Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 39 of 75
Found at i:12331992 original size:20 final size:21
Alignment explanation
Indices: 12331967--12332015 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
12331957 TTTAGAAATG
12331967 ATAGAAAA-ATATAAAAATTT
1 ATAGAAAACATATAAAAATTT
12331987 ATAGAAAACTATATAAAAA-TT
1 ATAGAAAAC-ATATAAAAATTT
12332008 ATA-AAAAC
1 ATAGAAAAC
12332016 TTGTAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.48
21 5 0.19
22 9 0.33
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAGAAAACATATAAAAATTT
Found at i:12332003 original size:22 final size:21
Alignment explanation
Indices: 12331962--12332033 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 21
12331952 GGAATTTTAG
*
12331962 AAATGATAGAAAA--ATATAA
1 AAATTATAGAAAACTATATAA
12331981 AAATTTATAGAAAACTATATAA
1 AAA-TTATAGAAAACTATATAA
*
12332003 AAATTATA-AAAACT-TGTAA
1 AAATTATAGAAAACTATATAA
*
12332022 AACTTATA-AAAA
1 AAATTATAGAAAA
12332034 TTTTGTTAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 18 0.38
20 15 0.32
21 5 0.11
22 9 0.19
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (21 bp):
AAATTATAGAAAACTATATAA
Found at i:12332022 original size:19 final size:20
Alignment explanation
Indices: 12331975--12332033 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
12331965 TGATAGAAAA
12331975 ATATAAAAATTTATAGAAAACT
1 ATATAAAAA-TTATA-AAAACT
12331997 ATATAAAAATTATAAAAACT
1 ATATAAAAATTATAAAAACT
* *
12332017 -TGTAAAACTTATAAAAA
1 ATATAAAAATTATAAAAA
12332034 TTTTGTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 15 0.43
20 6 0.17
21 5 0.14
22 9 0.26
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
ATATAAAAATTATAAAAACT
Found at i:12336533 original size:119 final size:120
Alignment explanation
Indices: 12336313--12336551 Score: 390
Period size: 119 Copynumber: 2.0 Consensus size: 120
12336303 ATATAAATAA
* *
12336313 AATTATTACTATTTAGATTTAGGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTGAAAAG
1 AATTATTACTATTTAGATTTAAGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
*
12336378 TAAAAGTTTAGTGGAAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
66 TAAAAATTTAGTGGAAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
* * *
12336433 AATT-TTATTATTTAGATTTAAGGATTTTTTTGATGATTTTTTATTTGGGGTAGATGGTAAAAAG
1 AATTATTACTATTTAGATTTAAGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
* * *
12336497 TAAAAATTTAGTGGGAAAATAAAATGTTTTGAGGGTTGGCGGAGTAAAATTTTGG
66 TAAAAATTTAGTGGAAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
12336552 GAGGAAAGTA
Statistics
Matches: 110, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
119 106 0.96
120 4 0.04
ACGTcount: A:0.34, C:0.01, G:0.24, T:0.41
Consensus pattern (120 bp):
AATTATTACTATTTAGATTTAAGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
TAAAAATTTAGTGGAAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
Found at i:12341934 original size:25 final size:25
Alignment explanation
Indices: 12341904--12341973 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
12341894 TTTGTAAACA
* *
12341904 GGAAGCTCATGAGAGTTGAATAATG
1 GGAAGCTCATGAGAGCTGAATAACG
*
12341929 GGAAGCTCATGCGAGCTGAATAACG
1 GGAAGCTCATGAGAGCTGAATAACG
* *
12341954 GGACGCTCATAAGAGCTGAA
1 GGAAGCTCATGAGAGCTGAA
12341974 ATCGATGACC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATGAGAGCTGAATAACG
Found at i:12346391 original size:14 final size:14
Alignment explanation
Indices: 12346351--12346397 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
12346341 TCAAAACCAG
* *
12346351 CAAAGCCAAGTAAC
1 CAAAACCAAATAAC
*
12346365 CAAAAAC-AATAAC
1 CAAAACCAAATAAC
12346378 CAAAACCAAATAACC
1 CAAAACCAAATAA-C
12346393 CAAAA
1 CAAAA
12346398 TTAGTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 11 0.41
14 10 0.37
15 6 0.22
ACGTcount: A:0.62, C:0.28, G:0.04, T:0.06
Consensus pattern (14 bp):
CAAAACCAAATAAC
Found at i:12352827 original size:85 final size:86
Alignment explanation
Indices: 12352731--12352901 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 86
12352721 ATTAAAATTC
12352731 TTTTTATTAAATTTATTGGTGTAACTTTTTGAAATCAAAAGAAAAAGCTCATTTGGTATATATAA
1 TTTTTATTAAATTTATTGGTGTAACTTTTTGAAATCAAAAGAAAAAGCTCATTTGGTATATATAA
12352796 AAAAAAAAAC-TTGTATTGCA
66 AAAAAAAAACATTGTATTGCA
12352816 TTTTTATTAAATTTATTGGTGTAACTTTTTGAAATCAAAAGAAAAAGCTCATTTGGTATATATAA
1 TTTTTATTAAATTTATTGGTGTAACTTTTTGAAATCAAAAGAAAAAGCTCATTTGGTATATATAA
12352881 AAAAAAAAACATTGTATTGCA
66 AAAAAAAAACATTGTATTGCA
12352902 CTTGAATTTA
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 75 0.88
86 10 0.12
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.39
Consensus pattern (86 bp):
TTTTTATTAAATTTATTGGTGTAACTTTTTGAAATCAAAAGAAAAAGCTCATTTGGTATATATAA
AAAAAAAAACATTGTATTGCA
Found at i:12356660 original size:20 final size:20
Alignment explanation
Indices: 12356635--12356686 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
12356625 AAGCTTATGC
12356635 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* * *
12356655 TAAGTAAATGGATTGGTAAG
1 TAAGTAAATGAAATGGAAAG
12356675 TAAGTAAATGAA
1 TAAGTAAATGAA
12356687 GTAGTTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:12365217 original size:40 final size:40
Alignment explanation
Indices: 12365173--12365272 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
12365163 ATTACTAATG
12365173 GCTTGACCACATTACTGGCAATTTATCTGCAATATTGGCA
1 GCTTGACCACATTACTGGCAATTTATCTGCAATATTGGCA
*** * * * * **
12365213 GCTTGTTTACACTACTGGCAGTTTATTTGCATTATTGGTG
1 GCTTGACCACATTACTGGCAATTTATCTGCAATATTGGCA
* *
12365253 GCTCGACCACATTATTGGCA
1 GCTTGACCACATTACTGGCA
12365273 GCTTGTTTGT
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (40 bp):
GCTTGACCACATTACTGGCAATTTATCTGCAATATTGGCA
Found at i:12365244 original size:80 final size:80
Alignment explanation
Indices: 12365105--12365272 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
12365095 AAAGAAAAAG
* * *
12365105 TACTGACAATTAATCTATAATACTGGCAGTGTGTTTGCACTACTGGCAGCTTATCTGCATTACTA
1 TACTGGCAATTAATCTACAATACTGGCAGTGTGTTTACACTACTGGCAGCTTATCTGCATTACTA
*
12365170 ATGGCTTGACCACAT
66 ATGGCTCGACCACAT
* * * * * *
12365185 TACTGGCAATTTATCTGCAATATTGGCAGCT-TGTTTACACTACTGGCAGTTTATTTGCATTATT
1 TACTGGCAATTAATCTACAATACTGGCAG-TGTGTTTACACTACTGGCAGCTTATCTGCATTACT
**
12365249 GGTGGCTCGACCACAT
65 AATGGCTCGACCACAT
*
12365265 TATTGGCA
1 TACTGGCA
12365273 GCTTGTTTGT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 73 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (80 bp):
TACTGGCAATTAATCTACAATACTGGCAGTGTGTTTACACTACTGGCAGCTTATCTGCATTACTA
ATGGCTCGACCACAT
Found at i:12365273 original size:40 final size:40
Alignment explanation
Indices: 12365228--12365303 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
12365218 TTTACACTAC
*
12365228 TGGCAGTTTATTTGCATTATTGGTGGCTCGACCACATTAT
1 TGGCAGCTTATTTGCATTATTGGTGGCTCGACCACATTAT
* * * *
12365268 TGGCAGCTTGTTTGTATTTTTGGTGGCTCGTCCACA
1 TGGCAGCTTATTTGCATTATTGGTGGCTCGACCACA
12365304 ATTTGGAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (40 bp):
TGGCAGCTTATTTGCATTATTGGTGGCTCGACCACATTAT
Found at i:12371986 original size:18 final size:18
Alignment explanation
Indices: 12371963--12372008 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
12371953 GATCAGTATG
12371963 ATTTCATAACTTTCCATA
1 ATTTCATAACTTTCCATA
*
12371981 ATTTCATACCTTTCCATA
1 ATTTCATAACTTTCCATA
12371999 ATTTCATAAC
1 ATTTCATAAC
12372009 ATAGTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCATAACTTTCCATA
Found at i:12379705 original size:18 final size:18
Alignment explanation
Indices: 12379636--12379705 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
12379626 AAGAGGACAC
*
12379636 TGTTGTTG-AGAAGGAAAT
1 TGTTGTTGAAGAA-GAAGT
* * *
12379654 TGATGCTGTAGAAGAAGT
1 TGTTGTTGAAGAAGAAGT
** *
12379672 TGTTGTCAAAGCAGAAGT
1 TGTTGTTGAAGAAGAAGT
12379690 TGTTGTTGAAGAAGAA
1 TGTTGTTGAAGAAGAA
12379706 AAAGTTACAG
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
18 35 0.90
19 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.31, T:0.30
Consensus pattern (18 bp):
TGTTGTTGAAGAAGAAGT
Found at i:12385228 original size:36 final size:35
Alignment explanation
Indices: 12385165--12385235 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
12385155 TTAGCACAGC
*
12385165 GGCATGCTTAACATGTCAATCAGAATCAGAAATAAT
1 GGCATGCTTAACATGTCAATCAAAATCAG-AATAAT
*
12385201 GGCATGCTTAACATG-CGAGTCAAAATCAGAATAAT
1 GGCATGCTTAACATGTC-AATCAAAATCAGAATAAT
12385236 AGAATATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (35 bp):
GGCATGCTTAACATGTCAATCAAAATCAGAATAAT
Found at i:12387240 original size:11 final size:11
Alignment explanation
Indices: 12387224--12387249 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12387214 CTTCATTCAT
12387224 CATCCCTCAAG
1 CATCCCTCAAG
12387235 CATCCCTCAAG
1 CATCCCTCAAG
12387246 CATC
1 CATC
12387250 ATTCTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.46, G:0.08, T:0.19
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:12393229 original size:18 final size:17
Alignment explanation
Indices: 12393196--12393234 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
12393186 TTTTATAAAT
12393196 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
12393214 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
12393231 TGTG
1 TGTG
12393235 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:12393493 original size:23 final size:22
Alignment explanation
Indices: 12393460--12393673 Score: 286
Period size: 23 Copynumber: 9.3 Consensus size: 22
12393450 AGTCTTATTG
12393460 ATCAGTGGTAGCTTTCGCTA-AT
1 ATCAGTGGTAGC-TTCGCTACAT
*
12393482 ATCACGGGGTAGCTTCGACTACAT
1 ATCA-GTGGTAGCTTCG-CTACAT
*
12393506 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTC-GCTACAT
12393529 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCG-CTACAT
*
12393552 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTC-GCTACAT
12393575 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCG-CTACAT
*
12393598 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTC-GCTACAT
12393621 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCG-CTACAT
*
12393644 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTC-GCTACAT
12393667 ATCAGTG
1 ATCAGTG
12393674 TGGCACTTAT
Statistics
Matches: 172, Mismatches: 10, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.06
23 152 0.88
24 9 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (22 bp):
ATCAGTGGTAGCTTCGCTACAT
Found at i:12393514 original size:46 final size:46
Alignment explanation
Indices: 12393461--12393673 Score: 385
Period size: 46 Copynumber: 4.6 Consensus size: 46
12393451 GTCTTATTGA
*
12393461 TCAGTGGTAGCTTTC-GCTA-ATATCACGGGGTAGCTTCGACTACATT
1 TCAGTGGTAGC-TTCGGCTACATATCA-GTGGTAGCTTCGACTACATT
12393507 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACTACATT
1 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACTACATT
12393553 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACTACATT
1 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACTACATT
12393599 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACTACATT
1 TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACTACATT
12393645 TCAGTGGTAGCTTCGGCTACATATCAGTG
1 TCAGTGGTAGCTTCGGCTACATATCAGTG
12393674 TGGCACTTAT
Statistics
Matches: 164, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
45 3 0.02
46 155 0.95
47 6 0.04
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (46 bp):
TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACTACATT
Found at i:12393573 original size:69 final size:68
Alignment explanation
Indices: 12393460--12393673 Score: 331
Period size: 69 Copynumber: 3.1 Consensus size: 68
12393450 AGTCTTATTG
*
12393460 ATCAGTGGTAGCTTTCGCTA-ATATCACGGGGTAGCTTCGACTACATTTCAGTGGTAGCTTCGGC
1 ATCAGTGGTAGC-TTCGCTACATATCA-GTGGTAGCTTCGACTACATTTCAGTGGTAGCTTCGGC
12393524 TACAT
64 TACAT
* * * *
12393529 ATCAGTGGTAGCTTCGACTACATTTCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACT
1 ATCAGTGGTAGCTTCG-CTACATATCAGTGGTAGCTTCGACTACATTTCAGTGGTAGCTTCGGCT
12393594 ACAT
65 ACAT
*
12393598 TTCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGACTACATTTCAGTGGTAGCTTCGGCT
1 ATCAGTGGTAGCTTC-GCTACATATCAGTGGTAGCTTCGACTACATTTCAGTGGTAGCTTCGGCT
12393663 ACAT
65 ACAT
12393667 ATCAGTG
1 ATCAGTG
12393674 TGGCACTTAT
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
68 4 0.03
69 121 0.92
70 6 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (68 bp):
ATCAGTGGTAGCTTCGCTACATATCAGTGGTAGCTTCGACTACATTTCAGTGGTAGCTTCGGCTA
CAT
Found at i:12408314 original size:27 final size:27
Alignment explanation
Indices: 12408274--12408619 Score: 407
Period size: 27 Copynumber: 12.9 Consensus size: 27
12408264 ATCTGGACGA
*
12408274 AAATA-CCCTCATAGGATAAAATGACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
*
12408301 AAATACCCCTATAGGGTAGAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * *
12408328 AAATACCCCCATAGGGTAGAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
12408355 AAATACCCTTATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCG
* *
12408382 AAATAACCCTATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCG
*
12408409 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
12408436 AAATATCCCC-ATAGGGTAAAATGACCA
1 AAATA-CCCCTATAGGGTAAAATGACCG
*
12408463 AAATACCCCCTATACGGTAAAATGACCG
1 AAATA-CCCCTATAGGGTAAAATGACCG
*
12408491 AAATACCCCTATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCG
* * *
12408518 AAATACCCCCAAAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
12408545 AAATACCCCCATAGGGTAAAATGATC-
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
12408571 AAAAATCTCC-ATAGGATATAATGACC-
1 AAATA-CCCCTATAGGGTAAAATGACCG
*
12408597 AAA-ACCCCTATAGTGTAAAATGA
1 AAATACCCCTATAGGGTAAAATGA
12408620 TTGTTATACC
Statistics
Matches: 280, Mismatches: 34, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
24 3 0.01
25 12 0.04
26 20 0.07
27 217 0.77
28 28 0.10
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCG
Found at i:12409130 original size:33 final size:35
Alignment explanation
Indices: 12409082--12409155 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
12409072 TCACTGCATG
* ** *
12409082 ACTGATATCTATTACTGTTA-TGGGCCAAGGCCCC
1 ACTGATATATATTACTGAAATTGGGCAAAGGCCCC
*
12409116 ACTGATA-ATATTACTGAAATTGGGCAAAGGCCCT
1 ACTGATATATATTACTGAAATTGGGCAAAGGCCCC
12409150 ACTGAT
1 ACTGAT
12409156 TACTGGCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 9 0.26
34 25 0.74
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (35 bp):
ACTGATATATATTACTGAAATTGGGCAAAGGCCCC
Found at i:12410377 original size:11 final size:11
Alignment explanation
Indices: 12410361--12410385 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12410351 CTTCATTCAT
12410361 CATCCCTCAAG
1 CATCCCTCAAG
12410372 CATCCCTCAAG
1 CATCCCTCAAG
12410383 CAT
1 CAT
12410386 TATTCTCGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.44, G:0.08, T:0.20
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:12415762 original size:36 final size:36
Alignment explanation
Indices: 12415715--12415786 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
12415705 GCACAATTGG
*
12415715 CCAATTCAGGTCTCAAAAACGAGTAAAATAAGGCAA
1 CCAATTCAGGTCTAAAAAACGAGTAAAATAAGGCAA
* *
12415751 CCAATTCAGGTCTAAAAAATGAGTAAAATGAGGCAA
1 CCAATTCAGGTCTAAAAAACGAGTAAAATAAGGCAA
12415787 TTTTCACTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (36 bp):
CCAATTCAGGTCTAAAAAACGAGTAAAATAAGGCAA
Found at i:12424158 original size:18 final size:18
Alignment explanation
Indices: 12424146--12424181 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
12424136 AATTAATTTT
12424146 AATTAATAAATTAAAATA
1 AATTAATAAATTAAAATA
12424164 AATTAATATAATTAAAAT
1 AATTAATA-AATTAAAAT
12424182 TTTTACTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAATAAATTAAAATA
Found at i:12424362 original size:17 final size:16
Alignment explanation
Indices: 12424331--12424364 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12424321 TAGACTCAAT
*
12424331 TTTCAATTAAATAAAA
1 TTTCAAATAAATAAAA
*
12424347 TTTCAAATAAATTAAA
1 TTTCAAATAAATAAAA
12424363 TT
1 TT
12424365 AATCTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTCAAATAAATAAAA
Found at i:12426583 original size:22 final size:23
Alignment explanation
Indices: 12426541--12426583 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12426531 TATTTTCACG
*
12426541 TTTATATATTTGATAAAAGAACT
1 TTTATATATTTGAAAAAAGAACT
*
12426564 TTTATAT-TTTTAAAAAAGAA
1 TTTATATATTTGAAAAAAGAA
12426584 AGCCACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (23 bp):
TTTATATATTTGAAAAAAGAACT
Found at i:12426867 original size:57 final size:56
Alignment explanation
Indices: 12426779--12426890 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 56
12426769 AAAACCAACT
** *
12426779 CTCAAAAATAATTAATTACTTAAATGGCCTATTTTTTGATAAAATATGAAATTAACA
1 CTCAAAAATAATTAATTACTTAAATAACCTA-TTTTTGATAAAAAATGAAATTAACA
12426836 CTCAAAAATAATTAATTACTTAAATAACCTATTTTTGATAAAAAATGAAATTAAC
1 CTCAAAAATAATTAATTACTTAAATAACCTATTTTTGATAAAAAATGAAATTAAC
12426891 CTAACATCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 23 0.44
57 29 0.56
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (56 bp):
CTCAAAAATAATTAATTACTTAAATAACCTATTTTTGATAAAAAATGAAATTAACA
Found at i:12427374 original size:33 final size:33
Alignment explanation
Indices: 12427317--12427399 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
12427307 TAATGTATAT
* * *
12427317 TTTAAATGT-TTTATAA-TATTATTTTTTAAAT
1 TTTAAATATATTTAAAATTATTATTTTTTAAAA
*
12427348 TTTAAATATATTTGAAATTATTATTTTTTAAAA
1 TTTAAATATATTTAAAATTATTATTTTTTAAAA
*
12427381 TTTAAATATTTTTAAAATT
1 TTTAAATATATTTAAAATT
12427400 TAAATATAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 8 0.18
32 5 0.11
33 31 0.70
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
TTTAAATATATTTAAAATTATTATTTTTTAAAA
Found at i:12427394 original size:17 final size:17
Alignment explanation
Indices: 12427339--12427406 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 17
12427329 ATAATATTAT
*
12427339 TTTTTAAATTTTAAATA
1 TTTTTAAAATTTAAATA
* * *
12427356 TATTTGAAA-TT-ATTA
1 TTTTTAAAATTTAAATA
12427371 TTTTTTAAAATTTAAATA
1 -TTTTTAAAATTTAAATA
12427389 TTTTTAAAATTTAAATA
1 TTTTTAAAATTTAAATA
12427406 T
1 T
12427407 AATTTTTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 3 0.07
16 9 0.22
17 26 0.63
18 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTTTAAAATTTAAATA
Found at i:12427560 original size:11 final size:10
Alignment explanation
Indices: 12427544--12427589 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 10
12427534 TAATACTTTA
12427544 TTTATTTGTCT
1 TTTATTTGT-T
12427555 TTTATTTGTT
1 TTTATTTGTT
12427565 TATTATTTGTTT
1 T-TTATTTG-TT
12427577 TTTAATTTGTT
1 TTT-ATTTGTT
12427588 TT
1 TT
12427590 ACAATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.06
11 22 0.69
12 8 0.25
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.76
Consensus pattern (10 bp):
TTTATTTGTT
Found at i:12427566 original size:23 final size:23
Alignment explanation
Indices: 12427540--12427588 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
12427530 AAAATAATAC
12427540 TTTATTTATTTGTCTTTT-ATTTG
1 TTTA-TTATTTGTCTTTTAATTTG
*
12427563 TTTATTATTTGTTTTTTAATTTG
1 TTTATTATTTGTCTTTTAATTTG
12427586 TTT
1 TTT
12427589 TACAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTATTATTTGTCTTTTAATTTG
Found at i:12427885 original size:17 final size:18
Alignment explanation
Indices: 12427845--12427887 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12427835 AATGGAAAAA
12427845 TAAAAAAGATTTATTTAT
1 TAAAAAAGATTTATTTAT
* *
12427863 TAAAAATGATTTATTTGT
1 TAAAAAAGATTTATTTAT
12427881 TAAAAAA
1 TAAAAAA
12427888 TTACGACTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
TAAAAAAGATTTATTTAT
Found at i:12442699 original size:24 final size:25
Alignment explanation
Indices: 12442667--12442715 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
12442657 TATGCATTAT
12442667 TATAGATATTGATTCAATAAAAATA
1 TATAGATATTGATTCAATAAAAATA
12442692 TATA-ATATTGATTCAATAAAAATA
1 TATAGATATTGATTCAATAAAAATA
12442716 AGTCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (25 bp):
TATAGATATTGATTCAATAAAAATA
Found at i:12445796 original size:145 final size:146
Alignment explanation
Indices: 12445532--12445802 Score: 438
Period size: 145 Copynumber: 1.9 Consensus size: 146
12445522 AACCAACATC
* *
12445532 ACCTTTTACAATTTCACCGTAAAAAAAGAATATACACAAAACACACCTTATTATTCATCTTCAAC
1 ACCTTCTACAATTTCACCATAAAAAAAGAATATACACAAAACACACCTTATTATTCATCTTCAAC
* *
12445597 AGAATTTTTGAACTCTCCTACTAAACACAACAACTTCATCATTCTATATATGCTAGAGAACTAAG
66 AGAATTTTTGAACTCTCCTACAAAACACAACAACTTCACCATTCTATATATGCTAGAGAACTAAG
12445662 AGGTGGAGCCATTCTT
131 AGGTGGAGCCATTCTT
* * *
12445678 ACCTTCTACAATTTCACCAT-AAAAAAGAATATACACCAAAA-GCACCTTGTTATTTATCTTCAA
1 ACCTTCTACAATTTCACCATAAAAAAAGAATATACA-CAAAACACACCTTATTATTCATCTTCAA
* *
12445741 CAGAATTTTTGAACTCTCTTACAAAACACAACAACTTCCCCATTCTATATATGCTAGAGAAC
65 CAGAATTTTTGAACTCTCCTACAAAACACAACAACTTCACCATTCTATATATGCTAGAGAAC
12445803 AATGGCTACA
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
145 92 0.80
146 23 0.20
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.30
Consensus pattern (146 bp):
ACCTTCTACAATTTCACCATAAAAAAAGAATATACACAAAACACACCTTATTATTCATCTTCAAC
AGAATTTTTGAACTCTCCTACAAAACACAACAACTTCACCATTCTATATATGCTAGAGAACTAAG
AGGTGGAGCCATTCTT
Found at i:12446030 original size:24 final size:22
Alignment explanation
Indices: 12445982--12446055 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
12445972 AAAATAATAA
*
12445982 TTAAAAAATATATATTAAAATT
1 TTAAAAAATATATATTAAAAAT
12446004 TTAAAAAATA-ATATTATAGAACAT
1 TTAAAAAATATATATTA-A-AA-AT
*
12446028 TT--AAAATATACATTAAAATAT
1 TTAAAAAATATATATTAAAA-AT
12446049 TATAAAA
1 T-TAAAA
12446056 CCAATAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
21 11 0.26
22 19 0.45
23 7 0.17
24 5 0.12
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (22 bp):
TTAAAAAATATATATTAAAAAT
Found at i:12446082 original size:13 final size:13
Alignment explanation
Indices: 12446050--12446087 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
12446040 TTAAAATATT
*
12446050 ATAAAACCAAT-A
1 ATAAAACAAATAA
12446062 AT-AAACAAATAA
1 ATAAAACAAATAA
12446074 ATAAAACAAATAA
1 ATAAAACAAATAA
12446087 A
1 A
12446088 GGACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAACAAATAA
Found at i:12452678 original size:17 final size:18
Alignment explanation
Indices: 12452646--12452679 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12452636 GGTTCTACAA
12452646 GAATTTAACTTTGTTTTC
1 GAATTTAACTTTGTTTTC
*
12452664 GAATTTTAC-TTGTTTT
1 GAATTTAACTTTGTTTT
12452680 GTTTATAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.59
Consensus pattern (18 bp):
GAATTTAACTTTGTTTTC
Found at i:12456557 original size:16 final size:16
Alignment explanation
Indices: 12456536--12456566 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12456526 ATATTTTATC
12456536 TATTTTTTAGATTTTT
1 TATTTTTTAGATTTTT
*
12456552 TATTTTTTTGATTTT
1 TATTTTTTAGATTTT
12456567 CTTACAATTG
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:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (16 bp):
TATTTTTTAGATTTTT
Found at i:12458544 original size:16 final size:17
Alignment explanation
Indices: 12458508--12458544 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12458498 AATTTTATTT
*
12458508 TAATAATAAATTTTAAA
1 TAATAATAAATTTGAAA
12458525 -AATAAT-AATTTGAAA
1 TAATAATAAATTTGAAA
12458540 TAATA
1 TAATA
12458545 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTGAAA
Found at i:12458719 original size:29 final size:30
Alignment explanation
Indices: 12458686--12458747 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
12458676 ATGAATTTGC
12458686 AATTTAGT-CTCTTTACTTTT-AT-TTTCAAG
1 AATTTAGTCCT-TTTACTTTTCATATTT-AAG
12458715 AATTTAGTCCTTTTACTTTTCATATTTAAG
1 AATTTAGTCCTTTTACTTTTCATATTTAAG
12458745 AAT
1 AAT
12458748 CAAGTCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 17 0.57
30 10 0.33
31 3 0.10
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.53
Consensus pattern (30 bp):
AATTTAGTCCTTTTACTTTTCATATTTAAG
Found at i:12458754 original size:30 final size:29
Alignment explanation
Indices: 12458697--12458754 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
12458687 ATTTAGTCTC
**
12458697 TTTACTTTTATTTTCAAGAATTTAGTCCT
1 TTTACTTTTATTTTCAAGAATCAAGTCCT
12458726 TTTACTTTTCATATTT-AAGAATCAAGTCC
1 TTTACTTTT-AT-TTTCAAGAATCAAGTCC
12458755 AATTATTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 13 0.52
31 3 0.12
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.50
Consensus pattern (29 bp):
TTTACTTTTATTTTCAAGAATCAAGTCCT
Found at i:12482239 original size:20 final size:21
Alignment explanation
Indices: 12482214--12482252 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
12482204 ATTCAATCGA
12482214 AGATAATTA-ATTATTTAACT
1 AGATAATTAGATTATTTAACT
*
12482234 AGATAATTAGTTTATTTAA
1 AGATAATTAGATTATTTAA
12482253 TCGATTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (21 bp):
AGATAATTAGATTATTTAACT
Found at i:12491547 original size:17 final size:18
Alignment explanation
Indices: 12491519--12491552 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
12491509 TTAAACCAGT
12491519 TTTTATAAATTTTTAAAA
1 TTTTATAAATTTTTAAAA
12491537 TTTTA-AAATTTTTAAA
1 TTTTATAAATTTTTAAA
12491553 TATTGTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATAAATTTTTAAAA
Found at i:12496715 original size:29 final size:29
Alignment explanation
Indices: 12496655--12496729 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 29
12496645 TTTGTGAATT
*
12496655 ATTTTTATTTTATATAA--AAATTTACTT
1 ATTTTTATTTTATATAATTAAATTTACTA
*
12496682 ATTTTTATTTTATATAATTGATATTTA-TA
1 ATTTTTATTTTATATAATT-AAATTTACTA
* * *
12496711 ATTTTAAATTTATAAAATT
1 ATTTTTATTTTATATAATT
12496730 TTGTGATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 17 0.43
29 17 0.43
30 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (29 bp):
ATTTTTATTTTATATAATTAAATTTACTA
Found at i:12496812 original size:15 final size:15
Alignment explanation
Indices: 12496791--12496829 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
12496781 ATATATCTTT
12496791 TTTTTAATTTT-ATA
1 TTTTTAATTTTAATA
12496805 TGTTTTAAATTTTAATA
1 T-TTTT-AATTTTAATA
12496822 TTTTTAAT
1 TTTTTAAT
12496830 AGATGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 7 0.32
16 10 0.45
17 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTAATTTTAATA
Found at i:12497052 original size:27 final size:30
Alignment explanation
Indices: 12496986--12497054 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
12496976 CAAATCTTAA
*
12496986 AATTATATATGAACATTTAATTAAATGGGT
1 AATTATACATGAACATTTAATTAAATGGGT
* *
12497016 AATTTAATACATGAAC-TTTAATT-TA-GTGT
1 AA-TT-ATACATGAACATTTAATTAAATGGGT
12497045 AATTATACAT
1 AATTATACAT
12497055 ATTTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 6 0.18
28 2 0.06
29 5 0.15
30 3 0.09
31 9 0.26
32 9 0.26
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (30 bp):
AATTATACATGAACATTTAATTAAATGGGT
Found at i:12497823 original size:19 final size:19
Alignment explanation
Indices: 12497795--12497835 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
12497785 AATATAATAA
12497795 TTTTTATAATTATATATCT
1 TTTTTATAATTATATATCT
* * *
12497814 TTTTTTTAATTTTATATGT
1 TTTTTATAATTATATATCT
12497833 TTT
1 TTT
12497836 AAATTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTATAATTATATATCT
Found at i:12497837 original size:15 final size:15
Alignment explanation
Indices: 12497816--12497854 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
12497806 ATATATCTTT
12497816 TTTTTAATTTT-ATA
1 TTTTTAATTTTAATA
12497830 TGTTTTAAATTTTAATA
1 T-TTTT-AATTTTAATA
12497847 TTTTTAAT
1 TTTTTAAT
12497855 AGATGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 7 0.32
16 10 0.45
17 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTAATTTTAATA
Found at i:12498077 original size:27 final size:30
Alignment explanation
Indices: 12498011--12498079 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
12498001 CAAATCTTAA
*
12498011 AATTATATATGAACATTTAATTAAATGGGT
1 AATTATACATGAACATTTAATTAAATGGGT
* *
12498041 AATTTAATACATGAAC-TTTAATT-TA-GTGT
1 AA-TT-ATACATGAACATTTAATTAAATGGGT
12498070 AATTATACAT
1 AATTATACAT
12498080 ATTTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 6 0.18
28 2 0.06
29 5 0.15
30 3 0.09
31 9 0.26
32 9 0.26
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (30 bp):
AATTATACATGAACATTTAATTAAATGGGT
Found at i:12501974 original size:8 final size:8
Alignment explanation
Indices: 12501961--12501986 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
12501951 CTCAACAAAT
12501961 AATTTTAA
1 AATTTTAA
12501969 AATTTTAA
1 AATTTTAA
12501977 AATTTTAA
1 AATTTTAA
12501985 AA
1 AA
12501987 AAAATCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:12503476 original size:21 final size:22
Alignment explanation
Indices: 12503450--12503498 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
12503440 TTGAATGTGC
* *
12503450 AAATTTTTTATTTA-TTTTATA
1 AAATTTTTTATATACTTCTATA
12503471 AAA-TTTTTATATACTTCTATA
1 AAATTTTTTATATACTTCTATA
12503492 AAATTTT
1 AAATTTT
12503499 GGAATCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 12 0.50
22 3 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATTTTTTATATACTTCTATA
Found at i:12503512 original size:19 final size:20
Alignment explanation
Indices: 12503465--12503513 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
12503455 TTTTATTTAT
*
12503465 TTTATAAAATTTTTATATAC
1 TTTATAAAATTTTGATATAC
12503485 TTCTATAAAATTTTGGA-AT-C
1 TT-TATAAAATTTT-GATATAC
12503505 TTTATAAAA
1 TTTATAAAA
12503514 AATATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 5 0.19
21 13 0.50
22 1 0.04
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (20 bp):
TTTATAAAATTTTGATATAC
Found at i:12503819 original size:30 final size:30
Alignment explanation
Indices: 12503785--12503841 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
12503775 AGAATAATGA
12503785 CTAAATTGATAGAATGTGTAAATATTGGGC
1 CTAAATTGATAGAATGTGTAAATATTGGGC
12503815 CTAAATTGATAGAATGTGTAAATATTG
1 CTAAATTGATAGAATGTGTAAATATTG
12503842 AAAAACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (30 bp):
CTAAATTGATAGAATGTGTAAATATTGGGC
Found at i:12506884 original size:15 final size:15
Alignment explanation
Indices: 12506864--12506895 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
12506854 CATTTCACTA
12506864 TTATGTCTTTTATGT
1 TTATGTCTTTTATGT
12506879 TTATGTCTTTTATGT
1 TTATGTCTTTTATGT
12506894 TT
1 TT
12506896 TGCTTGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATGT
Found at i:12508496 original size:68 final size:68
Alignment explanation
Indices: 12508250--12508500 Score: 295
Period size: 68 Copynumber: 3.7 Consensus size: 68
12508240 AGTACGTCAA
* * * *
12508250 GACATTAAACATGGGTTCATAATGTGTACGACCATATCTCGACTATGGCAACATATGGAGTCCGC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGGCAACATATGGAGTCCAC
12508315 TAG
66 TAG
** * * ***
12508318 GACATTAAACATCAGTTCATAATATGTAAGACCATAGCTCAGCTATGGCAACATAAAAAGTCCAC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGGCAACATATGGAGTCCAC
* *
12508383 CAA
66 TAG
* * * * *
12508386 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTTGGCTATGACAATATATGGTGTCCAC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGGCAACATATGGAGTCCAC
12508451 TAG
66 TAG
* * * * *
12508454 GACATTAAATAGGGGTTCATATTGTGTAAGACCACAGCTTGGCTATG
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATG
12508501 CCAGTATGTG
Statistics
Matches: 151, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 151 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (68 bp):
GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGGCAACATATGGAGTCCAC
TAG
Found at i:12508500 original size:136 final size:136
Alignment explanation
Indices: 12508247--12508492 Score: 350
Period size: 136 Copynumber: 1.8 Consensus size: 136
12508237 GGAAGTACGT
* *
12508247 CAAGACATTAAACATGGGTTCATAATGTGTACGACCATATCTCGACTATGGCAACATATGGAGTC
1 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATATCTCGACTATGACAACATATGGAGTC
* * *
12508312 CGCTAGGACATTAAACATCAGTTCATAATATGTAAGACCATAGCTCAGCTATGGCAACATAAAAA
66 CACTAGGACATTAAACAGCAGTTCATAATATGTAAGACCACAGCTCAGCTATGGCAACATAAAAA
12508377 GTCCAC
131 GTCCAC
* * * *
12508383 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATAGT-TTGGCTATGACAATATATGGTGT
1 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATA-TCTCGACTATGACAACATATGGAGT
* ** * *
12508447 CCACTAGGACATTAAATAGGGGTTCATATTGTGTAAGACCACAGCT
65 CCACTAGGACATTAAACAGCAGTTCATAATATGTAAGACCACAGCT
12508493 TGGCTATGCC
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
136 94 0.99
137 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (136 bp):
CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATATCTCGACTATGACAACATATGGAGTC
CACTAGGACATTAAACAGCAGTTCATAATATGTAAGACCACAGCTCAGCTATGGCAACATAAAAA
GTCCAC
Found at i:12516616 original size:68 final size:68
Alignment explanation
Indices: 12516528--12516712 Score: 230
Period size: 68 Copynumber: 2.7 Consensus size: 68
12516518 ATATGAATTC
* *
12516528 ATAATGTGTAAGACCATAGCTCGACTAT-TACAACATATAGAGTCCGTCAGGACATTAAACATGG
1 ATAATGTGTAAGACCATAGCTCGACTATGGA-AACATATAGAGTCCATCAGGACATTAAACATGG
*
12516592 GTTCT
65 CTT-T
* **
12516597 -TAATATGTAAGACCATAGCTCGGTTATGGAAACATATAGAGTCCATCAGGACATTAAACATGGC
1 ATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCATCAGGACATTAAACATGGC
12516661 TTT
66 TTT
* * * * * *
12516664 ATATTGTGTAAGACCATAGCTCGATTATGGTAGCATGTAAAGTCCATCA
1 ATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCATCA
12516713 AGATGGTGAA
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
67 1 0.01
68 99 0.98
69 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (68 bp):
ATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCATCAGGACATTAAACATGGC
TTT
Found at i:12523156 original size:17 final size:18
Alignment explanation
Indices: 12523121--12523166 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
12523111 TTGCTTTTAA
* *
12523121 TTTGTTTTCTTTCTCAAT
1 TTTGTTTTGTTTATCAAT
12523139 TTTGTTTTGTTTAT-AAT
1 TTTGTTTTGTTTATCAAT
*
12523156 TCTG-TTTGTTT
1 TTTGTTTTGTTT
12523167 TTTTTACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.28
17 6 0.24
18 12 0.48
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.70
Consensus pattern (18 bp):
TTTGTTTTGTTTATCAAT
Found at i:12526303 original size:31 final size:29
Alignment explanation
Indices: 12526242--12526304 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
12526232 CCTCTCAATT
***
12526242 TTTTTGAAAATTTTAAATCTCACTTCAAA
1 TTTTTGAAAATTTTAAATCTCACAAAAAA
*
12526271 TTTTTGAAAATCTTATTAATCTCACAAAAAA
1 TTTTTGAAAAT-TT-TAAATCTCACAAAAAA
12526302 TTT
1 TTT
12526305 AAATATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.39
30 2 0.07
31 15 0.54
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTTGAAAATTTTAAATCTCACAAAAAA
Found at i:12532391 original size:19 final size:19
Alignment explanation
Indices: 12532364--12532401 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12532354 GAAGCCGAGT
*
12532364 ATGTGGCAGCAACTATGGC
1 ATGTAGCAGCAACTATGGC
12532383 ATGTAGCAGCAACTATGGC
1 ATGTAGCAGCAACTATGGC
12532402 TACACAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (19 bp):
ATGTAGCAGCAACTATGGC
Found at i:12543755 original size:11 final size:11
Alignment explanation
Indices: 12543733--12543768 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
12543723 AACTAATCCT
12543733 CTCTCAAATTTC
1 CTCTC-AATTTC
12543745 CTCTCAATTTC
1 CTCTCAATTTC
12543756 CTCTCAATTTC
1 CTCTCAATTTC
12543767 CT
1 CT
12543769 TCCATATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:12543767 original size:22 final size:22
Alignment explanation
Indices: 12543732--12543784 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
12543722 AAACTAATCC
12543732 TCTCTCAAATTTCC-TCTCA-ATT
1 TCTCTC-AATTTCCTTC-CATATT
12543754 TCCTCTCAATTTCCTTCCATATT
1 T-CTCTCAATTTCCTTCCATATT
12543777 TCTCTCAA
1 TCTCTCAA
12543785 ATCCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (22 bp):
TCTCTCAATTTCCTTCCATATT
Found at i:12543802 original size:18 final size:17
Alignment explanation
Indices: 12543769--12543802 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12543759 TCAATTTCCT
*
12543769 TCCATATTTCTCTCAAA
1 TCCATATTTATCTCAAA
12543786 TCCATATTTAATCTCAA
1 TCCATATTT-ATCTCAA
12543803 TTTGCTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (17 bp):
TCCATATTTATCTCAAA
Found at i:12545604 original size:18 final size:18
Alignment explanation
Indices: 12545577--12545616 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12545567 CAGGTGCGTT
* *
12545577 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
12545595 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
12545613 TCCT
1 TCCT
12545617 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:12546232 original size:21 final size:22
Alignment explanation
Indices: 12546195--12547336 Score: 652
Period size: 21 Copynumber: 51.4 Consensus size: 22
12546185 TCCTAACCCT
*
12546195 AACCCTTAAATTAAAAACCATA
1 AACCCTTAACTTAAAAACCATA
** *
12546217 AACCAATAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
* * *
12546238 AACCCTTAAATTAATAACCCTA
1 AACCCTTAACTTAAAAACCATA
12546260 AACCCTTAACTTAAAAACCATAA
1 AACCCTTAACTTAAAAACCAT-A
* * *
12546283 CCCTAACCATTAAATTAAAAACC-TT
1 ----AACCCTTAACTTAAAAACCATA
*
12546308 AACCCTTAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
* *
12546329 AGCCCTTAA-TTAAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
12546350 AACCCTTAACTTAAAAACCATA
1 AACCCTTAACTTAAAAACCATA
* *
12546372 AACCTTTAACTTAAAAACCCTAA
1 AACCCTTAACTTAAAAACCAT-A
* * *
12546395 CCCTAACCATTAAATTAAAAAACACT-
1 ----AACCCTTAACTTAAAAACCA-TA
*
12546421 AACCCTTAACTTAAAAACC-CA
1 AACCCTTAACTTAAAAACCATA
* * *
12546442 AACCCTTAAATTAAAACCCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12546464 AA-CCTTAACTTAATAACCCT-
1 AACCCTTAACTTAAAAACCATA
*
12546484 AACCCTTAACTTAAAAACCCTAA
1 AACCCTTAACTTAAAAACCAT-A
* * *
12546507 CCCTAACCATTAAATTAAAAACC-TT
1 ----AACCCTTAACTTAAAAACCATA
* * *
12546532 AACCCTTAAATTAAAACCCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12546554 AA-CCTTAACTTAATAACCCT-
1 AACCCTTAACTTAAAAACCATA
* *
12546574 AACCCTTAACTGAAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12546596 AACCCCTAACTTAAAAACCCTAA
1 AACCCTTAACTTAAAAACCAT-A
* * *
12546619 CCCTAACCATTAAATTAAAAACC-TT
1 ----AACCCTTAACTTAAAAACCATA
* * *
12546644 AACCCTTAAATTAAAACCCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12546666 AA-CCTTAACTTAATAACCCT-
1 AACCCTTAACTTAAAAACCATA
* *
12546686 AACCCTTAACTGAAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12546708 AACCCCTAACTTAAAAACCCTAA
1 AACCCTTAACTTAAAAACCAT-A
* * *
12546731 CCCTAACCATTAAATTAAAAACC-TT
1 ----AACCCTTAACTTAAAAACCATA
* * *
12546756 AACCCTTAAATTAAAACCCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12546778 AA-CCTTAACTTAATAACCCT-
1 AACCCTTAACTTAAAAACCATA
* *
12546798 AACCCTTAACTGAAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12546820 AACCCCTAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
* * *
12546841 AACCTTTAAATTAAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
*
12546863 AA-CCTTAAC-TAAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
*
12546883 AA-CCTTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
*
12546904 AACCCTTAACTTAAAAAACCCTA
1 AACCCTTAACTT-AAAAACCATA
*
12546927 AACCCTTAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
* *
12546948 AACCCTTAAATTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
* *
12546969 AACCCTTAAATTAAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12546991 AACCCTTAA-TACAACAATACCCTA
1 AACCCTTAACT-TAA-AA-ACCATA
*
12547015 AACCTTTAACTTAAAAATCC-TAA
1 AACCCTTAACTTAAAAA-CCAT-A
* * *
12547038 CCCTAACCATTAAATTAAAAACCCT-
1 ----AACCCTTAACTTAAAAACCATA
* *
12547063 AACCCTTAGCTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
*
12547084 AACCTTTAACTTAAAAATCC-TAA
1 AACCCTTAACTTAAAAA-CCAT-A
* * *
12547107 CCCTAACCATTAAATTAAAAACCCT-
1 ----AACCCTTAACTTAAAAACCATA
* *
12547132 AACCCTTAGCTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
*
12547153 AACCTTTAACTTAAAAATCC-TAA
1 AACCCTTAACTTAAAAA-CCAT-A
* * *
12547176 CCCTAACCATTAAATTAAAAACCCT-
1 ----AACCCTTAACTTAAAAACCATA
* *
12547201 AACCCTTAGCTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
* *
12547222 AACCTTTAACTTAAAAAACCCTA
1 AACCCTTAACTT-AAAAACCATA
* *
12547245 AA-CCTTAAATT-AAAACCCTA
1 AACCCTTAACTTAAAAACCATA
* *
12547265 AA-CCTTAAATTAAAAACCCT-
1 AACCCTTAACTTAAAAACCATA
12547285 AACCCTTAACTTAAAAACTC-T-
1 AACCCTTAACTTAAAAAC-CATA
* * *
12547306 AACCCTTAAATTGAAAACCCTA
1 AACCCTTAACTTAAAAACCATA
12547328 AACCCTTAA
1 AACCCTTAA
12547337 NNNNNNNNNN
Statistics
Matches: 926, Mismatches: 112, Indels: 164
0.77 0.09 0.14
Matches are distributed among these distances:
20 62 0.07
21 457 0.49
22 214 0.23
23 35 0.04
24 16 0.02
25 1 0.00
26 10 0.01
27 130 0.14
28 1 0.00
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (22 bp):
AACCCTTAACTTAAAAACCATA
Found at i:12546290 original size:27 final size:28
Alignment explanation
Indices: 12546251--12546313 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
12546241 CCTTAAATTA
* *
12546251 ATAACCCTAAACCCTTAACTTAAAAACC
1 ATAACCCTAAACCATTAAATTAAAAACC
12546279 ATAACCCT-AACCATTAAATTAAAAACC
1 ATAACCCTAAACCATTAAATTAAAAACC
*
12546306 TTAACCCT
1 ATAACCCT
12546314 TAACTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.75
28 8 0.25
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (28 bp):
ATAACCCTAAACCATTAAATTAAAAACC
Found at i:12546328 original size:42 final size:42
Alignment explanation
Indices: 12546189--12547336 Score: 1026
Period size: 42 Copynumber: 25.9 Consensus size: 42
12546179 AAAAAATCCT
* **
12546189 AACCCTAACCCTTAAATTAAAAACCATAAACCAATAACTTAAA
1 AACCCTAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAAA
*
12546232 AACCCTAACCCTTAAATTAATAACCCTAAACCCTTAACTTAAAAACCA
1 AACCCTAACCCTTAAATTAAAAACCCT-AACCCTTAACTT---AA--A
* *
12546280 TAACCCTAACCATTAAATTAAAAACCTTAACCCTTAACTTAAA
1 -AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
*
12546323 AACCCTAGCCCTT-AATTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAAA
* * * *
12546365 AACCATAAACCTTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAAA
1 AACCCT-AACCCTTAAATTAAAAACCCTAA--C---CC-TTAACTT-AAA
* * * *
12546415 AACACTAACCCTTAACTTAAAAACCCAAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* * * *
12546457 ACCCCTAAACCTTAACTTAATAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* *
12546499 AACCCTAACCCTAACCATTAAATTAAAAACCTTAACCCTTAAATTAAA
1 AACCCTAA--C---CC-TTAAATTAAAAACCCTAACCCTTAACTTAAA
* * * * *
12546547 ACCCCTAAACCTTAACTTAATAACCCTAACCCTTAACTGAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* * *
12546589 AACCCTAAACCCCTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
1 AACCCT-AACCCTTAAATTAAAAACCCTAA--C---CC-TTAACTTAAA
* * * *
12546638 AACCTTAACCCTTAAATTAAAACCCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* * *
12546680 AACCCTAACCCTTAACTGAAAAACCCTAAACCCCTAACTTAAA
1 AACCCTAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAAA
* *
12546723 AACCCTAACCCTAACCATTAAATTAAAAACCTTAACCCTTAAATTAAA
1 AACCCTAA--C---CC-TTAAATTAAAAACCCTAACCCTTAACTTAAA
* * * * *
12546771 ACCCCTAAACCTTAACTTAATAACCCTAACCCTTAACTGAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* * * *
12546813 AACCCTAAACCCCTAACTTAAAAACCCTAACCTTTAAATTAAA
1 AACCCT-AACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* * *
12546856 AACCCTAAACCTT-AACTAAAAACCCTAAACCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
*
12546897 AACCCTAAACCCTTAACTTAAAAAACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATT-AAAAACCCT-AACCCTTAACTTAAA
*
12546942 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* *
12546984 AACCCTAAACCCTT-AATACAACAATACCCTAAACCTTTAACTTAAAAA
1 AACCCT-AACCCTTAAAT-TAA-AA-ACCCT-AACCCTTAACTT--AAA
* *
12547032 TCCTAACCCTAACCATTAAATTAAAAACCCTAACCCTTAGCTTAAA
1 ----AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* * * *
12547078 AACCCTAACCTTTAACTTAAAAATCCTAACCCTAACCATTAAATTAAA
1 AACCCTAACCCTTAAATT--AAA----AACCCTAACCCTTAACTTAAA
** *
12547126 AACCCTAACCCTTAGCTTAAAAACCCTAACCTTTAACTTAAAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTT--AAA
* *
12547170 TCCTAACCCTAACCATTAAATTAAAAACCCTAACCCTTAGCTTAAA
1 ----AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* * * *
12547216 AACCCTAACCTTTAACTTAAAAAACCCTAAACCTTAAATT-AA
1 AACCCTAACCCTTAAATT-AAAAACCCTAACCCTTAACTTAAA
*
12547258 AACCCTAAACCTTAAATTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
* *
12547300 AACTCTAACCCTTAAATTGAAAACCCTAAACCCTTAA
1 AACCCTAACCCTTAAATTAAAAACCCT-AACCCTTAA
12547337 NNNNNNNNNN
Statistics
Matches: 913, Mismatches: 124, Indels: 136
0.78 0.11 0.12
Matches are distributed among these distances:
41 60 0.07
42 295 0.32
43 180 0.20
44 42 0.05
45 30 0.03
46 21 0.02
47 3 0.00
48 174 0.19
49 82 0.09
50 9 0.01
51 8 0.01
52 9 0.01
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.24
Consensus pattern (42 bp):
AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAA
Found at i:12546381 original size:112 final size:112
Alignment explanation
Indices: 12546189--12547336 Score: 1330
Period size: 112 Copynumber: 10.3 Consensus size: 112
12546179 AAAAAATCCT
* ** * *
12546189 AACCCTAACCCTTAAATTAAAAACCATAAACCAATAACTTAAAAACCCTAACCCTTAAATTAATA
1 AACCCTAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAA
*
12546254 ACCCTAAACCCTTAACTTAAAAACCATAACCCTAACCATTAAATTAAA
65 ACCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
* * *
12546302 AACCTTAACCCTTAACTTAAAAACCCTAGCCCTTAA-TTAAAAACCCTAAACCCTTAACTTAAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAA
* *
12546366 ACCATAAACCTTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAAA
65 ACCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATT-AAA
* * * * * * *
12546415 AACACTAACCCTTAACTTAAAAACCCAAACCCTTAAATTAAAACCCCTAAACCTTAACTTAATAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
12546480 CCCT-AACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
66 CCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
* * * * *
12546526 AACCTTAACCCTTAAATTAAAACCCCTAAACCTTAACTTAATAACCCTAACCCTTAACTGAAAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
*
12546591 CCCTAAACCCCTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
66 CCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
* * * * *
12546638 AACCTTAACCCTTAAATTAAAACCCCTAAACCTTAACTTAATAACCCTAACCCTTAACTGAAAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
*
12546703 CCCTAAACCCCTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
66 CCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
* * * * *
12546750 AACCTTAACCCTTAAATTAAAACCCCTAAACCTTAACTTAATAACCCTAACCCTTAACTGAAAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
*
12546815 CCCTAAACCCCTAACTTAAAAACCCTAA-CCT-----TTAAATTAAA
66 CCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
* * *
12546856 AACCCTAAACCTT-AACTAAAAACCCTAAACCTTAACTTAAAAACCCTAAACCCTTAACTTAAAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTT-AAA
12546920 AACCCTAAACCCTTAACTTAAAAACCCTAA--C---CC-TTAAATTAAA
64 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
* *
12546963 AACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAA-TACAACAATACCCTAAACCTTTAACTT
1 AACCCTAACCCTTAAATTAAAAACCCT-AACCCTTAACT-TAA-AA-ACCCT-AACCCTTAACTT
* * * **
12547027 AAAAATCCT-AACCC-TAACCATTAAATTAA---AAACCCTAACCCTTAGCTTAAA
61 AAAAACCCTAAACCCTTAA-C-TTAAA--AACCCTAACCCTAACCATTAAATTAAA
* * * * *
12547078 AACCCTAACCTTTAACTTAAAAATCCTAACCCTAACCATTAAATTAAAAACCCTAACCCTTAGCT
1 AACCCTAACCCTTAAATT--AAA----AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACT
* *
12547143 TAAAAACCCT-AACCTTTAACTTAAAAATCCTAACCCTAACCATTAAATTAAA
60 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
** * * *
12547195 AACCCTAACCCTTAGCTTAAAAACCCTAACCTTTAACTTAAAAAACCCTAAACCTTAAATT-AAA
1 AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTT-AAAAACCCTAACCCTTAACTTAAAA
* *
12547259 ACCCTAAA-CCTTAAATTAAAAACCCTAA--C---CC-TTAACTTAAA
65 ACCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
* *
12547300 AACTCTAACCCTTAAATTGAAAACCCTAAACCCTTAA
1 AACCCTAACCCTTAAATTAAAAACCCT-AACCCTTAA
12547337 NNNNNNNNNN
Statistics
Matches: 921, Mismatches: 77, Indels: 81
0.85 0.07 0.08
Matches are distributed among these distances:
105 63 0.07
106 43 0.05
107 54 0.06
108 16 0.02
109 19 0.02
110 15 0.02
111 133 0.14
112 368 0.40
113 77 0.08
114 14 0.02
115 27 0.03
116 5 0.01
117 60 0.07
118 8 0.01
119 2 0.00
120 10 0.01
121 7 0.01
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.24
Consensus pattern (112 bp):
AACCCTAACCCTTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA
CCCTAAACCCTTAACTTAAAAACCCTAACCCTAACCATTAAATTAAA
Found at i:12546507 original size:27 final size:27
Alignment explanation
Indices: 12546477--12546537 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
12546467 CTTAACTTAA
* *
12546477 TAACCCTAACCCTTAACTTAAAAACCC
1 TAACCCTAACCATTAAATTAAAAACCC
*
12546504 TAACCCTAACCATTAAATTAAAAACCT
1 TAACCCTAACCATTAAATTAAAAACCC
12546531 TAACCCT
1 TAACCCT
12546538 TAAATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.25
Consensus pattern (27 bp):
TAACCCTAACCATTAAATTAAAAACCC
Found at i:12546626 original size:27 final size:28
Alignment explanation
Indices: 12546589--12546649 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
12546579 TTAACTGAAA
* *
12546589 AACCCTAAACCCCTAACTTAAAAACCCT
1 AACCCTAAACCACTAAATTAAAAACCCT
* *
12546617 AACCCT-AACCATTAAATTAAAAACCTT
1 AACCCTAAACCACTAAATTAAAAACCCT
12546644 AACCCT
1 AACCCT
12546650 TAAATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.21
Consensus pattern (28 bp):
AACCCTAAACCACTAAATTAAAAACCCT
Found at i:12546738 original size:27 final size:28
Alignment explanation
Indices: 12546701--12546761 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
12546691 TTAACTGAAA
* *
12546701 AACCCTAAACCCCTAACTTAAAAACCCT
1 AACCCTAAACCACTAAATTAAAAACCCT
* *
12546729 AACCCT-AACCATTAAATTAAAAACCTT
1 AACCCTAAACCACTAAATTAAAAACCCT
12546756 AACCCT
1 AACCCT
12546762 TAAATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.21
Consensus pattern (28 bp):
AACCCTAAACCACTAAATTAAAAACCCT
Found at i:12547533 original size:61 final size:60
Alignment explanation
Indices: 12547465--12547649 Score: 156
Period size: 61 Copynumber: 3.2 Consensus size: 60
12547455 ATTTTTTGAC
12547465 TTAATAATTTTACATTCACATAATGTTATATTTTGAAAAATGTTTTGACTGGTACTAACAA
1 TTAATAATTTTACATTCACATAATGTTA-ATTTTGAAAAATGTTTTGACTGGTACTAACAA
* * * * ** *** *
12547526 TTAATAATTTTATA-T-A-AT-TTGATAATTTT-ACTAACCAT-TAAT-ACAATTA-T-A-AG
1 TTAATAATTTTACATTCACATAATGTTAATTTTGA--AA-AATGTTTTGACTGGTACTAACAA
*
12547579 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAA
1 TTAATAATTTTACATTCACATAATGTTA-ATTTTGAAAAATGTTTTGACTGGTACTAACAA
12547640 TTAATAATTT
1 TTAATAATTT
12547650 GATATAATTT
Statistics
Matches: 89, Mismatches: 21, Indels: 28
0.64 0.15 0.20
Matches are distributed among these distances:
53 14 0.16
54 2 0.02
55 3 0.03
56 13 0.15
57 16 0.18
58 12 0.13
59 3 0.03
60 2 0.02
61 24 0.27
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (60 bp):
TTAATAATTTTACATTCACATAATGTTAATTTTGAAAAATGTTTTGACTGGTACTAACAA
Found at i:12547655 original size:114 final size:114
Alignment explanation
Indices: 12547369--12547707 Score: 572
Period size: 114 Copynumber: 2.9 Consensus size: 114
12547359 NNNNNNNNNN
* *
12547369 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTACATAATTTGGTA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
* *
12547434 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAA-TTTAT-AATTAATAATTTTACATTCACA
* *
12547485 TAATGTTATATTTTGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
12547550 ATTTTACTAACCATTAATACAA-TTATAAGTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTATAA-TTAATAATTTTACATTCACA
*
12547599 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
12547664 ATTTTACTAACCATTAATACAATTTATCAATTAATAATTTTACA
66 ATTTTACTAACCATTAATACAATTTAT-AATTAATAATTTTACA
12547708 AATATAATTT
Statistics
Matches: 211, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
113 1 0.00
114 107 0.51
115 18 0.09
116 85 0.40
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (114 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
ATTTTACTAACCATTAATACAATTTATAATTAATAATTTTACATTCACA
Found at i:12550935 original size:124 final size:125
Alignment explanation
Indices: 12550710--12551241 Score: 827
Period size: 125 Copynumber: 4.3 Consensus size: 125
12550700 NNNNNNNNNN
* * *
12550710 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
12550775 TAGAAGCGATTTTATACTTTTTGCTCAGAAATGTCAAGTCAAAATTATTT-TTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
*
12550834 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
12550899 TAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
* * * *
12550959 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGGTTTCAAAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
12551024 TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
* * *
12551084 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * * *
12551149 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTTCAAGAT
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
*
12551208 CTACTGTAGCAAAAGCGCGTACAC-ATGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGA
12551242 CTTATTTGTT
Statistics
Matches: 375, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
123 1 0.00
124 143 0.38
125 231 0.62
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
Found at i:12551214 original size:249 final size:249
Alignment explanation
Indices: 12550710--12551241 Score: 843
Period size: 249 Copynumber: 2.1 Consensus size: 249
12550700 NNNNNNNNNN
* * * *
12550710 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
* * *
12550775 TAGAAGCGATTTTATACTTTTTGCTCAGAAATGTCAAGTCAAAATTATTTTTCCAGGACCTACTG
66 TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTG
* * * *
12550840 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGCTAGAAG
131 TAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
* * * *
12550905 CGATTTTATACTATTTTCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
196 CGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
* * *
12550959 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGGTTTCAAAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
12551024 TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGACCTACT
66 TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTT-TTCCAGGACCTACT
12551089 GTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
130 GTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
* *
12551154 GCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTTCAAGAT
195 GCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
*
12551208 CTACTGTAGCAAAAGCGCGTACAC-ATGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGA
12551242 CTTATTTGTT
Statistics
Matches: 258, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
248 1 0.00
249 140 0.54
250 117 0.45
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTG
TAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
CGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
Found at i:12552058 original size:16 final size:17
Alignment explanation
Indices: 12552037--12552068 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12552027 TAGCTAAATC
12552037 GAAAAGAA-AAAAAAAA
1 GAAAAGAAGAAAAAAAA
12552053 GAAAAGAAGAAAAAAA
1 GAAAAGAAGAAAAAAA
12552069 TAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
GAAAAGAAGAAAAAAAA
Found at i:12555554 original size:2 final size:2
Alignment explanation
Indices: 12555547--12555597 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
12555537 ACTTCAAGAC
12555547 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12555589 A- AG AG AG AG
1 AG AG AG AG AG
12555598 CAAGCATTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12558384 original size:163 final size:163
Alignment explanation
Indices: 12558212--12558537 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
12558202 TATTTTATAA
12558212 CCCTTTGATTGATAAAATTTTGACTAAAGAAAATAGAAAAACCTTAAAGAAAAACACTTTAGATT
1 CCCTTTGATTGATAAAATTTTGACTAAAGAAAATAGAAAAACCTTAAAGAAAAACACTTTAGATT
12558277 TACTCTTGTTGCTGAGGGGATGATATTTCTTTCAAGGTATATAAAAATAGTCCTCGAAGTTGGTC
66 TACTCTTGTTGCTGAGGGGATGATATTTCTTTCAAGGTATATAAAAATAGTCCTCGAAGTTGGTC
12558342 CTTAAAATTGGAAATTAAATCTAGATTTAAAAT
131 CTTAAAATTGGAAATTAAATCTAGATTTAAAAT
12558375 CCCTTTGATTGATAAAATTTTGACTAAAGAAAATAGAAAAACCTTAAAGAAAAACACTTTAGATT
1 CCCTTTGATTGATAAAATTTTGACTAAAGAAAATAGAAAAACCTTAAAGAAAAACACTTTAGATT
12558440 TACTCTTGTTGCTGAGGGGATGATATTTCTTTCAAGGTATATAAAAATAGTCCTCGAAGTTGGTC
66 TACTCTTGTTGCTGAGGGGATGATATTTCTTTCAAGGTATATAAAAATAGTCCTCGAAGTTGGTC
12558505 CTTAAAATTGGAAATTAAATCTAGATTTAAAAT
131 CTTAAAATTGGAAATTAAATCTAGATTTAAAAT
12558538 TATGACTTTG
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (163 bp):
CCCTTTGATTGATAAAATTTTGACTAAAGAAAATAGAAAAACCTTAAAGAAAAACACTTTAGATT
TACTCTTGTTGCTGAGGGGATGATATTTCTTTCAAGGTATATAAAAATAGTCCTCGAAGTTGGTC
CTTAAAATTGGAAATTAAATCTAGATTTAAAAT
Found at i:12572771 original size:1 final size:1
Alignment explanation
Indices: 12572765--12572792 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
12572755 ATAAAATGAG
12572765 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
12572793 GAAGGGGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12573294 original size:19 final size:19
Alignment explanation
Indices: 12573247--12573297 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
12573237 TCAAAAACAA
*
12573247 TTAATTAATTTTATGAATTT
1 TTAA-TAATTTTTTGAATTT
*
12573267 TTAAGAATTTTTTGATATTT
1 TTAATAATTTTTTGA-ATTT
12573287 TT-ATAATTTTT
1 TTAATAATTTTT
12573298 AAAAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TTAATAATTTTTTGAATTT
Found at i:12573297 original size:9 final size:10
Alignment explanation
Indices: 12573255--12573298 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
12573245 AATTAATTAA
12573255 TTTTATGAAT
1 TTTTATGAAT
*
12573265 TTTTAAGAAT
1 TTTTATGAAT
12573275 TTTT-TGATAT
1 TTTTATGA-AT
12573285 TTTTAT-AAT
1 TTTTATGAAT
12573294 TTTTA
1 TTTTA
12573299 AAAATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.30
10 20 0.67
11 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (10 bp):
TTTTATGAAT
Found at i:12580575 original size:26 final size:26
Alignment explanation
Indices: 12580545--12580606 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
12580535 TACCTACAGT
12580545 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
12580571 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
*
12580597 AGTTTTAGAA
1 AGTTTCAGAA
12580607 CACTTACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:12587963 original size:13 final size:13
Alignment explanation
Indices: 12587945--12587995 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
12587935 AGTTCTTCAT
12587945 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
12587958 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
12587971 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
12587984 TACTTTTGAGAA
1 TGCTTTTGAGAA
12587996 ATTTGAGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:12591105 original size:35 final size:36
Alignment explanation
Indices: 12591059--12591134 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 36
12591049 GAAGACAGGT
12591059 TATTTTGGTCATTTATCAGCCAAAA-CACTTCAAGC
1 TATTTTGGTCATTTATCAGCCAAAAGCACTTCAAGC
12591094 TATTTTGGTCATTTATCAGCCAAAAGCACTTCAAGC
1 TATTTTGGTCATTTATCAGCCAAAAGCACTTCAAGC
12591130 T-TTTT
1 TATTTT
12591135 ATATGGTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 29 0.73
36 11 0.28
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (36 bp):
TATTTTGGTCATTTATCAGCCAAAAGCACTTCAAGC
Found at i:12606027 original size:19 final size:19
Alignment explanation
Indices: 12605988--12606024 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
12605978 TTATGGATAG
*
12605988 TTAATTAAAGTTTAATTAA
1 TTAATTAAAGCTTAATTAA
12606007 TTAATT-AAGCTTAATTAA
1 TTAATTAAAGCTTAATTAA
12606025 ATTTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAATTAAAGCTTAATTAA
Found at i:12620598 original size:22 final size:22
Alignment explanation
Indices: 12620570--12620614 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
12620560 TTTAACAACG
12620570 TGGAAGAAGT-AGCGCCACGACA
1 TGGAAGAAGTGA-CGCCACGACA
*
12620592 TGGAAGAAGTGACGCCATGACA
1 TGGAAGAAGTGACGCCACGACA
12620614 T
1 T
12620615 CGACCTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.13
Consensus pattern (22 bp):
TGGAAGAAGTGACGCCACGACA
Found at i:12622103 original size:27 final size:27
Alignment explanation
Indices: 12622062--12622116 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
12622052 TATCTGCACC
**
12622062 GAAATACCCTTATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
12622089 GAAATACCCCCATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
12622116 G
1 G
12622117 TTATGGCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGACT
Found at i:12622367 original size:28 final size:28
Alignment explanation
Indices: 12622332--12622476 Score: 240
Period size: 28 Copynumber: 5.2 Consensus size: 28
12622322 TTGCCACATA
12622332 TACTGTATTGGGCTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
* *
12622360 TATTGTATTGGGCTAAGGCCCACATTGAT
1 TACTGTATTGGGCTAAGGCCCACACTG-T
12622389 T-CTGTATTGGGCTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
*
12622416 TACTGTAATGGGCTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
12622444 TACTGTATTGGGCTAAGGCCCACACTG-
1 TACTGTATTGGGCTAAGGCCCACACTGT
12622471 TACTGT
1 TACTGT
12622477 CACTGAGTAA
Statistics
Matches: 109, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
27 8 0.07
28 99 0.91
29 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACACTGT
Found at i:12622745 original size:105 final size:106
Alignment explanation
Indices: 12622563--12622774 Score: 286
Period size: 105 Copynumber: 2.0 Consensus size: 106
12622553 TTTCGTAAAC
* * *
12622563 TCACCCTTTCTTTTATTTACTTACAAGAAATCCTCGGCCATAGATGATTTGGTGCTGTGAGGGAC
1 TCACCCTTTCTTTTATTTACTGACAAGAAATCCTAGGCCATAGACGATTTGGTGCTGTGAGGGAC
* *
12622628 TCGAAGGTGGCCACACTACTGGAGCTGTTTA-TACTAGTTT
66 TCGAAGGTGGCCACACTACTGCAACTGTTTATTACTAGTTT
* * * *
12622668 TCACCCTTTCTTTTATTTACTGA-TAGAAAATCCTATGCTATAGGCGATTTGGTGCTGTGAGGGA
1 TCACCCTTTCTTTTATTTACTGACAAG-AAATCCTAGGCCATAGACGATTTGGTGCTGTGAGGGA
* *
12622732 CTTTG-AGGTGGCCACACTACTGCAATTGTTTATTACTAGTTT
65 C-TCGAAGGTGGCCACACTACTGCAACTGTTTATTACTAGTTT
12622774 T
1 T
12622775 TATTTAAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
104 2 0.02
105 79 0.85
106 12 0.13
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (106 bp):
TCACCCTTTCTTTTATTTACTGACAAGAAATCCTAGGCCATAGACGATTTGGTGCTGTGAGGGAC
TCGAAGGTGGCCACACTACTGCAACTGTTTATTACTAGTTT
Found at i:12627579 original size:26 final size:26
Alignment explanation
Indices: 12627543--12627592 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
12627533 CTCTAAGAAG
12627543 ATTAACATGAAATACAAGAACAAAAT
1 ATTAACATGAAATACAAGAACAAAAT
12627569 ATTAACATGAAATACAAGAACAAA
1 ATTAACATGAAATACAAGAACAAA
12627593 TAAAATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.18
Consensus pattern (26 bp):
ATTAACATGAAATACAAGAACAAAAT
Found at i:12631541 original size:16 final size:17
Alignment explanation
Indices: 12631520--12631552 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
12631510 ATTTTCAATA
12631520 ATTTTTAA-TTATTTTT
1 ATTTTTAATTTATTTTT
12631536 ATTTTTAATTTATTTTT
1 ATTTTTAATTTATTTTT
12631553 TTATACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTAATTTATTTTT
Found at i:12631661 original size:26 final size:26
Alignment explanation
Indices: 12631632--12631682 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
12631622 TATACGAGTC
12631632 AAATTGTAATATAATAAGTTTACAGT
1 AAATTGTAATATAATAAGTTTACAGT
12631658 AAATTGTAATATAATAAGTTTACAG
1 AAATTGTAATATAATAAGTTTACAG
12631683 CAATATACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (26 bp):
AAATTGTAATATAATAAGTTTACAGT
Found at i:12635518 original size:16 final size:16
Alignment explanation
Indices: 12635492--12635545 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
12635482 TTTGGTTCGC
*
12635492 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
12635508 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
12635524 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
12635540 TGTAAT
1 TGTAAT
12635546 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:12635637 original size:44 final size:45
Alignment explanation
Indices: 12635524--12635637 Score: 109
Period size: 39 Copynumber: 2.7 Consensus size: 45
12635514 GGAATAGAGG
*
12635524 TGTAATGGAATAGAGGTGTAATAGCA-AATCAATTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCATAAT-AATTCTTTGGTTGAA
* * **
12635569 TGTAATGGAATAGAGGCG---TA--ATAAT-ATTCTTGTGTTTGGT
1 TGTAATGGAATAGAGGTGTAATAGCATAATAATTCTT-TGGTTGAA
12635609 TG-AATGGAATAGAGGTGTAATAGCATAAT
1 TGTAATGGAATAGAGGTGTAATAGCATAAT
12635638 GGAAAAAACT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
39 19 0.34
40 8 0.14
41 3 0.05
42 4 0.07
44 5 0.09
45 17 0.30
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.34
Consensus pattern (45 bp):
TGTAATGGAATAGAGGTGTAATAGCATAATAATTCTTTGGTTGAA
Found at i:12635796 original size:16 final size:16
Alignment explanation
Indices: 12635759--12635800 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12635749 TTAATCATAT
*
12635759 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
12635775 TT-AAATATATTATAA
1 TTAAAATATATTATAA
12635790 TTAAAATATAT
1 TTAAAATATAT
12635801 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:12635807 original size:14 final size:15
Alignment explanation
Indices: 12635768--12635809 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12635758 TTTAAACATA
*
12635768 ATTATTATTAAATAT
1 ATTATAATTAAATAT
12635783 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
12635797 A-TATAATTTAATA
1 ATTATAATTAAATA
12635810 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:12636021 original size:24 final size:25
Alignment explanation
Indices: 12635975--12636022 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
12635965 TATGAATTTG
12635975 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
12636001 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
12636023 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:12636026 original size:92 final size:92
Alignment explanation
Indices: 12635930--12636158 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
12635920 TGATTTAATA
* * *
12635930 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
12635992 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
12636022 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
12636087 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
12636112 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
12636159 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:12648560 original size:144 final size:144
Alignment explanation
Indices: 12648336--12648602 Score: 410
Period size: 144 Copynumber: 1.9 Consensus size: 144
12648326 GATATTAGAT
* * * *
12648336 GTGAGCCTAGCTCTAGTTGGACAAACCAAAGATGTTTGCGCCAAGCGCTAGTCAGATAAACCATC
1 GTGAGCCCAGCTCTAATTGGACAAACCAAAGATGTTTGCGCCAAGCACTAGTCAGATAAACCAAC
*
12648401 GAATGTGTGCCCAGCACTAGTCAGACAAACTTACAAAAGTTGCGCCCA-TCGCTAGTCAGATATA
66 GAATGTGTGCCCAGCACTAGTCAGACAAACTCACAAAAGTTGCGCCCAGT-GCTAGTCAGATATA
12648465 CTGACAAAATCAATA
130 CTGACAAAATCAATA
* * * *
12648480 GTGAGCCCAGCTCTAATTGGATAAACCAATGATGTTTGCGCCTAGCACTAGTCGGATAAACCAAC
1 GTGAGCCCAGCTCTAATTGGACAAACCAAAGATGTTTGCGCCAAGCACTAGTCAGATAAACCAAC
** *
12648545 GAATGTGTGCCCAGCACTAGTCAGATGAACTCACGAAAGTTGCGCCCAGTGCTAGTCA
66 GAATGTGTGCCCAGCACTAGTCAGACAAACTCACAAAAGTTGCGCCCAGTGCTAGTCA
12648603 AACAAATCGA
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
144 109 0.99
145 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (144 bp):
GTGAGCCCAGCTCTAATTGGACAAACCAAAGATGTTTGCGCCAAGCACTAGTCAGATAAACCAAC
GAATGTGTGCCCAGCACTAGTCAGACAAACTCACAAAAGTTGCGCCCAGTGCTAGTCAGATATAC
TGACAAAATCAATA
Found at i:12648600 original size:69 final size:69
Alignment explanation
Indices: 12648371--12648602 Score: 191
Period size: 69 Copynumber: 3.3 Consensus size: 69
12648361 CCAAAGATGT
* * * * *
12648371 TTGCGCCAAGCGCTAGTCAGATAAACCATCGAATGTGTGCCCAGCACTAGTCAGACAAACTTACA
1 TTGCGCCCAGCGCTAGTCAGATAAACCAACGAATGTGTGCCCAGCACTAGTCAGATAAACTCACG
12648436 AAAG
66 AAAG
* * * * * **
12648440 TTGCGCCCATCGCTAGTCAGATATACTGACAAAATC-AATAGTGAGCCCAGCTCTAATTGGATAA
1 TTGCGCCCAGCGCTAGTCAGATA-A---AC-CAA-CGAAT-GTGTGCCCAGCACTAGTCAGATAA
* *
12648504 AC-CAATG-ATG
59 ACTC-ACGAAAG
* * * *
12648514 TTTGCGCCTAGCACTAGTCGGATAAACCAACGAATGTGTGCCCAGCACTAGTCAGATGAACTCAC
1 -TTGCGCCCAGCGCTAGTCAGATAAACCAACGAATGTGTGCCCAGCACTAGTCAGATAAACTCAC
12648579 GAAAG
65 GAAAG
*
12648584 TTGCGCCCAGTGCTAGTCA
1 TTGCGCCCAGCGCTAGTCA
12648603 AACAAATCGA
Statistics
Matches: 120, Mismatches: 31, Indels: 24
0.69 0.18 0.14
Matches are distributed among these distances:
69 59 0.49
70 9 0.08
71 2 0.02
73 2 0.02
74 7 0.06
75 41 0.34
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (69 bp):
TTGCGCCCAGCGCTAGTCAGATAAACCAACGAATGTGTGCCCAGCACTAGTCAGATAAACTCACG
AAAG
Found at i:12653373 original size:12 final size:12
Alignment explanation
Indices: 12653356--12653381 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12653346 ATAGCCCATA
12653356 TTGATATGCTAT
1 TTGATATGCTAT
12653368 TTGATATGCTAT
1 TTGATATGCTAT
12653380 TT
1 TT
12653382 TTAACAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGATATGCTAT
Found at i:12656134 original size:30 final size:31
Alignment explanation
Indices: 12656100--12656167 Score: 102
Period size: 33 Copynumber: 2.2 Consensus size: 31
12656090 CTATACTCGT
12656100 ATATAATTA-TTTGTTCTTGCATAGTCATTA
1 ATATAATTATTTTGTTCTTGCATAGTCATTA
*
12656130 ATATAATTATTTTTTGTTGTTGCATAGTCATTA
1 ATATAATTA--TTTTGTTCTTGCATAGTCATTA
12656163 ATATA
1 ATATA
12656168 CATTTTCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 9 0.26
33 25 0.74
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.51
Consensus pattern (31 bp):
ATATAATTATTTTGTTCTTGCATAGTCATTA
Found at i:12674400 original size:61 final size:61
Alignment explanation
Indices: 12674316--12674438 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
12674306 ATTATAATGG
* *
12674316 TTACCCAAACATGTCACTCTTGTGTAATTACAAGCAATTACACCCAAATTCAATTACTAGA
1 TTACCCAAACATGCCACCCTTGTGTAATTACAAGCAATTACACCCAAATTCAATTACTAGA
12674377 TTACCCAAACATGCCACCCTTGTGTAATTACAAGCAATTACACCCAAATTCAATTACTAGA
1 TTACCCAAACATGCCACCCTTGTGTAATTACAAGCAATTACACCCAAATTCAATTACTAGA
12674438 T
1 T
12674439 GGCTTTTCAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.28
Consensus pattern (61 bp):
TTACCCAAACATGCCACCCTTGTGTAATTACAAGCAATTACACCCAAATTCAATTACTAGA
Found at i:12679208 original size:10 final size:10
Alignment explanation
Indices: 12679195--12679225 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12679185 GCTTAAGGTT
12679195 AGTTTAATTA
1 AGTTTAATTA
12679205 AGTTTAATTA
1 AGTTTAATTA
*
12679215 AGATTAATTA
1 AGTTTAATTA
12679225 A
1 A
12679226 AAGTTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (10 bp):
AGTTTAATTA
Found at i:12683978 original size:243 final size:246
Alignment explanation
Indices: 12683651--12684125 Score: 644
Period size: 243 Copynumber: 1.9 Consensus size: 246
12683641 GACAAGTGTC
* ** *
12683651 CTATAATGGTATAGTAAAATATTTAAAAAACAGATATTTAAGTAGAGTTAAGGGATTGACAAGTG
1 CTATAAGGGTATAACAAAATATTTAAAAAACAGATATTTAAGCAGAGTTAAGGGATTGACAAGTG
*
12683716 TCTTATAGGGGTATGATAAACTATTGAAAAATAGATA-TTTAAAAAAGCAGAGACAAATGTCATT
66 TCTTATAGGGGTATGATAAACTATTG-AAAATAGATATTTTAAAAAAACAGAGACAAATGTCA-T
*
12683780 TTTTTAATGTTGCTTATGAAATG-AAAAAATATA-T-TG-CAAATACTCACCCATATAGGGAAAA
129 TTTTTAATGTTGCTTATGAAATGAAAAAAATATATTATGACAAATACTCACCCATATAGGAAAAA
* *
12683841 TATTTGGTACACTGTCAGTGGAA-TTTTAGACTTCAAAAGTAGAGTTAATAGT
194 TATTTGGTACACTATCAGTGAAATTTTTAGACTTCAAAAGTAGAGTTAATAGT
* * **
12683893 CTATAAGGGTATAACAAAATATTTATAAAAAGTAGATATTTAAGCAGGGTT-AGGGATTTTCCAA
1 CTATAAGGGTATAACAAAATATTTA-AAAAA-CAGATATTTAAGCAGAGTTAAGGGA-TTGACAA
*
12683957 GTGTGC-T-TAGGGGTATGATAAACTATTGAAAATAGATATTTTAAAAAAACTGAGACAAATGTC
63 GTGT-CTTATAGGGGTATGATAAACTATTGAAAATAGATATTTTAAAAAAACAGAGACAAATGTC
*
12684020 ATTTTTTAATGTTGCTTGTGAAATGAAAAAAATATATTGTCAATGTACCAAATACTCACCCATAT
127 ATTTTTTAATGTTGCTTATGAAATGAAAAAAATATA-T-T--ATG-A-CAAATACTCACCCATAT
*
12684085 AGGAAAAATATTTGGTACATTATCAGTGAAATTTTTAGACT
186 AGGAAAAATATTTGGTACACTATCAGTGAAATTTTTAGACT
12684126 CTACAAGCAG
Statistics
Matches: 202, Mismatches: 15, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
242 55 0.27
243 64 0.32
244 26 0.13
245 1 0.00
246 1 0.00
249 2 0.01
252 44 0.22
253 9 0.04
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (246 bp):
CTATAAGGGTATAACAAAATATTTAAAAAACAGATATTTAAGCAGAGTTAAGGGATTGACAAGTG
TCTTATAGGGGTATGATAAACTATTGAAAATAGATATTTTAAAAAAACAGAGACAAATGTCATTT
TTTAATGTTGCTTATGAAATGAAAAAAATATATTATGACAAATACTCACCCATATAGGAAAAATA
TTTGGTACACTATCAGTGAAATTTTTAGACTTCAAAAGTAGAGTTAATAGT
Found at i:12690807 original size:16 final size:16
Alignment explanation
Indices: 12690786--12690816 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12690776 TCGGGCTATA
12690786 ACTATGCATGTCAAAC
1 ACTATGCATGTCAAAC
12690802 ACTATGCATGTCAAA
1 ACTATGCATGTCAAA
12690817 AATAGCATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (16 bp):
ACTATGCATGTCAAAC
Found at i:12698981 original size:9 final size:8
Alignment explanation
Indices: 12698950--12698979 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
12698940 AAAATTGAAG
*
12698950 TTTTTCAT
1 TTTTTTAT
12698958 TTTTTTAT
1 TTTTTTAT
12698966 TTTTTTAT
1 TTTTTTAT
12698974 TTTTTT
1 TTTTTT
12698980 TACTTATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:12711221 original size:41 final size:43
Alignment explanation
Indices: 12711141--12711221 Score: 112
Period size: 41 Copynumber: 1.9 Consensus size: 43
12711131 CCGAATATAA
* * *
12711141 TAAATATATATTTTTTGTTTTTATTTTTAATTTTAAAATACTT
1 TAAAAATAAATTTTTTGTTATTATTTTTAATTTTAAAATACTT
*
12711184 TAAAAATAAATTTTTT-TTATT-TTTTTATTTTTAAAATA
1 TAAAAATAAATTTTTTGTTATTATTTTTAATTTTAAAATA
12711222 ATTTTTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 16 0.47
42 4 0.12
43 14 0.41
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (43 bp):
TAAAAATAAATTTTTTGTTATTATTTTTAATTTTAAAATACTT
Found at i:12712118 original size:10 final size:10
Alignment explanation
Indices: 12712103--12712136 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
12712093 GAACAAAAAT
*
12712103 AAAAAAATAA
1 AAAAAAAGAA
12712113 AAAAAAAGAA
1 AAAAAAAGAA
*
12712123 AACAAAAGAA
1 AAAAAAAGAA
12712133 AAAA
1 AAAA
12712137 TTAGCTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:12713947 original size:23 final size:23
Alignment explanation
Indices: 12713909--12714157 Score: 139
Period size: 23 Copynumber: 10.7 Consensus size: 23
12713899 ATCTATTCTG
*
12713909 TTTGGACAGC-TCTTATACATCAA
1 TTTGGACAGCAT-TTATACAACAA
* *
12713932 TTTGGACAGCATTTATATACCAA
1 TTTGGACAGCATTTATACAACAA
* * *
12713955 ATTAGACAGCATTT-TCACACCAAAA
1 TTTGGACAGCATTTAT-ACA--ACAA
* **
12713980 TTTGGATAGCATAAATACAACAA
1 TTTGGACAGCATTTATACAACAA
* *
12714003 TTTGGGCAGCATATATACAACAA
1 TTTGGACAGCATTTATACAACAA
* * *
12714026 TTT-GAGCAACATTTTTACACCAAA
1 TTTGGA-CAGCATTTATACAAC-AA
* * ** *
12714050 ATTGGACAACATAAATTCAACAA
1 TTTGGACAGCATTTATACAACAA
* * *
12714073 TTTGGGCAGCATATATACAGCAA
1 TTTGGACAGCATTTATACAACAA
* *
12714096 TTT-GAGCAGCATTTTTACACCAAA
1 TTTGGA-CAGCATTTATACAAC-AA
* *
12714120 ATTGGACAGCATATATACAACAAA
1 TTTGGACAGCATTTATACAAC-AA
*
12714144 TTAGG-CAGCATTTA
1 TTTGGACAGCATTTA
12714158 AGCATCACCT
Statistics
Matches: 171, Mismatches: 44, Indels: 22
0.72 0.19 0.09
Matches are distributed among these distances:
22 3 0.02
23 112 0.65
24 37 0.22
25 18 0.11
26 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (23 bp):
TTTGGACAGCATTTATACAACAA
Found at i:12714078 original size:70 final size:70
Alignment explanation
Indices: 12713923--12714154 Score: 306
Period size: 70 Copynumber: 3.3 Consensus size: 70
12713913 GACAGCTCTT
* * * * *
12713923 ATACATCAATTTGGACAGCATTTATATACCA-AATTAGA-CAGCATTTTCACACCAAAATTTGGA
1 ATACAACAATTTGGGCAGCA--TATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGA
*
12713986 TAGCATAA
63 CAGCATAA
* *
12713994 ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGGACAA
1 ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
12714059 CATAA
66 CATAA
* *
12714064 ATTCAACAATTTGGGCAGCATATATACAGCAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
1 ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
*
12714129 CATAT
66 CATAA
* *
12714134 ATACAACAAATTAGGCAGCAT
1 ATACAACAATTTGGGCAGCAT
12714155 TTAAGCATCA
Statistics
Matches: 143, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
69 8 0.06
70 100 0.70
71 35 0.24
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (70 bp):
ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
CATAA
Found at i:12714152 original size:47 final size:47
Alignment explanation
Indices: 12713933--12714156 Score: 127
Period size: 47 Copynumber: 4.8 Consensus size: 47
12713923 ATACATCAAT
* * * * *
12713933 TTGGACAGCATTTATATACCAAATTAGACAGCATTTTCACACCAAAA
1 TTGGACAGCATATATACAACAAATTAGGCAGCATTTTTACACCAAAA
* * * * * * *
12713980 TTTGGATAGCATAAATACAACAATTTGGGCAGCATATATACA--ACAA
1 -TTGGACAGCATATATACAACAAATTAGGCAGCATTTTTACACCAAAA
* * * * * * ** * *
12714026 TTTGAGCAACATTTTTACACCAAAATT-GGACAACATAAATT-CAAC-AAT
1 TTGGA-CAGCATATATACAAC-AAATTAGG-CAGCAT-TTTTACACCAAAA
* * *
12714074 TTGGGCAGCATATATACAGC-AATTTGAGCAGCATTTTTACACCAAAA
1 TTGGACAGCATATATACAACAAATTAG-GCAGCATTTTTACACCAAAA
12714121 TTGGACAGCATATATACAACAAATTAGGCAGCATTT
1 TTGGACAGCATATATACAACAAATTAGGCAGCATTT
12714157 AAGCATCACC
Statistics
Matches: 126, Mismatches: 39, Indels: 23
0.67 0.21 0.12
Matches are distributed among these distances:
45 10 0.08
46 23 0.18
47 52 0.41
48 41 0.33
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (47 bp):
TTGGACAGCATATATACAACAAATTAGGCAGCATTTTTACACCAAAA
Found at i:12715242 original size:43 final size:45
Alignment explanation
Indices: 12715155--12715280 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 45
12715145 AACTTATACA
* * *
12715155 ATGCCAACGTCCCAGACGTGGTCTTACATG-TAATCTCAT-A-TCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGATAA-CACATAAGTCG
12715198 ATGCC-ACTGTCCCAAACAG-GGTCTTACAC-ATAA-ACATAAGTCG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACACGATAACACATAAGTCG
*
12715241 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATA
1 ATGCCAACGTCCCAAACGTGGTCTTACACGATAACACATA
12715281 TCCGAAATCC
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
41 3 0.04
42 4 0.06
43 51 0.73
44 7 0.10
45 5 0.07
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (45 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGATAACACATAAGTCG
Found at i:12718404 original size:6 final size:6
Alignment explanation
Indices: 12718395--12718421 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12718385 AACAAAAAAT
12718395 ATTAAA ATTAAA ATTAAA ATTAAA ATT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATT
12718422 TAATAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATTAAA
Found at i:12720724 original size:41 final size:41
Alignment explanation
Indices: 12720654--12720804 Score: 171
Period size: 41 Copynumber: 3.7 Consensus size: 41
12720644 CCATTCGGGG
* * * * *
12720654 CTTTAGCAGCGTTTTTTAGAAATGTGCCGCTAATGCTCAGGGT
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTC-TGGT
* * *
12720697 -TTTTGCGGCATTTTTGGAAAAGCGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
**
12720737 CTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
12720778 CTTTAGCGGCGTTTTT-GAGAAAGCGCC
1 CTTTAGCGGCGTTTTTGGA-AAAGCGCC
12720805 ACAAAAACAT
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
40 4 0.04
41 80 0.88
42 7 0.08
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
Found at i:12721524 original size:17 final size:17
Alignment explanation
Indices: 12721497--12721533 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12721487 GGGCTATTAC
12721497 AATTTATATATT-AAAT
1 AATTTATATATTAAAAT
12721513 AATTTAATATATTAAAAT
1 AATTT-ATATATTAAAAT
12721531 AAT
1 AAT
12721534 GATTATAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 7 0.37
18 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTATATATTAAAAT
Found at i:12721750 original size:21 final size:22
Alignment explanation
Indices: 12721726--12721766 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12721716 ATGGTTTATT
12721726 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
12721747 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
12721767 GGATTTCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:12726593 original size:43 final size:41
Alignment explanation
Indices: 12726416--12726724 Score: 225
Period size: 43 Copynumber: 7.3 Consensus size: 41
12726406 ATGTTATGTT
* * * * *
12726416 TTTAGTGGCGTTTTTGCAAGAAGCGTCGCTAAAGGT-TTGTTC
1 TTTAGCGGCG-TTTTGGAA-AAGCGCCGCTAAAGGTCATGGTC
* * * *
12726458 TATAGCGGCGTTTGTGGTAAAAGCGCTGCTAAAGGTCTTTAG-C
1 TTTAGCGGCGTTT-TGG-AAAAGCGCCGCTAAAGGTC-ATGGTC
* * * * **
12726501 TATAGCGACGTTTGTGGGAAAAGCGCCGCTATAA-ATCCTAATC
1 TTTAGCGGCGTTT-T-GGAAAAGCGCCGCTA-AAGGTCATGGTC
* * * *
12726544 TATAGCGGCGTTTCTCGTAAAAGCGTCGCTAAAGGTCAAGGTC
1 TTTAGCGGCGTTT-T-GGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
12726587 TTTAGCGGCGCTTTT-GAGAAAGAGCCGCTAGAGGCCATGGTC
1 TTTAGCGGCG-TTTTGGA-AAAGCGCCGCTAAAGGTCATGGTC
* *
12726629 TTTAGC-G-GTTGTTGGAGAAGCGCCGCTAAAGGTCATGGCC
1 TTTAGCGGCGTT-TTGGAAAAGCGCCGCTAAAGGTCATGGTC
12726669 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCG-TTTT-GGAAAAGCGCCGCTAAAGGTCATGGTC
12726712 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
12726725 ATTTCTAAAA
Statistics
Matches: 215, Mismatches: 36, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
39 2 0.01
40 28 0.13
41 8 0.04
42 59 0.27
43 109 0.51
44 9 0.04
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:12726661 original size:82 final size:83
Alignment explanation
Indices: 12726564--12726719 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 83
12726554 TTTCTCGTAA
* * *
12726564 AAGCGTCGCTAAAGGTCAAGGTCTTTAGCGGCGCTTTTGAG-AAAGAGCCGCTAGAGGCCATGGT
1 AAGCGCCGCTAAAGGTCAAGGCCTTTAGCGGCGCTTTTGAGAAAAGAGCCGCTAAAGGCCATGGT
12726628 CTTTAGCGGTTGTTGGAG
66 CTTTAGCGGTTGTTGGAG
* * * * *
12726646 AAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGT
1 AAGCGCCGCTAAAGGTCAAGGCCTTTAGCGGCGCTTTTGAGAAAAGAGCCGCTAAAGGCCATGGT
12726711 CTTTAGCGG
66 CTTTAGCGG
12726720 CGTTTATTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 36 0.55
83 29 0.45
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (83 bp):
AAGCGCCGCTAAAGGTCAAGGCCTTTAGCGGCGCTTTTGAGAAAAGAGCCGCTAAAGGCCATGGT
CTTTAGCGGTTGTTGGAG
Found at i:12736742 original size:25 final size:25
Alignment explanation
Indices: 12736708--12736762 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
12736698 ATTTTAGGTA
12736708 CACACGGCCTAGGACACGGGCGTGT
1 CACACGGCCTAGGACACGGGCGTGT
12736733 CACACGGCCTAGGACACGGGCGTGT
1 CACACGGCCTAGGACACGGGCGTGT
12736758 CACAC
1 CACAC
12736763 AGCCGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.33, T:0.11
Consensus pattern (25 bp):
CACACGGCCTAGGACACGGGCGTGT
Done.