Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 158 of 349
Found at i:50999784 original size:15 final size:17
Alignment explanation
Indices: 50999764--50999796 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
50999754 ATATTATAAA
50999764 AATAGTGT-TAAA-ATG
1 AATAGTGTATAAAGATG
50999779 AATAGTGTATAAAGATG
1 AATAGTGTATAAAGATG
50999796 A
1 A
50999797 TAAAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (17 bp):
AATAGTGTATAAAGATG
Found at i:51002740 original size:26 final size:26
Alignment explanation
Indices: 51002711--51002766 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
51002701 TGATAAAAAT
51002711 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51002737 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51002763 TGAT
1 TGAT
51002767 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51004284 original size:26 final size:26
Alignment explanation
Indices: 51004255--51004307 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
51004245 TTTACAATTT
51004255 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
51004281 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
51004307 T
1 T
51004308 GCATGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:51010720 original size:2 final size:2
Alignment explanation
Indices: 51010713--51010747 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
51010703 CCTTTTACTT
*
51010713 TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51010748 ATAACTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:51011049 original size:9 final size:9
Alignment explanation
Indices: 51011037--51011061 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
51011027 AATTTGTAAT
51011037 ATAATAACA
1 ATAATAACA
51011046 ATAATAACA
1 ATAATAACA
51011055 ATAATAA
1 ATAATAA
51011062 TATATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:51014391 original size:20 final size:20
Alignment explanation
Indices: 51014366--51014403 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51014356 GTCCCTTGTA
51014366 TTTTGTAAAAATTTTCTAGG
1 TTTTGTAAAAATTTTCTAGG
*
51014386 TTTTGTAAAATTTTTCTA
1 TTTTGTAAAAATTTTCTA
51014404 AGTTATCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTGTAAAAATTTTCTAGG
Found at i:51019537 original size:45 final size:46
Alignment explanation
Indices: 51019483--51019591 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 46
51019473 TGCACACTTT
* *
51019483 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
* *
51019529 TCACATTGGCCAGTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
51019576 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
51019592 ATCTTAAGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 24 0.44
46 5 0.09
47 26 0.47
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:51019582 original size:47 final size:45
Alignment explanation
Indices: 51019483--51019587 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
51019473 TGCACACTTT
* * *
51019483 TCACAATTGGTCATTCGGCCTTATCACATATTCACTTACACATATA
1 TCAC-ATTGGCCAGTCGGCCTTATCACATATACACTTACACATATA
*
51019529 TCACATTGGCCAGTCGGCCTTATCACATATACACACTTTCACAT-TCA
1 TCACATTGGCCAGTCGGCCTTATCACATAT--ACACTTACACATAT-A
51019576 TCACATTGGCCA
1 TCACATTGGCCA
51019588 TTCGATCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
45 24 0.46
46 5 0.10
47 23 0.44
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (45 bp):
TCACATTGGCCAGTCGGCCTTATCACATATACACTTACACATATA
Found at i:51021949 original size:4 final size:4
Alignment explanation
Indices: 51021940--51021968 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
51021930 TTTTTCCTTT
51021940 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
51021969 GTCATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:51024877 original size:40 final size:41
Alignment explanation
Indices: 51024822--51025006 Score: 281
Period size: 40 Copynumber: 4.6 Consensus size: 41
51024812 CGGATGATAA
* *
51024822 CCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACAAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAATT
51024862 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAATT
*
51024902 CCGGGCTAAGTCTCGAAGGCATTTGTGCGT-GTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAATT
**
51024942 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAAT-T
51024982 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
51025007 AGCGAGTAGC
Statistics
Matches: 135, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 133 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTACTAATT
Found at i:51027602 original size:37 final size:37
Alignment explanation
Indices: 51027552--51027701 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
51027542 CTTTAGCTCA
* *
51027552 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
51027589 GACAAAATCTCCACATGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
51027626 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
51027663 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
51027700 GA
1 GA
51027702 ATATATTTCC
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:51028184 original size:47 final size:47
Alignment explanation
Indices: 51027906--51028175 Score: 468
Period size: 47 Copynumber: 5.7 Consensus size: 47
51027896 TACATATATT
* * * * *
51027906 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
51027953 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTTACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
51028000 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
51028047 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
51028094 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
51028141 TCACATTGGCCATTCGGCCTTATCACATATATGCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCA
51028176 CATTCACATC
Statistics
Matches: 212, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 212 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:51030802 original size:11 final size:11
Alignment explanation
Indices: 51030786--51030810 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51030776 AGAATACTAT
51030786 TAATGCTATGG
1 TAATGCTATGG
51030797 TAATGCTATGG
1 TAATGCTATGG
51030808 TAA
1 TAA
51030811 GGATGCAGTG
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
TAATGCTATGG
Found at i:51032015 original size:21 final size:21
Alignment explanation
Indices: 51031989--51032029 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
51031979 CAAACCACCA
51031989 AACACAGCCCTACCAGATGCT
1 AACACAGCCCTACCAGATGCT
*
51032010 AACACAGTCCTACCAGATGC
1 AACACAGCCCTACCAGATGC
51032030 AATTAAAAGT
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:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (21 bp):
AACACAGCCCTACCAGATGCT
Found at i:51034232 original size:30 final size:30
Alignment explanation
Indices: 51034198--51034254 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
51034188 ACACACGGTA
*
51034198 GTGTCGCTAGGCTGTGTGCCCCACACAACC
1 GTGTCGCCAGGCTGTGTGCCCCACACAACC
*
51034228 GTGTCGCCAGGTTGTGTGCCCCACACA
1 GTGTCGCCAGGCTGTGTGCCCCACACA
51034255 GTTGAGTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (30 bp):
GTGTCGCCAGGCTGTGTGCCCCACACAACC
Found at i:51036025 original size:29 final size:29
Alignment explanation
Indices: 51035983--51036041 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
51035973 ATCATTCAAG
51035983 AACATTCATGGCATAACCCTCACCCTTTA
1 AACATTCATGGCATAACCCTCACCCTTTA
51036012 AACATTCATGGCATAACCCTCACCCTTTA
1 AACATTCATGGCATAACCCTCACCCTTTA
51036041 A
1 A
51036042 CAATTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.34, G:0.07, T:0.27
Consensus pattern (29 bp):
AACATTCATGGCATAACCCTCACCCTTTA
Found at i:51036252 original size:37 final size:37
Alignment explanation
Indices: 51036202--51036276 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
51036192 TTAATTTTTC
51036202 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
1 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
51036239 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
1 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
51036276 T
1 T
51036277 TTTCATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.03, G:0.32, T:0.25
Consensus pattern (37 bp):
TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
Found at i:51037961 original size:43 final size:43
Alignment explanation
Indices: 51037905--51038059 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
51037895 TGCCATATCG
* * * * *
51037905 CAGATATGGTCTTACATGTTATCACATATCGATGCCATTGTCC
1 CAGACATGGTCTTACATATAATCACATAACGATGCCAATGTCC
* *
51037948 CAGACAGGGTCTTACATGA-AATCATATAACGATGCCAATG-CC
1 CAGACATGGTCTTACAT-ATAATCACATAACGATGCCAATGTCC
* * * *
51037990 CAGACATGGTCTTACACATAATCACAAAACAATGCCAATGTCT
1 CAGACATGGTCTTACATATAATCACATAACGATGCCAATGTCC
*
51038033 CAGACATGGTCTTTCATATAATCACAT
1 CAGACATGGTCTTACATATAATCACAT
51038060 CTTGATAACC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 35 0.38
43 57 0.61
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
CAGACATGGTCTTACATATAATCACATAACGATGCCAATGTCC
Found at i:51051302 original size:16 final size:18
Alignment explanation
Indices: 51051279--51051320 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
51051269 ATTTAAATAG
51051279 ATATAAATTAATAT-TTA
1 ATATAAATTAATATATTA
*
51051296 A-ATAAATTATTATATTA
1 ATATAAATTAATATATTA
51051313 ATATAAAT
1 ATATAAAT
51051321 CATATCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 5 0.23
18 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAAATTAATATATTA
Found at i:51057148 original size:26 final size:26
Alignment explanation
Indices: 51057119--51057171 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
51057109 TTTTGAAGAG
51057119 AAAGGAAAACGTGTCTTACAAGATGC
1 AAAGGAAAACGTGTCTTACAAGATGC
51057145 AAAGGAAAACGTGTCTTACAAGATGC
1 AAAGGAAAACGTGTCTTACAAGATGC
51057171 A
1 A
51057172 TTTTCACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (26 bp):
AAAGGAAAACGTGTCTTACAAGATGC
Found at i:51058351 original size:35 final size:35
Alignment explanation
Indices: 51058285--51058360 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
51058275 TATATACAAT
*
51058285 AAATATTTTTAAATTATATTCATAATAAAAT-ATCA
1 AAATATTTTCAAATTATATTCATAATAAAATAAT-A
* *
51058320 AAATATTTTACAAATTATATTTA-AATCAAATAATA
1 AAATATTTT-CAAATTATATTCATAATAAAATAATA
51058355 AAATAT
1 AAATAT
51058361 AAATTAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (35 bp):
AAATATTTTCAAATTATATTCATAATAAAATAATA
Found at i:51060924 original size:37 final size:37
Alignment explanation
Indices: 51060882--51060955 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
51060872 AGCATCGAGG
51060882 AAAAGAGCTAATTAAAACACTAACTTACTAACTTATT
1 AAAAGAGCTAATTAAAACACTAACTTACTAACTTATT
51060919 AAAAGAGCTAATTAAAACACTAACTTACTAACTTATT
1 AAAAGAGCTAATTAAAACACTAACTTACTAACTTATT
51060956 CATTAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (37 bp):
AAAAGAGCTAATTAAAACACTAACTTACTAACTTATT
Found at i:51064070 original size:22 final size:22
Alignment explanation
Indices: 51064045--51064087 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51064035 TATCCAAACA
51064045 ATAACAACAAAATAATAGTAAT
1 ATAACAACAAAATAATAGTAAT
* * *
51064067 ATAATAGCAAAATGATAGTAA
1 ATAACAACAAAATAATAGTAA
51064088 AACAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAATAATAGTAAT
Found at i:51064391 original size:20 final size:20
Alignment explanation
Indices: 51064351--51064391 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
51064341 ATTATTTCAC
*
51064351 ATATATTTTCTAGATTATTT
1 ATATATTTTCTAAATTATTT
51064371 ATATATTTTTCTAAATT-TTT
1 ATATA-TTTTCTAAATTATTT
51064391 A
1 A
51064392 ACAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
ATATATTTTCTAAATTATTT
Found at i:51066366 original size:19 final size:19
Alignment explanation
Indices: 51066344--51066384 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51066334 TTTTTACTGT
*
51066344 AAAAA-TACATTTGAATAAC
1 AAAAACTACATTT-AAGAAC
51066363 AAAAACTACATTTAAGAAC
1 AAAAACTACATTTAAGAAC
51066382 AAA
1 AAA
51066385 GTTAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAACTACATTTAAGAAC
Found at i:51067433 original size:11 final size:11
Alignment explanation
Indices: 51067417--51067450 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
51067407 TATTGCTTAA
51067417 GGGAGTAAAAG
1 GGGAGTAAAAG
51067428 GGGAGTAAAAG
1 GGGAGTAAAAG
* *
51067439 GGAAGAAAAAG
1 GGGAGTAAAAG
51067450 G
1 G
51067451 ATCCCTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (11 bp):
GGGAGTAAAAG
Found at i:51071566 original size:20 final size:20
Alignment explanation
Indices: 51071541--51071584 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
51071531 ATTACACAAA
51071541 TAAAAA-CAAAGCAAAAATAT
1 TAAAAAGCAAA-CAAAAATAT
* *
51071561 TAAAAAGCGAATAAAAATAT
1 TAAAAAGCAAACAAAAATAT
51071581 TAAA
1 TAAA
51071585 TGAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (20 bp):
TAAAAAGCAAACAAAAATAT
Found at i:51073278 original size:15 final size:14
Alignment explanation
Indices: 51073247--51073299 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
51073237 TGTTTTTCGA
*
51073247 AAAATGATTTCTAG
1 AAAATGATTTCTGG
*
51073261 AAAATAATTTCTTGG
1 AAAATGATTTC-TGG
51073276 AAAATGATTTCTGG
1 AAAATGATTTCTGG
51073290 AAAATGATTT
1 AAAATGATTT
51073300 ACTTTTTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:51073779 original size:22 final size:22
Alignment explanation
Indices: 51073754--51073842 Score: 83
Period size: 22 Copynumber: 4.0 Consensus size: 22
51073744 ATCCGAGTGC
*
51073754 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
51073776 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* * **
51073798 AGAACAACAATATT-GTCCA-AGTG
1 ATAAC--TAATATTACACCACA-TG
51073821 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
51073843 TAAAAGTATC
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
22 32 0.62
23 9 0.17
24 11 0.21
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:51074839 original size:32 final size:32
Alignment explanation
Indices: 51074793--51074853 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
51074783 TGTCAATCAT
51074793 TTCAATATTCAACAAGCTTAAAACATAATAAA
1 TTCAATATTCAACAAGCTTAAAACATAATAAA
*
51074825 TTCAATA-TCTAACAAGCTTGAAACATAAT
1 TTCAATATTC-AACAAGCTTAAAACATAAT
51074854 CAATATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (32 bp):
TTCAATATTCAACAAGCTTAAAACATAATAAA
Found at i:51075086 original size:12 final size:12
Alignment explanation
Indices: 51075069--51075093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51075059 TAGCAGACCA
51075069 TTCTCTTTCTTC
1 TTCTCTTTCTTC
51075081 TTCTCTTTCTTC
1 TTCTCTTTCTTC
51075093 T
1 T
51075094 CGCTCCGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTCTTTCTTC
Found at i:51076968 original size:22 final size:20
Alignment explanation
Indices: 51076913--51076971 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
51076903 AAAATTGTAA
*
51076913 TTTAACTATA-AAATTAAGAT
1 TTTAA-TATATAAATTAAAAT
*
51076933 TTTAATATTTTAAATTGAAAAT
1 TTTAATA-TATAAATT-AAAAT
51076955 TTGTAATATATAAATTA
1 TT-TAATATATAAATTA
51076972 TGTACAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 6 0.19
22 13 0.41
23 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTAATATATAAATTAAAAT
Found at i:51083114 original size:46 final size:46
Alignment explanation
Indices: 51083064--51083239 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51083054 TGGTTGAGCA
51083064 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51083110 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51083155 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51083203 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51083240 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51083220 original size:93 final size:93
Alignment explanation
Indices: 51083061--51083232 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51083051 GGATGGTTGA
* *
51083061 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51083126 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51083154 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51083219 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
51083233 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51088123 original size:21 final size:21
Alignment explanation
Indices: 51088097--51088148 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
51088087 GGAAAGTGAC
51088097 GAAAATGTATAATGACTTGAA
1 GAAAATGTATAATGACTTGAA
51088118 GAAAATGTATAATGACTTGAA
1 GAAAATGTATAATGACTTGAA
51088139 GAAAATGTAT
1 GAAAATGTAT
51088149 TGGTGGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (21 bp):
GAAAATGTATAATGACTTGAA
Found at i:51090699 original size:45 final size:48
Alignment explanation
Indices: 51090650--51090781 Score: 161
Period size: 46 Copynumber: 2.9 Consensus size: 48
51090640 TGGTTGAGCA
51090650 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAA-T-G
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTAG
* * *
51090695 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTAG
*
51090739 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 TC--CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
51090782 AAACGCCCGA
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
44 2 0.03
45 23 0.32
46 34 0.47
47 2 0.03
49 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (48 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTAG
Found at i:51092566 original size:15 final size:15
Alignment explanation
Indices: 51092548--51092604 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 15
51092538 TTTTTAACCT
*
51092548 TATTTTTATATTATA
1 TATTTATATATTATA
51092563 TA-TTATA-ATTAT-
1 TATTTATATATTATA
*
51092575 TATTTATATAATATA
1 TATTTATATATTATA
51092590 TATTTATATTATTAT
1 TATTTATA-TATTAT
51092605 TGTATAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 2 0.06
13 10 0.29
14 8 0.23
15 10 0.29
16 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATATATTATA
Found at i:51092574 original size:18 final size:18
Alignment explanation
Indices: 51092553--51092605 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
51092543 AACCTTATTT
51092553 TTATATTATATATTATAA
1 TTATATTATATATTATAA
*
51092571 TTATTATTTATATAATATATAT
1 TTA-TA-TTATAT-AT-TATAA
51092593 TTATATTAT-TATT
1 TTATATTATATATT
51092606 GTATAATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
17 1 0.03
18 5 0.17
19 3 0.10
20 10 0.33
21 4 0.13
22 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATATTATATATTATAA
Found at i:51092584 original size:27 final size:27
Alignment explanation
Indices: 51092547--51092610 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
51092537 TTTTTTAACC
* *
51092547 TTATTTTTATATTATATA-TTATAATTA
1 TTATTTATATAATATATATTTAT-ATTA
51092574 TTATTTATATAATATATATTTATATTA
1 TTATTTATATAATATATATTTATATTA
51092601 TTATTGTATA
1 TTATT-TATA
51092611 ATGTTTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 25 0.76
28 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTATTTATATAATATATATTTATATTA
Found at i:51092610 original size:13 final size:13
Alignment explanation
Indices: 51092552--51092610 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
51092542 TAACCTTATT
51092552 TTTATATTATATA
1 TTTATATTATATA
51092565 -TTATAATTAT-TA
1 TTTAT-ATTATATA
51092577 TTTATATAATATATA
1 TTTATAT--TATATA
51092592 TTTATATTAT-TA
1 TTTATATTATATA
51092604 TTGTATA
1 TT-TATA
51092611 ATGTTTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
12 12 0.30
13 16 0.40
14 3 0.08
15 9 0.22
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTATATTATATA
Found at i:51092689 original size:17 final size:17
Alignment explanation
Indices: 51092650--51092683 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51092640 ATACTTATAT
*
51092650 ATTATTTATATTTATTA
1 ATTATTTATATATATTA
51092667 ATTATTTATATATATTA
1 ATTATTTATATATATTA
51092684 TGTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTTATATATATTA
Found at i:51092988 original size:20 final size:22
Alignment explanation
Indices: 51092939--51092989 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
51092929 TATTCTAAAC
51092939 TTATATTTATATATATTATATAA
1 TTAT-TTTATATATATTATATAA
*
51092962 TTATTTTAT-TATTTTATA-AA
1 TTATTTTATATATATTATATAA
*
51092982 TTCTTTTA
1 TTATTTTA
51092990 CGTACTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 8 0.31
22 5 0.19
23 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTTTATATATATTATATAA
Found at i:51097940 original size:51 final size:49
Alignment explanation
Indices: 51097765--51097996 Score: 229
Period size: 49 Copynumber: 4.7 Consensus size: 49
51097755 CTGGTACGCA
* * * ** *
51097765 TAGTAGTCTACACTTAGTACTACACATGAAACCAACT-ATCCG-GTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAA-TAAT-CGAGTACACG
***
51097814 TAGTAGCCTGCACTTAGTACTACACACGTGACCTACCCATCTGA-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATAATC-GAGTACACG
* * * *
51097864 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TAATCGAGTACACG
* *
51097915 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCG-GTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATAAT-CGAGTACACG
*
51097964 TAGTAGCCTGAACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
51097997 TCACAATAGA
Statistics
Matches: 152, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 67 0.44
50 48 0.32
51 37 0.24
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCGAGTACACG
Found at i:51097984 original size:100 final size:101
Alignment explanation
Indices: 51097814--51097994 Score: 283
Period size: 100 Copynumber: 1.8 Consensus size: 101
51097804 CCGGTACATG
* * * * *
51097814 TAGTAGCCTGCACTTAGTACTACACACGTGACCTACCCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCCGATACACGTAGTAGCCTGAACTT
51097879 AGTACTACACACGTGATCAAAGTTATCGAGTACGCA
66 AGTACTACACACGTGATCAAAGTTATCGAGTACGCA
* * *
51097915 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATAATCCGGTACACGTAGTAGCCTGAACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCCGATACACGTAGTAGCCTGAACTT
51097979 AGTACTACACACGTGA
66 AGTACTACACACGTGA
51097995 CCTCACAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 41 0.57
101 31 0.43
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCCGATACACGTAGTAGCCTGAACTT
AGTACTACACACGTGATCAAAGTTATCGAGTACGCA
Found at i:51101398 original size:38 final size:38
Alignment explanation
Indices: 51101347--51101552 Score: 133
Period size: 38 Copynumber: 4.9 Consensus size: 38
51101337 TTTCAAATTA
*
51101347 ACATGTATAACCGTGGCATATCCACTTAGCACCATGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
51101385 ACATGTTTAACCGTGGTATATCCACTTATCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
51101426 GAATCGATATATGTAACCGTGGCATATCCACTAAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
51101470 GCATGTTTCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 --A-----C---ATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
51101518 ACACGTATAACCATGGTATATCCACTTAGCACCAC
1 ACATGTATAACCGTGGCATATCCACTTAGCACCAC
51101553 TTTTTTCCAT
Statistics
Matches: 133, Mismatches: 20, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
38 61 0.46
39 1 0.01
41 2 0.02
43 1 0.01
44 4 0.03
45 3 0.02
46 2 0.02
47 26 0.20
48 30 0.23
50 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:51101504 original size:48 final size:47
Alignment explanation
Indices: 51101387--51101518 Score: 165
Period size: 48 Copynumber: 2.8 Consensus size: 47
51101377 ACCATGTTAC
* * *
51101387 ATGTTTAACCGTGGTATATCCACTTATCACCACGTTAATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAAT
* * * * **
51101434 ATATGTAACCGTGGCATATCCACTAAGCACCACGTTGCATGTTTCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTT-AATGAATCAAT
*
51101482 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTA
51101519 CACGTATAAC
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
47 31 0.44
48 39 0.56
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (47 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAAT
Found at i:51104444 original size:43 final size:42
Alignment explanation
Indices: 51104279--51104447 Score: 137
Period size: 43 Copynumber: 4.0 Consensus size: 42
51104269 ATAAAGCTCG
* * *
51104279 TACAATGCCATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCATTTCCCAGACATGGTCTTACATGTAATCACAA
* * * * * * *
51104320 TATCGATG-CACTGTCCTAGATAGGGTCTTACACGGAATCA-AA
1 TA-CAATGCCA-TTTCCCAGACATGGTCTTACATGTAATCACAA
* * **
51104362 TAACAATGCCAATGTCCCAAACATGGTCTTACAAATAATCACAA
1 T-ACAATGCC-ATTTCCCAGACATGGTCTTACATGTAATCACAA
*
51104406 TACAATGCCAATTTTCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCC-ATTTCCCAGACATGGTCTTACATGTAATCACA
51104448 TCTCATTAAC
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.04
42 33 0.33
43 60 0.59
44 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (42 bp):
TACAATGCCATTTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:51120476 original size:40 final size:40
Alignment explanation
Indices: 51120393--51120654 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
51120383 TTGAATGCTG
* * * * * *
51120393 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
51120433 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
51120473 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
51120513 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
51120553 TCCGGGTTAAGTCCCGAAGGCA-TCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
51120592 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
51120631 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
51120655 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 72 0.36
40 119 0.60
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:51120678 original size:78 final size:79
Alignment explanation
Indices: 51120394--51120689 Score: 262
Period size: 80 Copynumber: 3.7 Consensus size: 79
51120384 TGAATGCTGT
* * * * * * *
51120394 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGA-ATATATCCGGATTAAGAT-CCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATCGTGC-GAG-GAGCTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
51120457 TGTGCGAGATACTAAAT
63 CGTGCGAGTTACTAAAA
* * *
51120474 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCA-TCGTGCGAG-GAGCTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
51120538 GTGCGAGTTATTAAAT
64 GTGCGAGTTACTAAAA
* ** * *
51120554 CCGGGTTAAGTCCCGAAGGCATCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GT
1 CCGGGCTAAGTCCCGAAGGCATCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
*
51120618 GTGAGTTACTAAAA
66 GCGAGTTACTAAAA
* * * *
51120632 CCGGGCTATGTCCCGAAGGCAT-TTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATCGTG--CGAGGAGCTAAATCCGGGTTAAGTCCCGAAGG
51120690 TACGTGATTT
Statistics
Matches: 185, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
77 2 0.01
78 48 0.26
79 49 0.26
80 81 0.44
81 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
GCGAGTTACTAAAA
Found at i:51128399 original size:40 final size:40
Alignment explanation
Indices: 51128316--51128577 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
51128306 TTGAATGCTG
* * * * * *
51128316 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
51128356 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
51128396 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
51128436 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
51128476 TCCGGGTTAAGTCCCGAAGGCA-TCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
51128515 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
51128554 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
51128578 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 72 0.36
40 119 0.60
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:51128601 original size:78 final size:79
Alignment explanation
Indices: 51128317--51128612 Score: 262
Period size: 80 Copynumber: 3.7 Consensus size: 79
51128307 TGAATGCTGT
* * * * * * *
51128317 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGA-ATATATCCGGATTAAGAT-CCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATCGTGC-GAG-GAGCTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
51128380 TGTGCGAGATACTAAAT
63 CGTGCGAGTTACTAAAA
* * *
51128397 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCA-TCGTGCGAG-GAGCTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
51128461 GTGCGAGTTATTAAAT
64 GTGCGAGTTACTAAAA
* ** * *
51128477 CCGGGTTAAGTCCCGAAGGCATCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GT
1 CCGGGCTAAGTCCCGAAGGCATCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
*
51128541 GTGAGTTACTAAAA
66 GCGAGTTACTAAAA
* * * *
51128555 CCGGGCTATGTCCCGAAGGCAT-TTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATCGTG--CGAGGAGCTAAATCCGGGTTAAGTCCCGAAGG
51128613 TACGTGATTT
Statistics
Matches: 185, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
77 2 0.01
78 48 0.26
79 49 0.26
80 81 0.44
81 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
GCGAGTTACTAAAA
Found at i:51133423 original size:43 final size:43
Alignment explanation
Indices: 51133313--51133592 Score: 298
Period size: 43 Copynumber: 6.6 Consensus size: 43
51133303 ATCTCAGACA
** * * *
51133313 TGGTCTTACATGTAGTCACAAATCAATGCC-ACTGTCCCAAA--
1 TGGTCTTACACATAATCACATATCGATGCCAAC-GTCCCAAACG
* *
51133354 -GGTCTTACACATTATCACATATCGATGCCAACGTCCCAAATG
1 TGGTCTTACACATAATCACATATCGATGCCAACGTCCCAAACG
* * * * *
51133396 TGGTATTAAACATAATCACATATCGATGCCAATGTCTCAGACG
1 TGGTCTTACACATAATCACATATCGATGCCAACGTCCCAAACG
* * ** * *
51133439 TGGTCTTACACATAGTCACATATCAATGCCAACGTTTCAGATG
1 TGGTCTTACACATAATCACATATCGATGCCAACGTCCCAAACG
* *
51133482 TGGTCTTACACCTAATCATATATCGATGCCAACGTCCCAAACG
1 TGGTCTTACACATAATCACATATCGATGCCAACGTCCCAAACG
* * *
51133525 TGGTCTTACACAAAATCACATATCGATGCCAACGTCCCAGACA
1 TGGTCTTACACATAATCACATATCGATGCCAACGTCCCAAACG
* *
51133568 TGGCCTTACACGTAATCACATATCG
1 TGGTCTTACACATAATCACATATCG
51133593 TTTTAACCAT
Statistics
Matches: 199, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.16
41 2 0.01
43 166 0.83
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
TGGTCTTACACATAATCACATATCGATGCCAACGTCCCAAACG
Found at i:51133542 original size:129 final size:126
Alignment explanation
Indices: 51133299--51133591 Score: 372
Period size: 129 Copynumber: 2.3 Consensus size: 126
51133289 CGTACAATGT
* * *
51133299 CAACATCTCAGACATGGTCTTACATGTAGTCACAAATCAATGCCACTGTCCCAAAGGTCTTACAC
1 CAACGTCTCAGACATGGTCTTACACGTAGTCACATATCAATGCCACTGTCCCAAAGGTCTTACAC
* * *
51133364 ATTATCACATATCGATGCCAACGTCCCAAATGTGGTATTAAACATAATCACATATCGATGC
66 ATAATCACATATCGATGCCAACGTCCCAAACGTGGTATTAAACAAAATCACATATCGATGC
* * * ** *
51133425 CAATGTCTCAGACGTGGTCTTACACATAGTCACATATCAATGCCAAC-GTTTCAGATGTGGTCTT
1 CAACGTCTCAGACATGGTCTTACACGTAGTCACATATCAATGCC-ACTGTCCCA-A--AGGTCTT
* * * *
51133489 ACACCTAATCATATATCGATGCCAACGTCCCAAACGTGGTCTTACACAAAATCACATATCGATGC
62 ACACATAATCACATATCGATGCCAACGTCCCAAACGTGGTATTAAACAAAATCACATATCGATGC
* * *
51133554 CAACGTCCCAGACATGGCCTTACACGTAATCACATATC
1 CAACGTCTCAGACATGGTCTTACACGTAGTCACATATC
51133592 GTTTTAACCA
Statistics
Matches: 141, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
126 42 0.30
127 3 0.02
129 96 0.68
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (126 bp):
CAACGTCTCAGACATGGTCTTACACGTAGTCACATATCAATGCCACTGTCCCAAAGGTCTTACAC
ATAATCACATATCGATGCCAACGTCCCAAACGTGGTATTAAACAAAATCACATATCGATGC
Found at i:51146012 original size:47 final size:47
Alignment explanation
Indices: 51145943--51146252 Score: 469
Period size: 47 Copynumber: 6.6 Consensus size: 47
51145933 GATAATTGTG
* * * *
51145943 ATGTGAATGTATACATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
51145990 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
51146037 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51146086 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51146133 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
51146180 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
51146227 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
51146253 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
46 2 0.01
47 193 0.79
48 2 0.01
49 47 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:51146013 original size:96 final size:93
Alignment explanation
Indices: 51145930--51146201 Score: 372
Period size: 96 Copynumber: 2.9 Consensus size: 93
51145920 TGAAGTATAT
* *
51145930 TTGGATAATTG-TG-ATGTGAATGTATACATATGTGATAAGGTCTAATGGCCGATGTGATGAATG
1 TTGGAT-ATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
51145993 TGAAAGTGTATATATGTGATAAGGCCTAA
65 TGAAAGTGTATATATGTGATAAGGCCTAA
* *
51146022 TGGCCGAT-GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TTG--GATATTGATGAATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
51146086 ATGTGAAAGTGTATATATGTGATAAGGCCTAA
62 ATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * * * *
51146118 TAGCCGAT-GTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 TTG--GATATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
51146182 GTGAAAGTGTATATATGTGA
64 GTGAAAGTGTATATATGTGA
51146202 CAGAGCCGAG
Statistics
Matches: 166, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
92 4 0.02
93 2 0.01
94 67 0.40
95 4 0.02
96 89 0.54
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (93 bp):
TTGGATATTGATGAATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATATGTGATAAGGCCTAA
Found at i:51146104 original size:143 final size:141
Alignment explanation
Indices: 51145943--51146252 Score: 469
Period size: 143 Copynumber: 2.2 Consensus size: 141
51145933 GATAATTGTG
* * * * *
51145943 ATGTGAATGTATACATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
*
51146008 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG-GCCTAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA-AAGAGCCGAAT
* *
51146072 GGCCGATGTGATGA
128 GGCCAACGTGATGA
51146086 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
51146151 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGAGCCGAGTGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGAGCCGAATGGC
*
51146216 CAACGTGATGG
131 CAACGTGATGA
*
51146227 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
51146253 TCCCGAAGGG
Statistics
Matches: 153, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
140 2 0.01
141 52 0.34
143 99 0.65
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGAGCCGAATGGC
CAACGTGATGA
Found at i:51149985 original size:47 final size:49
Alignment explanation
Indices: 51149918--51150181 Score: 250
Period size: 47 Copynumber: 5.6 Consensus size: 49
51149908 AGTAAGGTGT
*
51149918 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
* * *
51149965 CGATGCCATATCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
* * * * * *
51150013 TGATG-CATGTCCCAGACAT-GTTTTACACTAGCTTA-CGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
* * * * *
51150059 CGATG-CATGTCCCAGACAT-GTCTTAGACTAGCAC-TCGTCTCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
* *
51150105 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAAT-G-TGTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCGAAG-C
*
51150153 TGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
51150182 AGCACTCAAT
Statistics
Matches: 185, Mismatches: 24, Indels: 17
0.82 0.11 0.08
Matches are distributed among these distances:
46 75 0.41
47 82 0.44
48 27 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
Found at i:51155224 original size:42 final size:42
Alignment explanation
Indices: 51155178--51155304 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 42
51155168 GATACGGGAC
* *
51155178 CTCATATCGATGCCATGTCCCAGACATGGTCTTACACGAAAT
1 CTCATATCGATGCCATATCCCAGATATGGTCTTACACGAAAT
* ** * *
51155220 CTCATATCAACACCACATCCCAGATATGGTCTTACATGAAAT
1 CTCATATCGATGCCATATCCCAGATATGGTCTTACACGAAAT
*
51155262 CACATACTGAGGTCGATGCCATATCCCAGATATGGTCTTACAC
1 CTC--A-T-A--TCGATGCCATATCCCAGATATGGTCTTACAC
51155305 TCACACACAT
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 37 0.56
44 1 0.02
45 1 0.02
46 1 0.02
48 26 0.39
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (42 bp):
CTCATATCGATGCCATATCCCAGATATGGTCTTACACGAAAT
Found at i:51155314 original size:48 final size:48
Alignment explanation
Indices: 51155185--51155353 Score: 149
Period size: 48 Copynumber: 3.6 Consensus size: 48
51155175 GACCTCATAT
* * * *
51155185 CGATGCCATGTCCCAGACATGGTCTTACAC-GAAATCTCATATC-A-A
1 CGATGCCATATCCCAGATATGGTCTTACACTCAAATCACATATCAATA
* * * *
51155230 C-A--CCACATCCCAGATATGGTCTTACA-TGAAATCACATACTGAGGT-
1 CGATGCCATATCCCAGATATGGTCTTACACTCAAATCACATA-TCA-ATA
*
51155275 CGATGCCATATCCCAGATATGGTCTTACACTCACA-CACATATCAATA
1 CGATGCCATATCCCAGATATGGTCTTACACTCAAATCACATATCAATA
**
51155322 CCGATGCCATATCCCAGACGTGGTCTTACACT
1 -CGATGCCATATCCCAGATATGGTCTTACACT
51155354 GGCTCTCATA
Statistics
Matches: 100, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 31 0.31
43 1 0.01
44 1 0.01
45 2 0.02
46 2 0.02
47 2 0.02
48 58 0.58
49 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (48 bp):
CGATGCCATATCCCAGATATGGTCTTACACTCAAATCACATATCAATA
Found at i:51155364 original size:48 final size:48
Alignment explanation
Indices: 51155275--51155459 Score: 244
Period size: 48 Copynumber: 3.9 Consensus size: 48
51155265 ATACTGAGGT
* * ** * * * *
51155275 CGATGCCATATCCCAGATATGGTCTTACACTCACACACATATCAATAC
1 CGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATATCCATGC
* *
51155323 CGATGCCATATCCCAGACGTGGTCTTACACTGGCTCTCATATCCATGC
1 CGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATATCCATGC
* *
51155371 CGATCCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCCATGC
1 CGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATATCCATGC
* *
51155419 CGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATA
1 CGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATA
51155460 AATCATGGTG
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (48 bp):
CGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATATCCATGC
Found at i:51161565 original size:30 final size:30
Alignment explanation
Indices: 51161531--51161591 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51161521 TCCTTAAATC
51161531 AAACTTTGGAAAAATTACAATTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
* * * * *
51161561 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
51161591 A
1 A
51161592 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTTCCCCT
Found at i:51162855 original size:37 final size:37
Alignment explanation
Indices: 51162800--51162876 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
51162790 TAGGATTATC
*
51162800 TTTGATATGATCAAAGTTTGTACGAGCTTACTAAGCA
1 TTTGATATGATCAAAGTTTATACGAGCTTACTAAGCA
*
51162837 TTTGTTATGATCAAAGTTTATACGAGCTTACTAAGCA
1 TTTGATATGATCAAAGTTTATACGAGCTTACTAAGCA
51162874 TTT
1 TTT
51162877 ATTGCTGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (37 bp):
TTTGATATGATCAAAGTTTATACGAGCTTACTAAGCA
Found at i:51162912 original size:40 final size:40
Alignment explanation
Indices: 51162852--51162937 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
51162842 TATGATCAAA
*
51162852 GTTTATACGAGCTTACTAAGCATTTATTGCTGACGTAGTT
1 GTTTTTACGAGCTTACTAAGCATTTATTGCTGACGTAGTT
* **
51162892 GTTTTTACGAGCTTACTAAGCATTTATTTCTTTCGTAGTT
1 GTTTTTACGAGCTTACTAAGCATTTATTGCTGACGTAGTT
51162932 GTTTTT
1 GTTTTT
51162938 CCTTTACTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (40 bp):
GTTTTTACGAGCTTACTAAGCATTTATTGCTGACGTAGTT
Found at i:51167176 original size:6 final size:6
Alignment explanation
Indices: 51167156--51167193 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
51167146 AAACTAATTT
51167156 AATATAA AATAAAA AATAAA AATAAA AATAAA AATAAA
1 AATA-AA AAT-AAA AATAAA AATAAA AATAAA AATAAA
51167194 TAAAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 21 0.70
7 8 0.27
8 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:51167176 original size:12 final size:12
Alignment explanation
Indices: 51167159--51167206 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
51167149 CTAATTTAAT
51167159 ATAAAATAAAAA
1 ATAAAATAAAAA
51167171 ATAAAA-ATAAAA
1 ATAAAATA-AAAA
51167183 ATAAAAATAAATAAA
1 AT-AAAAT-AA-AAA
51167198 ATAAAATAA
1 ATAAAATAA
51167207 GATCTTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
11 1 0.03
12 12 0.39
13 6 0.19
14 6 0.19
15 6 0.19
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:51167454 original size:14 final size:14
Alignment explanation
Indices: 51167435--51167462 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51167425 TCATTACTCG
51167435 ACCTATCTTTTCTT
1 ACCTATCTTTTCTT
51167449 ACCTATCTTTTCTT
1 ACCTATCTTTTCTT
51167463 CTTGGGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (14 bp):
ACCTATCTTTTCTT
Found at i:51173486 original size:55 final size:54
Alignment explanation
Indices: 51173391--51173568 Score: 178
Period size: 54 Copynumber: 3.3 Consensus size: 54
51173381 ATATTGAGCC
* * * *
51173391 CGCACACTCAGTGCTATATAATCATCTCGCACACTTAGTGCCGCGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAATCAAAT
* * ** *
51173445 CGCACACTTAGTGCTACATAGTCAGACTCGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCGCATAATCAAAT
* ** ** *
51173500 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCGCATAATCAAAT
* *
51173554 CACACCCTTAGTGCT
1 CGCACACTTAGTGCT
51173569 GTACAATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 57 0.56
55 45 0.44
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCGCATAATCAAAT
Found at i:51173530 original size:82 final size:81
Alignment explanation
Indices: 51173417--51173567 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 81
51173407 TATAATCATC
* * * * * *
51173417 TCGCACACTTAGTGCCGCGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACTCTT
1 TCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCACACCCTT
51173482 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* * **
51173499 TCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCACACCCTTA
1 TCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACACCCTTA
51173564 GTGC
66 GTGC
51173568 TGTACAATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
81 14 0.24
82 45 0.76
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAGCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACACCCTTA
GTGCCGCATGGTCAAT
Found at i:51173541 original size:27 final size:27
Alignment explanation
Indices: 51173391--51173567 Score: 124
Period size: 27 Copynumber: 6.5 Consensus size: 27
51173381 ATATTGAGCC
* *
51173391 CGCACACTCAGTGCTAT-ATAATCATCT
1 CGCACACTTAGTGC-ATCATAATCAACT
** * *
51173418 CGCACACTTAGTGCCGCGTAATCAAAT
1 CGCACACTTAGTGCATCATAATCAACT
*
51173445 CGCACACTTAGTGC-TACATAGTCAGACT
1 CGCACACTTAGTGCAT-CATAATCA-ACT
* ** ** *
51173473 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCATCATAATCAACT
* **
51173500 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCATCATAATCAACT
* * *
51173527 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACT
* *
51173554 CACACCCTTAGTGC
1 CGCACACTTAGTGC
51173568 TGTACAATTT
Statistics
Matches: 120, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
27 98 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCATCATAATCAACT
Found at i:51181590 original size:27 final size:27
Alignment explanation
Indices: 51181560--51181736 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
51181550 ATATTGAGTC
* * * *
51181560 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
51181587 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
51181614 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
51181641 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
51181668 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
51181695 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51181722 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51181737 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 128 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:51181698 original size:81 final size:81
Alignment explanation
Indices: 51181581--51181735 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
51181571 TGCTATATAA
* * *
51181581 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
51181646 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
51181662 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
51181726 CACTTAGTGC
65 CACTTAGTGC
51181736 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:51191254 original size:12 final size:11
Alignment explanation
Indices: 51191237--51191280 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
51191227 CTAATTTAAT
51191237 ATAAAATCAAAA
1 ATAAAAT-AAAA
51191249 ATAAAATAAAA
1 ATAAAATAAAA
*
51191260 ATAAAA-ATAA
1 ATAAAATAAAA
51191270 ATAAAATAAAA
1 ATAAAATAAAA
51191281 TAGGATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.31
11 13 0.45
12 7 0.24
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:51191259 original size:17 final size:15
Alignment explanation
Indices: 51191237--51191280 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 15
51191227 CTAATTTAAT
51191237 ATAAAATCAAAAATAAA
1 ATAAAAT-AAAAAT-AA
51191254 ATAAAAATAAAAATAA
1 AT-AAAATAAAAATAA
51191270 ATAAAATAAAA
1 ATAAAATAAAA
51191281 TAGGATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.35
16 4 0.15
17 8 0.31
18 5 0.19
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAAAATAAAAATAA
Found at i:51195349 original size:12 final size:12
Alignment explanation
Indices: 51195332--51195369 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
51195322 AGAATATTCA
*
51195332 TCGTGTCAAGCG
1 TCGTGTCAAGAG
51195344 TCGTGTCAAGAG
1 TCGTGTCAAGAG
*
51195356 TCGTGTCTAGAG
1 TCGTGTCAAGAG
51195368 TC
1 TC
51195370 ATGCCCACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (12 bp):
TCGTGTCAAGAG
Found at i:51212292 original size:3 final size:3
Alignment explanation
Indices: 51212284--51212316 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
51212274 CATATACACA
51212284 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
51212317 TAAGAACAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:51217181 original size:12 final size:12
Alignment explanation
Indices: 51217166--51217256 Score: 69
Period size: 13 Copynumber: 7.2 Consensus size: 12
51217156 TATAGGGAAT
51217166 AATATATAATAAA
1 AATATATAAT-AA
51217179 ATATGATATGTAATAA
1 A-AT-ATA--TAATAA
51217195 AATATATAAATAA
1 AATATAT-AATAA
*
51217208 AATATATAATGA
1 AATATATAATAA
51217220 AATATA-AATAA
1 AATATATAATAA
* *
51217231 TATGATAAAATAA
1 AAT-ATATAATAA
*
51217244 CATATA-AATAA
1 AATATATAATAA
51217255 AA
1 AA
51217257 ATAATATATA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
11 12 0.18
12 17 0.26
13 20 0.30
14 5 0.08
15 5 0.08
16 3 0.05
17 4 0.06
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
AATATATAATAA
Found at i:51217192 original size:17 final size:17
Alignment explanation
Indices: 51217167--51217237 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
51217157 ATAGGGAATA
51217167 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
51217184 ATATGTAATAAAATAT-
1 ATATATAATAAAATATG
*
51217200 ATAAATAA-AATATATAATG
1 ATATATAATAA-A-AT-ATG
* *
51217219 AAATATAA-ATAATATG
1 ATATATAATAAAATATG
51217235 ATA
1 ATA
51217238 AAATAACATA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.05
16 12 0.28
17 19 0.44
18 3 0.07
19 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:51217241 original size:19 final size:17
Alignment explanation
Indices: 51217202--51217266 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 17
51217192 TAAAATATAT
*
51217202 AAATAAAATATATAATG
1 AAATAAAATATATAATA
*
51217219 AAATATAAATAATATGATA
1 AAATA-AAAT-ATATAATA
*
51217238 AAATAACATATA-AATA
1 AAATAAAATATATAATA
*
51217254 AAA-ATAATATATA
1 AAATAAAATATATA
51217267 CTATTTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
15 6 0.15
16 7 0.18
17 8 0.21
18 7 0.18
19 11 0.28
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAATATATAATA
Found at i:51217253 original size:24 final size:23
Alignment explanation
Indices: 51217198--51217260 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
51217188 GTAATAAAAT
*
51217198 ATATAAATAAAATATATAATGAA
1 ATATAAATAAAATATAAAATGAA
*
51217221 ATATAAATAATATGATAAAAT-AA
1 ATATAAATAAAAT-ATAAAATGAA
51217244 CATATAAATAAAA-ATAA
1 -ATATAAATAAAATATAA
51217261 TATATACTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 4 0.11
23 14 0.40
24 17 0.49
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (23 bp):
ATATAAATAAAATATAAAATGAA
Found at i:51219382 original size:33 final size:35
Alignment explanation
Indices: 51219344--51219424 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
51219334 GCCTAAGCCC
*
51219344 ATTCAGATAACAGTGATACTAGGCCAGAG-CCCTT
1 ATTCAGATAACAGTGAAACTAGGCCAGAGCCCCTT
* * * **
51219378 -TTCAGATTACA-TTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAAACTAGGCCAGAGCCCCTT
51219411 ATTCAGATAACAGT
1 ATTCAGATAACAGT
51219425 ATGGCCCATA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
32 11 0.30
33 15 0.41
34 10 0.27
35 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (35 bp):
ATTCAGATAACAGTGAAACTAGGCCAGAGCCCCTT
Found at i:51219764 original size:26 final size:26
Alignment explanation
Indices: 51219735--51219787 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
51219725 TCCAACATGC
51219735 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* * *
51219761 ATTTCGGTACTTTATCTCTTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
51219787 A
1 A
51219788 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:51221058 original size:12 final size:12
Alignment explanation
Indices: 51221041--51221135 Score: 61
Period size: 12 Copynumber: 7.9 Consensus size: 12
51221031 GCCAACTCCT
*
51221041 GCTCCTTGATCA
1 GCTCCTTAATCA
*
51221053 GCTCCTAAATC-
1 GCTCCTTAATCA
*
51221064 GTCTCCTTTATCA
1 G-CTCCTTAATCA
* *
51221077 GCTCCTAAATCC
1 GCTCCTTAATCA
*
51221089 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
*
51221101 GCTCCTAAATCA
1 GCTCCTTAATCA
*
51221113 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
*
51221125 GCTCCTAAATC
1 GCTCCTTAATC
51221136 TTCTCCTGAC
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
11 7 0.11
12 47 0.77
13 7 0.11
ACGTcount: A:0.22, C:0.37, G:0.07, T:0.34
Consensus pattern (12 bp):
GCTCCTTAATCA
Found at i:51221076 original size:24 final size:24
Alignment explanation
Indices: 51221042--51221142 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
51221032 CCAACTCCTG
* *
51221042 CTCCTTGATCAGCTCCTAAATCGT
1 CTCCTTTATCAGCTCCTAAATCAT
*
51221066 CTCCTTTATCAGCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCAT
*
51221090 CTCCCTTATCAGCTCCTAAATCAT
1 CTCCTTTATCAGCTCCTAAATCAT
* *
51221114 CTCCCTTATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCAT
51221138 CTCCT
1 CTCCT
51221143 GACAGCCTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.36
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCAT
Found at i:51221831 original size:15 final size:15
Alignment explanation
Indices: 51221811--51221841 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
51221801 ACACATGAAA
51221811 GACGTCATGGATTCT
1 GACGTCATGGATTCT
51221826 GACGTCATGGATTCT
1 GACGTCATGGATTCT
51221841 G
1 G
51221842 TCCAACTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (15 bp):
GACGTCATGGATTCT
Found at i:51227649 original size:26 final size:26
Alignment explanation
Indices: 51227620--51227672 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
51227610 TCTAACGTGC
51227620 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
51227646 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
51227672 A
1 A
51227673 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:51228961 original size:24 final size:24
Alignment explanation
Indices: 51228929--51229050 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
51228919 AACTCCTGAT
*
51228929 CCTTGATCAGCTCCTAAATCGTCTC
1 CCTT-ATCAGCTCCTAAATCCTCTC
*
51228954 CTTTATCAGCTCCTAAATCCTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
*
51228978 CCTTATCAACTCCTAAATCCTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
*
51229002 CCTTATCAGCTCCTAAATCATCTC
1 CCTTATCAGCTCCTAAATCCTCTC
* *
51229026 CCTTATCAGCGCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
51229050 C
1 C
51229051 TGACAGCCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 86 0.97
25 3 0.03
ACGTcount: A:0.22, C:0.39, G:0.06, T:0.34
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCCTCTC
Found at i:51229002 original size:12 final size:12
Alignment explanation
Indices: 51228934--51229026 Score: 55
Period size: 12 Copynumber: 7.8 Consensus size: 12
51228924 CTGATCCTTG
*
51228934 ATCAGCTCCTAA
1 ATCATCTCCTAA
* **
51228946 ATCGTCTCCTTT
1 ATCATCTCCTAA
*
51228958 ATCAGCTCCTAA
1 ATCATCTCCTAA
* *
51228970 ATCCTCTCCCT-T
1 ATCATCT-CCTAA
*
51228982 ATCAACTCCTAA
1 ATCATCTCCTAA
* *
51228994 ATCCTCTCCCT-T
1 ATCATCT-CCTAA
*
51229006 ATCAGCTCCTAA
1 ATCATCTCCTAA
51229018 ATCATCTCC
1 ATCATCTCC
51229027 CTTATCAGCG
Statistics
Matches: 56, Mismatches: 21, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 6 0.11
12 44 0.79
13 6 0.11
ACGTcount: A:0.24, C:0.39, G:0.04, T:0.33
Consensus pattern (12 bp):
ATCATCTCCTAA
Found at i:51244497 original size:55 final size:55
Alignment explanation
Indices: 51244411--51244526 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
51244401 AAACAACATA
* *
51244411 GGCGTTCGACACGCCCGTGTGAAAGAACCGTGGGT-GAACCTATTAAAATAGCACG
1 GGCGTGCGACACGCCCGTGTGAAAGAACCGT-GGTCGAACCTATTAAAATAACACG
** * * *
51244466 GGCGTGCGACACGCCCGTGT-CTAGCACCCGTGGTCGAACCTGTTAAATTAACACG
1 GGCGTGCGACACGCCCGTGTGAAAG-AACCGTGGTCGAACCTATTAAAATAACACG
51244521 GGCGTG
1 GGCGTG
51244527 GGCCTACATA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 5 0.10
55 47 0.90
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (55 bp):
GGCGTGCGACACGCCCGTGTGAAAGAACCGTGGTCGAACCTATTAAAATAACACG
Found at i:51253682 original size:18 final size:18
Alignment explanation
Indices: 51253656--51253696 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
51253646 GCGGCCACAT
*
51253656 ACCCGTAAGCCGTCGACA
1 ACCCTTAAGCCGTCGACA
51253674 ACCCTTAAGCCGTCGACA
1 ACCCTTAAGCCGTCGACA
51253692 ACCCT
1 ACCCT
51253697 ATTTTTCGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.41, G:0.17, T:0.15
Consensus pattern (18 bp):
ACCCTTAAGCCGTCGACA
Found at i:51259742 original size:30 final size:30
Alignment explanation
Indices: 51259708--51259767 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
51259698 ACTTAACAAG
*
51259708 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAACAATAACAAAATTAA
* *
51259738 CAAATGCCTTTAAAACAATAACAAAATTAA
1 CAAATACCTCTAAAACAATAACAAAATTAA
51259768 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.17, G:0.02, T:0.23
Consensus pattern (30 bp):
CAAATACCTCTAAAACAATAACAAAATTAA
Found at i:51261191 original size:13 final size:14
Alignment explanation
Indices: 51261162--51261194 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
51261152 TATAAAAAAA
*
51261162 TTTAAAATTATTTT
1 TTTAAAATTATTGT
51261176 TTTAAAA-TATTGT
1 TTTAAAATTATTGT
51261189 TTTAAA
1 TTTAAA
51261195 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAAAATTATTGT
Found at i:51271826 original size:24 final size:26
Alignment explanation
Indices: 51271783--51271836 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 26
51271773 TCATCTCTCC
51271783 TTTAATTAATTTTTTGTTTTA-TTTT
1 TTTAATTAATTTTTTGTTTTAGTTTT
* *
51271808 TTTAA-TAGTTTTTTTTTTTAGTTTT
1 TTTAATTAATTTTTTGTTTTAGTTTT
51271833 TTTA
1 TTTA
51271837 GGTTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.76
Consensus pattern (26 bp):
TTTAATTAATTTTTTGTTTTAGTTTT
Found at i:51274401 original size:17 final size:17
Alignment explanation
Indices: 51274362--51274402 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
51274352 TGATCATATT
51274362 AAAG-GAAAATATACTC
1 AAAGAGAAAATATACTC
51274378 AAA-AGAAAATATACTC
1 AAAGAGAAAATATACTC
51274394 AAAGAGAAA
1 AAAGAGAAA
51274403 TTAACTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.63, C:0.10, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAGAGAAAATATACTC
Found at i:51276983 original size:44 final size:43
Alignment explanation
Indices: 51276920--51277030 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 43
51276910 TACGGTACTA
*
51276920 ATCGGGCATTTGAGCCTAGCAGGCTATAAGGCCGGTGAAATGAT
1 ATCGGGCA-TTGAGCCTAGCAGGCTATAAGGCCGATGAAATGAT
*
51276964 ATCGGGCCATTGAGCCTAGCAGGCTATAATGCCGATGAAATGAT
1 ATCGGG-CATTGAGCCTAGCAGGCTATAAGGCCGATGAAATGAT
*
51277008 ATCGTGC-TTCGAGCCTAGCAGGC
1 ATCGGGCATT-GAGCCTAGCAGGC
51277031 GAAATGCCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
42 2 0.03
43 14 0.23
44 44 0.71
45 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (43 bp):
ATCGGGCATTGAGCCTAGCAGGCTATAAGGCCGATGAAATGAT
Found at i:51278291 original size:22 final size:24
Alignment explanation
Indices: 51278251--51278302 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
51278241 CATTATTCTT
*
51278251 CATTAAAAGGAGCTGTTAT-CATC
1 CATTAAAAGGAGCTATTATACATC
*
51278274 CATTAAAGGGAGC-ATTATACATC
1 CATTAAAAGGAGCTATTATACATC
51278297 C-TTAAA
1 CATTAAA
51278303 TTTGGTAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (24 bp):
CATTAAAAGGAGCTATTATACATC
Found at i:51282941 original size:28 final size:28
Alignment explanation
Indices: 51282909--51282978 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
51282899 AATGAGATTG
*
51282909 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
51282937 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
51282965 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51282979 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:51287355 original size:41 final size:42
Alignment explanation
Indices: 51287309--51287478 Score: 192
Period size: 42 Copynumber: 4.1 Consensus size: 42
51287299 TAAAATTTAT
*
51287309 TAGGCATAAAGCCT-AGTATAATACACCAGCA-CATAGCCTGC
1 TAGGCATAAAGCCTGA-TATAATACACCAGCATCAAAGCCTGC
51287350 TAGGCAATAAA-CCTGAGT-TAATACACC-GACAT-AAAGCCTGC
1 TAGGC-ATAAAGCCTGA-TATAATACACCAG-CATCAAAGCCTGC
* * *
51287391 TAGGCATTAAGCCTGATATCATACACCGGCATCAAAGCCTGC
1 TAGGCATAAAGCCTGATATAATACACCAGCATCAAAGCCTGC
* *
51287433 TGGGCA-ATAAGCCTGATATCATACACCAGCATCAAAGCCTGC
1 TAGGCATA-AAGCCTGATATAATACACCAGCATCAAAGCCTGC
51287475 TAGG
1 TAGG
51287479 GAATAAGCCT
Statistics
Matches: 113, Mismatches: 7, Indels: 17
0.82 0.05 0.12
Matches are distributed among these distances:
40 6 0.05
41 48 0.42
42 59 0.52
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (42 bp):
TAGGCATAAAGCCTGATATAATACACCAGCATCAAAGCCTGC
Found at i:51287444 original size:42 final size:42
Alignment explanation
Indices: 51287329--51287490 Score: 215
Period size: 42 Copynumber: 3.9 Consensus size: 42
51287319 GCCTAGTATA
* * *
51287329 ATACACCAGCA-CATAGCCTGCTAGGCAATAAACCTGAGT-TA
1 ATACACCAGCATCAAAGCCTGCTAGGCAATAAGCCTGA-TATC
*
51287370 ATACACC-GACAT-AAAGCCTGCTAGGCATTAAGCCTGATATC
1 ATACACCAG-CATCAAAGCCTGCTAGGCAATAAGCCTGATATC
* *
51287411 ATACACCGGCATCAAAGCCTGCTGGGCAATAAGCCTGATATC
1 ATACACCAGCATCAAAGCCTGCTAGGCAATAAGCCTGATATC
*
51287453 ATACACCAGCATCAAAGCCTGCTAGGGAATAAGCCTGA
1 ATACACCAGCATCAAAGCCTGCTAGGCAATAAGCCTGA
51287491 GATTATATCA
Statistics
Matches: 107, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
40 2 0.02
41 42 0.39
42 63 0.59
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (42 bp):
ATACACCAGCATCAAAGCCTGCTAGGCAATAAGCCTGATATC
Found at i:51287458 original size:83 final size:84
Alignment explanation
Indices: 51287309--51287491 Score: 223
Period size: 83 Copynumber: 2.2 Consensus size: 84
51287299 TAAAATTTAT
* *
51287309 TAGGCATAAAGCCT-AGTATAATACACCAGCACATAGCCTGCTAGGCAATAAACCTGAGTTAATA
1 TAGGCATTAAGCCTGAGTATAATACACCAGCACAAAGCCTGCTAGGCAATAAACCTGAGTTAATA
51287373 CACC-GACAT-AAAGCCTGC
66 CACCAG-CATCAAAGCCTGC
* * * * *
51287391 TAGGCATTAAGCCTGA-TATCATACACCGGCATCAAAGCCTGCTGGGCAATAAGCCTGA-TATCA
1 TAGGCATTAAGCCTGAGTATAATACACCAGCA-CAAAGCCTGCTAGGCAATAAACCTGAGT-TAA
51287454 TACACCAGCATCAAAGCCTGC
64 TACACCAGCATCAAAGCCTGC
* *
51287475 TAGGGAATAAGCCTGAG
1 TAGGCATTAAGCCTGAG
51287492 ATTATATCAA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
82 27 0.31
83 35 0.41
84 24 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (84 bp):
TAGGCATTAAGCCTGAGTATAATACACCAGCACAAAGCCTGCTAGGCAATAAACCTGAGTTAATA
CACCAGCATCAAAGCCTGC
Found at i:51288264 original size:28 final size:28
Alignment explanation
Indices: 51288202--51288258 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
51288192 AAAAACGTAA
51288202 AAATTAACAAAAACTGAGCTAGTTACAT
1 AAATTAACAAAAACTGAGCTAGTTACAT
51288230 AAATTAACAAAAA-TCGAGCTAGTTACAT
1 AAATTAACAAAAACT-GAGCTAGTTACAT
51288258 A
1 A
51288259 CCTTAATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (28 bp):
AAATTAACAAAAACTGAGCTAGTTACAT
Found at i:51295007 original size:41 final size:41
Alignment explanation
Indices: 51294944--51295085 Score: 130
Period size: 41 Copynumber: 3.5 Consensus size: 41
51294934 TAAAATTTGT
51294944 TAGGC-ATAAAGCCT-AGTATAATACACCGGCACAAAGCCTGC
1 TAGGCAATAAA-CCTGA-TATAATACACCGGCACAAAGCCTGC
* * * * *
51294985 TAGGTAATAAACTTGAGT-TAATACACCAGCATAAAGCCTAC
1 TAGGCAATAAACCTGA-TATAATACACCGGCACAAAGCCTGC
* * * *
51295026 TAGGCATTAAGCCTGATATCATACACCGACATCAAAGCCTGC
1 TAGGCAATAAACCTGATATAATACACCGGCA-CAAAGCCTGC
*
51295068 TAGGCAAT-AGCCTGATAT
1 TAGGCAATAAACCTGATAT
51295086 TATATCACTG
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 58 0.71
42 23 0.28
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (41 bp):
TAGGCAATAAACCTGATATAATACACCGGCACAAAGCCTGC
Found at i:51296579 original size:25 final size:25
Alignment explanation
Indices: 51296545--51296593 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
51296535 TACAGTCTAT
*
51296545 CTATAGTAGTCTCAATATATACTAC
1 CTATAGTAGTCTCAAGATATACTAC
* *
51296570 CTATAGTAGTTTTAAGATATACTA
1 CTATAGTAGTCTCAAGATATACTA
51296594 TCAAAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (25 bp):
CTATAGTAGTCTCAAGATATACTAC
Found at i:51305296 original size:46 final size:46
Alignment explanation
Indices: 51305132--51305301 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 46
51305122 CGCCCCTAAG
* * *** *
51305132 TGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAA
* ** * * * **
51305178 TGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGAT-ATTCGCATCCAT-AAA
* * * **
51305225 CGAAGTCGGACTCAACTCAATGAGTTCGGATATTCGCATCCATAGG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAA
51305271 TGAACTCGGACTCAACTCAACGAGTTCGGAT
1 TGAACTCGGACTCAACTCAACGAGTTCGGAT
51305302 GCTCAACCAT
Statistics
Matches: 93, Mismatches: 28, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
46 60 0.65
47 33 0.35
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAA
Found at i:51312392 original size:91 final size:92
Alignment explanation
Indices: 51312236--51312403 Score: 268
Period size: 91 Copynumber: 1.8 Consensus size: 92
51312226 GCCCCTAAGT
***
51312236 GAACTCGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
51312301 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
51312328 GAACTCGGACTCAACTCAACGAGTTC-GACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
51312391 CGAGTTCGGATGC
65 CGAGTTCGGATGC
51312404 TCAACCATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 34 0.49
92 18 0.26
93 18 0.26
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51340019 original size:40 final size:40
Alignment explanation
Indices: 51339919--51340182 Score: 272
Period size: 40 Copynumber: 6.7 Consensus size: 40
51339909 GCTCCTCGTT
* * * * *
51339919 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
51339959 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
51339998 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
51340038 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
51340078 CAAATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
51340117 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
51340158 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
51340183 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.37
40 106 0.54
41 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:51340022 original size:79 final size:80
Alignment explanation
Indices: 51339919--51340129 Score: 268
Period size: 79 Copynumber: 2.7 Consensus size: 80
51339909 GCTCCTCGTT
* * * * *
51339919 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACATAACCCGG
51339983 -ATTTAACAACTCGCA
66 AATTT-ACAACTCGCA
* * * *
51339998 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACATAACCCGG
** *
51340063 AATTTGTATCTCGCA
66 AATTTACAACTCGCA
51340078 CAAATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAATGCCTTCGG
51340130 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
79 67 0.58
80 44 0.38
81 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACATAACCCGG
AATTTACAACTCGCA
Found at i:51340142 original size:79 final size:80
Alignment explanation
Indices: 51339919--51340182 Score: 247
Period size: 79 Copynumber: 3.3 Consensus size: 80
51339909 GCTCCTCGTT
* * * * * * *
51339919 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGG-GACATAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAG-CTTAACCCG
** *
51339982 G-ATTTAACAACTCGCA
65 GAATTT-GTATCTCGCA
* *
51339998 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGG
51340063 AATTTGTATCTCGCA
66 AATTTGTATCTCGCA
* * **
51340078 CAAATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCG
* *
51340141 GATATATT-CA-CTTAGCA
65 GA-AT-TTGTATC-TCGCA
*
51340158 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
51340183 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
79 87 0.55
80 63 0.40
81 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGG
AATTTGTATCTCGCA
Found at i:51340142 original size:119 final size:121
Alignment explanation
Indices: 51339955--51340182 Score: 270
Period size: 119 Copynumber: 1.9 Consensus size: 121
51339945 TTTAGTAACT
*
51339955 CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACC
1 CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAATGCCTTCGGGACTTAACC
* * *
51340020 CGGATTTAGT-A-TCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
66 CGGATATAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGAATTTGTATCTCG
* ** * *
51340076 CACA-AATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAG
1 CACACAATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCACAAATGCCTTCGGGA-CTTAA
* * *
51340137 TCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 CCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
51340183 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
118 3 0.03
119 58 0.64
120 25 0.27
121 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (121 bp):
CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAATGCCTTCGGGACTTAACC
CGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATTTGTATCTCG
Found at i:51340191 original size:41 final size:41
Alignment explanation
Indices: 51340114--51340191 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
51340104 TTTGTATCTC
* * *
51340114 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
51340155 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
51340192 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:51347400 original size:40 final size:40
Alignment explanation
Indices: 51347300--51347563 Score: 272
Period size: 40 Copynumber: 6.7 Consensus size: 40
51347290 GCTCCTCGTT
* * * * *
51347300 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
51347340 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
51347379 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
51347419 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
51347459 CAAATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
51347498 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
51347539 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
51347564 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.37
40 106 0.54
41 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:51347403 original size:79 final size:80
Alignment explanation
Indices: 51347300--51347510 Score: 268
Period size: 79 Copynumber: 2.7 Consensus size: 80
51347290 GCTCCTCGTT
* * * * *
51347300 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACATAACCCGG
51347364 -ATTTAACAACTCGCA
66 AATTT-ACAACTCGCA
* * * *
51347379 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACATAACCCGG
** *
51347444 AATTTGTATCTCGCA
66 AATTTACAACTCGCA
51347459 CAAATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAATGCCTTCGG
51347511 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
79 67 0.58
80 44 0.38
81 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACATAACCCGG
AATTTACAACTCGCA
Found at i:51347523 original size:79 final size:80
Alignment explanation
Indices: 51347300--51347563 Score: 247
Period size: 79 Copynumber: 3.3 Consensus size: 80
51347290 GCTCCTCGTT
* * * * * * *
51347300 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGG-GACATAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAG-CTTAACCCG
** *
51347363 G-ATTTAACAACTCGCA
65 GAATTT-GTATCTCGCA
* *
51347379 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGG
51347444 AATTTGTATCTCGCA
66 AATTTGTATCTCGCA
* * **
51347459 CAAATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCG
* *
51347522 GATATATT-CA-CTTAGCA
65 GA-AT-TTGTATC-TCGCA
*
51347539 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
51347564 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
79 87 0.55
80 63 0.40
81 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGG
AATTTGTATCTCGCA
Found at i:51347523 original size:119 final size:121
Alignment explanation
Indices: 51347336--51347563 Score: 270
Period size: 119 Copynumber: 1.9 Consensus size: 121
51347326 TTTAGTAACT
*
51347336 CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACC
1 CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAATGCCTTCGGGACTTAACC
* * *
51347401 CGGATTTAGT-A-TCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
66 CGGATATAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGAATTTGTATCTCG
* ** * *
51347457 CACA-AATGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAG
1 CACACAATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCACAAATGCCTTCGGGA-CTTAA
* * *
51347518 TCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 CCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
51347564 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
118 3 0.03
119 58 0.64
120 25 0.27
121 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (121 bp):
CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAATGCCTTCGGGACTTAACC
CGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATTTGTATCTCG
Found at i:51347572 original size:41 final size:41
Alignment explanation
Indices: 51347495--51347572 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
51347485 TTTGTATCTC
* * *
51347495 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
51347536 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
51347573 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:51358770 original size:23 final size:22
Alignment explanation
Indices: 51358740--51358813 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
51358730 GAGGGACATG
51358740 GGCGTGTGCTTTATCTCCACACA
1 GGCGTGTGCTTTA-CTCCACACA
**** * *
51358763 GGCGTGTGAGGCA-T-AACACG
1 GGCGTGTGCTTTACTCCACACA
51358783 GGCGTGTGCTTTACCTCCACACA
1 GGCGTGTGCTTTA-CTCCACACA
51358806 GGCGTGTG
1 GGCGTGTG
51358814 AAGCATAACC
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
20 13 0.36
21 1 0.03
22 1 0.03
23 21 0.58
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (22 bp):
GGCGTGTGCTTTACTCCACACA
Found at i:51358801 original size:43 final size:43
Alignment explanation
Indices: 51358739--51358822 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
51358729 CGAGGGACAT
* *
51358739 GGGCGTGTGCTTTATCTCCACACAGGCGTGTGAGGCATAACAC
1 GGGCGTGTGCTTTACCTCCACACAGGCGTGTGAAGCATAACAC
51358782 GGGCGTGTGCTTTACCTCCACACAGGCGTGTGAAGCATAAC
1 GGGCGTGTGCTTTACCTCCACACAGGCGTGTGAAGCATAAC
51358823 CCTAGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (43 bp):
GGGCGTGTGCTTTACCTCCACACAGGCGTGTGAAGCATAACAC
Found at i:51359007 original size:38 final size:37
Alignment explanation
Indices: 51358956--51359032 Score: 136
Period size: 38 Copynumber: 2.1 Consensus size: 37
51358946 CGCCGGAGTC
51358956 GAACACGAGGTGTTAACAGACTTCAAACCACTGTATTT
1 GAACACGAGGTGTTAACAGACTTCAAACCACT-TATTT
*
51358994 GAACACGAGGTGTTAACAGACTTCAGACCACTTATTT
1 GAACACGAGGTGTTAACAGACTTCAAACCACTTATTT
51359031 GA
1 GA
51359033 CATTTCCCAG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 7 0.18
38 31 0.82
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (37 bp):
GAACACGAGGTGTTAACAGACTTCAAACCACTTATTT
Found at i:51360517 original size:27 final size:26
Alignment explanation
Indices: 51360500--51360569 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
51360490 ATATTAAGTC
51360500 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
51360527 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
51360555 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
51360570 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:51360563 original size:28 final size:28
Alignment explanation
Indices: 51360500--51360594 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
51360490 ATATTAAGTC
*
51360500 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51360527 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51360555 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51360584 CGCACACTTAG
1 CGCACACTTAG
51360595 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51368852 original size:28 final size:28
Alignment explanation
Indices: 51368789--51368939 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
51368779 ATATTAAGTC
*
51368789 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51368816 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
51368844 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
51368872 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51368900 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51368929 CGCACACTTAG
1 CGCACACTTAG
51368940 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.