Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 115 of 322
Found at i:37502205 original size:54 final size:51
Alignment explanation
Indices: 37502013--37502247 Score: 202
Period size: 54 Copynumber: 4.4 Consensus size: 51
37502003 TACCTCGATT
* * * * *
37502013 TGTAAAATTACCGAAATACTCTCGGTTTGTAAAATTATCAAATTACCCCTGATT
1 TGTAAAATTACCGAAATACCCT-GATTT-TAAAATTACCAAAATACCCCT-ATG
* *
37502067 TGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTAAAATA-CCCTAGTT
1 TGTAAAATTACCGAAATACCCT-GATTT-TAAAATTACCAAAATACCCCTA-TG
* *
37502120 TGTAAAATTACCAAAATACCCCTAATTTTTAAAATTACCAAAATACCCCTATAG
1 TGTAAAATTACCGAAATA-CCCTGA-TTTTAAAATTACCAAAATACCCCTAT-G
* * ** * *
37502174 TGTAAAATTACTGAAATACCACTGTAGTTTAAAATTACTGAAATATCCTTATAG
1 TGTAAAATTACCGAAATACC-CTG-ATTTTAAAATTACCAAAATACCCCTAT-G
**
37502228 TGTAAAATTATTGAAATACC
1 TGTAAAATTACCGAAATACC
37502248 TCTATAGGGC
Statistics
Matches: 156, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
52 1 0.01
53 42 0.27
54 112 0.72
55 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (51 bp):
TGTAAAATTACCGAAATACCCTGATTTTAAAATTACCAAAATACCCCTATG
Found at i:37502262 original size:27 final size:27
Alignment explanation
Indices: 37502067--37502254 Score: 152
Period size: 27 Copynumber: 7.0 Consensus size: 27
37502057 ACCCCTGATT
* * *
37502067 TGTAAAATTACCGAAATACCCTCGAT-T
1 TGTAAAATTACTGAAATA-CCTCTATAG
* *
37502094 TGTAAAATTACTAAAATACC-CTAGT-T
1 TGTAAAATTACTGAAATACCTCTA-TAG
** * *
37502120 TGTAAAATTACCAAAATACCCCTA-ATT
1 TGTAAAATTACTGAAATACCTCTATA-G
* ** *
37502147 TTTAAAATTACCAAAATACCCCTATAG
1 TGTAAAATTACTGAAATACCTCTATAG
* *
37502174 TGTAAAATTACTGAAATACCACTGTAG
1 TGTAAAATTACTGAAATACCTCTATAG
*
37502201 TTTAAAATTACTGAAATATCCT-TATAG
1 TGTAAAATTACTGAAATA-CCTCTATAG
*
37502228 TGTAAAATTATTGAAATACCTCTATAG
1 TGTAAAATTACTGAAATACCTCTATAG
37502255 GGCAAAATGA
Statistics
Matches: 138, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
25 2 0.01
26 26 0.19
27 107 0.78
28 3 0.02
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCTCTATAG
Found at i:37503963 original size:44 final size:41
Alignment explanation
Indices: 37503884--37504038 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 41
37503874 TTTCGATATG
** * *
37503884 TGATTTCGTGTAAGACCACATCTGAGACGTTGGCATC-AATT
1 TGATTTCGTGTAAGACCATGTCTG-GACATCGGCATCGAATT
*
37503925 TGAGATTTACGTGTAAGACCATGTCTAGGACATCGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCT-GGACATCGGCATCGAATT
* * *
37503970 TGATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCATAGATGTT
1 TGATTTCGTGTAAGACCATGTCT-GGACA-TCGGCATCGA-ATT
* * *
37504013 TGATTACATGTAAGACCACGTCTGGA
1 TGATTTCGTGTAAGACCATGTCTGGA
37504039 ACGTTGGCAT
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 32 0.34
44 25 0.27
45 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGACATCGGCATCGAATT
Found at i:37506587 original size:50 final size:50
Alignment explanation
Indices: 37506530--37506629 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
37506520 GATGTTGTCC
*
37506530 TTGAGATGCATGCATGTTTTAGTCATTGACTTGAGTTCTAAATAGCCCAT
1 TTGAGATGCATGCATGTTTTAGTAATTGACTTGAGTTCTAAATAGCCCAT
37506580 TTGAGATGCATGCATGTTTTAGTAATTGACTTGAGTTCTAAATAGCCCAT
1 TTGAGATGCATGCATGTTTTAGTAATTGACTTGAGTTCTAAATAGCCCAT
37506630 GTTCAAATCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (50 bp):
TTGAGATGCATGCATGTTTTAGTAATTGACTTGAGTTCTAAATAGCCCAT
Found at i:37507736 original size:28 final size:27
Alignment explanation
Indices: 37507679--37507830 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
37507669 TAAATTGTGC
* *
37507679 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
37507706 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
37507734 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
37507761 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
37507789 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
37507816 AGCAATGAGTGTGCG
1 AGCACTAAGTGTGCG
37507831 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:37507744 original size:55 final size:55
Alignment explanation
Indices: 37507679--37507830 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
37507669 TAAATTGTGC
* *
37507679 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
37507734 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * * *
37507789 AGCACTAAGTGTGCGAGTTGATTATATAGCAATGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
37507831 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:37515357 original size:48 final size:47
Alignment explanation
Indices: 37515302--37515531 Score: 206
Period size: 48 Copynumber: 4.9 Consensus size: 47
37515292 AGGGTAAATT
* * * *
37515302 GCCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-AG
* * *
37515350 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTTTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-AG
* *
37515398 GCCGATACCATGT--CTG----GGTCTTACACTAGCTCTCATAAT-ATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCA-G
* *
37515440 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCGT-ACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCATATC-AG
* * * * *
37515488 GTCGATGTCACGTCTCAGACATGGTCTTACACTGGCTCTCATAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
37515532 TGTGGCTGAC
Statistics
Matches: 148, Mismatches: 22, Indels: 24
0.76 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 31 0.21
43 1 0.01
44 2 0.01
46 2 0.01
47 3 0.02
48 106 0.72
49 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAG
Found at i:37515444 original size:42 final size:41
Alignment explanation
Indices: 37515372--37515453 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
37515362 TCCCAGACAT
* *
37515372 GGTCTTACACTAGCTCTCGTTTCAATGCCGATACCATGTCTG
1 GGTCTTACACTAGCTCTCATAT-AATGCCGATACCATGTCTG
*
37515414 GGTCTTACACTAGCTCTCATA-ATATGGCCGATGCCATGTC
1 GGTCTTACACTAGCTCTCATATA-AT-GCCGATACCATGTC
37515454 CCAGACATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 1 0.03
41 2 0.06
42 32 0.91
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.32
Consensus pattern (41 bp):
GGTCTTACACTAGCTCTCATATAATGCCGATACCATGTCTG
Found at i:37515558 original size:48 final size:48
Alignment explanation
Indices: 37515506--37515615 Score: 211
Period size: 48 Copynumber: 2.3 Consensus size: 48
37515496 CACGTCTCAG
37515506 ACATGGTCTTACACTGGCTCTCATATTGTGGCTGACACCATGTTGCAA
1 ACATGGTCTTACACTGGCTCTCATATTGTGGCTGACACCATGTTGCAA
*
37515554 ACATGGTCCTACACTGGCTCTCATATTGTGGCTGACACCATGTTGCAA
1 ACATGGTCTTACACTGGCTCTCATATTGTGGCTGACACCATGTTGCAA
37515602 ACATGGTCTTACAC
1 ACATGGTCTTACAC
37515616 ATAATAACGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCTCATATTGTGGCTGACACCATGTTGCAA
Found at i:37516888 original size:40 final size:40
Alignment explanation
Indices: 37516844--37516950 Score: 169
Period size: 40 Copynumber: 2.7 Consensus size: 40
37516834 GTACATAGTC
*
37516844 GAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCT
1 GAAGCTATGTCAAATCGCACACTAAGTGCCATATATAGCT
*
37516884 GAAGCTATGTCAAATCACACACTAAGTGCCATATATAGCT
1 GAAGCTATGTCAAATCGCACACTAAGTGCCATATATAGCT
* **
37516924 CAAGCTATGTCGTATCGCACACTAAGT
1 GAAGCTATGTCAAATCGCACACTAAGT
37516951 TTCACAAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (40 bp):
GAAGCTATGTCAAATCGCACACTAAGTGCCATATATAGCT
Found at i:37522503 original size:40 final size:40
Alignment explanation
Indices: 37522391--37522521 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
37522381 TTGATATCTT
* * * * *
37522391 GCACACTAAGTGCCTTACATAGCTGAAGCTATCTCAAATC
1 GCACACTAAGTACCATATATAGCTGAAGCTATGTCGAATC
* * *
37522431 GTACACTAAGTGCCATATACAG-TCGAAGCTATGTCGAATC
1 GCACACTAAGTACCATATATAGCT-GAAGCTATGTCGAATC
* * *
37522471 ACACACTTAGTACCATATATAGCTGAAGCTATGTCGTATC
1 GCACACTAAGTACCATATATAGCTGAAGCTATGTCGAATC
*
37522511 GCACATTAAGT
1 GCACACTAAGT
37522522 GGCACAAATA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
GCACACTAAGTACCATATATAGCTGAAGCTATGTCGAATC
Found at i:37528716 original size:28 final size:28
Alignment explanation
Indices: 37528654--37528726 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
37528644 TATAAAGGTG
37528654 AATTGGGCCTAGTGGGCCATAAGAATAT
1 AATTGGGCCTAGTGGGCCATAAGAATAT
* **
37528682 AACTGGGCC-AGATGGGCCATTTGAATA-
1 AATTGGGCCTAG-TGGGCCATAAGAATAT
37528709 AGATTGGGCCTAGTGGGC
1 A-ATTGGGCCTAGTGGGC
37528727 TATATGCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 3 0.08
28 33 0.87
29 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.23
Consensus pattern (28 bp):
AATTGGGCCTAGTGGGCCATAAGAATAT
Found at i:37540198 original size:16 final size:15
Alignment explanation
Indices: 37540177--37540214 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
37540167 TCTCTTGCAT
*
37540177 TTTAGATTAACATGGA
1 TTTAGATTAAAAT-GA
37540193 TTTAGATTAAAATGA
1 TTTAGATTAAAATGA
37540208 TTT-GATT
1 TTTAGATT
37540215 TCATGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 5 0.24
16 12 0.57
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.45
Consensus pattern (15 bp):
TTTAGATTAAAATGA
Found at i:37542685 original size:5 final size:5
Alignment explanation
Indices: 37542675--37542708 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
37542665 TTTTAATAAC
37542675 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
37542709 TCAAGAGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:37553609 original size:23 final size:23
Alignment explanation
Indices: 37553565--37553609 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
37553555 TTAAAATGAT
* *
37553565 AAAATTATATTTTTATTATCGTA
1 AAAATTATAATTTAATTATCGTA
37553588 AAAATATATAATTTAATT-TCGT
1 AAAAT-TATAATTTAATTATCGT
37553610 TTCCTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
AAAATTATAATTTAATTATCGTA
Found at i:37555476 original size:24 final size:24
Alignment explanation
Indices: 37555444--37555493 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
37555434 ATCAAACATA
*
37555444 AAATGACATCAACCCATTATCATC
1 AAATGACATCAACCCATAATCATC
37555468 AAATGACATCAACCCATAATCATC
1 AAATGACATCAACCCATAATCATC
37555492 AA
1 AA
37555494 GATAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.28, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATGACATCAACCCATAATCATC
Found at i:37557578 original size:40 final size:40
Alignment explanation
Indices: 37557534--37557644 Score: 213
Period size: 40 Copynumber: 2.8 Consensus size: 40
37557524 CAACTCGCAC
*
37557534 AAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
37557574 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
37557614 AAATGCCTTCGGGACTTAGCCCGGATAAAAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAAT
37557645 TCAAATGCTC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
Found at i:37557586 original size:80 final size:80
Alignment explanation
Indices: 37557497--37557644 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 80
37557487 CAAGCACAAT
* * * * *
37557497 TGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA
1 TGCCTTCGGGACTTAACCCGGATAAAAGC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
37557561 AAATCACTAGCATAAA
65 AAATCACTAGCATAAA
* * *
37557577 TGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAA
1 TGCCTTCGGGACTTAACCCGGATAAAAGCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAA
37557642 AAT
66 AAT
37557645 TCAAATGCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 56 0.95
81 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATAAAAGCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAA
AATCACTAGCATAAA
Found at i:37561263 original size:17 final size:17
Alignment explanation
Indices: 37561228--37561260 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
37561218 TATTAAATTA
37561228 AATTAAATTAATTTTTT
1 AATTAAATTAATTTTTT
37561245 AATTAAA-TAATTTTTT
1 AATTAAATTAATTTTTT
37561261 TAACCCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTAAATTAATTTTTT
Found at i:37565300 original size:11 final size:11
Alignment explanation
Indices: 37565277--37565310 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
37565267 ATGTCAAATC
*
37565277 ATCAAGAATAA
1 ATCAAGAACAA
*
37565288 ATTAAGAACAA
1 ATCAAGAACAA
37565299 ATCAAGAACAA
1 ATCAAGAACAA
37565310 A
1 A
37565311 ACTAGATACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:37568426 original size:40 final size:39
Alignment explanation
Indices: 37568328--37568590 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
37568318 TCCTCGTTCA
* * * *
37568328 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
37568367 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37568406 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37568446 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
37568486 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
37568526 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
37568567 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37568591 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:37568550 original size:120 final size:119
Alignment explanation
Indices: 37568328--37568590 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
37568318 TCCTCGTTCA
* * *
37568328 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
37568393 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
37568446 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
37568511 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
37568567 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
37568591 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:37568599 original size:41 final size:41
Alignment explanation
Indices: 37568522--37568599 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37568512 TTTGTATCTC
* * *
37568522 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37568563 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37568600 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37576322 original size:39 final size:40
Alignment explanation
Indices: 37576277--37576448 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
37576267 GCTCCTCGTT
* * *
37576277 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
37576317 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
37576356 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
37576396 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
37576436 CAAATGCCTTCGG
1 CAAATGCCTTCGG
37576449 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:37576377 original size:40 final size:39
Alignment explanation
Indices: 37576279--37576501 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
37576269 TCCTCGTTCA
* * * *
37576279 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
37576318 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37576357 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
37576397 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
37576437 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
37576478 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37576502 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:37576461 original size:80 final size:79
Alignment explanation
Indices: 37576277--37576501 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
37576267 GCTCCTCGTT
* * * * *
37576277 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
37576341 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
37576356 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
37576421 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
37576436 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
37576500 GA
63 GA
37576502 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:37576510 original size:41 final size:41
Alignment explanation
Indices: 37576433--37576510 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37576423 TTTGTATCTC
* * *
37576433 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37576474 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37576511 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37581854 original size:17 final size:17
Alignment explanation
Indices: 37581834--37581869 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37581824 TTATTTATTA
* *
37581834 AATTAAATTAATTTTTT
1 AATTAAATAAAATTTTT
37581851 AATTAAATAAAATTTTT
1 AATTAAATAAAATTTTT
37581868 AA
1 AA
37581870 CCCAATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATAAAATTTTT
Found at i:37587003 original size:16 final size:17
Alignment explanation
Indices: 37586962--37587005 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
37586952 TTTTGACCCC
37586962 TAAACTTTTGCATATTT
1 TAAACTTTTGCATATTT
37586979 TAAACTTTTGCATATTT
1 TAAACTTTTGCATATTT
*
37586996 T-CACTTTTGC
1 TAAACTTTTGC
37587006 CCCAATGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (17 bp):
TAAACTTTTGCATATTT
Found at i:37596363 original size:24 final size:25
Alignment explanation
Indices: 37596311--37596363 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
37596301 GACATTTATC
* *
37596311 ATCATGTCATTATTATTAACACATT
1 ATCATGCCATCATTATTAACACATT
37596336 -TCATGCCATCATTA-TAAC-CAATT
1 ATCATGCCATCATTATTAACAC-ATT
37596359 ATCAT
1 ATCAT
37596364 ACATCCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 7 0.29
24 16 0.67
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.40
Consensus pattern (25 bp):
ATCATGCCATCATTATTAACACATT
Found at i:37598110 original size:35 final size:35
Alignment explanation
Indices: 37598067--37598134 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
37598057 AGGATCACAA
* *
37598067 ATCTTTGAATA-TCACCTTCCATATTTGCCAAGCAT
1 ATCTTTGAAGACT-ACCTTCCATATTTACCAAGCAT
*
37598102 ATCTTTGAAGACTACTTTCCATATTTACCAAGC
1 ATCTTTGAAGACTACCTTCCATATTTACCAAGC
37598135 TCCGGAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (35 bp):
ATCTTTGAAGACTACCTTCCATATTTACCAAGCAT
Found at i:37600094 original size:42 final size:41
Alignment explanation
Indices: 37599994--37600094 Score: 96
Period size: 41 Copynumber: 2.4 Consensus size: 41
37599984 TTAACACATA
* * * *
37599994 TGAGTTTCTGTTTAACCCTAGTGGGTTTTTGTTTAGCTCTT
1 TGAGCTTCAGTTTAACCCTACTGGGTTTTTGTTCAGCTCTT
* ** * *
37600035 TGAGCTTCAATACAACCCTTCTGGGTTTTAT-TTCATCTCTTT
1 TGAGCTTCAGTTTAACCCTACTGGGTTTT-TGTTCAGCTC-TT
37600077 TGAGCTTCAGTTTAACCC
1 TGAGCTTCAGTTTAACCC
37600095 CATTAGTTTC
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
41 28 0.61
42 18 0.39
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (41 bp):
TGAGCTTCAGTTTAACCCTACTGGGTTTTTGTTCAGCTCTT
Found at i:37606990 original size:15 final size:15
Alignment explanation
Indices: 37606970--37607000 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37606960 CCCCCTCATT
37606970 CCTTTATCCATTATC
1 CCTTTATCCATTATC
37606985 CCTTTATCCATTATC
1 CCTTTATCCATTATC
37607000 C
1 C
37607001 TTCATCCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.45
Consensus pattern (15 bp):
CCTTTATCCATTATC
Found at i:37610445 original size:42 final size:42
Alignment explanation
Indices: 37610372--37610509 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 42
37610362 CATACCTAAA
* ** *
37610372 TATGGTCTTACATGGGATCACATATCGATGCCTATAGCCCAGC
1 TATGGTCTTACACGAAATCTCATATCGATGCC-ATAGCCCAGC
*
37610415 TATGGTCTTACACG-ATTCTCATATCGATGCCAT-GTCCCAGAC
1 TATGGTCTTACACGAAATCTCATATCGATGCCATAG-CCCAG-C
* * * *
37610457 -ATGGTCTTACACGAAATCTAATAAT-GATGCCATATCTCAGA
1 TATGGTCTTACACGAAATCTCAT-ATCGATGCCATAGCCCAGC
37610498 TATGGTCTTACA
1 TATGGTCTTACA
37610510 TGTAAACTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
40 1 0.01
41 20 0.25
42 44 0.55
43 15 0.19
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
TATGGTCTTACACGAAATCTCATATCGATGCCATAGCCCAGC
Found at i:37615532 original size:13 final size:16
Alignment explanation
Indices: 37615495--37615527 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37615485 TTAATTTTGC
37615495 TTATTTATTTACTATA
1 TTATTTATTTACTATA
37615511 TTATTTATTTA-TATA
1 TTATTTATTTACTATA
37615526 TT
1 TT
37615528 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTATTTACTATA
Found at i:37617204 original size:6 final size:6
Alignment explanation
Indices: 37617181--37617284 Score: 59
Period size: 6 Copynumber: 16.8 Consensus size: 6
37617171 TATCAGAGCT
* * * *
37617181 AGAATC AAAATG AGAATC AGAATC AGAATCC GGTGAT- AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT-C AG-AATC AGAATC AGAATC
* *** * *
37617230 AGAATT ACGTGGC AGAATC GGAATC AGTATC AGGTAA-C AGAATC AGAATC
1 AGAATC A-GAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
37617280 AGAAT
1 AGAAT
37617285 GTGAATACAA
Statistics
Matches: 71, Mismatches: 20, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
5 4 0.06
6 57 0.80
7 7 0.10
8 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:37617225 original size:25 final size:25
Alignment explanation
Indices: 37617193--37617284 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 25
37617183 AATCAAAATG
*
37617193 AGAATCAGAATCAGAATCCGGTGAT
1 AGAATCAGAATCAGAATCCGGTGAC
* *
37617218 AGAATCAGAATCAGAATTAC-GTGGC
1 AGAATCAGAATCAGAA-TCCGGTGAC
* * * *
37617243 AGAATCGGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCCGGTGAC
37617268 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
37617285 GTGAATACAA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.94
26 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCCGGTGAC
Found at i:37617465 original size:27 final size:27
Alignment explanation
Indices: 37617404--37617483 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
37617394 CATGACTGCC
* * *
37617404 AGAA-CAGATATTGTGACAGAGTCACC
1 AGAATCAGATATTGTGGCAGAGCCACT
37617430 AG-ATACAGATATTGTGGCAGAGCCACT
1 AGAAT-CAGATATTGTGGCAGAGCCACT
* *
37617457 AGAATCAGATAATGTGGCAAAGCCACT
1 AGAATCAGATATTGTGGCAGAGCCACT
37617484 TAACAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
27 41 0.89
28 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.20
Consensus pattern (27 bp):
AGAATCAGATATTGTGGCAGAGCCACT
Found at i:37617604 original size:78 final size:78
Alignment explanation
Indices: 37617504--37617669 Score: 269
Period size: 78 Copynumber: 2.1 Consensus size: 78
37617494 CGTGGCACAA
* *
37617504 AGCCATCGATAACAGGTCTATAATCGGCACGAAGCCCACAATAATGGTACACAGCCTTCGGTAAC
1 AGCCATCGATAACAGGTCTATAATCAGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAAC
37617569 ATGACCGACACTC
66 ATGACCGACACTC
** *
37617582 AGCCATCGATAATGGGTTTATAATCAGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAAC
1 AGCCATCGATAACAGGTCTATAATCAGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAAC
* *
37617647 ATGATCGGCACTC
66 ATGACCGACACTC
37617660 AGCCATCGAT
1 AGCCATCGAT
37617670 CGACCAACAG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (78 bp):
AGCCATCGATAACAGGTCTATAATCAGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAAC
ATGACCGACACTC
Found at i:37617768 original size:28 final size:27
Alignment explanation
Indices: 37617675--37617780 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
37617665 TCGATCGACC
* *
37617675 AACAGATATTGTGACAGAGTCACCAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
* *
37617702 TACAAATATTGTGGCAGAGCCACCAG-
1 AACAGATATTGTGGCAGAGCCACCAGA
* *
37617728 AACAGATATTTGTGGCATAGCCAACAGA
1 AACAGATA-TTGTGGCAGAGCCACCAGA
*
37617756 AACAGATATTTGTGGCATAGCCACC
1 AACAGATA-TTGTGGCAGAGCCACC
37617781 GGAACGCTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.09
27 38 0.56
28 24 0.35
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
AACAGATATTGTGGCAGAGCCACCAGA
Found at i:37618049 original size:27 final size:27
Alignment explanation
Indices: 37618026--37618296 Score: 273
Period size: 27 Copynumber: 10.0 Consensus size: 27
37618016 TTTACCCCAC
* *
37618026 AAGGGTATCTCGGTAACTCTACCCTAG
1 AAGGGTATTTCGGTAATTCTACCCTAG
* *
37618053 AGGGGTATTTCAGTAATTCTACCCTAG
1 AAGGGTATTTCGGTAATTCTACCCTAG
* *
37618080 AGGGGTATTTCAGTAA-TCTACCC-A-
1 AAGGGTATTTCGGTAATTCTACCCTAG
37618104 AAGGGGGTATTTCGGTAATTCTACCCTAG
1 AA--GGGTATTTCGGTAATTCTACCCTAG
* * *
37618133 AGGGGTATTTCGGTAATTCTATCC-AA
1 AAGGGTATTTCGGTAATTCTACCCTAG
* *
37618159 ACAGGGTATTTCTGTAATTCTACCCTCCTAC
1 A-AGGGTATTTCGGTAATTCTA--C-CCTAG
* *
37618190 AGGGGTATTTCGGTAATTCTATCCTA-
1 AAGGGTATTTCGGTAATTCTACCCTAG
* * *
37618216 TAGGGATATTTCGGTAATTCTACCTTAT
1 AAGGG-TATTTCGGTAATTCTACCCTAG
*
37618244 AAGGGTATTTCGGTAATTCTACCCTAT
1 AAGGGTATTTCGGTAATTCTACCCTAG
* *
37618271 AGGGGTATTTCGGTAATTCTAGCCTA
1 AAGGGTATTTCGGTAATTCTACCCTA
37618297 CAAATATGAG
Statistics
Matches: 208, Mismatches: 24, Indels: 24
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 25 0.12
27 153 0.74
28 5 0.02
29 1 0.00
30 20 0.10
31 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTCTACCCTAG
Found at i:37618087 original size:54 final size:54
Alignment explanation
Indices: 37618028--37618296 Score: 319
Period size: 54 Copynumber: 4.9 Consensus size: 54
37618018 TACCCCACAA
* * * *
37618028 GGGTATCTCGGTAACTCTACCCTAGAGGGGTATTTCAGTAATTCTACCCTAGAG
1 GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTTCGGTAATTCTACCCTAGAG
*
37618082 GGGTATTTCAGTAA-TCTACCC-AAAGGGGGTATTTCGGTAATTCTACCCTAGAG
1 GGGTATTTCGGTAATTCTACCCTAAA-GGGGTATTTCGGTAATTCTACCCTAGAG
* * * *
37618135 GGGTATTTCGGTAATTCTATCC-AAACAGGGTATTTCTGTAATTCTACCCTCCTACAG
1 GGGTATTTCGGTAATTCTACCCTAAA-GGGGTATTTCGGTAATTCTA--C-CCTAGAG
* * * * * *
37618192 GGGTATTTCGGTAATTCTATCCTATAGGGATATTTCGGTAATTCTACCTTATAA
1 GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTTCGGTAATTCTACCCTAGAG
* *
37618246 GGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTAGCCTA
1 GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTTCGGTAATTCTACCCTA
37618297 CAAATATGAG
Statistics
Matches: 188, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.01
53 47 0.25
54 90 0.48
55 1 0.01
56 1 0.01
57 45 0.24
58 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTTCGGTAATTCTACCCTAGAG
Found at i:37618226 original size:84 final size:80
Alignment explanation
Indices: 37618009--37618296 Score: 312
Period size: 84 Copynumber: 3.5 Consensus size: 80
37617999 GGGGAAAAAT
* * * * * * *
37618009 GGTAATTTTTACCCCACAAGGGTATCTCGGTAACTCTACCCTAGAGGGGTATTTCAGTAATTCTA
1 GGTAA-TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAGAGGGATATTTCGGTAATTCTA
* *
37618074 CCCTAGAGGGGTATTTC
65 -CCTAAAAGGGTATTTC
* * *
37618091 AGTAA-TCTACCC-AAAGGGGGTATTTCGGTAATTCTACCCTAGAGGGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCTACA-GGGGTATTTCGGTAATTCTACCCTAGAGGGATATTTCGGTAATTCTA
37618154 TCC-AAACAGGGTATTTC
65 -CCTAAA-AGGGTATTTC
* * *
37618171 TGTAATTCTACCCTCCTACAGGGGTATTTCGGTAATTCTATCCTATAGGGATATTTCGGTAATTC
1 GGTAATTCTA--C-CCTACAGGGGTATTTCGGTAATTCTACCCTAGAGGGATATTTCGGTAATTC
*
37618236 TACCTTATAAGGGTATTTC
63 TACC-TAAAAGGGTATTTC
* *
37618255 GGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTAGCCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA
37618297 CAAATATGAG
Statistics
Matches: 178, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
79 4 0.02
80 64 0.36
81 33 0.19
82 5 0.03
83 3 0.02
84 65 0.37
85 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAGAGGGATATTTCGGTAATTCTAC
CTAAAAGGGTATTTC
Found at i:37618255 original size:111 final size:107
Alignment explanation
Indices: 37618026--37618298 Score: 316
Period size: 111 Copynumber: 2.5 Consensus size: 107
37618016 TTTACCCCAC
* * * * *
37618026 AAGGGTATCTCGGTAACTCTACCCTAGAGGGGTATTTCAGTAATTCTACCCTAGAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTAAAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
*
37618091 AGTAATCTACCCAAAGGGGGTATTTCGGTAATTCTACCCTAG
66 AGTAATCTACCCAAAGGGGATATTTCGGTAATTCTACCCTAG
* * *
37618133 AGGGGTATTTCGGTAATTCTATCC-AAACAGGGTATTTCTGTAATTCTACCCTCCTACAGGGGTA
1 AAGGGTATTTCGGTAATTCTACCCTAAA-AGGGTATTTCAGTAATTCTA--C-CCTACAGGGGTA
* * * * *
37618197 TTTCGGTAATTCTATCCTATA-GGGATATTTCGGTAATTCTACCTTAT
62 TTTCAGTAA-TCTA-CCCAAAGGGGATATTTCGGTAATTCTACCCTAG
* * * *
37618244 AAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTAGCCTACA
1 AAGGGTATTTCGGTAATTCTACCCTAAAAGGGTATTTCAGTAATTCTACCCTACA
37618299 AATATGAGAT
Statistics
Matches: 139, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
106 2 0.01
107 38 0.27
108 6 0.04
109 1 0.01
110 19 0.14
111 67 0.48
112 6 0.04
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (107 bp):
AAGGGTATTTCGGTAATTCTACCCTAAAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
AGTAATCTACCCAAAGGGGATATTTCGGTAATTCTACCCTAG
Found at i:37620218 original size:6 final size:6
Alignment explanation
Indices: 37620188--37620312 Score: 96
Period size: 6 Copynumber: 20.3 Consensus size: 6
37620178 ACGAAACATT
* * * *
37620188 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * *
37620237 ATCAGA ATCAGA ATCAGA ATCAGA ATGAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
37620286 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
37620313 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.05
6 77 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:37620246 original size:31 final size:31
Alignment explanation
Indices: 37620209--37620312 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
37620199 AATCAAAATG
37620209 AGAATCAGAATCAGAATTC-GGTGACAGAATC
1 AGAATCAGAATCAGAA-TCAGGTGACAGAATC
* * *
37620240 AGAATCAGAATCAGAATCAGAATGA-GGTGA-C
1 AGAATCAGAATCAGAATCAG-GTGACAG-AATC
* *
37620271 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
37620302 AGAATCAGAAT
1 AGAATCAGAAT
37620313 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
30 5 0.08
31 51 0.85
32 4 0.07
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:37620250 original size:37 final size:37
Alignment explanation
Indices: 37620197--37620290 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
37620187 TATCAGAACT
* * **
37620197 AGAATCAAAATGAGAATCAGAATCAGAATTCGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
37620234 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
*
37620271 AGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
37620291 GTAACAGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
Found at i:37620273 original size:25 final size:25
Alignment explanation
Indices: 37620245--37620313 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
37620235 GAATCAGAAT
*
37620245 CAGAATCAGAATCAGAATGAGGTGA
1 CAGAATCAGAATCAGAATGAGGTAA
* *
37620270 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATGAGGTAA
37620295 CAGAATCAGAATCAGAATG
1 CAGAATCAGAATCAGAATG
37620314 TGAATGCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATGAGGTAA
Found at i:37620494 original size:27 final size:27
Alignment explanation
Indices: 37620433--37620512 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
37620423 CATGGCTGCC
* * *
37620433 AGAAT-AGATATTGTGACAGAGTCACC
1 AGAATCAGATATTGTGGCAGAGCCACT
37620459 A-AATACAGATATTGTGGCAGAGCCACT
1 AGAAT-CAGATATTGTGGCAGAGCCACT
* *
37620486 AGAATCAGATAATGTGGCAAAGCCACT
1 AGAATCAGATATTGTGGCAGAGCCACT
37620513 TAACAGAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.07
26 1 0.02
27 39 0.85
28 3 0.07
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (27 bp):
AGAATCAGATATTGTGGCAGAGCCACT
Found at i:37620663 original size:78 final size:78
Alignment explanation
Indices: 37620533--37620698 Score: 287
Period size: 78 Copynumber: 2.1 Consensus size: 78
37620523 CGTGGCACAA
*
37620533 AGCCATCGATAACAGGTCTATAATCGGCACGAAGCCCACAATAACGGTACACAGCCTTCGGTAAC
1 AGCCATCGATAACAGGTCTATAATCGGCACGAAGCCCACAATAACGGCACACAGCCTTCGGTAAC
*
37620598 ATGATCGGCACTC
66 ATGATCGACACTC
* * *
37620611 AGCCATCGATAACGGGTCTATAATCGGTACGAAGCCCACAATAATGGCACACAGCCTTCGGTAAC
1 AGCCATCGATAACAGGTCTATAATCGGCACGAAGCCCACAATAACGGCACACAGCCTTCGGTAAC
37620676 ATGATCGACACTC
66 ATGATCGACACTC
37620689 AGCCATCGAT
1 AGCCATCGAT
37620699 CGGTCAACAA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 83 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (78 bp):
AGCCATCGATAACAGGTCTATAATCGGCACGAAGCCCACAATAACGGCACACAGCCTTCGGTAAC
ATGATCGACACTC
Found at i:37620742 original size:27 final size:27
Alignment explanation
Indices: 37620704--37620809 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
37620694 TCGATCGGTC
* *
37620704 AACAAATATTGTGACAGAGTCACCAGA
1 AACAAATATTGTGGCAGAGCCACCAGA
37620731 AACAAATATTGTGGCAGAGCCACCAG-
1 AACAAATATTGTGGCAGAGCCACCAGA
* * *
37620757 AACAGATATTTGTGGCATAGCCAACAGA
1 AACAAATA-TTGTGGCAGAGCCACCAGA
* *
37620785 AACAGATATTTGTGGCATAGCCACC
1 AACAAATA-TTGTGGCAGAGCCACC
37620810 GGAACACTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
26 7 0.10
27 40 0.56
28 24 0.34
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (27 bp):
AACAAATATTGTGGCAGAGCCACCAGA
Found at i:37620797 original size:28 final size:28
Alignment explanation
Indices: 37620727--37620807 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 28
37620717 ACAGAGTCAC
* * *
37620727 CAGAAACAAATA-TTGTGGCAGAGCCAC
1 CAGAAACAGATATTTGTGGCATAGCCAA
37620754 CAG-AACAGATATTTGTGGCATAGCCAA
1 CAGAAACAGATATTTGTGGCATAGCCAA
37620781 CAGAAACAGATATTTGTGGCATAGCCA
1 CAGAAACAGATATTTGTGGCATAGCCA
37620808 CCGGAACACT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 7 0.14
27 19 0.39
28 23 0.47
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (28 bp):
CAGAAACAGATATTTGTGGCATAGCCAA
Found at i:37621087 original size:27 final size:27
Alignment explanation
Indices: 37621038--37621485 Score: 639
Period size: 27 Copynumber: 16.6 Consensus size: 27
37621028 GGGGAAAAAT
* * * *
37621038 GGTAATTTTAACCCCACAAGGGTATCTC
1 GGTAATTCT-ACCCTACAGGGGTATTTC
*
37621066 GGTAACTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37621093 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37621120 GGTAATTATACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37621147 GGTAATTCTACCCTTCTGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37621174 GGTAGTTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
37621201 GGTAGTTCCACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37621228 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37621255 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37621282 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37621309 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37621336 GATAATTCTACCCTACA-GGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37621362 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37621389 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37621416 GGTAATTCTACCCTACA-GGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37621442 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37621469 GATAATTCTACCCTACA
1 GGTAATTCTACCCTACA
37621486 AAATATTTAC
Statistics
Matches: 380, Mismatches: 38, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
26 47 0.12
27 326 0.86
28 7 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:37621565 original size:26 final size:26
Alignment explanation
Indices: 37621529--37621581 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
37621519 ATTGGGCTCG
*
37621529 TAGGACCATTGGGCTCACATGGCCCC
1 TAGGACCATTGGGCTCACATAGCCCC
*
37621555 TAGGCCCATTGGGCTCACATAGCCCC
1 TAGGACCATTGGGCTCACATAGCCCC
37621581 T
1 T
37621582 TTCGGCCCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.25, T:0.21
Consensus pattern (26 bp):
TAGGACCATTGGGCTCACATAGCCCC
Found at i:37625857 original size:28 final size:27
Alignment explanation
Indices: 37625821--37625926 Score: 92
Period size: 28 Copynumber: 3.7 Consensus size: 27
37625811 GAAATCAGTG
*
37625821 TTAATTGGGCCCTAGCCCATATCAATA
1 TTAATTGGGCCATAGCCCATATCAATA
37625848 TTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTA
1 TTAAT-TGGGCCATAG--CC---CA-TATCA-A-TA
37625884 -T-ATTGGGCC-TAGCCCATATCAATA
1 TTAATTGGGCCATAGCCCATATCAATA
37625908 TTAATCTGGGCCATAGCCC
1 TTAAT-TGGGCCATAGCCC
37625927 CTTACAGTAT
Statistics
Matches: 65, Mismatches: 1, Indels: 25
0.71 0.01 0.27
Matches are distributed among these distances:
24 2 0.03
25 2 0.03
26 7 0.11
27 13 0.20
28 15 0.23
30 4 0.06
32 3 0.05
33 8 0.12
34 7 0.11
35 2 0.03
36 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (27 bp):
TTAATTGGGCCATAGCCCATATCAATA
Found at i:37625891 original size:33 final size:33
Alignment explanation
Indices: 37625854--37625951 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 33
37625844 AATATTAATC
37625854 TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
37625887 TGGGCC-TAG--CC---CA-TATCA-A-TATTAAT
1 TGGGCCATAGCCCCTTACAGTATCAGAGTA-T-AT
37625913 CTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 -TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
37625947 TGGGC
1 TGGGC
37625952 AGAACGGGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 24
0.69 0.00 0.31
Matches are distributed among these distances:
24 2 0.04
25 2 0.04
26 7 0.13
27 8 0.15
28 3 0.06
30 4 0.08
32 3 0.06
33 13 0.25
34 7 0.13
35 2 0.04
36 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (33 bp):
TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
Found at i:37625903 original size:60 final size:60
Alignment explanation
Indices: 37625824--37625951 Score: 247
Period size: 60 Copynumber: 2.1 Consensus size: 60
37625814 ATCAGTGTTA
37625824 ATTGGGCCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
1 ATTGGG-CCTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
37625885 ATTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
1 ATTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
37625945 ATTGGGC
1 ATTGGGC
37625952 AGAACGGGTT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
60 61 0.91
61 6 0.09
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
ATTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
Found at i:37629065 original size:155 final size:154
Alignment explanation
Indices: 37628670--37629065 Score: 542
Period size: 155 Copynumber: 2.6 Consensus size: 154
37628660 GCGCTTTACA
* * *
37628670 AAAAACACCGCTAAAGATCAAGTATTAGCGGTGCTTTTTTAAAAATGCCTCTATATGTACACCTT
1 AAAAACACCGCTAAAGATCAAGTATTAGCGGCGC-TTTTTAAAAACGCCGCTATATGTACACCTT
* * * ** *
37628735 TAGCAGTGTTTTTTGAAAAACGCTTCAAAAGAATTTTGCAAAACTCCGTCATTTTGTATTGAACT
65 TAGCGGCGCTTTTTGAAAAATACTGCAAAAGAATTTTGCAAAACTCCGTCATTTTGTATTGAACT
*
37628800 TTTAGTGGCTTTAGCGGCGCTTTTT
130 TTTAGTGGCTTTAGCGGCACTTTTT
** * * * *
37628825 AAAAATGCCACTAAAGATAAAGTATTAGCGGCTCTTTTTAAAAAACGCCGCTATAAGTACACCTT
1 AAAAACACCGCTAAAGATCAAGTATTAGCGGCGCTTTTT-AAAAACGCCGCTATATGTACACCTT
* ** * ** *
37628890 TAGCGACGCTTTTTGAAAAATACTGCAAAA-TTTTTTGCAAAACTCCATTGTTTTTGTATTGAGC
65 TAGCGGCGCTTTTTGAAAAATACTGCAAAAGAATTTTGCAAAACTCC-GTCATTTTGTATTGAAC
37628954 TTTTAGTGGCTTTAGCGGCACTTTTT
129 TTTTAGTGGCTTTAGCGGCACTTTTT
37628980 AAAAACACCGCTAAAGATCAAGTATTAGCGGCGCTTTTTAAGAAACGCCGCTATATGTACACCTT
1 AAAAACACCGCTAAAGATCAAGTATTAGCGGCGCTTTTTAA-AAACGCCGCTATATGTACACCTT
37629045 TAGCGGCGCTTTTTGAAAAAT
65 TAGCGGCGCTTTTTGAAAAAT
37629066 GCCACTAATG
Statistics
Matches: 208, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
154 21 0.10
155 187 0.90
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (154 bp):
AAAAACACCGCTAAAGATCAAGTATTAGCGGCGCTTTTTAAAAACGCCGCTATATGTACACCTTT
AGCGGCGCTTTTTGAAAAATACTGCAAAAGAATTTTGCAAAACTCCGTCATTTTGTATTGAACTT
TTAGTGGCTTTAGCGGCACTTTTT
Found at i:37629086 original size:40 final size:40
Alignment explanation
Indices: 37629004--37629109 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 40
37628994 AGATCAAGTA
*
37629004 TTAGCGGCGCTTTTT-AAGAAACGCCGCTATATGTACACCT
1 TTAGCGGCGCTTTTTGAA-AAACGCCACTATATGTACACCT
* *
37629044 TTAGCGGCGCTTTTTGAAAAATGCCACTA-ATGCT-CGATCT
1 TTAGCGGCGCTTTTTGAAAAACGCCACTATATG-TAC-ACCT
*
37629084 TTAGCGGCG-TTTAATGAAAAACGCCA
1 TTAGCGGCGCTTT-TTGAAAAACGCCA
37629110 TAAATGAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
39 7 0.12
40 48 0.84
41 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTGAAAAACGCCACTATATGTACACCT
Found at i:37629419 original size:15 final size:14
Alignment explanation
Indices: 37629399--37629433 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
37629389 ACTATTTTAA
*
37629399 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
37629413 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
37629428 GGTTTA
1 GGTTTA
37629434 CGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:37629419 original size:22 final size:22
Alignment explanation
Indices: 37629394--37629438 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37629384 GAGTTACTAT
* *
37629394 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTACGGG
* *
37629416 TTTAGGGATTATGGTTTACGGG
1 TTTAAGGATTATGGATTACGGG
37629438 T
1 T
37629439 GGTTTAAGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTACGGG
Found at i:37629522 original size:21 final size:22
Alignment explanation
Indices: 37629489--37629544 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
37629479 CATGGTTCAG
* *
37629489 GGTTTATGTTTTAAGAC-TTAT
1 GGTTTAGGGTTTAAGACATTAT
*
37629510 GGTTTAGGGTTT-AGGCATTAT
1 GGTTTAGGGTTTAAGACATTAT
37629531 GAGTTTAGGGTTTA
1 G-GTTTAGGGTTTA
37629545 GATTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 15 0.52
22 11 0.38
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (22 bp):
GGTTTAGGGTTTAAGACATTAT
Found at i:37629662 original size:14 final size:14
Alignment explanation
Indices: 37629640--37629670 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37629630 TTAATTATCA
37629640 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
37629654 TTATGGTTTAGGGT
1 TTATAGTTTAGGGT
37629668 TTA
1 TTA
37629671 AAGTGTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:37629750 original size:14 final size:14
Alignment explanation
Indices: 37629731--37629783 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
37629721 ATGGTTTATT
37629731 GTTTAAGGGTTAGG
1 GTTTAAGGGTTAGG
*
37629745 GTTTAAGGCTTAGG
1 GTTTAAGGGTTAGG
* *
37629759 GGTTAAGTGTTAGG
1 GTTTAAGGGTTAGG
* *
37629773 TTTTTAGGGTT
1 GTTTAAGGGTT
37629784 TAGAGATTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.19, C:0.02, G:0.38, T:0.42
Consensus pattern (14 bp):
GTTTAAGGGTTAGG
Found at i:37630538 original size:7 final size:7
Alignment explanation
Indices: 37630526--37630584 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
37630516 AAAAATTTTT
37630526 AAAATTA
1 AAAATTA
37630533 AAAATTA
1 AAAATTA
37630540 AAAATTTTA
1 AAAA--TTA
*
37630549 AAAATAA
1 AAAATTA
*
37630556 AAAATAAAA
1 AAAAT--TA
37630565 AAAATTA
1 AAAATTA
*
37630572 AAAATAA
1 AAAATTA
37630579 AAAATT
1 AAAATT
37630585 TAATATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 30 0.68
9 14 0.32
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTA
Found at i:37630546 original size:23 final size:23
Alignment explanation
Indices: 37630516--37630594 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
37630506 AAATCTTCAA
* *
37630516 AAAAATTTTTAAAATTAAAAATT
1 AAAAATTTTAAAAATAAAAAATT
*
37630539 AAAAATTTTAAAAATAAAAAATA
1 AAAAATTTTAAAAATAAAAAATT
**
37630562 AAAAAAATTAAAAATAAAAAATT
1 AAAAATTTTAAAAATAAAAAATT
* *
37630585 TAATATTTTA
1 AAAAATTTTA
37630595 GTTCATATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAATTTTAAAAATAAAAAATT
Found at i:37630578 original size:16 final size:16
Alignment explanation
Indices: 37630532--37630582 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
37630522 TTTTAAAATT
***
37630532 AAAAATTAAAAATTTT
1 AAAAATTAAAAATAAA
*
37630548 AAAAATAAAAAATAAA
1 AAAAATTAAAAATAAA
37630564 AAAAATTAAAAATAAA
1 AAAAATTAAAAATAAA
37630580 AAA
1 AAA
37630583 TTTAATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATTAAAAATAAA
Found at i:37630718 original size:18 final size:19
Alignment explanation
Indices: 37630680--37630720 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
37630670 TTTTGAAAGA
37630680 AAAAATAAAAAAATATGTT
1 AAAAATAAAAAAATATGTT
37630699 AAAAATGAAAAAAA-AT-TT
1 AAAAAT-AAAAAAATATGTT
37630717 AAAA
1 AAAA
37630721 TTAAGTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 8 0.38
20 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAATAAAAAAATATGTT
Found at i:37633436 original size:45 final size:45
Alignment explanation
Indices: 37633385--37633475 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
37633375 TCTTGATCTT
37633385 AACATGGATCTAGATTTGCTCATTTAATTTCACTTTAGGAGCACG
1 AACATGGATCTAGATTTGCTCATTTAATTTCACTTTAGGAGCACG
37633430 AACATGGATCTAGATTTGCTCATTTAATTTCACTTTAGGAGCACG
1 AACATGGATCTAGATTTGCTCATTTAATTTCACTTTAGGAGCACG
37633475 A
1 A
37633476 TTCATTTGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (45 bp):
AACATGGATCTAGATTTGCTCATTTAATTTCACTTTAGGAGCACG
Found at i:37634403 original size:15 final size:16
Alignment explanation
Indices: 37634383--37634413 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37634373 GTTTTTGTCT
37634383 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
37634398 TATATATGATCTAAAA
1 TATATATGATCTAAAA
37634414 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:37635753 original size:48 final size:47
Alignment explanation
Indices: 37635701--37635839 Score: 122
Period size: 48 Copynumber: 3.1 Consensus size: 47
37635691 ATTAATTTTT
37635701 ATATTTAGTTTTGAAGTTTAAATTTTAATGGAAAATTTAATTTAATTA
1 ATATTTAGTTTTGAAGTTTAAATTTTAAT-GAAAATTTAATTTAATTA
* * * *
37635749 ATA-TT--TTTT--A-TTT--ATCCTTAA--AAGTATATAGTTTAA--A
1 ATATTTAGTTTTGAAGTTTAAAT-TTTAATGAA-AATTTAATTTAATTA
37635786 ATATTTAGTTTTGAAGTTTAAATTTTAATGAAAAATTTAATTTAATTA
1 ATATTTAGTTTTGAAGTTTAAATTTTAATG-AAAATTTAATTTAATTA
37635834 ATATTT
1 ATATTT
37635840 TTTTATTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 30
0.64 0.08 0.28
Matches are distributed among these distances:
37 4 0.06
38 4 0.06
39 9 0.13
40 6 0.09
41 4 0.06
42 4 0.06
43 4 0.06
44 4 0.06
45 6 0.09
46 9 0.13
47 4 0.06
48 10 0.15
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (47 bp):
ATATTTAGTTTTGAAGTTTAAATTTTAATGAAAATTTAATTTAATTA
Found at i:37635790 original size:85 final size:85
Alignment explanation
Indices: 37635701--37635870 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
37635691 ATTAATTTTT
*
37635701 ATATTTAGTTTTGAAGTTTAAATTTTAATGGAAAATTTAATTTAATTAATA-TTTTTTATTTATC
1 ATATTTAGTTTTGAAGTTTAAATTTTAATGAAAAATTTAATTTAATTAATATTTTTTTATTTATC
37635765 CTTAAAAGTATATAGTTTAAA
66 CTT-AAAGTATATAGTTTAAA
37635786 ATATTTAGTTTTGAAGTTTAAATTTTAATGAAAAATTTAATTTAATTAATATTTTTTTATTTATC
1 ATATTTAGTTTTGAAGTTTAAATTTTAATGAAAAATTTAATTTAATTAATATTTTTTTATTTATC
37635851 CTTAAAGTATATAGTTTAAA
66 CTTAAAGTATATAGTTTAAA
37635871 GTTTAAATTT
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
85 67 0.81
86 16 0.19
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (85 bp):
ATATTTAGTTTTGAAGTTTAAATTTTAATGAAAAATTTAATTTAATTAATATTTTTTTATTTATC
CTTAAAGTATATAGTTTAAA
Found at i:37635952 original size:22 final size:22
Alignment explanation
Indices: 37635893--37635945 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
37635883 AAAATTAAAC
*
37635893 ATAATATAATATTTAATATAGAA
1 ATAA-ATATTATTTAATATAGAA
37635916 ATAAATATTATTTAAT-TA-AA
1 ATAAATATTATTTAATATAGAA
37635936 ATAAAATATT
1 AT-AAATATT
37635946 TTTTTAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 9 0.32
22 11 0.39
23 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAAATATTATTTAATATAGAA
Found at i:37636069 original size:42 final size:43
Alignment explanation
Indices: 37636010--37636122 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 43
37636000 CGTGATTCTA
37636010 CTAAAGGTCATGATCTTTAGCGGCGTTTGTGGG-AAAGCGCCG
1 CTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
** * *
37636052 CTAAAGGT-ACTGATCTTTAGCGATGTTTGTGGGAAAAGTGCTG
1 CTAAAGGTCA-TGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
* *
37636095 CTAAAGGTCATGTTCTTTAGCAGCGTTT
1 CTAAAGGTCATGATCTTTAGCGGCGTTT
37636123 TTTTCAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 29 0.48
43 29 0.48
44 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (43 bp):
CTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
Found at i:37638924 original size:22 final size:21
Alignment explanation
Indices: 37638889--37638946 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
37638879 AAAAGGTATC
* * *
37638889 TACAAATTAAATCTCTGAGAT
1 TACAAATCATATCTCTAAGAT
37638910 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
37638933 TGCATATCATATCT
1 TACAAATCATATCT
37638947 AACATTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:37638953 original size:19 final size:19
Alignment explanation
Indices: 37638925--37639015 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
37638915 AATCATATCT
37638925 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
37638944 TCTAACATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
37638962 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
37638979 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37638998 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
37639016 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 36 0.54
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37639171 original size:21 final size:19
Alignment explanation
Indices: 37639134--37639172 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
37639124 TTGGACTTCG
*
37639134 TTTTTTTTTTGGTTTATTA
1 TTTTTTTTTTGGCTTATTA
37639153 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGG-CTTATT
37639173 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.13, T:0.74
Consensus pattern (19 bp):
TTTTTTTTTTGGCTTATTA
Found at i:37639427 original size:45 final size:45
Alignment explanation
Indices: 37639378--37639549 Score: 231
Period size: 45 Copynumber: 3.8 Consensus size: 45
37639368 TGCTATCTTT
* *
37639378 GATCTGCTCACCGTCTAATACAGAGATCCCAAATCTGTTATCCTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCCTC
* * *
37639423 GATCTTCTCCCCGTCTAATACAGAGATGCCAAATCTGCT-TCTTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCCTC
* ** *
37639467 AATCTGCTCCCTTTCTAATACAGAGATTCCAAATCTGTTAT-CTCC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCCT-C
*
37639512 GATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
37639550 CATCTTGGAT
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 38 0.35
45 70 0.65
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (45 bp):
GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCCTC
Found at i:37639530 original size:89 final size:90
Alignment explanation
Indices: 37639365--37639548 Score: 277
Period size: 89 Copynumber: 2.1 Consensus size: 90
37639355 GGAAGGCAAT
**
37639365 ATCTGCTATCTTTGATCTGCTCACCGTCTAATACAGAGATCCCAAATCTGTTATCCTCGATCTTC
1 ATCTGCTATCTTCAATCTGCTCACCGTCTAATACAGAGATCCCAAATCTGTTATCCTCGATCTTC
37639430 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGATGCCAA
* *
37639455 ATCTGCT-TCTTCAATCTGCTC-CCTTTCTAATACAGAGATTCCAAATCTGTTAT-CTCCGAT-T
1 ATCTGCTATCTTCAATCTGCTCACC-GTCTAATACAGAGATCCCAAATCTGTTATCCT-CGATCT
37639516 TGCTCCCCGTCTAATACAGAGATGCCAA
64 T-CTCCCCGTCTAATACAGAGATGCCAA
37639544 ATCTG
1 ATCTG
37639549 TCATCTTGGA
Statistics
Matches: 87, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
88 6 0.07
89 74 0.85
90 7 0.08
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCACCGTCTAATACAGAGATCCCAAATCTGTTATCCTCGATCTTC
TCCCCGTCTAATACAGAGATGCCAA
Found at i:37639707 original size:78 final size:78
Alignment explanation
Indices: 37639578--37639794 Score: 276
Period size: 78 Copynumber: 2.8 Consensus size: 78
37639568 ATGTAAACAC
**
37639578 ATGAAGGT-CAGATCTGCTATGTC-TTCGATCTGCTCCCAATCTAATACAGAGATGCCAAATCAT
1 ATGAAGGTCCA-ATCTGCTATGTCTTTC-ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
37639641 CTTAGATCTGCTTCA
64 CTTAGATCTGCTTCA
*
37639656 ATGAAGGTCCAATCTGTTATGTCTTTCATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGCTATGTCTTTCATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
37639721 TGGATCTGCTTCA
66 TAGATCTGCTTCA
* ** * * * * ** *
37639734 ACGAAGGTCTGATCTGCTATGTCTTTGATTTGCTCTCCGTCGAATATGGAGATACCAAATC
1 ATGAAGGTCCAATCTGCTATGTCTTTCATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
37639795 TGTTTCTTGG
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
78 117 0.96
79 5 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCCAATCTGCTATGTCTTTCATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TAGATCTGCTTCA
Found at i:37640080 original size:44 final size:44
Alignment explanation
Indices: 37640031--37640119 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
37640021 TTTGATTTGT
* * *
37640031 TCTCTGATAGTACAGAGACACCAAATTTACTATCTTCGATCTGC
1 TCTCTGACAATACAGAGACACCAAATCTACTATCTTCGATCTGC
*
37640075 TCTCTGACAATACAGAGACACCAAATCTACTATTTTCGATCTGC
1 TCTCTGACAATACAGAGACACCAAATCTACTATCTTCGATCTGC
37640119 T
1 T
37640120 ATTTTTGATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (44 bp):
TCTCTGACAATACAGAGACACCAAATCTACTATCTTCGATCTGC
Found at i:37640121 original size:14 final size:14
Alignment explanation
Indices: 37640099--37640133 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
37640089 GAGACACCAA
*
37640099 ATCTACTATTTTCG
1 ATCTGCTATTTTCG
*
37640113 ATCTGCTATTTTTG
1 ATCTGCTATTTTCG
37640127 ATCTGCT
1 ATCTGCT
37640134 CTCTGACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.11, T:0.51
Consensus pattern (14 bp):
ATCTGCTATTTTCG
Found at i:37640396 original size:88 final size:88
Alignment explanation
Indices: 37640297--37640459 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 88
37640287 ATCTGCTATG
* * ** * * * *
37640297 TCTTCGATCTGCGCTCCGTCGGATATGGAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGAT
1 TCTTCGATCTGCGCTCCGAC-AATACAGAGATGCCAAATCTGCTATCTTCGATTTGGTCTCTAAC
*
37640361 AGTACAGAGACACCAAATTTACTA
65 AATACAGAGACACCAAATTTACTA
* * *
37640385 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATTTGGTCTCTAACA
1 TCTTCGATCTGCGCTCCGACAATACAGAGATGCCAAATCTGCTATCTTCGATTTGGTCTCTAACA
37640450 ATACAGAGAC
66 ATACAGAGAC
37640460 GTCAAATCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
87 18 0.29
88 44 0.71
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (88 bp):
TCTTCGATCTGCGCTCCGACAATACAGAGATGCCAAATCTGCTATCTTCGATTTGGTCTCTAACA
ATACAGAGACACCAAATTTACTA
Found at i:37640466 original size:44 final size:44
Alignment explanation
Indices: 37640324--37640467 Score: 155
Period size: 44 Copynumber: 3.3 Consensus size: 44
37640314 GTCGGATATG
* * * * *
37640324 GAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGATAGTACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
* * * *
37640367 GAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
* * * *
37640411 GAGATGCCAAATCTGCTATCTTTGATTTGGTCTCTAACAATACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
*
37640455 GAGACGTCAAATC
1 GAGACGCCAAATC
37640468 ATCTTAGATT
Statistics
Matches: 81, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
43 11 0.14
44 70 0.86
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (44 bp):
GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
Found at i:37640671 original size:308 final size:308
Alignment explanation
Indices: 37639782--37641225 Score: 2226
Period size: 308 Copynumber: 4.6 Consensus size: 308
37639772 GTCGAATATG
* * * * * *
37639782 GAGATACCAAATCTG-TTTCTTGGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGA
1 GAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGA
*
37639846 TCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTAAACGC
66 TTTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTAAACGC
* * * **
37639911 AAGGATTCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGT
131 AAGGATGCCAAATCATCTTAGATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGT
* *
37639976 CTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTTGATTTGTTCTCTGATAG
196 CTTCGATCTGCGCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGATAG
37640041 TACAGAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
261 TACAGAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
** * * *
37640089 GAGACACCAAATCTACTATTTTCGATCTGCTATTTTTGATCTGCTCTCTGACAATATAGAGACGC
1 GAGA-TGC----C-A--A------ATCTGCTATCTTTGATTTGCTCTCTGACAATACAGAGACGC
* *
37640154 CAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTTGCTCTG
52 CAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTTGATCTG
** *
37640219 CTCCTTGTAAACATAAGGATGCCAAATCATCTTGGATCTGCTTCGATGCAAAAACATCCGAAGGT
117 CTCCTTGTAAACGCAAGGATGCCAAATCATCTTAGATCTGCTTCGATGCAAAAACATCCGAAGGT
*
37640284 TAGATCTGCTATGTCTTCGATCTGCGCTCCGTCGGATATGGAGATGCCAAATCTGTTTCTTCGAT
182 TAGATCTGCTATGTCTTCGATCTGCGCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGAT
37640349 TTGTTCTCTGATAGTACAGAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
247 TTGTTCTCTGATAGTACAGAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
* * *
37640411 GAGATGCCAAATCTGCTATCTTTGATTTGGTCTCTAACAATACAGAGACGTCAAATCATCTTAGA
1 GAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGA
* * * **
37640476 TTTGCTTCAGTGTAAACACGTGAAAGCCAAATCTGCTATATCTTTGCTCTGCTCCTTGTAAACAT
66 TTTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTAAACGC
* *
37640541 AAGGATGCCAAATCATCTTAGATCTGTTTCGATGCAAAACCATCCGAAGGTTAGATCTGCTATGT
131 AAGGATGCCAAATCATCTTAGATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGT
*
37640606 CTTCGATCTGCGCTCCGTCGGATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGATAG
196 CTTCGATCTGCGCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGATAG
37640671 TACAGAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
261 TACAGAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
* *
37640719 GAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTAACAATACAGAGACGTCAAATCATCTTAGA
1 GAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGA
* *
37640784 TTTGCTTCAGTGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACGC
66 TTTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTAAACGC
*
37640849 AAGGATGCCAAATCATCTTAGATCTGTTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGT
131 AAGGATGCCAAATCATCTTAGATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGT
* * * *
37640914 CTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTTTGACAG
196 CTTCGATCTGCGCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGATAG
*
37640979 TACAGAGACACCAAATCTACTATCTTCGATCTGCTCTCTGACAATACA
261 TACAGAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
* ** *
37641027 GAGATGCCAAATCTACTATCTTTGAGCTACTCTCTGACAATACAGAGACGCCAAATCATCTTAGA
1 GAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGA
* * ** *
37641092 GTTGCTTCAGCGTAAACACGTGAAAGCCAAATATGCTATGTCTTCAATCTGCTCCTTGTAAATGC
66 TTTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTAAACGC
* *
37641157 AAGGATGCCAAATCATC-TAGGATCTGGTTCGATGCAAAAACATTCGAAGGTTAGATCTGCTATG
131 AAGGATGCCAAATCATCTTA-GATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATG
37641221 TCTTC
195 TCTTC
37641226 AGCCTATTAC
Statistics
Matches: 1061, Mismatches: 60, Indels: 31
0.92 0.05 0.03
Matches are distributed among these distances:
307 6 0.01
308 767 0.72
312 1 0.00
313 1 0.00
314 1 0.00
315 1 0.00
316 1 0.00
317 1 0.00
321 6 0.01
322 276 0.26
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (308 bp):
GAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGA
TTTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTAAACGC
AAGGATGCCAAATCATCTTAGATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGT
CTTCGATCTGCGCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGATAG
TACAGAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
Found at i:37640704 original size:88 final size:88
Alignment explanation
Indices: 37640605--37640767 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 88
37640595 ATCTGCTATG
* * ** * * * *
37640605 TCTTCGATCTGCGCTCCGTCGGATATGGAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGAT
1 TCTTCGATCTGCGCTCCGAC-AATACAGAGATGCCAAATCTGCTATCTTCGATTTGCTCTCTAAC
*
37640669 AGTACAGAGACACCAAATTTACTA
65 AATACAGAGACACCAAATTTACTA
* * *
37640693 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTAACA
1 TCTTCGATCTGCGCTCCGACAATACAGAGATGCCAAATCTGCTATCTTCGATTTGCTCTCTAACA
37640758 ATACAGAGAC
66 ATACAGAGAC
37640768 GTCAAATCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
87 18 0.29
88 44 0.71
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (88 bp):
TCTTCGATCTGCGCTCCGACAATACAGAGATGCCAAATCTGCTATCTTCGATTTGCTCTCTAACA
ATACAGAGACACCAAATTTACTA
Found at i:37640774 original size:44 final size:44
Alignment explanation
Indices: 37640632--37641083 Score: 186
Period size: 44 Copynumber: 10.3 Consensus size: 44
37640622 GTCGGATATG
* * * * *
37640632 GAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGATAGTACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
* * * *
37640675 GAGACACCAAATTTACTATCTTCGATCTGCTCTCTGACAATACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
* * *
37640719 GAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTAACAATACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
* * *
37640763 GAGACGTCAAA--T-C-ATCTTAGATTTGCT-TCAGTG-TAA-ACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTC--TGACAATACA
* * * **
37640802 CGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTC-CTTGTA-AACGCA
1 -GAG-ACGCCAAATCTGCTA--TCTTCGATTTGCTCTC-TG-ACAATACA
* * * * *
37640850 -AGGATGCCAAA--T-C-ATCTTAGATCTG-TTTC-GATGCAAAAACA
1 GA-GACGCCAAATCTGCTATCTTCGATTTGCTCTCTGA--C-AATACA
* ** * * * **
37640891 TCCGA-AGGTTAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATG
1 ---GAGACGCCAAATCTGCTA--TCTTCGATTTGCTCTCTGAC-AATACA
* * * * *
37640940 GAGATGCCAAATCTG-TTTCTTCGATTTGTTCTTTGACAGTACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
* * *
37640983 GAGACACCAAATCTACTATCTTCGATCTGCTCTCTGACAATACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
* * * ** *
37641027 GAGATGCCAAATCTACTATCTTTGAGCTACTCTCTGACAATACA
1 GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
37641071 GAGACGCCAAATC
1 GAGACGCCAAATC
37641084 ATCTTAGAGT
Statistics
Matches: 303, Mismatches: 71, Indels: 69
0.68 0.16 0.16
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 6 0.02
40 28 0.09
41 12 0.04
42 2 0.01
43 32 0.11
44 161 0.53
45 3 0.01
46 13 0.04
47 24 0.08
48 2 0.01
49 14 0.05
50 3 0.01
51 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
GAGACGCCAAATCTGCTATCTTCGATTTGCTCTCTGACAATACA
Found at i:37641065 original size:88 final size:88
Alignment explanation
Indices: 37640913--37641083 Score: 209
Period size: 88 Copynumber: 1.9 Consensus size: 88
37640903 ATCTGCTATG
* ** * * ** ** *
37640913 TCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTTTGACA
1 TCTTCGATCTGCTCTCTGACGAATACAGAGATGCCAAATCTCTATCTTCGAGCTACTCTCTGACA
*
37640978 GTACAGAGACACCAAATCTACTA
66 ATACAGAGACACCAAATCTACTA
*
37641001 TCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAAATCTACTATCTTTGAGCTACTCTCTGAC
1 TCTTCGATCTGCTCTCTGACGAATACAGAGATGCCAAATCT-CTATCTTCGAGCTACTCTCTGAC
*
37641065 AATACAGAGACGCCAAATC
65 AATACAGAGACACCAAATC
37641084 ATCTTAGAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
87 18 0.26
88 51 0.74
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (88 bp):
TCTTCGATCTGCTCTCTGACGAATACAGAGATGCCAAATCTCTATCTTCGAGCTACTCTCTGACA
ATACAGAGACACCAAATCTACTA
Found at i:37649219 original size:17 final size:17
Alignment explanation
Indices: 37649197--37649229 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37649187 GATATGATAC
37649197 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
37649214 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
37649230 AATCAGGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:37649230 original size:18 final size:17
Alignment explanation
Indices: 37649197--37649230 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37649187 GATATGATAC
*
37649197 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
37649214 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
37649231 ATCAGGGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:37649521 original size:22 final size:21
Alignment explanation
Indices: 37649486--37649543 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
37649476 AAAAGGTATC
* *
37649486 TACAAATTAAATCTCTAAAAT
1 TACAAATCATATCTCTAAAAT
*
37649507 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAAAT
* *
37649530 TGCATATCATATCT
1 TACAAATCATATCT
37649544 AAGATTGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:37649537 original size:17 final size:19
Alignment explanation
Indices: 37649522--37649593 Score: 114
Period size: 18 Copynumber: 3.9 Consensus size: 19
37649512 AATCATATCT
37649522 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
37649541 TCTAAGATTG-AAATCATA
1 TCTAAGATTGCATATCATA
37649559 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
37649576 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
37649594 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.33
18 17 0.35
19 16 0.33
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37649591 original size:14 final size:15
Alignment explanation
Indices: 37649536--37649591 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
37649526 AGATTGCATA
37649536 TCATATCTAAGATTG
1 TCATATCTAAGATTG
37649551 AAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
37649569 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
37649586 -CATATC
1 TCATATC
37649592 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:37649741 original size:21 final size:20
Alignment explanation
Indices: 37649712--37649751 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37649702 TTGGACTTCG
*
37649712 TTTTTTTTTGGGGTTTATTA
1 TTTTTTTTTGGGATTTATTA
*
37649732 TTTTTGTTTTTGGATTTATT
1 TTTTT-TTTTGGGATTTATT
37649752 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGGATTTATTA
Found at i:37650720 original size:22 final size:22
Alignment explanation
Indices: 37650695--37650739 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
37650685 CAAATCTATC
*
37650695 AAAAATAATCAAAATTTATTAT
1 AAAAATAATCAAAATTAATTAT
* *
37650717 AAAATTAATTAAAATTAATTAT
1 AAAAATAATCAAAATTAATTAT
37650739 A
1 A
37650740 TTAATAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAATAATCAAAATTAATTAT
Found at i:37662230 original size:45 final size:45
Alignment explanation
Indices: 37662166--37662256 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
37662156 AACAAGTAAA
*
37662166 AGGACGATACTCAAGCCCCTACCGAATAGATGGCTGAAAACCAAG
1 AGGACGATACTCAACCCCCTACCGAATAGATGGCTGAAAACCAAG
37662211 AGGACGATACTCAACCCCCTACCGAATAGATGGCTGAAAACCAAG
1 AGGACGATACTCAACCCCCTACCGAATAGATGGCTGAAAACCAAG
37662256 A
1 A
37662257 CAATCAGCAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.27, G:0.21, T:0.13
Consensus pattern (45 bp):
AGGACGATACTCAACCCCCTACCGAATAGATGGCTGAAAACCAAG
Found at i:37675766 original size:40 final size:40
Alignment explanation
Indices: 37675711--37675837 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 40
37675701 TGGTCGAATA
37675711 GCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
37675751 GCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
* * * *
37675791 GCATTTGTGCGAGTTACTATAA-CCAGGCTATGTCCTGAAG
1 GCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAG
37675831 GCATTTG
1 GCATTTG
37675838 AACGAGGAGC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
GCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
Found at i:37675855 original size:80 final size:79
Alignment explanation
Indices: 37675711--37675870 Score: 189
Period size: 80 Copynumber: 2.0 Consensus size: 79
37675701 TGGTCGAATA
* * ** *
37675711 GCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GCATTTGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-
*
37675776 GGTTAAGTCCCGAAG
65 GGTTAAATCCCGAAG
* * *
37675791 GCATTTGTGCGAGTTACTATAA-CCAGGCTATGTCCTGAAGGCATTTGAACGAG-GAGCTATATC
1 GCATTTGTGCGAGTTACTA-AATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATC
*
37675854 CGGTTAAATTCCGAAG
64 CGGTTAAATCCCGAAG
37675870 G
1 G
37675871 TACGTGATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 15 0.22
80 51 0.75
81 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (79 bp):
GCATTTGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCG
GTTAAATCCCGAAG
Found at i:37683760 original size:79 final size:81
Alignment explanation
Indices: 37683624--37683808 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
37683614 TTGAATGATG
* *
37683624 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
37683688 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
37683703 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
37683765 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
37683783 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37683809 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:37683822 original size:40 final size:40
Alignment explanation
Indices: 37683625--37683808 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
37683615 TGAATGATGT
* * * *
37683625 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
37683665 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
37683705 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
37683743 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
37683784 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
37683809 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:37683830 original size:79 final size:79
Alignment explanation
Indices: 37683677--37683841 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
37683667 GGACTAAGAT
* * **
37683677 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
37683742 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
37683756 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37683819 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37683835 CCGAAGG
1 CCGAAGG
37683842 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37713011 original size:48 final size:48
Alignment explanation
Indices: 37712944--37713174 Score: 233
Period size: 48 Copynumber: 4.9 Consensus size: 48
37712934 CACATAGTAA
* * *
37712944 GATGCCAAT-CGCATATCCCAAATATGGTCTTACATGGGATCACATAAC
1 GATGCCAATGC-CATGTCCCAGATATGGTCTTACATGGGATCACATATC
* *
37712992 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACCTTTC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
* * ** * *
37713040 AATG-C--TG--ATAG-CCCAGCTATGGTCTTACATGAAATTACACATC
1 GATGCCAATGCCAT-GTCCCAGATATGGTCTTACATGGGATCACATATC
* * **
37713083 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATCCC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
* * *
37713131 GATGCCAATGCCATATCTCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACA
37713175 CATAACCCTA
Statistics
Matches: 149, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
43 30 0.20
44 2 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 110 0.74
49 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:37718322 original size:49 final size:51
Alignment explanation
Indices: 37718254--37718392 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 51
37718244 TAGCCAAAGC
* **
37718254 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACTTGCGA-CCAA-T
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
* * * *
37718303 TATCCGGTACACCTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
* *
37718354 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
37718393 TGTGACCTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 38 0.49
50 3 0.04
51 36 0.47
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (51 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
Found at i:37718377 original size:51 final size:49
Alignment explanation
Indices: 37718254--37718399 Score: 193
Period size: 51 Copynumber: 2.9 Consensus size: 49
37718244 TAGCCAAAGC
* * *
37718254 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACTTGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
37718303 TATCCGGTACACCTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* *
37718354 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
37718400 TCATAACAGA
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 38 0.46
50 4 0.05
51 40 0.49
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:37724020 original size:48 final size:48
Alignment explanation
Indices: 37723953--37724183 Score: 233
Period size: 48 Copynumber: 4.9 Consensus size: 48
37723943 CACATAGTAA
* * *
37723953 GATGCCAAT-CGCATATCCCAAATATGGTCTTACATGGGATCACATAAC
1 GATGCCAATGC-CATGTCCCAGATATGGTCTTACATGGGATCACATATC
* *
37724001 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACCTTTC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
* * ** * *
37724049 AATG-C--TG--ATAG-CCCAGCTATGGTCTTACATGAAATTACACATC
1 GATGCCAATGCCAT-GTCCCAGATATGGTCTTACATGGGATCACATATC
* * **
37724092 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATCCC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
* * *
37724140 GATGCCAATGCCATATCTCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACA
37724184 CATAACCCTA
Statistics
Matches: 149, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
43 30 0.20
44 2 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 110 0.74
49 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:37729331 original size:49 final size:51
Alignment explanation
Indices: 37729263--37729501 Score: 288
Period size: 49 Copynumber: 4.8 Consensus size: 51
37729253 TAGCCAAAGC
* **
37729263 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACTTGCGA-CCAA-T
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
* * * *
37729312 TATCCGGTACACCTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
* * ** *
37729363 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGA-CCTA-T
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
* * * *
37729412 TATCCGGTACACCTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
* *
37729463 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
37729502 TGTGACCTCA
Statistics
Matches: 157, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 76 0.48
50 7 0.04
51 74 0.47
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (51 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGT
Found at i:37729386 original size:51 final size:49
Alignment explanation
Indices: 37729263--37729508 Score: 294
Period size: 51 Copynumber: 4.9 Consensus size: 49
37729253 TAGCCAAAGC
* * *
37729263 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACTTGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
37729312 TATCCGGTACACCTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * * * *
37729363 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCTAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
37729412 TATCCGGTACACCTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* *
37729463 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
37729509 TCATAACAGA
Statistics
Matches: 162, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
49 76 0.47
50 8 0.05
51 78 0.48
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:37729509 original size:100 final size:100
Alignment explanation
Indices: 37729263--37729509 Score: 449
Period size: 100 Copynumber: 2.5 Consensus size: 100
37729253 TAGCCAAAGC
* * *
37729263 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACTTGCGACCAATTATCCGGTACACCTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCTATTATCCGGTACACCTAG
37729328 TAGCCTGCACATAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACATAGTACTACACACGTGATCGAAGT
37729363 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCTATTATCCGGTACACCTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCTATTATCCGGTACACCTAG
37729428 TAGCCTGCACATAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACATAGTACTACACACGTGATCGAAGT
* *
37729463 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCT
37729510 CATAACAGAT
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 142 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCTATTATCCGGTACACCTAG
TAGCCTGCACATAGTACTACACACGTGATCGAAGT
Found at i:37736803 original size:49 final size:50
Alignment explanation
Indices: 37736743--37736882 Score: 194
Period size: 51 Copynumber: 2.8 Consensus size: 50
37736733 AAGCTATCTG
*
37736743 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-TTATCCG-
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGTTAT-CGA
* * *
37736792 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAGTTATCGA
* *
37736843 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
37736883 TCATAACAGA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
49 35 0.44
50 6 0.08
51 38 0.48
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGTTATCGA
Found at i:37736861 original size:51 final size:49
Alignment explanation
Indices: 37736737--37736875 Score: 199
Period size: 49 Copynumber: 2.8 Consensus size: 49
37736727 TAGCCAAAGC
* *
37736737 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
37736786 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
37736837 TAT-CGAGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCG-GTACGCATAGTAGCCTGCACTTAGTACTACACA
37736876 TGCGACCTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 40 0.50
50 5 0.06
51 35 0.44
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:37741274 original size:33 final size:33
Alignment explanation
Indices: 37741232--37741302 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
37741222 TGACGACCTA
37741232 ATGGCATAAATAAGAACTTACACATTTATATAC
1 ATGGCATAAATAAGAACTTACACATTTATATAC
37741265 ATGGCATAAATAAGAACTTACACATTTATATAC
1 ATGGCATAAATAAGAACTTACACATTTATATAC
37741298 ATGGC
1 ATGGC
37741303 TCATGCATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (33 bp):
ATGGCATAAATAAGAACTTACACATTTATATAC
Found at i:37742218 original size:48 final size:48
Alignment explanation
Indices: 37742165--37742266 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
37742155 CACATAGTAA
* *
37742165 GATGCCAATGACATAT-CCTGGATATGGTCTTACATGGGATCACATAAC
1 GATGCCAATGACATATACC-AGACATGGTCTTACATGGGATCACATAAC
* * **
37742213 GATGCCAATGCCATGTACCAGACATGGTCTTACATGGGATCACATTTC
1 GATGCCAATGACATATACCAGACATGGTCTTACATGGGATCACATAAC
37742261 GATGCC
1 GATGCC
37742267 GATAGCCTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 45 0.96
49 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
GATGCCAATGACATATACCAGACATGGTCTTACATGGGATCACATAAC
Found at i:37742348 original size:48 final size:48
Alignment explanation
Indices: 37742188--37742349 Score: 151
Period size: 48 Copynumber: 3.5 Consensus size: 48
37742178 TATCCTGGAT
* *
37742188 ATGGTCTTACATGGGATCACATAACGATGCCAATGCCATGTAC-CAGAC
1 ATGGTCTTACATGGGATCACACATCGATGCCAATGCCATGT-CTCAGAC
** * *
37742236 ATGGTCTTACATGGGATCACATTTCGATGCCGAT---A-GCCT-AG-C
1 ATGGTCTTACATGGGATCACACATCGATGCCAATGCCATGTCTCAGAC
* ** *
37742278 TATGGTCTTA-ACGAAATTACACATCGATGCCAATGCCATGTCTCAGAC
1 -ATGGTCTTACATGGGATCACACATCGATGCCAATGCCATGTCTCAGAC
*
37742326 ATAGTCTTACATGGGATCACACAT
1 ATGGTCTTACATGGGATCACACAT
37742350 AACCCTAAAG
Statistics
Matches: 88, Mismatches: 17, Indels: 18
0.72 0.14 0.15
Matches are distributed among these distances:
42 18 0.20
43 12 0.14
44 1 0.01
45 2 0.02
46 3 0.03
47 10 0.11
48 42 0.48
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACACATCGATGCCAATGCCATGTCTCAGAC
Found at i:37747239 original size:27 final size:29
Alignment explanation
Indices: 37747195--37747262 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
37747185 CTTTGAAATG
*
37747195 GCCACACACGATCGTGTGTGAGCCCGTAT
1 GCCACACACGATTGTGTGTGAGCCCGTAT
37747224 GCCACACACGATTGTGTGTGAGCCCGTAT
1 GCCACACACGATTGTGTGTGAGCCCGTAT
*
37747253 GTCACACACG
1 GCCACACACG
37747263 GCCAGTAGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.21
Consensus pattern (29 bp):
GCCACACACGATTGTGTGTGAGCCCGTAT
Found at i:37747739 original size:24 final size:24
Alignment explanation
Indices: 37747707--37747757 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
37747697 CAAACTACAA
*
37747707 TATGCCAACTTCCAAGCATTAATG
1 TATGCCAACTTCCAAGAATTAATG
37747731 TATGCCAACTTCCAAGAATTAATG
1 TATGCCAACTTCCAAGAATTAATG
37747755 TAT
1 TAT
37747758 CAACTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (24 bp):
TATGCCAACTTCCAAGAATTAATG
Found at i:37748149 original size:16 final size:17
Alignment explanation
Indices: 37748113--37748150 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
37748103 AATAACACAC
* *
37748113 AGTAAGCTTCATAACTT
1 AGTAAGCTTCATAAATA
37748130 AGTAAG-TTCATAAATA
1 AGTAAGCTTCATAAATA
37748146 AGTAA
1 AGTAA
37748151 CTCAATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (17 bp):
AGTAAGCTTCATAAATA
Found at i:37748454 original size:47 final size:47
Alignment explanation
Indices: 37748400--37748511 Score: 129
Period size: 47 Copynumber: 2.4 Consensus size: 47
37748390 TCAATCAATA
* *
37748400 AGTACCTATACCATGGCTCGA-AACCAAATC-AAGATAACTTATCCCGG
1 AGTACCTATACCATGGC-CCATAACCAAATCAAAG-TAACTCATCCCGG
* * * *
37748447 AGTACCTATACCATTGCCCATAACCAAATCAAAGTAACTCCTCTCTG
1 AGTACCTATACCATGGCCCATAACCAAATCAAAGTAACTCATCCCGG
*
37748494 AATACCTATACCATGGCC
1 AGTACCTATACCATGGCC
37748512 TATAGAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 2 0.04
47 50 0.91
48 3 0.05
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAACCAAATCAAAGTAACTCATCCCGG
Found at i:37756801 original size:49 final size:51
Alignment explanation
Indices: 37756636--37756810 Score: 257
Period size: 52 Copynumber: 3.5 Consensus size: 51
37756626 CGGATACCTG
* * *
37756636 GTGGCCTGCACATAGTACCACCCTTGT-ACTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGAC-CAAAGCTATCTTCTTCACAAA
* *
37756687 GTGACGTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
*
37756739 GTGGCCTTCACATAGTACCACACTTGTGACCAAA-CTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
37756788 GTGGCCTTCACATAGTACCACAC
1 GTGGCCTTCACATAGTACCACAC
37756811 CTGAGTCACT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 32 0.28
51 37 0.32
52 45 0.39
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:37769693 original size:85 final size:86
Alignment explanation
Indices: 37769591--37769819 Score: 327
Period size: 85 Copynumber: 2.7 Consensus size: 86
37769581 GTTGTTTAGA
* * *
37769591 AAAAAATGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTTTTAAAAAATGCCGCTAAAGACCAA
1 AAAAAACGCCGCTAAAGACTAGGACCTTTCGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAA
* *
37769656 GACTTTTCGCGGCGCTTTTAT
66 GACTTTTCACAGCGCTTTTAT
* * *
37769677 -AAAAACGCCGCTAAAGACCAGGACCTTTCGCAGCGCTTTTTTAAAAAACGCCGCTAAAGATCAA
1 AAAAAACGCCGCTAAAGACTAGGACCTTTCGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAA
*
37769741 GACTTTTTACAGCGCTTTTAT
66 GACTTTTCACAGCGCTTTTAT
* * *
37769762 AAAAAACGCCACTAAAGA-TCAGGTCCTTTCGCGGCACTTTTTTAAAAAACGCCGCTAA
1 AAAAAACGCCGCTAAAGACT-AGGACCTTTCGCGGCGCTTTTTTAAAAAACGCCGCTAA
37769820 GTTGCCAAGT
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
85 76 0.60
86 51 0.40
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (86 bp):
AAAAAACGCCGCTAAAGACTAGGACCTTTCGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAA
GACTTTTCACAGCGCTTTTAT
Found at i:37769694 original size:42 final size:43
Alignment explanation
Indices: 37769591--37769819 Score: 280
Period size: 43 Copynumber: 5.3 Consensus size: 43
37769581 GTTGTTTAGA
* * *
37769591 AAAAAATGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
* * * *
37769634 AAAAAATGCCGCTAAAGACCAAGACTTTTCGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
*
37769677 -AAAAACGCCGCTAAAGACCAGGACCTTTCGCAGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
* * * ** * *
37769719 AAAAAACGCCGCTAAAGATCAAGACTTTTTACAGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
* * * *
37769762 AAAAAACGCCACTAAAGATCAGGTCCTTTCGCGGCACTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
37769805 AAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
37769820 GTTGCCAAGT
Statistics
Matches: 159, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 37 0.23
43 122 0.77
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACCTTTCGCGGCGCTTTTTT
Done.