Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 112 of 213
Found at i:32048472 original size:29 final size:29
Alignment explanation
Indices: 32048398--32048501 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
32048388 CACCATTGGT
*
32048398 ACATAGTACTTGATAAATATAACACCGGC
1 ACATAGTACTTGATAACTATAACACCGGC
* * * * * *
32048427 ATAGT-GTGCCTGGTAACTGTAACACCGGT
1 ACA-TAGTACTTGATAACTATAACACCGGC
* *
32048456 ACAAAGTACTTGATAACTATAATCACCGAC
1 ACATAGTACTTGATAACTATAA-CACCGGC
*
32048486 ACATAGTGCTTGATAA
1 ACATAGTACTTGATAA
32048502 ACCCTAATGA
Statistics
Matches: 55, Mismatches: 17, Indels: 5
0.71 0.22 0.06
Matches are distributed among these distances:
29 35 0.64
30 20 0.36
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (29 bp):
ACATAGTACTTGATAACTATAACACCGGC
Found at i:32048587 original size:52 final size:52
Alignment explanation
Indices: 32048525--32048631 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
32048515 GTCATTTATA
32048525 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
1 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
32048577 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
1 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
32048629 TCC
1 TCC
32048632 ATTCTTTTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (52 bp):
TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
Found at i:32051935 original size:50 final size:50
Alignment explanation
Indices: 32051820--32052012 Score: 269
Period size: 50 Copynumber: 3.8 Consensus size: 50
32051810 GATAATAACA
* * * ** *
32051820 TGCCAAAGCCATGTCCCAGACATGGTTTTACACGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
32051871 TGCCCATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
32051921 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
32051971 TGCCAACGCCATGTCGCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32052013 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 94 0.75
51 32 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:32061090 original size:22 final size:22
Alignment explanation
Indices: 32061065--32061108 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32061055 GTTTTGCAAT
*
32061065 TACAATTGTATAAAATTTTATA
1 TACAATTATATAAAATTTTATA
32061087 TACAATTATATAAAATTTTATA
1 TACAATTATATAAAATTTTATA
32061109 CAACACCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
TACAATTATATAAAATTTTATA
Found at i:32063479 original size:43 final size:43
Alignment explanation
Indices: 32063411--32063567 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 43
32063401 AAAACTCGTA
* *
32063411 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCATATAT
1 CAATGCC-ACTGTCCCAGACAG-GGTCTTACAAGTAATCAAATAT
*
32063454 CAATGCCACTGTCCTAGACAGGGTCTTACAAG-AATCAAATA-
1 CAATGCCACTGTCCCAGACAGGGTCTTACAAGTAATCAAATAT
* * * * *
32063495 CGATGTCGA-TGTCCCAGACATGGTCTTACACGTAAACACAA-AT
1 CAATG-CCACTGTCCCAGACAGGGTCTTACAAGTAATCA-AATAT
** *
32063538 CAATGCCAAAGTCCCAAAC-GTGGTCTTACA
1 CAATGCCACTGTCCCAGACAG-GGTCTTACA
32063568 CGAAAACACA
Statistics
Matches: 92, Mismatches: 14, Indels: 16
0.75 0.11 0.13
Matches are distributed among these distances:
41 24 0.26
42 19 0.21
43 48 0.52
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCACTGTCCCAGACAGGGTCTTACAAGTAATCAAATAT
Found at i:32070388 original size:29 final size:29
Alignment explanation
Indices: 32070346--32070450 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
32070336 CCATCACTGA
32070346 TACATAGTACCTGATAACTGTAACATCGG
1 TACATAGTACCTGATAACTGTAACATCGG
** * *
32070375 TACATAGTGTCTGATAGCTATAAC-TCCGG
1 TACATAGTACCTGATAACTGTAACAT-CGG
* * *
32070404 TAAAAAGTACCTGATAACTGTAATCACCGG
1 TACATAGTACCTGATAACTGTAA-CATCGG
* * *
32070434 CACATAGTTCTTGATAA
1 TACATAGTACCTGATAA
32070451 ATCCTAATGA
Statistics
Matches: 57, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
28 1 0.02
29 40 0.70
30 16 0.28
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (29 bp):
TACATAGTACCTGATAACTGTAACATCGG
Found at i:32074877 original size:3 final size:3
Alignment explanation
Indices: 32074869--32074898 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
32074859 GCAAAAATAC
32074869 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32074899 CAAATTACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32080439 original size:2 final size:2
Alignment explanation
Indices: 32080432--32080463 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32080422 TCAAGAGTAA
32080432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32080464 TCTTCATCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32080675 original size:35 final size:35
Alignment explanation
Indices: 32080636--32080707 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
32080626 TGTTTTATAA
* *
32080636 ATTATACATA-TTTTTATTTTAAATTTAATAAACTC
1 ATTATA-ATATTTTTTATTTCAAATGTAATAAACTC
* *
32080671 ATTATATTATTTTTTATTTCGAATGTAATAAACTC
1 ATTATAATATTTTTTATTTCAAATGTAATAAACTC
32080706 AT
1 AT
32080708 CACATCAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.06
35 30 0.94
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (35 bp):
ATTATAATATTTTTTATTTCAAATGTAATAAACTC
Found at i:32081273 original size:13 final size:13
Alignment explanation
Indices: 32081255--32081284 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32081245 AACTAATGAT
32081255 ATATTAAAATAAA
1 ATATTAAAATAAA
*
32081268 ATATTAAATTAAA
1 ATATTAAAATAAA
32081281 ATAT
1 ATAT
32081285 AAAGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATTAAAATAAA
Found at i:32081294 original size:19 final size:18
Alignment explanation
Indices: 32081257--32081295 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
32081247 CTAATGATAT
*
32081257 ATTAAAATAAAATATTAA
1 ATTAAAATAAAAGATTAA
32081275 ATTAAAATATAAAGATTAA
1 ATTAAAATA-AAAGATTAA
32081294 AT
1 AT
32081296 CTCAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
ATTAAAATAAAAGATTAA
Found at i:32085699 original size:111 final size:111
Alignment explanation
Indices: 32085512--32085717 Score: 313
Period size: 111 Copynumber: 1.9 Consensus size: 111
32085502 AATTCTGCAT
* * * *
32085512 TGGGTAAATCCATCTAGACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTGTCTAT
1 TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
32085577 TTGAACAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
66 TTGAACAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
* * * *
32085623 TGGGTAAATCCACCAAAACTTACCGTAACACATATGTTCGCAGAGAGTGAAGATGAACTATCTAT
1 TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
***
32085688 TTGAGTGAAGTGTATTGTATGCGTGTTGCT
66 TTGAACAAAGTGTATTGTATGCGTGTTGCT
32085718 AATATTCATA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (111 bp):
TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
TTGAACAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
Found at i:32086442 original size:15 final size:15
Alignment explanation
Indices: 32086422--32086451 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32086412 TGTATTTTAG
*
32086422 CATATGTATTAAAAT
1 CATATGTAATAAAAT
32086437 CATATGTAATAAAAT
1 CATATGTAATAAAAT
32086452 ATCATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
CATATGTAATAAAAT
Found at i:32088139 original size:28 final size:26
Alignment explanation
Indices: 32088108--32088161 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 26
32088098 ATATTACTTA
32088108 TAAAATATTATTATTTTAAGTAAAATAT
1 TAAAATATTATTATTTTAA--AAAATAT
*
32088136 TAAATTATTATTATTTTAAAAAATAT
1 TAAAATATTATTATTTTAAAAAATAT
32088162 AATTCAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.28
28 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAAATATTATTATTTTAAAAAATAT
Found at i:32088808 original size:21 final size:22
Alignment explanation
Indices: 32088768--32088808 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
32088758 TATTGCACCT
*
32088768 TAAAAAATTTATTATTAATTAA
1 TAAAAAATTTATTATAAATTAA
*
32088790 TAAAAATTTTA-TATAAATT
1 TAAAAAATTTATTATAAATT
32088809 GAAATTCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAAAATTTATTATAAATTAA
Found at i:32094975 original size:21 final size:21
Alignment explanation
Indices: 32094951--32094996 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
32094941 GTGTGGAATG
*
32094951 GCCACACGGACGTGTGGGAGA
1 GCCACACGAACGTGTGGGAGA
* *
32094972 GCCACACGAATGTGTGGTAGA
1 GCCACACGAACGTGTGGGAGA
32094993 GCCA
1 GCCA
32094997 TACAGCCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.37, T:0.13
Consensus pattern (21 bp):
GCCACACGAACGTGTGGGAGA
Found at i:32100411 original size:27 final size:27
Alignment explanation
Indices: 32100381--32100435 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
32100371 ATTTACAAGA
* *
32100381 TTAGCATAAATGTTAATTAAATTTTAG
1 TTAGCATAAAGGTTAATTAAAATTTAG
*
32100408 TTAGTATAAAGGTTAATTAAAATTTAG
1 TTAGCATAAAGGTTAATTAAAATTTAG
32100435 T
1 T
32100436 CCCTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.44
Consensus pattern (27 bp):
TTAGCATAAAGGTTAATTAAAATTTAG
Found at i:32102154 original size:54 final size:54
Alignment explanation
Indices: 32102088--32102480 Score: 375
Period size: 54 Copynumber: 7.3 Consensus size: 54
32102078 TATGGTCTGT
* * * * *
32102088 TGATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCAT
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * * * *
32102142 TGATTTACGATCACAACCTTTTACTTA-TAGGATTTTACGAATCTCACAGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCAC
* * * * * * *
32102196 TGATTTACAATCATGACATTTTACATACGAGATTTAACGAATCTCGCAGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * * * * *
32102250 TAATTTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTTGCGGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * *
32102304 TGATTTACGA-AATGACCTTTTACTTACGAGATTTTACGAATCTCACGGT-CAGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCA-C
** * **
32102357 TGATTTAAAATCACGACCTTTTACTTAC-AGGATTTTATGAATCTCTTGGT-CAGC
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCA-C
* * * *
32102411 TGATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCAT
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCAC
*
32102465 TGATTTATGATCACGA
1 TGATTTACGATCACGA
32102481 TCTTCTGCAT
Statistics
Matches: 281, Mismatches: 52, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
52 1 0.00
53 43 0.15
54 234 0.83
55 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (54 bp):
TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
Found at i:32102401 original size:161 final size:162
Alignment explanation
Indices: 32102090--32102471 Score: 457
Period size: 161 Copynumber: 2.4 Consensus size: 162
32102080 TGGTCTGTTG
* * * * *
32102090 ATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGATCA
1 ATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGATAA
* * * *
32102155 CAACCTTTTACTTATAGGATTTTACGAATCTCACAGTCCGCTGATTTACAATCATGACATTTTAC
66 CAACCTTTTACTTAGAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTTTAC
*
32102220 ATACGAGATTTAACGAATCTCGCAGTCCGCTA
131 ATACGAGATTTAACGAATCTCGCAGTCAGCTA
* * **
32102252 ATTTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTTGCGGTCCGCTGATTTACGA-AA
1 ATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGATAA
** * *
32102316 TGACCTTTTACTTACGA-GATTTTACGAATCTCACGGTCAGCTGATTTAAAATCACGACCTTTTA
66 CAACCTTTTACTTA-GAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTTTA
* * * *** *
32102380 CTTAC-AGGATTTTATGAATCTCTTGGTCAGCTG
130 CATACGA-GATTTAACGAATCTCGCAGTCAGCTA
** *
32102413 ATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCATTGATTTA
1 ATTTATGATCACGACCTTTTACTTACGA-GATTTTATGAATCTCGCGGTCCATTGATTTA
32102472 TGATCACGAT
Statistics
Matches: 185, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
160 2 0.01
161 128 0.69
162 55 0.30
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (162 bp):
ATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGATAA
CAACCTTTTACTTAGAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTTTAC
ATACGAGATTTAACGAATCTCGCAGTCAGCTA
Found at i:32102480 original size:108 final size:108
Alignment explanation
Indices: 32102088--32102478 Score: 443
Period size: 108 Copynumber: 3.6 Consensus size: 108
32102078 TATGGTCTGT
** * * * * *
32102088 TGATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGAT
1 TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
* * * *
32102153 CACAACCTTTTACTTATAGGATTTTACGAATCTCACAGTCCGC
66 CACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
* * * * * * *
32102196 TGATTTACAATCATGACATTTTACATACGAGATTTAACGAATCTCGCAGTCCGCTAATTTATGAT
1 TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
32102261 CACAACCTTTTACTTAC-GAGATTTTATGAATCT-TGCGGTCCGC
66 CACAACCTTTTACTTACAG-GATTTTATGAATCTCT-CGGTCCGC
* * **
32102304 TGATTTACGAA--ATGACCTTTTACTTACGAGATTTTACGAATCTCACGGT-CAGCTGATTTAAA
1 TGATTTAC-AATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCA-CTGATTTATG
* * *
32102366 ATCACGACCTTTTACTTACAGGATTTTATGAATCTCTTGGTCAGC
64 ATCACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
* * *
32102411 TGATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCATTGATTTATGA
1 TGATTTACAATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCACTGATTTATGA
32102475 TCAC
65 TCAC
32102479 GATCTTCTGC
Statistics
Matches: 236, Mismatches: 37, Indels: 20
0.81 0.13 0.07
Matches are distributed among these distances:
106 3 0.01
107 88 0.37
108 141 0.60
109 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (108 bp):
TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
CACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
Found at i:32102500 original size:215 final size:215
Alignment explanation
Indices: 32102102--32102510 Score: 500
Period size: 215 Copynumber: 1.9 Consensus size: 215
32102092 TTATGATCAC
* * * * **
32102102 GACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGATCACAACCTTTTACT
1 GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCACTGATTTAAAATCACAACCTTTTACT
* * * *
32102167 TATAGGATTTTACGAATCTCACAGTCCGCTGATTTACAATCATGACATTTTACATACGAGATTTA
66 TACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGAGATTTA
* * * *
32102232 ACGAATCTCGCAGTCCGCTAATTTATGATCACAACCTTTTACTTACGAGATTTT-ATGAATCTTG
131 ACGAATCTCGCAGTCCACTAATTTATGATCACAACCTTCTACATACAAGATTTTCA-GAATCTTG
32102296 CGGTCCGCTGATTTACGAAAT
195 CGGTCCGCTGATTTACGAAAT
* *
32102317 GACCTTTTACTTACGAGATTTTACGAATCTCACGG-TCAGCTGATTTAAAATCACGACCTTTTAC
1 GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCA-CTGATTTAAAATCACAACCTTTTAC
* *** * *
32102381 TTACAGGATTTTATGAATCTCTTGGTCAGCTGATTTACAATCACGACCTTCTACTTAC-ATGATT
65 TTACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGA-GATT
* * * * * * * *
32102445 TTATGAATCTCGCGGTCCATTGATTTATGATCACGATCTTCTGCATACAAGATTTTCAGAATCTT
129 TAACGAATCTCGCAGTCCACTAATTTATGATCACAACCTTCTACATACAAGATTTTCAGAATCTT
32102510 G
194 G
32102511 TGTATTACAA
Statistics
Matches: 161, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
214 3 0.02
215 157 0.98
216 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (215 bp):
GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCACTGATTTAAAATCACAACCTTTTACT
TACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGAGATTTA
ACGAATCTCGCAGTCCACTAATTTATGATCACAACCTTCTACATACAAGATTTTCAGAATCTTGC
GGTCCGCTGATTTACGAAAT
Found at i:32102543 original size:23 final size:22
Alignment explanation
Indices: 32102516--32102668 Score: 76
Period size: 23 Copynumber: 6.6 Consensus size: 22
32102506 TCTTGTGTAT
32102516 TACAATACAGTTCGTAGAAATTC
1 TACAATACAGTTCG-AGAAATTC
* * *
32102539 TACAATACAATTC-ACAGTATTGC
1 TACAATACAGTTCGAGA-AATT-C
* * *
32102562 TATAAATACAGTTCGTTGTAATTC
1 TA-CAATACAGTTCG-AGAAATTC
* * *
32102586 TACAACACAATTC-ACAATATTTC
1 TACAATACAGTTCGAGAA-A-TTC
* * *
32102609 TATAAATACAGTTCACAGTAATTC
1 TA-CAATACAGTTC-GAGAAATTC
* * *
32102633 TACAATACAGTTTGCGACATTC
1 TACAATACAGTTCGAGAAATTC
32102655 TACAATACAGTTCG
1 TACAATACAGTTCG
32102669 CAACATTTTT
Statistics
Matches: 93, Mismatches: 27, Indels: 21
0.66 0.19 0.15
Matches are distributed among these distances:
21 3 0.03
22 22 0.24
23 37 0.40
24 25 0.27
25 4 0.04
26 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (22 bp):
TACAATACAGTTCGAGAAATTC
Found at i:32102573 original size:47 final size:47
Alignment explanation
Indices: 32102519--32102641 Score: 183
Period size: 47 Copynumber: 2.6 Consensus size: 47
32102509 TGTGTATTAC
* *
32102519 AATACAGTTCGTAGAAATTCTACAATACAATTCACAGTATTGCTATA
1 AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
* * *
32102566 AATACAGTTCGTTGTAATTCTACAACACAATTCACAATATTTCTATA
1 AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
**
32102613 AATACAGTTCACAGTAATTCTACAATACA
1 AATACAGTTCGTAGTAATTCTACAATACA
32102642 GTTTGCGACA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (47 bp):
AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
Found at i:32102655 original size:22 final size:22
Alignment explanation
Indices: 32102629--32102675 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
32102619 GTTCACAGTA
* *
32102629 ATTCTACAATACAGTTTGCGAC
1 ATTCTACAATACAGTTCGCAAC
32102651 ATTCTACAATACAGTTCGCAAC
1 ATTCTACAATACAGTTCGCAAC
32102673 ATT
1 ATT
32102676 TTTGTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (22 bp):
ATTCTACAATACAGTTCGCAAC
Found at i:32102690 original size:24 final size:24
Alignment explanation
Indices: 32102658--32102767 Score: 96
Period size: 24 Copynumber: 4.6 Consensus size: 24
32102648 GACATTCTAC
*
32102658 AATACAGTTCGCAACATTTTTGTA
1 AATACAGTTCGCAACATTTCTGTA
* * * *
32102682 AATATAGTTCACAAAATATTCTAT-
1 AATACAGTTCGCAACAT-TTCTGTA
* * * *
32102706 AATATAGTTCACGACATTTCTATA
1 AATACAGTTCGCAACATTTCTGTA
* * *
32102730 AATACAGTTCGTAGCATTTCTGCA
1 AATACAGTTCGCAACATTTCTGTA
32102754 AATACAGTTCGCAA
1 AATACAGTTCGCAA
32102768 TATTCTACAA
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 6 0.09
24 58 0.85
25 4 0.06
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (24 bp):
AATACAGTTCGCAACATTTCTGTA
Found at i:32102748 original size:72 final size:69
Alignment explanation
Indices: 32102604--32102777 Score: 179
Period size: 72 Copynumber: 2.5 Consensus size: 69
32102594 AATTCACAAT
* ** ** *
32102604 ATTTCTATAAATACAGTTCACAGTAATTCTACAATACAGTTTGCGACATTCTACAATACAGTTCG
1 ATTTCTGTAAATACAGTTCACAAAAATTCTACAATACAGTTCACGACATTCTAAAATACAGTTCG
32102669 CAAC
66 CAAC
* * * *
32102673 ATTTTTGTAAATATAGTTCACAAAATATTCTATAATATAGTTCACGACATTTCTATAAATACAGT
1 ATTTCTGTAAATACAGTTCACAAAA-ATTCTACAATACAGTTCACGACA-TTCTA-AAATACAGT
* *
32102738 TCGTAGC
63 TCGCAAC
* * *
32102745 ATTTCTGCAAATACAGTTCGC-AATATTCTACAA
1 ATTTCTGTAAATACAGTTCACAAAAATTCTACAA
32102778 CATGGTTCGT
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
69 20 0.24
70 27 0.32
71 7 0.08
72 30 0.36
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (69 bp):
ATTTCTGTAAATACAGTTCACAAAAATTCTACAATACAGTTCACGACATTCTAAAATACAGTTCG
CAAC
Found at i:32103175 original size:14 final size:14
Alignment explanation
Indices: 32103156--32103182 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32103146 TAACTTGGAT
32103156 TAAATCTATTAAAA
1 TAAATCTATTAAAA
32103170 TAAATCTATTAAA
1 TAAATCTATTAAA
32103183 TTTATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATCTATTAAAA
Found at i:32104351 original size:18 final size:19
Alignment explanation
Indices: 32104315--32104353 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
32104305 TCTTAAACTG
32104315 ATGTGGTCCAAAGAAATTA
1 ATGTGGTCCAAAGAAATTA
32104334 ATGTGGTCCAAA-AAATTA
1 ATGTGGTCCAAAGAAATTA
32104352 AT
1 AT
32104354 TAGTACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (19 bp):
ATGTGGTCCAAAGAAATTA
Found at i:32107761 original size:21 final size:21
Alignment explanation
Indices: 32107745--32107798 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 21
32107735 AAATATGTTG
*
32107745 AATAATAATACTTATATCTTT
1 AATAATAATACTTATATATTT
32107766 AATAATAATACTTATAATATTT
1 AATAATAATACTTAT-ATATTT
32107788 AATAATAATAC
1 AATAATAATAC
32107799 AATAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAATAATACTTATATATTT
Found at i:32107805 original size:21 final size:20
Alignment explanation
Indices: 32107745--32107805 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
32107735 AAATATGTTG
* *
32107745 AATAATAATACTTATATCTTT
1 AATAATAATACATA-ATATTT
32107766 AATAATAATACTTATAATATTT
1 AATAATAATAC--ATAATATTT
32107788 AATAATAATACAATAATA
1 AATAATAATAC-ATAATA
32107806 AAAATATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.49
22 16 0.46
23 2 0.06
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAATAATACATAATATTT
Found at i:32108014 original size:3 final size:3
Alignment explanation
Indices: 32108008--32108042 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
32107998 AGCCAACTCT
32108008 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32108043 TGTTATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32108482 original size:93 final size:94
Alignment explanation
Indices: 32108369--32108542 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 94
32108359 CTGTGTTACG
* * *
32108369 TAATTAATGGAAGCAATAAAAA-ACATTGCTAAATCAACCAAAATGCTGAATGTTAGG-TATTTA
1 TAATTAATGGAAGCAATAAAAAGA-ATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTA
*
32108432 TGGGGAATTATATATTAAAGCTTTGATACA
65 TGGGGAATTATAAATTAAAGCTTTGATACA
** * * *
32108462 TAATTAATGTCAGGAATAAAAAGAATTGTTAAAGCAACCAAATTACAGAATGTTAGGATATTTAT
1 TAATTAATGGAAGCAATAAAAAGAATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTAT
32108527 GGGGAATTATAAATTA
66 GGGGAATTATAAATTA
32108543 TTCATACGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
93 47 0.67
94 23 0.33
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (94 bp):
TAATTAATGGAAGCAATAAAAAGAATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTAT
GGGGAATTATAAATTAAAGCTTTGATACA
Found at i:32109314 original size:19 final size:20
Alignment explanation
Indices: 32109270--32109315 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
32109260 AATATAAAAA
*
32109270 CTAAAAAATCATTAAAATTT
1 CTAAAAAATCATTAAAAATT
* *
32109290 CCAAAATATCA-TAAAAATT
1 CTAAAAAATCATTAAAAATT
32109309 CTAAAAA
1 CTAAAAA
32109316 GCCCTCAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (20 bp):
CTAAAAAATCATTAAAAATT
Found at i:32109315 original size:20 final size:19
Alignment explanation
Indices: 32109259--32109315 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
32109249 TATATTTTTT
32109259 AAAT-ATAAAAA--CTAAA
1 AAATCATAAAAATTCTAAA
* *
32109275 AAATCATTAAAATTTCCAAA
1 AAATCA-TAAAAATTCTAAA
*
32109295 ATATCATAAAAATTCTAAA
1 AAATCATAAAAATTCTAAA
32109314 AA
1 AA
32109316 GCCCTCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 5 0.16
19 12 0.39
20 9 0.29
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATCATAAAAATTCTAAA
Found at i:32109437 original size:14 final size:14
Alignment explanation
Indices: 32109404--32109438 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
32109394 AGTGTTGTGA
*
32109404 AAAAAGTACTTTAG
1 AAAAATTACTTTAG
*
32109418 AAAAATTACTTTTG
1 AAAAATTACTTTAG
32109432 AAAAATT
1 AAAAATT
32109439 TGATAGTGTT
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:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (14 bp):
AAAAATTACTTTAG
Found at i:32115338 original size:18 final size:18
Alignment explanation
Indices: 32115286--32115352 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 18
32115276 TAATAATTAT
32115286 AAATTTAAAATATTTAGAAA
1 AAATTTAAAAT-TTTA-AAA
** *
32115306 ATTAATTTAGTATTTTATAA
1 A--AATTTAAAATTTTAAAA
*
32115326 AATTTTAAAATTTTAAAA
1 AAATTTAAAATTTTAAAA
32115344 AAATTTAAA
1 AAATTTAAA
32115353 CACTAAACCC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
18 21 0.57
20 4 0.11
21 4 0.11
22 8 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAATTTAAAATTTTAAAA
Found at i:32117753 original size:3 final size:3
Alignment explanation
Indices: 32117745--32117801 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
32117735 TAAGCCTTTG
32117745 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32117793 ATA ATA ATA
1 ATA ATA ATA
32117802 TATTGGAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32118287 original size:17 final size:15
Alignment explanation
Indices: 32118265--32118428 Score: 64
Period size: 17 Copynumber: 9.8 Consensus size: 15
32118255 GAATTTTTTC
32118265 TTTTGAAAACACGAGAA
1 TTTTG-AAACACGA-AA
*
32118282 TTTTG-AACTAC-AATT
1 TTTTGAAAC-ACGAA-A
32118297 TTTTTGAAAACACGAAAA
1 TT-TTG-AAACACG-AAA
*
32118315 TTGTTGAGACACGAAA
1 TT-TTGAAACACGAAA
*
32118331 ATTTGAAAACAC-AAA
1 TTTTG-AAACACGAAA
* *
32118346 TTTTTGAAACATGAATTTT
1 -TTTTGAAACACGAA---A
* *
32118365 TTTTAAAACACAAAAA
1 TTTTGAAACAC-GAAA
32118381 TTTTTGAAAACACGAAAAA
1 -TTTTG-AAACACG--AAA
32118400 TTTTGAAACACGAGAA
1 TTTTGAAACACGA-AA
32118416 TTTTTGAAACACG
1 -TTTTGAAACACG
32118429 GGAAATTTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 40
0.67 0.09 0.24
Matches are distributed among these distances:
14 1 0.01
15 18 0.16
16 22 0.20
17 36 0.32
18 28 0.25
19 7 0.06
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (15 bp):
TTTTGAAACACGAAA
Found at i:32118384 original size:18 final size:19
Alignment explanation
Indices: 32118297--32118457 Score: 109
Period size: 17 Copynumber: 9.2 Consensus size: 19
32118287 AACTACAATT
32118297 TTTTTGAAAACACG-AAAA
1 TTTTTGAAAACACGAAAAA
* *
32118315 TTGTTG-AGACACG-AAAA
1 TTTTTGAAAACACGAAAAA
32118332 --TTTGAAAACAC---AAA
1 TTTTTGAAAACACGAAAAA
* **
32118346 TTTTTG-AAACATG-AATT
1 TTTTTGAAAACACGAAAAA
*
32118363 TTTTTTAAAACAC-AAAAA
1 TTTTTGAAAACACGAAAAA
32118381 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACGAAAAA
*
32118400 -TTTTG-AAACACG-AGAA
1 TTTTTGAAAACACGAAAAA
**
32118416 TTTTTG-AAACACGGGAAATT
1 TTTTTGAAAACAC--GAAAAA
*
32118436 TTTTTGAAAACACTAAAAA
1 TTTTTGAAAACACGAAAAA
32118455 TTT
1 TTT
32118458 CGAAACACCG
Statistics
Matches: 111, Mismatches: 19, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
14 3 0.03
15 8 0.07
16 12 0.11
17 34 0.31
18 29 0.26
19 12 0.11
20 7 0.06
21 6 0.05
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (19 bp):
TTTTTGAAAACACGAAAAA
Found at i:32118479 original size:17 final size:17
Alignment explanation
Indices: 32118400--32118479 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
32118390 ACACGAAAAA
32118400 TTTTGAAACA-CGAGAAT
1 TTTTGAAACACCG-GAAT
*
32118417 TTTTGAAACACGGGAAATTT
1 TTTTGAAACACCGG-AA--T
*** *
32118437 TTTTGAAAACACTAAAAA
1 TTTTG-AAACACCGGAAT
*
32118455 TTTCGAAACACCGGAAT
1 TTTTGAAACACCGGAAT
32118472 TTTTGAAA
1 TTTTGAAA
32118480 ACATGAAGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
17 26 0.55
18 7 0.15
20 8 0.17
21 6 0.13
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (17 bp):
TTTTGAAACACCGGAAT
Found at i:32118492 original size:17 final size:17
Alignment explanation
Indices: 32118472--32118527 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
32118462 ACACCGGAAT
32118472 TTTTGAAAACATGAAGA
1 TTTTGAAAACATGAAGA
* * *
32118489 TTTTTAAAATATCAGAA-T
1 TTTTGAAAACAT--GAAGA
*
32118507 TTTTGAAAACATGAGGA
1 TTTTGAAAACATGAAGA
32118524 TTTT
1 TTTT
32118528 TTGAAACACG
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
16 2 0.07
17 14 0.48
18 10 0.34
19 3 0.10
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (17 bp):
TTTTGAAAACATGAAGA
Found at i:32118492 original size:55 final size:55
Alignment explanation
Indices: 32118381--32118493 Score: 158
Period size: 55 Copynumber: 2.1 Consensus size: 55
32118371 AACACAAAAA
* *
32118381 TTTTTGAAAACACGAAAAATTTTGAAACACGAGAATTTTTGAAACACGGGAAATT
1 TTTTTGAAAACACGAAAAATTTCGAAACACGAGAATTTTTGAAACACAGGAAATT
* *
32118436 TTTTTGAAAACACTAAAAATTTCGAAACACCG-GAATTTTTGAAA-ACATGAAGATT
1 TTTTTGAAAACACGAAAAATTTCGAAACA-CGAGAATTTTTGAAACACAGGAA-ATT
32118491 TTT
1 TTT
32118494 AAAATATCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 5 0.10
55 45 0.87
56 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (55 bp):
TTTTTGAAAACACGAAAAATTTCGAAACACGAGAATTTTTGAAACACAGGAAATT
Found at i:32118526 original size:18 final size:18
Alignment explanation
Indices: 32118470--32118533 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
32118460 AAACACCGGA
*
32118470 ATTTTTGAAAACATGAAG
1 ATTTTTGAAAACATGAGG
* * *
32118488 ATTTTT-AAAATATCAGA
1 ATTTTTGAAAACATGAGG
32118505 ATTTTTGAAAACATGAGG
1 ATTTTTGAAAACATGAGG
32118523 ATTTTTTGAAA
1 A-TTTTTGAAA
32118534 CACGAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.35
18 15 0.41
19 9 0.24
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (18 bp):
ATTTTTGAAAACATGAGG
Found at i:32118848 original size:5 final size:5
Alignment explanation
Indices: 32118824--32118865 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
32118814 TACCTTGTTT
* *
32118824 ATTAA AATAA TTTAAA ATTAA ATTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATT-AA ATTAA ATTAA ATTAA ATTAA ATTAA A
32118866 AATATAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTAA
Found at i:32119076 original size:20 final size:21
Alignment explanation
Indices: 32119051--32119106 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
32119041 GGGCCCTTTT
32119051 TTTTTTCTTTTTT-TCTTCCC
1 TTTTTTCTTTTTTCTCTTCCC
**
32119071 TTTTTTCTTTTCTTCTCTTTTC
1 TTTTTTCTTTT-TTCTCTTCCC
32119093 -TTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCT
32119107 AATAGGCTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.47
21 12 0.38
22 5 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTTTTTCTCTTCCC
Found at i:32119076 original size:24 final size:27
Alignment explanation
Indices: 32119044--32119094 Score: 81
Period size: 24 Copynumber: 2.0 Consensus size: 27
32119034 ACAACTTGGG
32119044 CCCTTTTTT-TTTTCTT-T-TTTTCTT
1 CCCTTTTTTCTTTTCTTCTCTTTTCTT
32119068 CCCTTTTTTCTTTTCTTCTCTTTTCTT
1 CCCTTTTTTCTTTTCTTCTCTTTTCTT
32119095 TTTCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 9 0.38
25 7 0.29
26 1 0.04
27 7 0.29
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (27 bp):
CCCTTTTTTCTTTTCTTCTCTTTTCTT
Found at i:32119083 original size:17 final size:16
Alignment explanation
Indices: 32119060--32119100 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
32119050 TTTTTTTCTT
*
32119060 TTTTTCTTCCCTTTTT
1 TTTTTCTTCCCTTTTC
*
32119076 TCTTTTCTTCTCTTTTC
1 T-TTTTCTTCCCTTTTC
32119093 TTTTTCTT
1 TTTTTCTT
32119101 TTTTCTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTCCCTTTTC
Found at i:32119194 original size:19 final size:19
Alignment explanation
Indices: 32119160--32119196 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32119150 CTGCTACTGA
*
32119160 TGGCCTGCTGATTTGGGCC
1 TGGCCTGCTGAGTTGGGCC
*
32119179 TGGCCTGCTGCGTTGGGC
1 TGGCCTGCTGAGTTGGGC
32119197 TGCTGCTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.27, G:0.41, T:0.30
Consensus pattern (19 bp):
TGGCCTGCTGAGTTGGGCC
Found at i:32119380 original size:22 final size:22
Alignment explanation
Indices: 32119354--32119395 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32119344 TTTCTTTTTT
32119354 CTTTTCCTTCATTC-TTCTTCCC
1 CTTTT-CTTCATTCTTTCTTCCC
*
32119376 CTTTTCTTCCTTCTTTCTTC
1 CTTTTCTTCATTCTTTCTTC
32119396 TTTCTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (22 bp):
CTTTTCTTCATTCTTTCTTCCC
Found at i:32119947 original size:30 final size:30
Alignment explanation
Indices: 32119903--32119984 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
32119893 GGGCCAAAAA
*
32119903 TAATTTCAAGAAAGTTTAAGGGTTAAAATG
1 TAATTTCAAAAAAGTTTAAGGGTTAAAATG
** *
32119933 TAATTTTGAAAAAGTTTAGGGGTTAAAATG
1 TAATTTCAAAAAAGTTTAAGGGTTAAAATG
32119963 TAATTTCAAAAAAG-TTAAGGGT
1 TAATTTCAAAAAAGTTTAAGGGT
32119985 CGAATTGCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 7 0.16
30 38 0.84
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (30 bp):
TAATTTCAAAAAAGTTTAAGGGTTAAAATG
Found at i:32120544 original size:84 final size:76
Alignment explanation
Indices: 32120204--32120560 Score: 471
Period size: 76 Copynumber: 4.6 Consensus size: 76
32120194 CTTCTTAGAT
** * * * *
32120204 TATGAGTTGACCTTTAAAAAATAGAAATTGAAAAATACATCGGTATGTGACCCGAGGCTCAACTC
1 TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
32120269 ACCTCTCGCAA
66 ACCTCTCGCAA
*
32120280 TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACTCGAGGCTCAACTC
1 TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
*
32120345 ACCTCTAGCAA
66 ACCTCTCGCAA
* * *
32120356 TATGAGTTGATTTTTGAAAAGCAAAAATTGAAAAATACGTTGGTATGTGACCCGAGGCTCAACTC
1 TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
*
32120421 ACCTGTCGCAA
66 ACCTCTCGCAA
* * * *
32120432 TATGAGTTGATTTTTTGAAGAGCAAAAAAAAAATTAAAAGAAACACCTCGGCATGTGACCCGAGG
1 TATGAGTTGA-TTTTT---GA--AAAACAAAAATT-GAA-AAATACCTCGGTATGTGACCCGAGG
32120497 CTCAACTCACCTCTCGCAA
58 CTCAACTCACCTCTCGCAA
*
32120516 TATGAGTTGATTTTTTTGAAAAACAAAAATTAAAAAATACCTCGG
1 TATGAGTTGA--TTTTTGAAAAACAAAAATTGAAAAATACCTCGG
32120561 CGTGTGATGT
Statistics
Matches: 248, Mismatches: 24, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
76 148 0.60
77 5 0.02
78 10 0.04
79 3 0.01
80 13 0.05
82 12 0.05
83 2 0.01
84 49 0.20
85 6 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (76 bp):
TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
ACCTCTCGCAA
Found at i:32121965 original size:40 final size:40
Alignment explanation
Indices: 32121921--32122143 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
32121911 GCTCCTCGTT
*
32121921 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
32121961 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
32122001 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
32122041 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
32122080 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
32122121 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
32122144 ACAGCATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.27
40 105 0.65
41 8 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:32122105 original size:79 final size:80
Alignment explanation
Indices: 32121921--32122144 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
32121911 GCTCCTCGTT
* * *
32121921 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
32121985 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
32122001 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
32122065 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
32122080 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
32122141 CGGA
63 CGGA
32122145 CAGCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
78 12 0.09
79 60 0.47
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:32123999 original size:79 final size:79
Alignment explanation
Indices: 32123752--32124273 Score: 513
Period size: 79 Copynumber: 6.8 Consensus size: 79
32123742 CACATGTGAC
*
32123752 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTATTGAAAAAACAGAAATTTAAAAGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACAGAAA-TTAAAAGAA
**
32123815 ATACCTTAGCATGTGT
64 ATACCTCGGCATGTGT
* *
32123831 CCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGAAAAACA-AATTTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
*
32123893 ACCTCGGCATATGT
66 ACCTCGGCATGTGT
* * ** *
32123907 TCGAGGCTCAACTCACCTCTCGTAATATGAGTCAATTTTTTTGAAAAATAGAAATTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
32123972 ACCTCGGCATGTGT
66 ACCTCGGCATGTGT
* * *
32123986 TCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAAACAGAAATTAAAAAAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
** * * * *
32124050 ATTTTGGCGTGCGAC
66 ACCTCGGCATGTG-T
* *
32124065 CCGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTTTTTTG-AAAATATAAATT--AA-AAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
* **
32124124 ACCTCAGC--GTAAC
66 ACCTCGGCATGT-GT
* * ** *
32124137 CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTGAAAAATGGAAATT--GA-AAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
* * * *
32124199 ACCTCAGCGTGCGGC
66 ACCTCGGCATG-TGT
* * * * *
32124214 CCAAGGCTCAACTCACCTCTTGCATTATGAGTTG-GTTTTTTGAAAAACATAAATTGAAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAA
32124274 TATAATTCTT
Statistics
Matches: 379, Mismatches: 49, Indels: 30
0.83 0.11 0.07
Matches are distributed among these distances:
72 24 0.06
73 1 0.00
74 24 0.06
75 25 0.07
76 70 0.18
77 62 0.16
78 48 0.13
79 125 0.33
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (79 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
ACCTCGGCATGTGT
Found at i:32124102 original size:155 final size:157
Alignment explanation
Indices: 32123749--32124260 Score: 552
Period size: 155 Copynumber: 3.3 Consensus size: 157
32123739 TGTCACATGT
* *
32123749 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTATTGAAAAAACAGAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTTTG-AAAAATAGAAA-TTAAAA
* *
32123812 GAAATACCTTAGCATGTGTCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGAAAA
63 GAAATACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
* * * **
32123876 ACA-AATTTAAAAGAAATACCTCGGCATAT
128 ACAGAAATTAAAAAAAATACCTCGGCGTGC
** * **
32123905 G-TTCGAGGCTCAACTCACCTCTCGTAATATGAGTCAATTTTTTTGAAAAATAGAAATTAAAAGA
1 GACCCGAGGCTCAACTCACCTCTCG-CATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAGA
* * * *
32123969 AATACCTCGGCATGTGTTCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAC
65 AATACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
** *
32124034 AGAAATTAAAAAAAATATTTTGGCGTGC
130 AGAAATTAAAAAAAATACCTCGGCGTGC
*
32124062 GACCCGAGGCTCAACTCACCTCTCGCA-ATGAGTTGATTTTTTTG-AAAATATAAATT--AA-AA
1 GACCCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAGAA
** *
32124122 ATACCTCAGC--GTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTGAAAAA
66 ATACCTCAGCATGT-GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTTGAAAAA
** * *
32124185 TGGAAATT---GAAAATACCTCAGCGTGC
129 CAGAAATTAAAAAAAATACCTCGGCGTGC
* * * *
32124211 GGCCCAAGGCTCAACTCACCTCTTGCATTATGAGTTG-GTTTTTTGAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCA-TATGAGTTGATTTTTTTGAAAAA
32124261 CATAAATTGA
Statistics
Matches: 300, Mismatches: 45, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
149 37 0.12
150 9 0.03
151 45 0.15
152 27 0.09
153 2 0.01
155 96 0.32
156 38 0.13
157 25 0.08
158 21 0.07
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (157 bp):
GACCCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAGAA
ATACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
GAAATTAAAAAAAATACCTCGGCGTGC
Found at i:32125133 original size:6 final size:6
Alignment explanation
Indices: 32125123--32125185 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
32125113 TTCATCTTGA
* *
32125123 TTTTTA TTTTTC TTTTCT- TTTTTG TTTTTG TTTTTG TTTTTG TTGTTT-
1 TTTTTG TTTTTG TTTT-TG TTTTTG TTTTTG TTTTTG TTTTTG TT-TTTG
*
32125171 TTGTTG TTTTTG TTT
1 TTTTTG TTTTTG TTT
32125186 CCTTTTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 3 0.06
6 43 0.86
7 4 0.08
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:32125180 original size:8 final size:9
Alignment explanation
Indices: 32125141--32125184 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
32125131 TTTCTTTTCT
32125141 TTTTTGTT-
1 TTTTTGTTG
*
32125149 TTTGTTTTTG
1 TTT-TTGTTG
32125159 TTTTTGTTG
1 TTTTTGTTG
32125168 TTTTTGTTG
1 TTTTTGTTG
32125177 TTTTTGTT
1 TTTTTGTT
32125185 TCCTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 3 0.09
9 26 0.81
10 3 0.09
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (9 bp):
TTTTTGTTG
Found at i:32127354 original size:107 final size:107
Alignment explanation
Indices: 32127168--32127389 Score: 408
Period size: 107 Copynumber: 2.1 Consensus size: 107
32127158 AAACACAATA
* *
32127168 AAAGAATTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGATCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
32127233 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
* *
32127275 AAAGATTTGAAATAAGTTAGATAAAGAAAATGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
32127340 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
32127382 AAAGATTT
1 AAAGATTT
32127390 CACAACTCCC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 111 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (107 bp):
AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
Found at i:32137630 original size:11 final size:11
Alignment explanation
Indices: 32137614--32137638 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32137604 GCTCGGGAAG
32137614 ATCAGAGGTGT
1 ATCAGAGGTGT
32137625 ATCAGAGGTGT
1 ATCAGAGGTGT
32137636 ATC
1 ATC
32137639 CTTCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (11 bp):
ATCAGAGGTGT
Found at i:32139173 original size:18 final size:17
Alignment explanation
Indices: 32139150--32139402 Score: 155
Period size: 18 Copynumber: 14.4 Consensus size: 17
32139140 AACTACAATT
32139150 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACAC-GAAA
*
32139168 TTTTTG-AGACACGAAA
1 TTTTTGAAAACACGAAA
* *
32139184 -ATTTGAAACCAC-AAA
1 TTTTTGAAAACACGAAA
32139199 TTTTTG-AAACACGAAA
1 TTTTTGAAAACACGAAA
*
32139215 TTGTTTTTTAAAACACGAAAA
1 ---TTTTTGAAAACACG-AAA
*
32139236 TTTTTGAAAATACGAAAA
1 TTTTTGAAAACACG-AAA
32139254 TTTTTG-AAACACGAGAA
1 TTTTTGAAAACACGA-AA
32139271 TTTTTG-AAACACGAGAAA
1 TTTTTGAAAACAC--GAAA
*
32139289 TTTTTTTGAAAACACTAAAA
1 --TTTTTGAAAACAC-GAAA
* * * *
32139309 ATTTCG-AAACACAGGAG
1 TTTTTGAAAACAC-GAAA
32139326 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
* *
32139344 TTTTT-AAAATACCAGAA
1 TTTTTGAAAACACGA-AA
*
32139361 TTTTTGAAAACACGAGGAT
1 TTTTTGAAAACACGA--AA
* *
32139380 TTTTTG-AAACATGAAT
1 TTTTTGAAAACACGAAA
32139396 TTTTTGA
1 TTTTTGA
32139403 TTTAAAAAAA
Statistics
Matches: 187, Mismatches: 28, Indels: 41
0.73 0.11 0.16
Matches are distributed among these distances:
15 12 0.06
16 24 0.13
17 51 0.27
18 60 0.32
19 15 0.08
20 16 0.09
21 9 0.05
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:32139179 original size:17 final size:16
Alignment explanation
Indices: 32139150--32139402 Score: 141
Period size: 17 Copynumber: 14.4 Consensus size: 16
32139140 AACTACAATT
32139150 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACAC-GAAA
*
32139168 TTTTTGAGACACGAAA
1 TTTTTGAAACACGAAA
*
32139184 -ATTTGAAACCAC-AAA
1 TTTTTGAAA-CACGAAA
32139199 TTTTTGAAACACGAAA
1 TTTTTGAAACACGAAA
*
32139215 TTGTTTTTTAAAACACGAAAA
1 ----TTTTTGAAACACG-AAA
*
32139236 TTTTTGAAAATACGAAAA
1 TTTTTG-AAACACG-AAA
32139254 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGA-AA
32139271 TTTTTGAAACACGAGAAA
1 TTTTTGAAACAC--GAAA
*
32139289 TTTTTTTGAAAACACTAAAA
1 --TTTTTG-AAACAC-GAAA
* * * *
32139309 ATTTCGAAACACAGGAG
1 TTTTTGAAACAC-GAAA
32139326 TTTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAA-A
* * *
32139344 TTTTTAAAATACCAGAA
1 TTTTTGAAACACGA-AA
*
32139361 TTTTTGAAAACACGAGGAT
1 TTTTTG-AAACACGA--AA
* *
32139380 TTTTTGAAACATGAAT
1 TTTTTGAAACACGAAA
32139396 TTTTTGA
1 TTTTTGA
32139403 TTTAAAAAAA
Statistics
Matches: 187, Mismatches: 28, Indels: 42
0.73 0.11 0.16
Matches are distributed among these distances:
15 12 0.06
16 27 0.14
17 55 0.29
18 53 0.28
19 10 0.05
20 21 0.11
21 9 0.05
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (16 bp):
TTTTTGAAACACGAAA
Found at i:32139265 original size:35 final size:35
Alignment explanation
Indices: 32139150--32139390 Score: 197
Period size: 35 Copynumber: 6.8 Consensus size: 35
32139140 AACTACAATT
* *
32139150 TTTTTGAAAACACGGAAATTTTTGAGACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* *
32139185 --TTTGAAACCAC--AAATTTTTGAAACACGAAATTG
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAA--A
* *
32139218 TTTTTTAAAACACGAAAATTTTTGAAAATACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
*
32139254 TTTTTG-AAACACGAGAATTTTTGAAACACGAGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGA-AAA
* * * * *
32139289 TTTTTTTGAAAACACTAAAAATTTCGAAACAC-AGGAG
1 --TTTTTGAAAACACGAAAATTTTTGAAACACGA-AAA
* * * * *
32139326 TTTTTGAAAACACGAAGATTTTTAAAATACCAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* *
32139361 TTTTTGAAAACACGAGGATTTTTTGAAACA
1 TTTTTGAAAACACGA-AAATTTTTGAAACA
32139391 TGAATTTTTT
Statistics
Matches: 165, Mismatches: 28, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
31 18 0.11
33 10 0.06
34 7 0.04
35 69 0.42
36 15 0.09
37 18 0.11
38 28 0.17
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:32139922 original size:11 final size:11
Alignment explanation
Indices: 32139906--32139965 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
32139896 AACTTGGGCC
32139906 CTTTTTTTTTT
1 CTTTTTTTTTT
*
32139917 CTTTTTTTCTT
1 CTTTTTTTTTT
**
32139928 C--CCTTTTTT
1 CTTTTTTTTTT
* *
32139937 CTTTTTCTTCT
1 CTTTTTTTTTT
*
32139948 CTTTTCTTTTT
1 CTTTTTTTTTT
32139959 CTTTTTT
1 CTTTTTT
32139966 CTACTGGGCT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
9 6 0.17
11 29 0.83
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:32140055 original size:19 final size:19
Alignment explanation
Indices: 32140021--32140057 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32140011 CTGCTGCTGA
**
32140021 TGGCCTGCTGTTTTGGGCC
1 TGGCCTGCTGCGTTGGGCC
32140040 TGGCCTGCTGCGTTGGGC
1 TGGCCTGCTGCGTTGGGC
32140058 TGCTGCTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.41, T:0.32
Consensus pattern (19 bp):
TGGCCTGCTGCGTTGGGCC
Found at i:32140208 original size:7 final size:7
Alignment explanation
Indices: 32140196--32140257 Score: 63
Period size: 7 Copynumber: 9.0 Consensus size: 7
32140186 TAAAAAATTA
32140196 TTTTCTT
1 TTTTCTT
32140203 TTTTCTT
1 TTTTCTT
32140210 TTTTC-T
1 TTTTCTT
*
32140216 TTTCCTT
1 TTTTCTT
*
32140223 CTTTCTT
1 TTTTCTT
* * *
32140230 CTTCCCT
1 TTTTCTT
32140237 TTTTCTT
1 TTTTCTT
*
32140244 CTTTCTT
1 TTTTCTT
32140251 TTTTCTT
1 TTTTCTT
32140258 CCTTACTTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
6 5 0.11
7 39 0.89
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTT
Found at i:32140215 original size:14 final size:14
Alignment explanation
Indices: 32140196--32140258 Score: 74
Period size: 14 Copynumber: 4.6 Consensus size: 14
32140186 TAAAAAATTA
* *
32140196 TTTTCTTTTTTCTT
1 TTTTCTTCTTCCTT
32140210 TTTTCTT-TTCCTT
1 TTTTCTTCTTCCTT
* *
32140223 CTTTCTTCTTCCCT
1 TTTTCTTCTTCCTT
*
32140237 TTTTCTTCTTTCTT
1 TTTTCTTCTTCCTT
32140251 TTTTCTTC
1 TTTTCTTC
32140259 CTTACTTCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.26
14 31 0.74
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTCTTCTTCCTT
Found at i:32140397 original size:9 final size:9
Alignment explanation
Indices: 32140365--32140397 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
32140355 TCCCTTTCCC
32140365 TCTTTTTCT
1 TCTTTTTCT
*
32140374 CCTTTTTCT
1 TCTTTTTCT
32140383 TCTTTTT-T
1 TCTTTTTCT
32140391 TCTTTTT
1 TCTTTTT
32140398 GCTTGCGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:32141612 original size:21 final size:21
Alignment explanation
Indices: 32141578--32141622 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
32141568 TTAGAAAGGA
*
32141578 TTTTTAAATTTTTAAAAAATAT
1 TTTTTAAATATTTAAAAAAT-T
*
32141600 TTTTTAAA-ATTTAAATAATT
1 TTTTTAAATATTTAAAAAATT
32141620 TTT
1 TTT
32141623 AAAGTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTAAATATTTAAAAAATT
Found at i:32141729 original size:17 final size:18
Alignment explanation
Indices: 32141702--32141735 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32141692 TAATAATTTA
32141702 TTTTGAAATAAAATAAAG
1 TTTTGAAATAAAATAAAG
*
32141720 TTTT-AAATAATATAAA
1 TTTTGAAATAAAATAAA
32141736 ATTATAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TTTTGAAATAAAATAAAG
Found at i:32145789 original size:42 final size:42
Alignment explanation
Indices: 32145727--32145874 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
32145717 TTTTATGTTC
* * **
32145727 AGCTCTTTGGAGCTTTTGTTTAATTCATATGAGTTTCCGTTA
1 AGCTCTTTTGAGCTTCTGTTTAACCCATATGAGTTTCCGTTA
* * *
32145769 AGCTCTTTTGAGCTTCTGTTTAACCCCTATGAGTTTCTGTTC
1 AGCTCTTTTGAGCTTCTGTTTAACCCATATGAGTTTCCGTTA
* * * * ** *
32145811 AGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTTTGTTT
1 AGCTCTTTTGAGCTTCTGTTTAACCCATATGAGTTTCCGTTA
**
32145853 AGCTCTCATGAGCTTCTGTTTA
1 AGCTCTTTTGAGCTTCTGTTTA
32145875 GCCTCTAGGC
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (42 bp):
AGCTCTTTTGAGCTTCTGTTTAACCCATATGAGTTTCCGTTA
Found at i:32145875 original size:21 final size:21
Alignment explanation
Indices: 32145777--32145876 Score: 76
Period size: 21 Copynumber: 4.8 Consensus size: 21
32145767 TAAGCTCTTT
* *
32145777 TGAGCTTCTGTTTAAC-CCCTA
1 TGAGCTTCTGTTTAGCTCTC-A
* * *
32145798 TGAGTTTCTGTTCAGCTCTTA
1 TGAGCTTCTGTTTAGCTCTCA
* * * *
32145819 TGAGCTTCTGTTCAACCCTTA
1 TGAGCTTCTGTTTAGCTCTCA
* * *
32145840 TGGGTTTTTGTTTAGCTCTCA
1 TGAGCTTCTGTTTAGCTCTCA
32145861 TGAGCTTCTGTTTAGC
1 TGAGCTTCTGTTTAGC
32145877 CTCTAGGCTT
Statistics
Matches: 60, Mismatches: 18, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
21 59 0.98
22 1 0.02
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (21 bp):
TGAGCTTCTGTTTAGCTCTCA
Found at i:32148904 original size:21 final size:21
Alignment explanation
Indices: 32148878--32148918 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
32148868 ATCTGTTAAA
32148878 TATGTAAATAATATATTTAGT
1 TATGTAAATAATATATTTAGT
*
32148899 TATGTAAATATTATATTTAG
1 TATGTAAATAATATATTTAG
32148919 GAAATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (21 bp):
TATGTAAATAATATATTTAGT
Found at i:32154428 original size:92 final size:92
Alignment explanation
Indices: 32154259--32154428 Score: 218
Period size: 92 Copynumber: 1.8 Consensus size: 92
32154249 GAAATAAATA
* * *
32154259 TTATGAGCAATCTGAAGTGTTATCAGGGGAGAATATTTAGCCTACGGGCCTTACATTATGTGCAC
1 TTATGAGCAATCTGAAGTGTTATCAGGGGAGAAAATTTAGCCTACAGGCCTTACACTATGTGCAC
*
32154324 CTGGTGTCTTATCGGTTGGAATAGCTC
66 CTGGCGTCTTATCGGTTGGAATAGCTC
* * * *
32154351 TTATGAGCAATTTGACA-TGTTATC-GGGAGAGAAAATTTAGCCTATAGGCCTTGCACTATTTGC
1 TTATGAGCAATCTGA-AGTGTTATCAGGG-GAGAAAATTTAGCCTACAGGCCTTACACTATGTGC
* *
32154414 ATCTGGCGTGTTATC
64 ACCTGGCGTCTTATC
32154429 AAATGGTCAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
91 3 0.05
92 62 0.94
93 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (92 bp):
TTATGAGCAATCTGAAGTGTTATCAGGGGAGAAAATTTAGCCTACAGGCCTTACACTATGTGCAC
CTGGCGTCTTATCGGTTGGAATAGCTC
Found at i:32156977 original size:16 final size:16
Alignment explanation
Indices: 32156956--32156993 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
32156946 AAAATAAATG
32156956 AAAGAAG-AAACATAAA
1 AAAGAAGAAAACA-AAA
32156972 AAAGAAAGAAAACAAAA
1 AAAG-AAGAAAACAAAA
32156989 AAAGA
1 AAAGA
32156994 GGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 10 0.50
18 5 0.25
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAACAAAA
Found at i:32171534 original size:5 final size:5
Alignment explanation
Indices: 32171524--32171567 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
32171514 ATAAGGAAAA
* * *
32171524 ATATG ATATG ACATG ACATG ACATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
32171568 TGTGCTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (5 bp):
ATATG
Found at i:32172235 original size:65 final size:66
Alignment explanation
Indices: 32172153--32172285 Score: 198
Period size: 66 Copynumber: 2.0 Consensus size: 66
32172143 ATGAGAGCTT
* * *
32172153 AGACTAGGCCCCCAAAA-GGGTTACTAAACCGAGAA-GAGGACATCCAAAAATAGAGCAAAACAA
1 AGACAAGGCCCCAAAAAGGGGTTACTAAACCGA-AAGGAGGACATCAAAAAATAGAGCAAAACAA
32172216 GG
65 GG
* *
32172218 AGACAAGGCCCCAAAAAGGGGTTATTAAACCGAAAGGAGGACATCAAAAAATAGAGCAGAACAAG
1 AGACAAGGCCCCAAAAAGGGGTTACTAAACCGAAAGGAGGACATCAAAAAATAGAGCAAAACAAG
32172283 G
66 G
32172284 AG
1 AG
32172286 GACGACAACC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
65 17 0.28
66 44 0.72
ACGTcount: A:0.47, C:0.19, G:0.25, T:0.09
Consensus pattern (66 bp):
AGACAAGGCCCCAAAAAGGGGTTACTAAACCGAAAGGAGGACATCAAAAAATAGAGCAAAACAAG
G
Found at i:32174883 original size:65 final size:65
Alignment explanation
Indices: 32174799--32174921 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
32174789 CAAAGCTCAA
*
32174799 ACAAGGCCCCAAAAGGGGTTATTAAACCGAGAGGAGGACATCA-AAAATAGAGCAGAACAAGGAG
1 ACAAGGCCCCAAAAAGGGTTATTAAACCGAGAGGAGGACATCAGAAAATAGAGCAGAACAAGGAG
* *
32174863 ACAAGGCCCCCAAAAAGGGTTATTAAATCGAGAGGATGACATCAGAAAATAGAGCAGAA
1 ACAAGG-CCCCAAAAAGGGTTATTAAACCGAGAGGAGGACATCAGAAAATAGAGCAGAA
32174922 TAAAGAGGAC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 6 0.11
65 34 0.63
66 14 0.26
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (65 bp):
ACAAGGCCCCAAAAAGGGTTATTAAACCGAGAGGAGGACATCAGAAAATAGAGCAGAACAAGGAG
Found at i:32175459 original size:5 final size:5
Alignment explanation
Indices: 32175449--32175487 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
32175439 ATAAGGAAAA
32175449 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
32175488 TATAGTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:32178786 original size:51 final size:51
Alignment explanation
Indices: 32178725--32178835 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
32178715 TTTATTTCTC
*
32178725 ATTTT-CATTTTCATTTAGGAGAAAACCACATTCATTTCCAAATGATTTCAT
1 ATTTTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATG-TTTCAT
* ** *
32178776 -TTTTCCATTTTCATTTTGGAGAAAACCTTAATCGTTTCCAAATGTTTCAT
1 ATTTTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGTTTCAT
32178826 ATTTCTCCAT
1 ATTT-TCCAT
32178836 GTCACCATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
50 10 0.19
51 37 0.71
52 5 0.10
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (51 bp):
ATTTTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGTTTCAT
Found at i:32179363 original size:24 final size:24
Alignment explanation
Indices: 32179336--32179382 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
32179326 CAAGCCAAGG
32179336 GCGTTTTGGTTTGTACAGTGAAAA
1 GCGTTTTGGTTTGTACAGTGAAAA
32179360 GCGTTTTGGTTTGTACAGTGAAA
1 GCGTTTTGGTTTGTACAGTGAAA
32179383 GTTAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (24 bp):
GCGTTTTGGTTTGTACAGTGAAAA
Found at i:32184023 original size:13 final size:13
Alignment explanation
Indices: 32184000--32184032 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
32183990 AACAGTAAAT
32184000 TGTTATTTGTTTTA
1 TGTT-TTTGTTTTA
32184014 TGTTTTTGTTTTA
1 TGTTTTTGTTTTA
32184027 TGTTTT
1 TGTTTT
32184033 CTGTATAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (13 bp):
TGTTTTTGTTTTA
Found at i:32194717 original size:21 final size:21
Alignment explanation
Indices: 32194691--32194732 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32194681 AGCACCATAG
*
32194691 GAAATTAAATGTTTTATACAT
1 GAAATTAAATCTTTTATACAT
32194712 GAAATTAAATCTTTTATACAT
1 GAAATTAAATCTTTTATACAT
32194733 TTATAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
GAAATTAAATCTTTTATACAT
Found at i:32197254 original size:27 final size:27
Alignment explanation
Indices: 32197197--32197371 Score: 176
Period size: 27 Copynumber: 6.5 Consensus size: 27
32197187 ATATTGAGCC
* * * *
32197197 CGCACACTCAGTGCTATATA-TCAACT
1 CGCACACTTAGTGCCACATAGTCAAAT
* *
32197223 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
* *
32197250 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCCACATAGTCA-AAT
* * *
32197278 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAGTCAAAT
* **
32197305 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAGTCAAAT
*
32197332 CGCACACTTAGTGCAACATAGTC-AAT
1 CGCACACTTAGTGCCACATAGTCAAAT
32197358 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32197372 TGTACAATTT
Statistics
Matches: 124, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 32 0.26
27 68 0.55
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAGTCAAAT
Found at i:32197289 original size:55 final size:53
Alignment explanation
Indices: 32197197--32197372 Score: 212
Period size: 55 Copynumber: 3.3 Consensus size: 53
32197187 ATATTGAGCC
* * * *
32197197 CGCACACTCAGTGCTATATATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
32197250 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** *
32197305 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTC-AAT
1 CGCACACTTAGTGCTA-CATA-TCAACTCGCACACTTAGTGCCACATAGTCAAAT
32197358 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32197373 GTACAATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 34 0.32
54 25 0.24
55 46 0.44
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:32197316 original size:82 final size:80
Alignment explanation
Indices: 32197217--32197371 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 80
32197207 GTGCTATATA
* *
32197217 TCAACTCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCA-A-TCGC
32197281 ACACTTAGTGCCGCATGG
63 ACACTTAGTGCCGCATGG
* * **
32197299 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAATCGCACA
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
32197364 CTTAGTGC
66 CTTAGTGC
32197372 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 15 0.23
81 3 0.05
82 48 0.73
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
CTTAGTGCCGCATGG
Found at i:32205359 original size:27 final size:27
Alignment explanation
Indices: 32205329--32205506 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
32205319 ATATTGAGCC
* *
32205329 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
32205356 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
32205383 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
32205411 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
32205438 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
32205465 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
32205492 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32205507 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:32205468 original size:82 final size:81
Alignment explanation
Indices: 32205350--32205505 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
32205340 TGCTATATAA
* *
32205350 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32205415 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
32205432 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32205496 CACTTAGTGC
65 CACTTAGTGC
32205506 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32210100 original size:19 final size:19
Alignment explanation
Indices: 32210076--32210129 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
32210066 AATCTTCGAG
32210076 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
32210095 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32210114 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
32210130 AGATGTGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:32210319 original size:40 final size:38
Alignment explanation
Indices: 32210266--32210340 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
32210256 GAAAAGGGAG
*
32210266 AAAAAAATCAATAAAAAAAGGAGAACGATTGGCAGTTAAA
1 AAAAAAAGCAAT-AAAAAA-GAGAACGATTGGCAGTTAAA
*
32210306 AAAAAAAGGAATAAAAAAGAGAACGATTGGCAGTT
1 AAAAAAAGCAATAAAAAAGAGAACGATTGGCAGTT
32210341 TTTTAAAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 17 0.52
39 6 0.18
40 10 0.30
ACGTcount: A:0.59, C:0.07, G:0.20, T:0.15
Consensus pattern (38 bp):
AAAAAAAGCAATAAAAAAGAGAACGATTGGCAGTTAAA
Found at i:32215180 original size:11 final size:11
Alignment explanation
Indices: 32215164--32215196 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
32215154 TAAAAGTGAT
32215164 AAAAAGAAAAA
1 AAAAAGAAAAA
32215175 AAAAAGAAAAA
1 AAAAAGAAAAA
*
32215186 GAAAAGAAAAA
1 AAAAAGAAAAA
32215197 TGGAGAGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:32215196 original size:6 final size:6
Alignment explanation
Indices: 32215164--32215196 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
32215154 TAAAAGTGAT
32215164 AAAAAG AAAAA- AAAAAG AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
32215197 TGGAGAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:32216493 original size:44 final size:42
Alignment explanation
Indices: 32216404--32216822 Score: 346
Period size: 44 Copynumber: 9.5 Consensus size: 42
32216394 GCAGATCAGT
* * *
32216404 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCC-ATATTGGTAGGAAGTAGATC
*
32216448 GAAGATGCAGATCTTGTCTTTCCATATTGGTAGCGGAGTAGATC
1 GAAGATGCAGATCTTGTC-TTCCATATTGGTAG-GAAGTAGATC
* * * *
32216492 GAAGAAAGCAAATCTTGTCTT-CATTTATTGG-CGTGAAGTAGGTC
1 GAAG-ATGCAGATCTTGTCTTCCA--TATTGGTAG-GAAGTAGATC
* * *
32216536 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCC-ATATTGGTAGGAAGTAGATC
* * *
32216580 GAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTT-CCATATTGGTAG-GAAGTAGATC
* *
32216624 GAAGAAAGCAGATCTTGTCTT-CATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCA--TATTGGTAG-GAAGTAGATC
* * * *
32216668 GAAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCC-ATATTGGTAGGAAGTAGATC
* *
32216712 GAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTT-CCATATTGGTAG-GAAGTAGATC
* *
32216756 GAAGAAAGCAGATCTTGTCTT-CATGTATTAGT-GTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCA--TATTGGTAG-GAAGTAGATC
*
32216800 GAAGATAGCAGATCTTGCCTTCC
1 GAAGAT-GCAGATCTTGTCTTCC
32216823 TGCACCGACA
Statistics
Matches: 304, Mismatches: 46, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
43 68 0.22
44 172 0.57
45 62 0.20
46 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
GAAGATGCAGATCTTGTCTTCCATATTGGTAGGAAGTAGATC
Found at i:32216580 original size:88 final size:90
Alignment explanation
Indices: 32216404--32216823 Score: 407
Period size: 88 Copynumber: 4.8 Consensus size: 90
32216394 GCAGATCAGT
* * * *
32216404 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGT-GGATCGAAGAT-GCAGATCTTGTC
1 GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGG-TCGAAGATAGCAGATCTTGTC
*
32216466 TTTCC-ATATTGGTAGCGGAGTAGATC
65 -TTCCTATATTGGTAGCGAAGTAGATC
* * * * *
32216492 GAAGAAAGCAAATCTTGTCTTCATTTATTGG-CGTGAAGTAGGTCGAAGATAGCAGGTCCTGTCT
1 GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGGTCGAAGATAGCAGATCTTGTCT
*
32216556 TCCTATATTGGTAG-GAAGTGGATC
66 TCCTATATTGGTAGCGAAGTAGATC
* * ** * * * * *
32216580 GAAG-ATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCT
1 GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGGTCGAAGATAGCAGATCTTGTCT
* * * *
32216644 TCATGTATTGG-CGTGAAGTAGATC
66 TCCTATATTGGTAGCGAAGTAGATC
* * *
32216668 GAA-AATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGT-GGATCGAAGAT-GCAGATCTTGT
1 GAAGAA-AGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGG-TCGAAGATAGCAGATCTTGT
* * *
32216729 CTTCCCATACTGGTGGCGAAGTAGATC
64 CTTCCTATATTGGTAGCGAAGTAGATC
* * * *
32216756 GAAGAAAGCAGATCTTGTCTTCATGTATTAGT-GTGAAGTAGATCGAAGATAGCAGATCTTGCCT
1 GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGGTCGAAGATAGCAGATCTTGTCT
32216820 TCCT
66 TCCT
32216824 GCACCGACAG
Statistics
Matches: 267, Mismatches: 51, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
87 43 0.16
88 163 0.61
89 61 0.23
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (90 bp):
GAAGAAAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGGTCGAAGATAGCAGATCTTGTCT
TCCTATATTGGTAGCGAAGTAGATC
Found at i:32216823 original size:132 final size:132
Alignment explanation
Indices: 32216404--32216810 Score: 715
Period size: 132 Copynumber: 3.1 Consensus size: 132
32216394 GCAGATCAGT
*
32216404 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * * * *
32216469 CCATATTGGTAGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATTTATTGGCGTGAAGTAGG
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
32216534 TC
131 TC
*
32216536 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
32216601 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
32216666 TC
131 TC
*
32216668 GAAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
32216733 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGTGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
32216798 TC
131 TC
32216800 GAAGATAGCAG
1 GAAGATAGCAG
32216811 ATCTTGCCTT
Statistics
Matches: 262, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 262 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:32216920 original size:44 final size:44
Alignment explanation
Indices: 32216857--32217056 Score: 242
Period size: 44 Copynumber: 4.5 Consensus size: 44
32216847 TGACCTCAGC
*
32216857 CCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGAAT
** *
32216901 CCTATCTCCCTGGTCAGCAGTGGAATAGGGTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGAAT
* * * * * *
32216945 TCTATCTCCCTGGGCAGTAGCGGAATGGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGA-AT
* * * *
32216989 CCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGAAT
32217033 CCTATCTCCCTGAGT-AGCAGTGGA
1 CCTATCTCCCTG-GTCAGCAGTGGA
32217057 GTAGGTGGAA
Statistics
Matches: 130, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 126 0.97
45 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTGAAT
Found at i:32217123 original size:132 final size:132
Alignment explanation
Indices: 32216804--32217126 Score: 311
Period size: 132 Copynumber: 2.4 Consensus size: 132
32216794 TAGATCGAAG
* * * * * *
32216804 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCTCAGCCCTATCTCCCTG
1 ATAGCAGATCTTGCCTCCCTGCACCGATAGCGAAGTAGATCGAAGACGTCAGTCCTATCTCCCTG
* *
32216869 GTCAGCAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
66 GTCAGCAGTGGAATAGATTAAAGATCGTGAACCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
*
32216934 AG
131 AA
* ** * * * *
32216936 ATTG-AGAATTCTAT--CTCCCTGGGCAG-TAGCGGAA-TGGATTGAAGATTGT-AGGTCCTATC
1 ATAGCAG-A-TCT-TGCCTCCCTGCACCGATAGC-GAAGTAGATCGAAGA-CGTCA-GTCCTATC
* * * *
32216995 TCCCTGGTTAGCAGTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCTGAGT-AGCAGTGGAGT
60 TCCCTGGTCAGCAGTGGAATAGATTAAAGATCGTGAACCCTATCTCCCTG-GTCAGCAGTGGAAT
32217059 A-GGTGGAAA
124 AGGGT-GAAA
* * *
32217068 ATAGCAGATCTTGCCTCCCTACACCGATAGTGAAGTAGATCGAGGACGTCAGTCCTATC
1 ATAGCAGATCTTGCCTCCCTGCACCGATAGCGAAGTAGATCGAAGACGTCAGTCCTATC
32217127 GCCTTGATGT
Statistics
Matches: 147, Mismatches: 30, Indels: 28
0.72 0.15 0.14
Matches are distributed among these distances:
130 1 0.01
131 19 0.13
132 107 0.73
133 19 0.13
134 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (132 bp):
ATAGCAGATCTTGCCTCCCTGCACCGATAGCGAAGTAGATCGAAGACGTCAGTCCTATCTCCCTG
GTCAGCAGTGGAATAGATTAAAGATCGTGAACCCTATCTCCCTGGTCAGCAGTGGAATAGGGTGA
AA
Found at i:32217937 original size:20 final size:21
Alignment explanation
Indices: 32217905--32217947 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
32217895 ATCTTCGAGG
32217905 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
32217926 ATATGC-ATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
32217946 AT
1 AT
32217948 GTAATCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:32217956 original size:19 final size:19
Alignment explanation
Indices: 32217904--32217958 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
32217894 AATCTTCGAG
*
32217904 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
32217923 GATATATGCATCTTAGATAT
1 GATATGT-AATCTTAGATAT
32217943 GATATGTAATCTTAGA
1 GATATGTAATCTTAGA
32217959 AGATGTGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:32220094 original size:42 final size:42
Alignment explanation
Indices: 32220020--32220099 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
32220010 ATGAAACAAT
* *
32220020 TATACTGGCACATAAGTGTACCATCAGATAAACCAAAGCAAA
1 TATACTAGCACATAAGTGAACCATCAGATAAACCAAAGCAAA
*
32220062 TATACTAGCACATAAGTGAATCATC-GACTAAACCAAAG
1 TATACTAGCACATAAGTGAACCATCAGA-TAAACCAAAG
32220100 TATAGGCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (42 bp):
TATACTAGCACATAAGTGAACCATCAGATAAACCAAAGCAAA
Found at i:32221623 original size:14 final size:15
Alignment explanation
Indices: 32221598--32221626 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32221588 TTATTTTGTG
32221598 TTTACTATGTGTGAA
1 TTTACTATGTGTGAA
32221613 TTTAC-ATGTGTGAA
1 TTTACTATGTGTGAA
32221627 AGTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (15 bp):
TTTACTATGTGTGAA
Found at i:32222832 original size:43 final size:43
Alignment explanation
Indices: 32222771--32222894 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
32222761 ATTTTCGATA
*
32222771 TGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCATCAA-C
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATC
*
32222813 TTGTGTTTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATC
1 -TGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATC
** * *
32222857 TGTAATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
32222895 TGTACAAGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.03
43 65 0.93
44 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATC
Found at i:32231233 original size:45 final size:45
Alignment explanation
Indices: 32231177--32231271 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
32231167 TACTATGTGA
*
32231177 ACCGAACATCATTGATTAGTAAGCTGGTTGCTATGTGCTGATCAC
1 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGATCAC
* * * *
32231222 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAACCC
1 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGATCAC
32231267 ACCGA
1 ACCGA
32231272 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGATCAC
Found at i:32233948 original size:29 final size:29
Alignment explanation
Indices: 32233905--32233960 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32233895 ATTTAAAAAA
* * *
32233905 AATTATATACGAAAATGGTATGTCAGCCC
1 AATTATATACCAAAATAGTATGCCAGCCC
*
32233934 AATTATGTACCAAAATAGTATGCCAGC
1 AATTATATACCAAAATAGTATGCCAGC
32233961 TGCAGTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (29 bp):
AATTATATACCAAAATAGTATGCCAGCCC
Found at i:32234666 original size:104 final size:105
Alignment explanation
Indices: 32234477--32234856 Score: 490
Period size: 104 Copynumber: 3.6 Consensus size: 105
32234467 TTACTAATTA
* * *
32234477 TTATAAATTATTTCTGTTTAGTTTA--GTTT-TTGTAATTTTTTTATGAATGTAA-TTTTTTTTA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGA-TTTTTTATGAATGTAATTTTTTTTTA
* *
32234538 -AATTATTTTAAAGTTATTTTGTTAGTAATTTCTGATTAGG
65 TTATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* *
32234578 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTATTATTAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTTAT
32234643 TATTATTTT-AAGTTATTTTGTTAGTAATTTATGATTAGG
66 TATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
*
32234682 TTATAAATTGTTTGTGCTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTTTG
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAA----TTTTTT-
* *
32234747 TTTTTTAAATTATTTTAAAGTTATTTTTTTAGTAATTTATGATTAGG
61 TTTATT--ATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * * * *
32234794 TTATAAATT-ATT-TGTTTAGTTTAATGTGTATTTTGATTTATTATG-ATGTAATTTTTTTTTAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTTAT
32234856 T
66 T
32234857 TCTTTGACAT
Statistics
Matches: 247, Mismatches: 19, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
101 23 0.09
103 20 0.08
104 99 0.40
105 14 0.06
108 5 0.02
109 10 0.04
110 28 0.11
111 10 0.04
112 38 0.15
ACGTcount: A:0.26, C:0.01, G:0.13, T:0.60
Consensus pattern (105 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTTAT
TATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:32236920 original size:6 final size:6
Alignment explanation
Indices: 32236909--32236954 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
32236899 TCCTGCACCC
32236909 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGC
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGC
32236955 TAAAGCTACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.33, C:0.33, G:0.35, T:0.00
Consensus pattern (6 bp):
GAGCCA
Found at i:32237483 original size:48 final size:48
Alignment explanation
Indices: 32237422--32237530 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 48
32237412 CTTTATATTT
* ** *
32237422 ATTT-AATTGAGATTTATTACAACATTAAAACTTGGAACAAATTTTGTA
1 ATTTAAATT-AGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
*
32237470 ATTTAAATTAGATTAATTGCAACATTAAAACAAGGAACAAAATTTGTA
1 ATTTAAATTAGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
*
32237518 ATATAAATTAGAT
1 ATTTAAATTAGAT
32237531 ACATTGGAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 50 0.93
49 4 0.07
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (48 bp):
ATTTAAATTAGATTAATTACAACATTAAAACAAGGAACAAAATTTGTA
Found at i:32241266 original size:23 final size:24
Alignment explanation
Indices: 32241208--32241266 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 24
32241198 AAATCTTATC
* *
32241208 CTTCTTTTTCTTC-TCCTCTCTTT
1 CTTCCTTTTCTTCTTCCTCTCTAT
* *
32241231 ATTTCTTTT-TTCTTCCTCTC-AT
1 CTTCCTTTTCTTCTTCCTCTCTAT
32241253 CTTCCTTTTCTTCT
1 CTTCCTTTTCTTCT
32241267 GCTATCTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.64
Consensus pattern (24 bp):
CTTCCTTTTCTTCTTCCTCTCTAT
Found at i:32244481 original size:32 final size:33
Alignment explanation
Indices: 32244414--32244481 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
32244404 TCTTGTTGGG
* * *
32244414 TTTGATTTTCCTTTGTGGTAGGTCTATGTCGGA
1 TTTGATTTTCCTTTGTGGTAGATCTATGCCAGA
32244447 TTTGA-TTTCCTTTGTGGTAGCATCTAT-CCAGA
1 TTTGATTTTCCTTTGTGGTAG-ATCTATGCCAGA
32244479 TTT
1 TTT
32244482 CATCAGCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (33 bp):
TTTGATTTTCCTTTGTGGTAGATCTATGCCAGA
Found at i:32246704 original size:16 final size:16
Alignment explanation
Indices: 32246683--32246716 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32246673 AGAAAATAAA
32246683 AAAATAGCACAAAGAG
1 AAAATAGCACAAAGAG
* *
32246699 AAAATAGGAGAAAGAG
1 AAAATAGCACAAAGAG
32246715 AA
1 AA
32246717 GAAAGATGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATAGCACAAAGAG
Found at i:32252479 original size:12 final size:12
Alignment explanation
Indices: 32252464--32252509 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
32252454 AAAAAAAATC
*
32252464 AAAATCAAAAAG
1 AAAAACAAAAAG
*
32252476 AAAAAGAAAAAG
1 AAAAACAAAAAG
*
32252488 AAAAAGAAAAAG
1 AAAAACAAAAAG
32252500 AAAAATCAAA
1 AAAAA-CAAA
32252510 GTCAAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 27 0.90
13 3 0.10
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (12 bp):
AAAAACAAAAAG
Found at i:32252485 original size:18 final size:19
Alignment explanation
Indices: 32252464--32252509 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
32252454 AAAAAAAATC
32252464 AAAATCAAAAAGAAAAAGA
1 AAAATCAAAAAGAAAAAGA
*
32252483 AAAA-GAAAAAGAAAAAGA
1 AAAATCAAAAAGAAAAAGA
32252501 AAAATCAAA
1 AAAATCAAA
32252510 GTCAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (19 bp):
AAAATCAAAAAGAAAAAGA
Found at i:32252522 original size:6 final size:6
Alignment explanation
Indices: 32252470--32252504 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
32252460 AATCAAAATC
32252470 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
32252505 TCAAAGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:32252538 original size:31 final size:30
Alignment explanation
Indices: 32252483--32252568 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 30
32252473 AAGAAAAAGA
32252483 AAAAGAAAAAGAAAAAGAAAAATCAAAGTC
1 AAAAGAAAAAGAAAAAGAAAAATCAAAGTC
32252513 AAAAGAAAAA-AAAGAA-AAATCAATCAAAGTC
1 AAAAGAAAAAGAAA-AAGAAA--AATCAAAGTC
*
32252544 AAAATAAAAGTATGAAAAAGAAAAA
1 AAAAGAAAA--A-GAAAAAGAAAAA
32252569 GAAAAGAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
29 6 0.13
30 12 0.26
31 18 0.38
33 3 0.06
34 2 0.04
35 6 0.13
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.09
Consensus pattern (30 bp):
AAAAGAAAAAGAAAAAGAAAAATCAAAGTC
Found at i:32255015 original size:44 final size:45
Alignment explanation
Indices: 32254957--32255148 Score: 130
Period size: 44 Copynumber: 4.3 Consensus size: 45
32254947 TTAAGATGAT
*
32254957 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGAA-AA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AAGAAGCA
* * ** **
32255001 AGTCTTATCCCCCTGAAGTCACAGT-GAGGCAGA-CCAAAGAAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAAGAAGCA
* * **
32255045 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTG-AAGCCG-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGAAGCA
* * * * * *
32255088 TAATCTTATCTCCCTGAGGTTACAATGAAGCAGACTGAGAA-TAGCA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AAGAAGCA
32255134 AATCTTA-CTTCCCTG
1 AATCTTATC-TCCCTG
32255149 GCAATGCAAT
Statistics
Matches: 114, Mismatches: 24, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
44 87 0.76
45 16 0.14
46 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGAAGCA
Found at i:32255095 original size:88 final size:88
Alignment explanation
Indices: 32254957--32255122 Score: 208
Period size: 88 Copynumber: 1.9 Consensus size: 88
32254947 TTAAGATGAT
32254957 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGAAAACAAGTCTTATCCCCCTGAAGTCA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGAAAACAAGTCTTATCCCCCTGAAGTCA
* *
32255022 CAGTGAGGCAGACCAAAGAAGCA
66 CAATGAAGCAGACCAAAGAAGCA
* * * *** * * * *
32255045 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCCGATAA-TCTTATCTCCCTGAGGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AGAAAACAAGTCTTATCCCCCTGAAGTC
32255109 ACAATGAAGCAGAC
65 ACAATGAAGCAGAC
32255123 TGAGAATAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
88 60 0.92
89 5 0.08
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (88 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGAAAACAAGTCTTATCCCCCTGAAGTCA
CAATGAAGCAGACCAAAGAAGCA
Found at i:32255313 original size:100 final size:100
Alignment explanation
Indices: 32255134--32255663 Score: 765
Period size: 100 Copynumber: 5.3 Consensus size: 100
32255124 GAGAATAGCA
** *
32255134 AATCTTACTTCCCTGGCAATGCAATGGAACAAGATTAACGCCACAACGGCGAACCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGGTGCAGTGGAAC-AGATTAACGCCACAACGGCGAACCTTGCTTCCCC
* * *
32255199 GATATTGCAGTTAAAAAGATTAAACCTACCACAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * ** * * * *
32255235 AATCGTACTTCTCAAGCGGTGCAGTGGAACAAATTAATGCCACAACGGTGAACCTTACTTCCCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
32255300 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * *
32255335 AATCTTACTTCCCTGGTGGTGCAGTGGAACAGATTAATGCCACAACGGCGAACCTTGCTTCCTCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
* *
32255400 ACATTGCAGTTAAAAAGATTAAAGCTACAACAACA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * *
32255435 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAGGCCACAATGGCGAACCTTGCTTCCTCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
32255500 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* * * *
32255535 AATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTAACGCCACAACGGTGAATCTTGCTT-CCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
* * *
32255599 AACATTGTAGTTAAAAATATTAAAGCTACAACAACG
66 -ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
*
32255635 AATCTTACTTCCCAGGCGGTGCAGTGGAA
1 AATCTTACTTCCCTGGCGGTGCAGTGGAA
32255664 GCAAGATTCA
Statistics
Matches: 385, Mismatches: 43, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
99 3 0.01
100 359 0.93
101 23 0.06
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
Found at i:32255569 original size:50 final size:50
Alignment explanation
Indices: 32255212--32255663 Score: 293
Period size: 50 Copynumber: 9.0 Consensus size: 50
32255202 ATTGCAGTTA
* * * * *
32255212 AAAAGATTAAACCTACCACAGCGAATCGTACTTCTCAAGCGGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * * * * * ** **
32255262 AACAA-ATTAATGCCACAACGGTGAACCTTACTTCCC-CGACATTGCAGTTA
1 AA-AAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTGCAGTGG
* *
32255312 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGTGGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * * * * * * ** **
32255362 AACAGATTAATGCCACAACGGCGAACCTTGCTT-CCTCGACATTGCAGTTA
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTGCAGTGG
* * *
32255412 AAAAGATTAAAGCTACAACAACAAATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * * ** * * * ** **
32255462 AACAGATTAAGGCCACAATGGCGAACCTTGCTT-CCTCGACATTGCAGTTA
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAG-CGGTGCAGTGG
*
32255512 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGTAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* * * * * * * * ** * **
32255562 AACAGATTAACGCCACAACGGTGAATCTTGCTTCCCGAACATTGTAGTTA
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
* *
32255612 AAAATATTAAAGCTACAACAACGAATCTTACTTCCC-AGGCGGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTA-GCGGTGCAGTGG
32255662 AA
1 AA
32255664 GCAAGATTCA
Statistics
Matches: 290, Mismatches: 103, Indels: 18
0.71 0.25 0.04
Matches are distributed among these distances:
49 12 0.04
50 267 0.92
51 11 0.04
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGG
Found at i:32255773 original size:50 final size:50
Alignment explanation
Indices: 32255677--32255805 Score: 125
Period size: 50 Copynumber: 2.6 Consensus size: 50
32255667 AGATTCACCG
* ** * * *
32255677 ACATTGGCGTATCTTGCAATGTCGGACATTGTAGTTAAAAATATTAAAGCC
1 ACATTGGCGTATCTTGC-TTCCCCGACATTGCAATTAAAAATATTAAAGCC
*
32255728 ACATTGGCGTATCTTGCTTCCCCGACATTGCAATTAAAAGA-ATTAAAGCT
1 ACATTGGCGTATCTTGCTTCCCCGACATTGCAATTAAAA-ATATTAAAGCC
*** * *
32255778 ACAACAGCGAATCTTGCTTCCTCGACAT
1 ACATTGGCGTATCTTGCTTCCCCGACAT
32255806 CACAGTTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 47 0.72
51 18 0.28
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (50 bp):
ACATTGGCGTATCTTGCTTCCCCGACATTGCAATTAAAAATATTAAAGCC
Found at i:32256419 original size:16 final size:16
Alignment explanation
Indices: 32256398--32256431 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32256388 AGAAAATAAA
32256398 AAAATAGGACAAAGAG
1 AAAATAGGACAAAGAG
*
32256414 AAAATAGGAGAAAGAG
1 AAAATAGGACAAAGAG
32256430 AA
1 AA
32256432 GAAAGATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.26, T:0.06
Consensus pattern (16 bp):
AAAATAGGACAAAGAG
Found at i:32261818 original size:18 final size:19
Alignment explanation
Indices: 32261785--32261821 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32261775 TGCTTATTTG
32261785 AATTATTAAATATATTTAA
1 AATTATTAAATATATTTAA
*
32261804 AATTATTAACT-TATTTAA
1 AATTATTAAATATATTTAA
32261822 CATTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTATTAAATATATTTAA
Done.