--48934347 Score: 273
Period size: 47 Copynumber: 4.0 Consensus size: 47
48934152 TTAGGATTTT
** * *
48934162 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
48934209 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48934256 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
48934303 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
48934348 TAATACGAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:48934262 original size:22 final size:22
Alignment explanation
Indices: 48934191--48934262 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
48934181 GTATATATGA
48934191 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
48934213 GATGAATG-TGAACAT-GCATACATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
48934238 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
48934260 GAT
1 GAT
48934263 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:48934311 original size:25 final size:25
Alignment explanation
Indices: 48934236--48934311 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
48934226 ATGCATACAT
48934236 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
48934261 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
48934283 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
48934308 GTGA
1 GTGA
48934312 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:48934478 original size:98 final size:96
Alignment explanation
Indices: 48934326--48934509 Score: 289
Period size: 98 Copynumber: 1.9 Consensus size: 96
48934316 GAACATGCAT
*
48934326 ATATGTGGTAAAGCCGAATGGCTAATACGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATACGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
48934391 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* **
48934422 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATACG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
48934486 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
48934510 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 24 0.30
97 2 0.03
98 53 0.66
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATACGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:48934525 original size:50 final size:48
Alignment explanation
Indices: 48934325--48934509 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
48934315 TGAACATGCA
**
48934325 TATATGTGGTAAAGCCGAATGGCTAATACGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
48934373 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
48934421 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
48934471 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
48934510 GGCGATGTGC
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 78 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:48934763 original size:37 final size:37
Alignment explanation
Indices: 48934655--48934763 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
48934645 GGAAATATAT
* *
48934655 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
48934692 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
* * *
48934729 TCCGGGTAAGACCCGATAACTTCGTGTCGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
48934764 CGTCCGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
Found at i:48936437 original size:40 final size:40
Alignment explanation
Indices: 48936034--48936425 Score: 685
Period size: 40 Copynumber: 9.8 Consensus size: 40
48936024 GAGAATTGAG
*
48936034 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48936074 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48936114 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48936154 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48936194 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
48936234 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48936274 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
48936314 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48936354 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
48936394 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
48936426 ATCATGCTGG
Statistics
Matches: 338, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 338 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:48940515 original size:47 final size:47
Alignment explanation
Indices: 48940461--48940655 Score: 182
Period size: 47 Copynumber: 4.1 Consensus size: 47
48940451 TTAGGATTTT
** * * *
48940461 ATGTGATGAATATGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
48940508 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
* *
48940555 ATGTGGTGAATATGAACATGCATATATGTGGA-AAAGCCGAATGGCTA
1 ATGTGATGAATATGAACATGCATATATGT-GATAAAGCCGAATGGCCA
* * * *
48940602 ATGTGAAAT-ATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTG--ATGA-ATATGA-ACATGCATATATGTGATAAAGCCGAATGGCCA
48940650 ATGTGA
1 ATGTGA
48940656 AATATGTATG
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
46 1 0.01
47 84 0.67
48 30 0.24
49 6 0.05
50 4 0.03
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAATGGCCA
Found at i:48940563 original size:25 final size:25
Alignment explanation
Indices: 48940490--48940563 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
48940480 GTATATATGA
*
48940490 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
48940515 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
48940537 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
48940562 GA
1 GA
48940564 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:48940734 original size:98 final size:96
Alignment explanation
Indices: 48940578--48940761 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
48940568 GAACATGCAT
*
48940578 ATATGTGGAAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGAAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
48940643 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
48940674 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGAAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
48940738 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
48940762 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.31
97 2 0.02
98 53 0.65
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGAAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:48940777 original size:50 final size:48
Alignment explanation
Indices: 48940577--48940761 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
48940567 TGAACATGCA
*
48940577 TATATGTGGAAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
48940625 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
48940673 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
48940723 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
48940762 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:48941015 original size:37 final size:37
Alignment explanation
Indices: 48940907--48941015 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
48940897 GGAAATATAT
* *
48940907 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
* *
48940944 TCCGGGTAAGACCCGATTACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
* *
48940981 TCCGGGTAAGACCCGATAACTTCGTGTGGGGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
48941016 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:48942038 original size:31 final size:31
Alignment explanation
Indices: 48942000--48942061 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
48941990 CAGATCCGAT
48942000 GATTGTTTGCTATTCCGAGGTAGAATTTATG
1 GATTGTTTGCTATTCCGAGGTAGAATTTATG
*
48942031 GATTGTTTGCTGTTCCGAGGTAGAATTTATG
1 GATTGTTTGCTATTCCGAGGTAGAATTTATG
48942062 TACCGAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.27, T:0.42
Consensus pattern (31 bp):
GATTGTTTGCTATTCCGAGGTAGAATTTATG
Found at i:48950626 original size:27 final size:27
Alignment explanation
Indices: 48950588--48950888 Score: 356
Period size: 27 Copynumber: 11.1 Consensus size: 27
48950578 GGTCATTATT
*
48950588 TGACCGTAATGCCCCTGTAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
*
48950615 TGACTGTAATGCCCCTATAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
* *
48950642 TGACCGTAATGCCCCTATAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
** *
48950669 TGACCATAATACCCCTGTAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
* *
48950696 TGACCGTAATGCCCCTGTAAGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
*
48950723 TGA-TCGTAATGCCCCTGTAAGGTAAAA
1 TGACT-GTAATGCCCCTGTAGGGTAAAA
*
48950750 TGACTGTAATGCCCCTATAGGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
*
48950777 TGA-TCGTAATGCCCCAGTAGGGTAAAA
1 TGACT-GTAATGCCCCTGTAGGGTAAAA
* * *
48950804 TGACTGTAATACCCCTGAAGGTTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
* *
48950831 TG-GTCGTAATGCCCTTGTAGGGTAAAA
1 TGACT-GTAATGCCCCTGTAGGGTAAAA
** * * *
48950858 TGACCATAATACCCCTATATGGTAAAA
1 TGACTGTAATGCCCCTGTAGGGTAAAA
48950885 TGAC
1 TGAC
48950889 GATTATGCCC
Statistics
Matches: 238, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 234 0.98
28 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
TGACTGTAATGCCCCTGTAGGGTAAAA
Found at i:48950647 original size:54 final size:55
Alignment explanation
Indices: 48950588--48950888 Score: 398
Period size: 54 Copynumber: 5.6 Consensus size: 55
48950578 GGTCATTATT
* *
48950588 TGACCGTAATGCCCCTGTAGGGTAAAATGACT-GTAATGCCCCTATAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* *
48950642 TGACCGTAATGCCCCTATAGGGTAAAATGAC-CATAATACCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* * *
48950696 TGACCGTAATGCCCCTGTAAGGTAAAATGA-TCGTAATGCCCCTGTAAGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* *
48950750 TGACTGTAATGCCCCTATAGGGTAAAATGA-TCGTAATGCCCCAGTAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* * * * *
48950804 TGACTGTAATACCCCTGA-AGGTTAAAATG-GTCGTAATGCCCTTGTAGGGTAAAA
1 TGACCGTAATGCCCCT-ATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
* * *
48950858 TGACCATAATACCCCTATATGGTAAAATGAC
1 TGACCGTAATGCCCCTATAGGGTAAAATGAC
48950889 GATTATGCCC
Statistics
Matches: 218, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.00
54 216 0.99
55 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (55 bp):
TGACCGTAATGCCCCTATAGGGTAAAATGACTCGTAATGCCCCTGTAGGGTAAAA
Found at i:48951081 original size:27 final size:28
Alignment explanation
Indices: 48951029--48951101 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 28
48951019 GGAAGTATTG
* * *
48951029 TACTGGTGACTATGTCAC-ATTCACTGT
1 TACTGGTGGCTATGCCACAATTCACTGA
*
48951056 TACTTGTGGCTATGCCACAATT-ACTGA
1 TACTGGTGGCTATGCCACAATTCACTGA
* *
48951083 TACTGGGGGCTTTGCCACA
1 TACTGGTGGCTATGCCACA
48951102 TTTATTGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (28 bp):
TACTGGTGGCTATGCCACAATTCACTGA
Found at i:48952106 original size:56 final size:56
Alignment explanation
Indices: 48952016--48952135 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
48952006 ACAAGGGATG
48952016 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
* *
48952072 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
48952128 ATGGGCAA
1 ATGGGCAA
48952136 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
Found at i:48953402 original size:79 final size:81
Alignment explanation
Indices: 48953266--48953448 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
48953256 TCGAATGATG
* *
48953266 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48953330 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
48953345 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
48953407 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
48953425 ACCGGGTTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48953449 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:48953457 original size:40 final size:40
Alignment explanation
Indices: 48953266--48953450 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
48953256 TCGAATGATG
* * * * *
48953266 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
48953306 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48953346 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
48953385 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48953426 -CCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
48953451 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.27
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48953464 original size:40 final size:40
Alignment explanation
Indices: 48953319--48953483 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
48953309 GGACTAAGAT
** * * *
48953319 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-C
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGTTAAGTC
* **
48953358 CCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAGTTACTATAA-CCGGGTTAAGTC
** *
48953398 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGTTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGTTAAGTC
* * *
48953438 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTTGAACGAGTTA-CTATAACCGGGTTAAGTC
48953477 CCGAAGG
1 CCGAAGG
48953484 TACGTGATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
39 48 0.44
40 60 0.55
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGTTAAGTC
Found at i:48953472 original size:79 final size:79
Alignment explanation
Indices: 48953319--48953483 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
48953309 GGACTAAGAT
* **
48953319 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
48953384 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
48953398 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGTTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
48953461 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48953477 CCGAAGG
1 CCGAAGG
48953484 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48960030 original size:56 final size:56
Alignment explanation
Indices: 48959944--48960063 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
48959934 ACAAGGGATG
48959944 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
48960000 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
48960056 ATGGGCAA
1 ATGGGCAA
48960064 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:48961433 original size:40 final size:40
Alignment explanation
Indices: 48961195--48961419 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
48961185 TCGAATAATG
* * * *
48961195 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
48961235 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48961275 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48961314 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48961354 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48961395 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48961420 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48968912 original size:455 final size:455
Alignment explanation
Indices: 48968061--48968972 Score: 1824
Period size: 455 Copynumber: 2.0 Consensus size: 455
48968051 ACATCTTATT
48968061 AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
1 AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
48968126 TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
66 TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
48968191 TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
131 TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
48968256 GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
196 GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
48968321 TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
261 TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
48968386 CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
326 CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
48968451 GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
391 GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
48968516 AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
1 AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
48968581 TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
66 TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
48968646 TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
131 TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
48968711 GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
196 GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
48968776 TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
261 TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
48968841 CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
326 CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
48968906 GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
391 GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
48968971 AG
1 AG
48968973 CCAGCGATTC
Statistics
Matches: 457, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
455 457 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (455 bp):
AGGGAAAGAAAACCCGTAATGACTTTTCCTGGTGGCCTTGTTTAACTTCGTGTAATTCCTACAAA
TCCTCCAACTGTGACTCGAATATGTGAAATAATCCATCCAGTACCTTTCGTGTGCCTTTCCAAAA
TCACAAGTGCCTCTTCTTCTTGATCTTTGGTGAACTCAACTTAAATAATGACAGGAAAATTCGAA
GACAGACCCAAGTAATCATATTTCAAATACAGAGACAAAATCTTCAGCTCCAATTTATCTGGCTC
TTCAATCATCACTTTTGGTTGTGTGTACTCCCGAGATAATAACTCTAATGATTCCAGTGGAACTT
CCTAAGTGAATCCCTTCGTTTTAGCTTCTAACAAAGCCAAACATTCCTCGTCTTCATCATCACTT
GGCGAATTCTCTAGCAGAATACATTCTAACAGATCATCTATAGAATTGAGCTCCAACTCTGTAGA
Found at i:48974352 original size:27 final size:26
Alignment explanation
Indices: 48974314--48974409 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 26
48974304 AGCATGGCTG
48974314 CCAGAACAGATATTGTGACAGAG-TCA
1 CCAGAACAGATATTGTGACAGAGCT-A
* *
48974340 CCAGATATAGATATTTGTGGCAGAGCTA
1 CCAGA-ACAGATA-TTGTGACAGAGCTA
* *
48974368 CCAGAACAGATATTTGTGGC-GTAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCTA
48974395 CCAGAAACAGATATT
1 CCAG-AACAGATATT
48974410 TGTGGCATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.10
27 30 0.49
28 24 0.39
29 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCTA
Found at i:48974420 original size:28 final size:28
Alignment explanation
Indices: 48974314--48974428 Score: 130
Period size: 28 Copynumber: 4.2 Consensus size: 28
48974304 AGCATGGCTG
* *
48974314 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * *
48974340 CCAGATATAGATATTTGTGGCAGAGCTA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
48974368 CCAG-AACAGATATTTGTGGC-GTAGCCA
1 CCAGAAACAGATATTTGTGGCAG-AGCCA
*
48974395 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
*
48974423 CTAGAA
1 CCAGAA
48974429 CGCTTCCTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.07
27 28 0.38
28 41 0.55
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:48974429 original size:55 final size:54
Alignment explanation
Indices: 48974314--48974429 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 54
48974304 AGCATGGCTG
* * * *
48974314 CCAGAACAGATATTGTGACAGAGTCACCAGATATAGATATTTGTGGCAGAGCTA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCA
* *
48974368 CCAGAACAGATATTTGTGGC-GTAGCCACCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCCACCAGAAACAGATATTTGTGGCAGAGCCA
*
48974423 CTAGAAC
1 CCAGAAC
48974430 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 13 0.25
55 40 0.75
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (54 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:48979080 original size:40 final size:40
Alignment explanation
Indices: 48979036--48979223 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
48979026 GCAAACACAT
* * * *
48979036 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48979076 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48979116 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
48979156 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48979196 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
48979224 TCCAATGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:48982366 original size:40 final size:40
Alignment explanation
Indices: 48982282--48982388 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
48982272 ATCTTGGTAT
* *
48982282 CGCACACTTAGTGCCATATATAGCCGAAGCTATTCCAATT
1 CGCACACTTAGTGCCATATATAGTCGAAGCTATTCCAATA
*
48982322 CGCACACTTAGTGCTC-TATATAGTCGAAGCTATCTCGAA-A
1 CGCACACTTAGTGC-CATATATAGTCGAAGCTAT-TCCAATA
* *
48982362 CGCACACTAAGTGCCAAATATAGTCGA
1 CGCACACTTAGTGCCATATATAGTCGA
48982389 TTTGTCGTTG
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
39 1 0.02
40 53 0.90
41 5 0.08
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
CGCACACTTAGTGCCATATATAGTCGAAGCTATTCCAATA
Found at i:48984547 original size:40 final size:40
Alignment explanation
Indices: 48984512--48984642 Score: 219
Period size: 40 Copynumber: 3.3 Consensus size: 40
48984502 TACTCGTTCG
* *
48984512 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACA
*
48984552 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACA
48984592 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACA
48984632 AATGCCTTCGG
1 AATGCCTTCGG
48984643 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 83 0.95
41 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACA
Found at i:48984622 original size:80 final size:81
Alignment explanation
Indices: 48984512--48984693 Score: 237
Period size: 80 Copynumber: 2.3 Consensus size: 81
48984502 TACTCGTTCG
* *
48984512 AATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
48984576 TTTAGT-AACTCGCACA
65 TATAGTCAACTAGCACA
**
48984592 AATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAACCC-GATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
48984656 TATGGTCACCTAGCACA
65 TATAGTCAACTAGCACA
*
48984673 AA-GCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAACCCG
48984694 GACATCATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
79 4 0.04
80 72 0.80
81 14 0.16
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAACCCGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTCAACTAGCACA
Found at i:48991985 original size:28 final size:27
Alignment explanation
Indices: 48991922--48992101 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
48991912 ATATTAAGTC
* * *
48991922 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
48991949 CACACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
48991977 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
48992004 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
48992032 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
48992060 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
48992087 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48992102 GCACAATTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 65 0.45
28 80 0.55
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:48992010 original size:55 final size:55
Alignment explanation
Indices: 48991922--48992101 Score: 290
Period size: 55 Copynumber: 3.3 Consensus size: 55
48991912 ATATTAAGTC
* * * * *
48991922 CGCACACTCAGTGCTATATAATCAACTCACACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
48991977 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
48992032 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
48992087 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48992102 GCACAATTTA
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
55 91 0.77
56 27 0.23
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:48992060 original size:83 final size:82
Alignment explanation
Indices: 48991922--48992101 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
48991912 ATATTAAGTC
* *
48991922 CGCACACTCAGTGCTATATAATCAACTCACACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCACACACTTAGTGCTACATAATCAAACTCGCACACTTA
48991987 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* * *
48992004 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCACACACTTAGTGCTACATAATCAAACTCGCACACTT
*
48992069 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
48992087 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48992102 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 20 0.22
83 71 0.78
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCACACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:48996043 original size:40 final size:40
Alignment explanation
Indices: 48995866--48996046 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
48995856 TACTCGTTCG
* *
48995866 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
48995906 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
48995946 AATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * * *
48995986 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATATAGT-AACTCGCACA
48996027 AA-GCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
48996047 AGACATCATT
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 109 0.87
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:49003338 original size:28 final size:27
Alignment explanation
Indices: 49003275--49003454 Score: 270
Period size: 28 Copynumber: 6.6 Consensus size: 27
49003265 ATATTAAGTC
* * *
49003275 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
49003302 CACACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
49003330 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
49003357 TGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
49003385 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
49003413 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
49003440 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49003455 GCACAATTTA
Statistics
Matches: 143, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 64 0.45
28 79 0.55
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:49003363 original size:55 final size:55
Alignment explanation
Indices: 49003275--49003454 Score: 281
Period size: 55 Copynumber: 3.3 Consensus size: 55
49003265 ATATTAAGTC
* * * * *
49003275 CGCACACTCAGTGCTATATAATCAACTCACACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
49003330 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
49003385 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
49003440 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49003455 GCACAATTTA
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 90 0.78
56 26 0.22
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:49003414 original size:83 final size:82
Alignment explanation
Indices: 49003275--49003454 Score: 290
Period size: 83 Copynumber: 2.2 Consensus size: 82
49003265 ATATTAAGTC
* *
49003275 CGCACACTCAGTGCTATATAATCAACTCACACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCACACACTTAGTGCTACATAATCAAACTCGCACACTTA
49003340 GTGCTACATAGTCAACTT
66 GTGCTACATAGTCAA-TT
* * *
49003358 -GCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCACACACTTAGTGCTACATAATCAAACTCGCACACTT
49003422 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAATT
49003440 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49003455 GCACAATTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
82 21 0.23
83 69 0.77
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCACACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:49011468 original size:27 final size:26
Alignment explanation
Indices: 49011451--49011574 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 26
49011441 ATATTAAGTC
*
49011451 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATAT-ATCAACT
*
49011478 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTATATA-TCAACT
*
49011505 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTATATA-TC-AACT
* *
49011533 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTATATA-TCAACT
49011560 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49011575 GCACAATTTA
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
26 1 0.01
27 64 0.70
28 27 0.29
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTATATATCAACT
Found at i:49011543 original size:55 final size:54
Alignment explanation
Indices: 49011451--49011574 Score: 203
Period size: 55 Copynumber: 2.3 Consensus size: 54
49011441 ATATTAAGTC
* *
49011451 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAACT
* *
49011505 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAGTCAACT
49011560 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49011575 GCACAATTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
54 20 0.31
55 45 0.69
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:49015511 original size:40 final size:40
Alignment explanation
Indices: 49015328--49015511 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
49015318 TACTCGTTCG
* *
49015328 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
49015368 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
49015408 AATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * * *
49015448 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATATAGT-AACTCGCACA
49015489 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49015512 CATCATTCAA
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:49022352 original size:37 final size:37
Alignment explanation
Indices: 49022296--49022374 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
49022286 CCGAGCTCTA
* * * *
49022296 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
*
49022333 AAGACCCGATAAATTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
49022370 AAGAC
1 AAGAC
49022375 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
Found at i:49035572 original size:23 final size:22
Alignment explanation
Indices: 49035536--49035712 Score: 124
Period size: 23 Copynumber: 7.8 Consensus size: 22
49035526 GGACTCACCA
* *
49035536 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCAT-AGAGCTTACTGATT
* *
49035559 CAGCTCATTGGAGCTTACCGATT
1 CAGCTCA-TAGAGCTTACTGATT
* *
49035582 CAGCTCGAAAGAGCTTACTGTTT
1 CAGCTC-ATAGAGCTTACTGATT
* * *
49035605 CAGCTAATTGGAGCTTACCGATT
1 CAGCTCA-TAGAGCTTACTGATT
*
49035628 CAGCTCGAAAGAGCTTACTG-TT
1 CAGCTC-ATAGAGCTTACTGATT
* *
49035650 CAACTCAATAGAGCTTACAGATT
1 CAGCTC-ATAGAGCTTACTGATT
* * *
49035673 CAGCTTGAAAGAGCTTATTG-TT
1 CAGC-TCATAGAGCTTACTGATT
*
49035695 CAGCTCAATAGAGATTAC
1 CAGCTC-ATAGAGCTTAC
49035713 CATTTCCAGT
Statistics
Matches: 117, Mismatches: 30, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
21 1 0.01
22 33 0.28
23 79 0.68
24 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (22 bp):
CAGCTCATAGAGCTTACTGATT
Found at i:49035683 original size:45 final size:46
Alignment explanation
Indices: 49035536--49035713 Score: 245
Period size: 46 Copynumber: 3.9 Consensus size: 46
49035526 GGACTCACCA
* * *
49035536 CAGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATT
1 CAGCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATT
*
49035582 CAGCTCGAAAGAGCTTACTGTTTCAGCT-AATTGGAGCTTACCGATT
1 CAGCTCGAAAGAGCTTACTGTTTCAGCTCAA-TAGAGCTTACCGATT
* *
49035628 CAGCTCGAAAGAGCTTACTG-TTCAACTCAATAGAGCTTACAGATT
1 CAGCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATT
* * *
49035673 CAGCTTGAAAGAGCTTATTG-TTCAGCTCAATAGAGATTACC
1 CAGCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACC
49035714 ATTTCCAGTT
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
45 56 0.47
46 64 0.53
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (46 bp):
CAGCTCGAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATT
Found at i:49043946 original size:55 final size:52
Alignment explanation
Indices: 49043887--49044045 Score: 149
Period size: 53 Copynumber: 3.0 Consensus size: 52
49043877 GTAAGGTTTC
*
49043887 TAAGGCAAGGAAAT-CATGTAAGACCATGTCAAGACATGGCATTTATAAGTTACTA
1 TAAGGCAA--AAATCCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-A
** * * * * *
49043942 TAAGGCAAATGTCCCATGTAAGACCATGCCGAGGCATGGCATTGGTGAGTTCA
1 TAAGGCAAAAAT-CCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
* * * *
49043995 TAAGGCAATAATACTATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TAAGGCAAAAAT-CCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT
49044046 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
53 44 0.52
54 1 0.01
55 39 0.46
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
TAAGGCAAAAATCCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCA
Found at i:49044192 original size:23 final size:24
Alignment explanation
Indices: 49044166--49044210 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
49044156 AAGGTATGGT
*
49044166 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
49044189 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
49044211 GAAGAGCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:49046329 original size:40 final size:40
Alignment explanation
Indices: 49046145--49046315 Score: 308
Period size: 40 Copynumber: 4.3 Consensus size: 40
49046135 ACTAAGATCT
49046145 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
49046185 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
49046225 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* *
49046265 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCC
49046305 GAAGGCATTTG
1 GAAGGCATTTG
49046316 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 126 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
Found at i:49046334 original size:80 final size:80
Alignment explanation
Indices: 49046090--49046315 Score: 314
Period size: 80 Copynumber: 2.8 Consensus size: 80
49046080 TTGAATGATG
* * * * * * * *
49046090 TCCGGGCTAAGTCCCCAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CTGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
49046153 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACTAAA
*
49046170 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
49046235 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
49046250 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
49046314 TG
65 TG
49046316 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 1 0.01
80 122 0.92
81 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:49054445 original size:40 final size:40
Alignment explanation
Indices: 49054401--49054507 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
49054391 AAGTGACCAT
49054401 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
**
49054441 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
49054482 A-CCAGG-CTATGTCCCGAAGGCATTTG
1 ATCC-GGACTAAGTCCCGAAGGCATTTG
49054508 AACGAGTAGC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
39 1 0.02
40 55 0.92
41 4 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:49054514 original size:40 final size:40
Alignment explanation
Indices: 49054415--49054507 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
49054405 GGACTAAGAT
* *
49054415 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGCTAAGTC
*
49054455 CCGAAGGCATTTGTGCGAGTTACTATAA-CCAGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCAGGCTAAGTC
49054495 CCGAAGGCATTTG
1 CCGAAGGCATTTG
49054508 AACGAGTAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGCTAAGTC
Found at i:49055991 original size:16 final size:16
Alignment explanation
Indices: 49055970--49056000 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49055960 AATAATTTGA
49055970 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
49055986 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
49056001 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:49058810 original size:23 final size:23
Alignment explanation
Indices: 49058774--49058909 Score: 121
Period size: 23 Copynumber: 5.8 Consensus size: 23
49058764 GGACTCACCA
*
49058774 CAGCTCGTTAGAGCTTACTGTTT
1 CAGCTCATTAGAGCTTACTGTTT
* * *
49058797 CAGCTCATTGGAGCTTACCGATT
1 CAGCTCATTAGAGCTTACTGTTT
** *
49058820 CAGCTCAAAAGAGCTTACTATTT
1 CAGCTCATTAGAGCTTACTGTTT
**
49058843 CAGCTCATTAGAGCTTACCATTT
1 CAGCTCATTAGAGCTTACTGTTT
* *
49058866 CCAGCTCAATAG-GCTTACTATTTAT
1 -CAGCTCATTAGAGCTTACT-GTT-T
*
49058891 CAGCTCAGTAAGAGCTTAC
1 CAGCTCA-TTAGAGCTTAC
49058910 CGACCATGAC
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
23 62 0.69
24 19 0.21
25 3 0.03
26 6 0.07
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (23 bp):
CAGCTCATTAGAGCTTACTGTTT
Found at i:49058844 original size:46 final size:48
Alignment explanation
Indices: 49058783--49058912 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 48
49058773 ACAGCTCGTT
* *
49058783 AGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGA-TT-CAGCTCAAA
1 AGAGCTTACTATTTCAGCTCATTAGAGCTTACCGATTTCCAGCTCAAA
*
49058829 AGAGCTTACTATTTCAGCTCATTAGAGCTTACC-ATTTCCAGCTCAAT
1 AGAGCTTACTATTTCAGCTCATTAGAGCTTACCGATTTCCAGCTCAAA
*
49058876 AG-GCTTACTATTTATCAGCTCAGTAAGAGCTTACCGA
1 AGAGCTTACTA-TT-TCAGCTCA-TTAGAGCTTACCGA
49058913 CCATGACTCG
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
45 1 0.01
46 41 0.55
47 12 0.16
48 8 0.11
49 11 0.15
50 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (48 bp):
AGAGCTTACTATTTCAGCTCATTAGAGCTTACCGATTTCCAGCTCAAA
Found at i:49064164 original size:22 final size:22
Alignment explanation
Indices: 49064139--49064182 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
49064129 TTTGTACTTA
49064139 AATT-ATTAACATAATAAATTTT
1 AATTAATT-ACATAATAAATTTT
**
49064161 AATTAATTTTATAATAAATTTT
1 AATTAATTACATAATAAATTTT
49064183 GACTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTAATTACATAATAAATTTT
Found at i:49064189 original size:22 final size:22
Alignment explanation
Indices: 49064149--49064192 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49064139 AATTATTAAC
*
49064149 ATAATAAATTTTAATTAATTTT
1 ATAATAAATTTTAACTAATTTT
*
49064171 ATAATAAATTTTGACTAATTTT
1 ATAATAAATTTTAACTAATTTT
49064193 GGTCATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAACTAATTTT
Found at i:49069842 original size:23 final size:23
Alignment explanation
Indices: 49069798--49069842 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
49069788 GTTCACTTGT
*
49069798 AACAATATAATATATAATACATC
1 AACAATATAATATATAAGACATC
* * *
49069821 AACAATTTCATATATACGACAT
1 AACAATATAATATATAAGACAT
49069843 TAGAATAGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (23 bp):
AACAATATAATATATAAGACATC
Found at i:49075668 original size:40 final size:40
Alignment explanation
Indices: 49075495--49075720 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
49075485 GCTACTCGTT
* * *
49075495 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
49075535 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
49075575 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
49075615 CAAATGCCTTC-GGATCTCAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * * *
49075655 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
49075696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
49075721 CATCATTCAA
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.91
41 12 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:49083539 original size:40 final size:40
Alignment explanation
Indices: 49083502--49083727 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
49083492 GCTACTCGTT
* *
49083502 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
49083542 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
49083582 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
49083622 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * * *
49083662 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
49083703 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
49083728 CATCATTCAA
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:49085912 original size:10 final size:10
Alignment explanation
Indices: 49085899--49085938 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
49085889 CATATATGAA
49085899 CATATCATGG
1 CATATCATGG
*
49085909 CATATCATATG
1 CATATCAT-GG
49085920 CATATCATGG
1 CATATCATGG
49085930 CATATCATG
1 CATATCATG
49085939 TACAAACCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (10 bp):
CATATCATGG
Found at i:49095756 original size:31 final size:31
Alignment explanation
Indices: 49095721--49095787 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
49095711 CAATCCTAGT
49095721 GGACTATCTATTT-TGTGTTTACTGTCCCAAC
1 GGACTATCT-TTTCTGTGTTTACTGTCCCAAC
* *
49095752 GGACTATCTTTTCTGTGTTTATTGTCCCAGC
1 GGACTATCTTTTCTGTGTTTACTGTCCCAAC
49095783 GGACT
1 GGACT
49095788 TTCTCTGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (31 bp):
GGACTATCTTTTCTGTGTTTACTGTCCCAAC
Found at i:49106927 original size:39 final size:39
Alignment explanation
Indices: 49106873--49106950 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
49106863 TCATAGGAAA
49106873 ACAACCTCATCTCTATCAACTCATCCAATTGTAACATCC
1 ACAACCTCATCTCTATCAACTCATCCAATTGTAACATCC
*
49106912 ACAACCTCATCTCTATCAACTCATCTAATTGTAACATCC
1 ACAACCTCATCTCTATCAACTCATCCAATTGTAACATCC
49106951 TTCTCTCATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.29
Consensus pattern (39 bp):
ACAACCTCATCTCTATCAACTCATCCAATTGTAACATCC
Found at i:49118729 original size:39 final size:39
Alignment explanation
Indices: 49118639--49118934 Score: 373
Period size: 39 Copynumber: 7.6 Consensus size: 39
49118629 ACAAAGCAAG
* *
49118639 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* * *
49118679 CGGGACTTTAGCCTGAATATAATACCAGCACGGATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
49118719 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
49118758 CGGGACTTAGCCCGGATATAATACC-GATACGAATTCCGT
1 CGGGACTTAGCCCGGATATAATACCAG-CACGAATGCCTT
* *
49118797 CTGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
49118836 TGGGACTTAGCCCGGATATAATACCAGCATGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
49118875 CGGGACTTAGCCCGGATATAACACCAGCACAAATG-CTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
49118913 CGGGACTTAACCCGGATATAAT
1 CGGGACTTAGCCCGGATATAAT
49118935 TCTCCATTAT
Statistics
Matches: 225, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
38 24 0.11
39 180 0.80
40 21 0.09
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:49124668 original size:115 final size:116
Alignment explanation
Indices: 49124480--49124772 Score: 378
Period size: 115 Copynumber: 2.5 Consensus size: 116
49124470 ACAAAGCATG
* *
49124480 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGT-CTACGGGACTTTAGCCCGGATATAATA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACAAATTCCTTCGGGAC-TTAGCCCGGATATAATA
*
49124544 CCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAACACAAATGCC-T
63 CCAGCACGAATGCCTTCGGAACTTAGCCC-GATATAACACCAACACAAATGCCTT
* *
49124598 CGGGACTTAG-CCGGATATAATACCAGTACGAATTCCTTCGGGACTTAGCCCGGATATAATACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATTCCTTCGGGACTTAGCCCGGATATAATACCA
* * * * * *
49124662 GCACGAATTCCTTTGGAACTTAGCCCGATATAATACCAGCACGAATTCCTT
66 GCACGAATGCCTTCGGAACTTAGCCCGATATAACACCAACACAAATGCCTT
* * * * *
49124713 CGGGACTTAGCCCGGATATAACACCA-CACAAATGCCTTCGAGACTTAACCCGTATATAAT
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATTCCTTCGGGACTTAGCCCGGATATAAT
49124773 TCTCCATTAT
Statistics
Matches: 154, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
114 19 0.12
115 103 0.67
116 24 0.16
117 2 0.01
118 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (116 bp):
CGGGACTTAGCCCGGATATAATACCAGCACAAATTCCTTCGGGACTTAGCCCGGATATAATACCA
GCACGAATGCCTTCGGAACTTAGCCCGATATAACACCAACACAAATGCCTT
Found at i:49124751 original size:38 final size:39
Alignment explanation
Indices: 49124480--49124772 Score: 371
Period size: 39 Copynumber: 7.6 Consensus size: 39
49124470 ACAAAGCATG
* * *
49124480 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGTCTA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
49124520 CGGGACTTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
49124560 CGGGACTTAGCCCGGATATAACACCAACACAAATGCC-T
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
49124598 CGGGACTTAG-CCGGATATAATACCAGTACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
49124636 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
49124675 TGGAACTTAGCCC-GATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
49124713 CGGGACTTAGCCCGGATATAACACCA-CACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
49124751 CGAGACTTAACCCGTATATAAT
1 CGGGACTTAGCCCGGATATAAT
49124773 TCTCCATTAT
Statistics
Matches: 226, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
37 21 0.09
38 86 0.38
39 99 0.44
40 20 0.09
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:49135748 original size:27 final size:27
Alignment explanation
Indices: 49135718--49135916 Score: 222
Period size: 27 Copynumber: 7.4 Consensus size: 27
49135708 ATTACTGAAA
* *
49135718 TACCCTCAATTTGTAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
49135745 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
49135772 CACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
49135799 TACGCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
49135826 TACCCTTGATTTATAGAATTATC-GTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
49135852 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
49135879 TACCCTC-AGTTTATAAAATTACCGTTT
1 TACCCTCGA-TTTATAGAATTACCATTT
*
49135906 TACCCTAGATT
1 TACCCTCGATT
49135917 GTGAAATTAC
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
26 22 0.15
27 123 0.84
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:49135899 original size:80 final size:81
Alignment explanation
Indices: 49135718--49135916 Score: 285
Period size: 80 Copynumber: 2.5 Consensus size: 81
49135708 ATTACTGAAA
* * *
49135718 TACCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATT
1 TACCCTCAGTTTATAGAATTACCATTTTACCCTAGATTTATAGAATTACCGTTTCACCCTCGATT
*
49135783 TACAAAATTACCGTTT
66 TACAAAATTACCATTT
* * * *
49135799 TACGCT-TGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTATCGTTT-ACCCTCGAT
1 TACCCTCAG-TTTATAGAATTACCATTTTACCCTAGATTTATAGAATTACCGTTTCACCCTCGAT
49135862 TTACAAAATTACCATTT
65 TTACAAAATTACCATTT
* *
49135879 TACCCTCAGTTTATAAAATTACCGTTTTACCCTAGATT
1 TACCCTCAGTTTATAGAATTACCATTTTACCCTAGATT
49135917 GTGAAATTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 56 0.54
81 48 0.46
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCAGTTTATAGAATTACCATTTTACCCTAGATTTATAGAATTACCGTTTCACCCTCGATT
TACAAAATTACCATTT
Found at i:49135951 original size:27 final size:27
Alignment explanation
Indices: 49135920--49136044 Score: 112
Period size: 27 Copynumber: 4.6 Consensus size: 27
49135910 CTAGATTGTG
*
49135920 AAATTACTAAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* **
49135947 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
49135974 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* * * *
49136001 AAATTATCGAAATACCCTCAATTTA--TA
1 AAATTACCAAAATACCC-CTA-GTAGGTA
49136028 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
49136045 TTAATTTACA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
27 77 0.93
28 5 0.06
29 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:49135986 original size:54 final size:53
Alignment explanation
Indices: 49135906--49136044 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 53
49135896 ATTACCGTTT
* * * *
49135906 TACCCTAGATTGTGAAATTACTAAAATACCCCT-GTAGGATAGAATTACCAAAA
1 TACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAA
** * *
49135959 TACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAA
1 TA-CCCTAGTTTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAA
* *
49136013 TACCCTCAATTTATAAAATTACCAAAATACCC
1 TACCCT-AGTTTGTAAAATTACCAAAATACCC
49136045 TTAATTTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 6 0.08
54 64 0.88
55 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (53 bp):
TACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAA
Found at i:49136045 original size:27 final size:28
Alignment explanation
Indices: 49135948--49136073 Score: 145
Period size: 27 Copynumber: 4.6 Consensus size: 28
49135938 TGTAGGATAG
* *
49135948 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCTAATTTATAA
* *
49135975 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCTAATTTATAA
* *
49136002 AATTATCGAAATACCCTC-AATTTATAA
1 AATTACCAAAATACCCTCTAATTTATAA
*
49136029 AATTACCAAAATACCCT-TAATTTACAA
1 AATTACCAAAATACCCTCTAATTTATAA
49136056 AATTA-CAGAAATACCCTC
1 AATTACCA-AAATACCCTC
49136074 GAATAGAACT
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.02
27 85 0.97
28 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (28 bp):
AATTACCAAAATACCCTCTAATTTATAA
Found at i:49136760 original size:20 final size:20
Alignment explanation
Indices: 49136735--49136781 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
49136725 GATTTGATAT
49136735 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
49136755 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49136775 ACATGAT
1 ACATGAT
49136782 GTATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49136936 original size:24 final size:25
Alignment explanation
Indices: 49136854--49136936 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
49136844 TAGTTTACCG
49136854 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
* *
49136879 AAAAGGGCTTTTTCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATT
49136904 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
49136927 AAAAGAGGCT
1 AAAAG-GGCT
49136937 AGGCCTCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.17
24 12 0.23
25 31 0.60
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:49141527 original size:27 final size:27
Alignment explanation
Indices: 49141470--49141527 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
49141460 ACAGTCATAC
* *
49141470 ATCACATAAGGGCATAATAGTCATTTT
1 ATCACATAAGGGCATAATAGTCATGTG
49141497 ATCACAT-AGGAGCATAATAGTCATGTG
1 ATCACATAAGG-GCATAATAGTCATGTG
49141524 ATCA
1 ATCA
49141528 ATTAGAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (27 bp):
ATCACATAAGGGCATAATAGTCATGTG
Found at i:49150649 original size:39 final size:39
Alignment explanation
Indices: 49150606--49150759 Score: 134
Period size: 40 Copynumber: 3.9 Consensus size: 39
49150596 CTTCGGAATT
**
49150606 TAACCAGATATAGCT-ACTCGTTCAAATGCCTTCGGGACA
1 TAACCAGATATAG-TAACTCGCACAAATGCCTTCGGGACA
* * *
49150645 TAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACT
1 TAA-CCAGATATAGTAACTCGCACAAATGCCTTCGGGACA
* * * *
49150685 TAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CT
1 TAA-CCAGATATAGTAACTCGCACAAATGCCTTCGGGACA
* * *
49150724 TAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGG
1 TA-ACCAGATA-TAGTAACTCGCACAAATGCCTTCGG
49150760 ATCTTAGTCC
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.36
40 63 0.64
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
TAACCAGATATAGTAACTCGCACAAATGCCTTCGGGACA
Found at i:49150731 original size:79 final size:80
Alignment explanation
Indices: 49150630--49150812 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
49150620 TACTCGTTCA
* * *
49150630 AATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
49150693 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
49150710 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
49150774 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
49150789 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49150813 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:49150812 original size:40 final size:40
Alignment explanation
Indices: 49150628--49150812 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
49150618 GCTACTCGTT
* * *
49150628 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49150668 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49150708 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
49150747 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
49150788 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49150813 CATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 80 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:49158823 original size:79 final size:81
Alignment explanation
Indices: 49158714--49158896 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
49158704 TACTCGTTCA
* * *
49158714 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGCCTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
* *
49158778 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* * **
49158794 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
* *
49158857 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
49158873 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49158897 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 60 0.68
80 28 0.32
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:49158896 original size:40 final size:40
Alignment explanation
Indices: 49158693--49158896 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
49158683 CGGAATTTAA
** *
49158693 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49158733 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGCCTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49158773 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49158812 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49158852 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49158892 CCGGA
1 CCGGA
49158897 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49161202 original size:27 final size:26
Alignment explanation
Indices: 49161158--49161209 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49161148 CTTGCTGCAA
*
49161158 TCTGGTGGCCTCGCCACATATACCTGT
1 TCTGGTGACCTCGCCACA-ATACCTGT
* *
49161185 TCTGGTGACTTCGTCACAATACCTG
1 TCTGGTGACCTCGCCACAATACCTG
49161210 GCAGCCTCGC
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:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATACCTGT
Found at i:49168074 original size:10 final size:10
Alignment explanation
Indices: 49168059--49168089 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
49168049 CGTGGTAGAT
49168059 ATCGTCATCA
1 ATCGTCATCA
49168069 ATCGTCATCA
1 ATCGTCATCA
49168079 ATCGTCATCA
1 ATCGTCATCA
49168089 A
1 A
49168090 CCAGGTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (10 bp):
ATCGTCATCA
Found at i:49171171 original size:27 final size:27
Alignment explanation
Indices: 49171136--49171235 Score: 148
Period size: 27 Copynumber: 3.7 Consensus size: 27
49171126 TTAGTTTACC
* * *
49171136 AAATTACCAAAATACCCC-CGCTTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
49171163 AAATTACCAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
49171190 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
49171217 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
49171236 GATTTATGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
27 66 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:49171201 original size:54 final size:54
Alignment explanation
Indices: 49171136--49171260 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 54
49171126 TTAGTTTACC
* *
49171136 AAATTACCAAAATACCCC-CGCTTAGCAAAATTACCAAAATACCCCT-AGTTTGTG
1 AAATTACCAAAATACCCCTAG-TTAGCAAAATTACCAAAATACCCCTGA-TTTATG
* *
49171190 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATG
1 AAATTACCAAAATACCCCTAGTTAGCAAAATTACCAAAATACCCCTGATTTATG
**
49171244 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
49171261 TCGACCTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
54 61 0.97
55 2 0.03
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTAGCAAAATTACCAAAATACCCCTGATTTATG
Found at i:49171247 original size:27 final size:27
Alignment explanation
Indices: 49171127--49171260 Score: 139
Period size: 27 Copynumber: 5.0 Consensus size: 27
49171117 TAGAATACTT
**
49171127 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCC
* *
49171154 -CGCTTA-GCAAAATTACCAAAATACCCC
1 TAGTTTATG--AAATTACCAAAATACCCC
*
49171181 TAGTTTGTGAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCC
* *
49171208 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCC
**
49171235 T-GATTTATGAAATTACTGAAATACCC
1 TAG-TTTATGAAATTACCAAAATACCC
49171261 TCGACCTATA
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
26 5 0.05
27 82 0.90
28 3 0.03
29 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.28
Consensus pattern (27 bp):
TAGTTTATGAAATTACCAAAATACCCC
Found at i:49171273 original size:54 final size:54
Alignment explanation
Indices: 49171127--49171287 Score: 148
Period size: 54 Copynumber: 3.0 Consensus size: 54
49171117 TAGAATACTT
** * * *
49171127 TAGTTTACCAAATTACCAAAATACCCC-CGCTTAGCAAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCCGAGCCTA-TAAAATTACCAAAATACCCC
* * ** *
49171181 TAGTTTGTGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTATGAAATTACCAAAATACCCCGAGCCTATAAAATTACCAAAATACCCC
** **
49171235 T-GATTTATGAAATTACTGAAATACCCTCGA-CCTATAAAATTACTGAAATACCC
1 TAG-TTTATGAAATTACCAAAATACCC-CGAGCCTATAAAATTACCAAAATACCC
49171288 TCGACTTGTA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 82 0.93
55 5 0.06
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (54 bp):
TAGTTTATGAAATTACCAAAATACCCCGAGCCTATAAAATTACCAAAATACCCC
Found at i:49171317 original size:27 final size:26
Alignment explanation
Indices: 49171136--49171332 Score: 105
Period size: 27 Copynumber: 7.3 Consensus size: 26
49171126 TTAGTTTACC
* *
49171136 AAATTACCAAAATACCCCCG-CTTAGCA
1 AAATTACC-AAATACCCTCGACTTA-TA
* * * *
49171163 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACC-AAATACCCTCGA-CTTATA
* * *
49171190 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACC-AAATACCCTCGA-CTTATA
* *
49171217 AAATTACCAAAATACCC-CTGATTTATG
1 AAATTACC-AAATACCCTC-GACTTATA
* *
49171244 AAATTACTGAAATACCCTCGACCTATA
1 AAATTAC-CAAATACCCTCGACTTATA
* *
49171271 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTAC-CAAATACCCTCGACTTATA
* * *
49171298 AAATTACCAAAGTACTCTCGATTTACA
1 AAATTACCAAA-TACCCTCGACTTATA
49171325 AAATTACC
1 AAATTACC
49171333 GTTTTACCCT
Statistics
Matches: 144, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.03
27 136 0.94
28 4 0.03
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.27
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGACTTATA
Found at i:49171321 original size:81 final size:81
Alignment explanation
Indices: 49171212--49171368 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
49171202 TACCCCTAGT
** * * *
49171212 TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTACTGAAATACCCTCGACCTATAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCAACCTACAAAATTA
49171277 CTGAAATACCCTCGAC
66 CTGAAATACCCTCGAC
* * *** **
49171293 TTGTAAAATTACCAAAGTA-CTCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACCGAAATACCCTCAACCTACAAAATT
49171357 ACTGAAATACCC
65 ACTGAAATACCC
49171369 CTGTAGGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
80 3 0.05
81 60 0.95
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCAACCTACAAAATTA
CTGAAATACCCTCGAC
Found at i:49171367 original size:27 final size:27
Alignment explanation
Indices: 49171244--49171368 Score: 117
Period size: 27 Copynumber: 4.6 Consensus size: 27
49171234 CTGATTTATG
* *
49171244 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCGACTTACA
**
49171271 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* * *
49171298 AAATTAC-CAAAGTACTCTCGATTTACA
1 AAATTACTGAAA-TACCCTCGACTTACA
* *** * *
49171325 AAATTACCGTTTTACCCTCAATTTACA
1 AAATTACTGAAATACCCTCGACTTACA
49171352 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
49171369 CTGTAGGGTA
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 3 0.04
27 76 0.96
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:49171383 original size:27 final size:27
Alignment explanation
Indices: 49171353--49171422 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
49171343 CAATTTACAA
*
49171353 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGAGTAG
* *
49171380 AATTATTGAAATACCACTGTAGAGTAG
1 AATTACTGAAATACCCCTGTAGAGTAG
*
49171407 AATTACCGAAATACCC
1 AATTACTGAAATACCC
49171423 TTTGTAACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGAGTAG
Found at i:49172826 original size:40 final size:40
Alignment explanation
Indices: 49172782--49173083 Score: 418
Period size: 40 Copynumber: 7.6 Consensus size: 40
49172772 TCCTCGTTCG
* * *
49172782 AATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACA
49172822 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
*
49172862 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
49172902 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
49172942 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
* * *
49172982 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
** * *
49173021 AATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCACA
*
49173061 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
49173084 CAGCATTCAA
Statistics
Matches: 242, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
38 2 0.01
39 49 0.20
40 182 0.75
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
Found at i:49181822 original size:28 final size:28
Alignment explanation
Indices: 49181781--49181882 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
49181771 GGCCCCTTTT
* *
49181781 GGCCCAATCTCATTCATATGGCCCATCG
1 GGCCCAATCACATTCATATGGCCCATCA
49181809 GGCCCAATCACATTCATATGGCCCATCA
1 GGCCCAATCACATTCATATGGCCCATCA
* * *
49181837 GGCCCAATAACTTTCATATTGCCCATCA
1 GGCCCAATCACATTCATATGGCCCATCA
49181865 GGCCCAATCACATTCATA
1 GGCCCAATCACATTCATA
49181883 GTCATGCAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGGCCCATCA
Found at i:49182117 original size:16 final size:16
Alignment explanation
Indices: 49182093--49182129 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
49182083 GTAGCCAAAC
*
49182093 TTTCGGCTTTTCGACA
1 TTTCAGCTTTTCGACA
*
49182109 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
49182125 TTTCA
1 TTTCA
49182130 TGATTTGCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:49199140 original size:27 final size:26
Alignment explanation
Indices: 49199109--49199286 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
49199099 TAAATTGTAC
49199109 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
49199136 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
49199162 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
49199190 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
49199218 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
49199245 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
49199272 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49199287 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:49199225 original size:82 final size:81
Alignment explanation
Indices: 49199110--49199265 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
49199100 AAATTGTACA
* * *
49199110 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
49199174 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49199191 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
49199256 TGCGAGTTGA
65 TGCGAATTGA
49199266 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49199277 original size:82 final size:81
Alignment explanation
Indices: 49199106--49199286 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
49199096 GATTAAATTG
* * *
49199106 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49199171 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49199187 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49199251 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49199269 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49199287 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49207174 original size:27 final size:26
Alignment explanation
Indices: 49207143--49207320 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
49207133 TAAATTGTAC
49207143 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
49207170 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
49207196 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
49207224 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
49207252 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
49207279 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
49207306 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49207321 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:49207259 original size:82 final size:81
Alignment explanation
Indices: 49207144--49207299 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
49207134 AAATTGTACA
* * *
49207144 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
49207208 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49207225 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
49207290 TGCGAGTTGA
65 TGCGAATTGA
49207300 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49207311 original size:82 final size:81
Alignment explanation
Indices: 49207140--49207320 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
49207130 GATTAAATTG
* * *
49207140 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49207205 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49207221 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49207285 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49207303 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49207321 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49219144 original size:24 final size:24
Alignment explanation
Indices: 49219117--49219165 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
49219107 ACTTTGATAA
49219117 ATTCACAGCTTTAAGA-GAGCTCAC
1 ATTCACAGCTTTAA-ATGAGCTCAC
**
49219141 ATTCACATTTTTAAATGAGCTCAC
1 ATTCACAGCTTTAAATGAGCTCAC
49219165 A
1 A
49219166 AGAGTAGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (24 bp):
ATTCACAGCTTTAAATGAGCTCAC
Found at i:49219469 original size:14 final size:14
Alignment explanation
Indices: 49219446--49219487 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
49219436 GGGCATTGGT
*
49219446 TTATCTTTTTTTTA
1 TTATCATTTTTTTA
**
49219460 TTATCATTTTTGGA
1 TTATCATTTTTTTA
49219474 TTAT-ATTTTTTTA
1 TTATCATTTTTTTA
49219487 T
1 T
49219488 AAGAATATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (14 bp):
TTATCATTTTTTTA
Found at i:49227991 original size:47 final size:47
Alignment explanation
Indices: 49227937--49228066 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
49227927 ACAACCGATA
* * * *
49227937 AGTACCTATACCATGGCCCATAGCCCAACCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAG
* * *
49227984 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCAG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAG
* * *
49228031 AATACCTATATCATGACCCATAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
49228067 TTATTCGCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAG
Found at i:49236425 original size:21 final size:21
Alignment explanation
Indices: 49236399--49236440 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
49236389 TTATTTTGGT
49236399 ATAATGGCATCTATAAGTTAA
1 ATAATGGCATCTATAAGTTAA
49236420 ATAATGGCATCTATAAGTTAA
1 ATAATGGCATCTATAAGTTAA
49236441 CTTGGTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (21 bp):
ATAATGGCATCTATAAGTTAA
Found at i:49245487 original size:79 final size:81
Alignment explanation
Indices: 49245376--49245560 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
49245366 GCTACTCGTT
* * * *
49245376 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
49245439 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
49245456 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
49245520 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
49245536 CAAA-GCCTTCTGGACTTAGCCCGGA
1 CAAATGCCTTC-GGGCTTAGCCCGGA
49245561 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 50 0.56
80 36 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Done.