Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold223
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: 4172444
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 17292 characters in sequence are not A, C, G, or T
File 24 of 26
Found at i:3830897 original size:108 final size:108
Alignment explanation
Indices: 3830772--3830984 Score: 304
Period size: 108 Copynumber: 2.0 Consensus size: 108
3830762 CAGCATCAAT
* * * * * *
3830772 TTTTCACCATCGGGGATACTCCAACTCC-GTT-ATTTCTAAGGGGATTCTCCAACCCTAATTTTA
1 TTTTCACCATCGAGGATACCCCAAC-CCTATTGATTTCGAA-GGGATACTCCAACCATAATTTTA
* *
3830835 TTTTCAAAATATCGACTTTTCACCATCGGGGATGCTCCAACCGTA
64 TTTTCAAAATATCAACTTTTCACCATCGGGGATACTCCAACCGTA
* *
3830880 TTTTCACCATCGAGGATACCCCAACCCTATTGTTTTCGAAGGGATACTCTAACCATAATTTTATT
1 TTTTCACCATCGAGGATACCCCAACCCTATTGATTTCGAAGGGATACTCCAACCATAATTTTATT
3830945 TTCAAAATATCAACTTTTCACCATCGGGGATACTCCAACC
66 TTCAAAATATCAACTTTTCACCATCGGGGATACTCCAACC
3830985 CCATTTGTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 2 0.02
108 85 0.91
109 6 0.06
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (108 bp):
TTTTCACCATCGAGGATACCCCAACCCTATTGATTTCGAAGGGATACTCCAACCATAATTTTATT
TTCAAAATATCAACTTTTCACCATCGGGGATACTCCAACCGTA
Found at i:3830975 original size:51 final size:50
Alignment explanation
Indices: 3830920--3831034 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 50
3830910 TGTTTTCGAA
*
3830920 GGGATACTCTAACCATAATTT-TATTTTCAAAATATCAACTT-TTCACCATCG
1 GGGATACTCTAACC-CAATTTGTATTTTCAAAATATCAA-TTATTCACCAT-G
* * *
3830971 GGGATACTCCAACCCCATTTGTATTTTCAAAATATCAATTATTCACCATT
1 GGGATACTCTAACCCAATTTGTATTTTCAAAATATCAATTATTCACCATG
*
3831021 AGGATACTCTAACC
1 GGGATACTCTAACC
3831035 TCGTTGTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 18 0.32
51 38 0.68
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (50 bp):
GGGATACTCTAACCCAATTTGTATTTTCAAAATATCAATTATTCACCATG
Found at i:3832674 original size:34 final size:34
Alignment explanation
Indices: 3832635--3832766 Score: 219
Period size: 34 Copynumber: 3.9 Consensus size: 34
3832625 AAATATCTTG
* * *
3832635 CTCACCTAACATATTACCTAACACACCTAACATT
1 CTCACCAAATATATCACCTAACACACCTAACATT
*
3832669 CTCACCAAATACATCACCTAACACACCTAACATT
1 CTCACCAAATATATCACCTAACACACCTAACATT
*
3832703 CTCATCAAATATATCACCTAACACACCTAACATT
1 CTCACCAAATATATCACCTAACACACCTAACATT
3832737 CTCACCAAATATATCACCTAACACACCTAA
1 CTCACCAAATATATCACCTAACACACCTAA
3832767 TATGCTTCAC
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 91 1.00
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (34 bp):
CTCACCAAATATATCACCTAACACACCTAACATT
Found at i:3832768 original size:21 final size:22
Alignment explanation
Indices: 3832739--3832785 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
3832729 CTAACATTCT
3832739 CACCAAATAT-ATCACCTAACA
1 CACCAAATATCATCACCTAACA
* *
3832760 CACCTAATATGCTTCACCTAACA
1 CACCAAATAT-CATCACCTAACA
3832783 CAC
1 CAC
3832786 TTAACAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
23 13 0.59
ACGTcount: A:0.40, C:0.36, G:0.02, T:0.21
Consensus pattern (22 bp):
CACCAAATATCATCACCTAACA
Found at i:3833131 original size:43 final size:42
Alignment explanation
Indices: 3833084--3833167 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
3833074 CGATAGATCA
* *
3833084 TTTTATTATTTAAAAATAT-TAAAAAATTATTTTATATTAATAT
1 TTTTA-TAATTAAAAATATATAAAAAAATATTTT-TATTAATAT
**
3833127 TTTTATAATTAAATTTATATAAAAAAATATTTTTATTAATA
1 TTTTATAATTAAAAATATATAAAAAAATATTTTTATTAATA
3833168 ATTAATAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 18 0.50
43 18 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (42 bp):
TTTTATAATTAAAAATATATAAAAAAATATTTTTATTAATAT
Found at i:3833702 original size:27 final size:27
Alignment explanation
Indices: 3833664--3833724 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
3833654 AATATCTGCT
*
3833664 TGGCGGATGCATCCGCCAGTGCTCTAG
1 TGGCTGATGCATCCGCCAGTGCTCTAG
3833691 TGGCTGATGCATCCGCCAGTGCTCTAG
1 TGGCTGATGCATCCGCCAGTGCTCTAG
3833718 TGGCTGA
1 TGGCTGA
3833725 GGCTGACAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.15, C:0.28, G:0.33, T:0.25
Consensus pattern (27 bp):
TGGCTGATGCATCCGCCAGTGCTCTAG
Found at i:3835149 original size:16 final size:16
Alignment explanation
Indices: 3835102--3835153 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
3835092 TAAATATAAT
* *
3835102 TTTTTATATATTAATA
1 TTTTGATATATTTATA
* * * *
3835118 ATTTGTTTTATGTATA
1 TTTTGATATATTTATA
3835134 TTTTGATATATTTATA
1 TTTTGATATATTTATA
3835150 TTTT
1 TTTT
3835154 TTTGTATTTA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTGATATATTTATA
Found at i:3835199 original size:36 final size:36
Alignment explanation
Indices: 3835159--3835229 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
3835149 ATTTTTTTGT
*
3835159 ATTTATGTTATTTTTAT-ATTATTT-TTTTAATTTTAG
1 ATTTAAGTT-TTTTTATAATT-TTTATTTTAATTTTAG
*
3835195 ATTTAAGTTTTTTTATAATTTTTATTTTATTTTTA
1 ATTTAAGTTTTTTTATAATTTTTATTTTAATTTTA
3835230 AATAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 10 0.32
36 21 0.68
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.70
Consensus pattern (36 bp):
ATTTAAGTTTTTTTATAATTTTTATTTTAATTTTAG
Found at i:3836332 original size:20 final size:19
Alignment explanation
Indices: 3836295--3836333 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
3836285 GAAAAAATAA
3836295 TAAAACTTTATTTTAATTT
1 TAAAACTTTATTTTAATTT
3836314 TAAAA-TTTATATCTTAATTT
1 TAAAACTTTAT-T-TTAATTT
3836334 CGACCTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAAACTTTATTTTAATTT
Found at i:3836923 original size:29 final size:29
Alignment explanation
Indices: 3836891--3836961 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
3836881 TTTTTTAGTA
* **
3836891 TAAACATAATTTTTAGTTATTATTTAACG
1 TAAATATAATTTTTAGTTATTATGGAACG
* * *
3836920 TAAATATAATTTATATTTATTATGGAATG
1 TAAATATAATTTTTAGTTATTATGGAACG
3836949 TAAATATAATTTT
1 TAAATATAATTTT
3836962 AATTATATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (29 bp):
TAAATATAATTTTTAGTTATTATGGAACG
Found at i:3837463 original size:2 final size:2
Alignment explanation
Indices: 3837456--3837506 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
3837446 TCTCATATTT
* *
3837456 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3837498 TA TA TA TA T
1 TA TA TA TA T
3837507 GTTGAAGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3843361 original size:119 final size:120
Alignment explanation
Indices: 3843137--3843362 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
3843127 AAAGTCAATT
* * *
3843137 TGGTCGAACCTACCTTTACTCTTCCTAAATTTTTTCCCAAATAAATGGAAGGAAACAAAGTTGAC
1 TGGTCGAACCTACCTTTACTCCTCCTAAATTTTTT-CCAAATAAATGAAAGAAAACAAAGTTGAC
* * * *
3843202 ATATGTGGAACTAAAAGACCCTTAATATAATCTTTAAAATTTATTATAAATTAACC
65 ACATGTGGAACTAAAAAACCCTTAATACAATCCTTAAAATTTATTATAAATTAACC
* * *
3843258 TGGTCGAACTTACCTTTACTCCTCTTAAATTCTTTT-C-AATAAATGAAAGAAAATAAAGTTGAC
1 TGGTCGAACCTACCTTTACTCCTCCTAAATT-TTTTCCAAATAAATGAAAGAAAACAAAGTTGAC
* *
3843321 ACATTTGG-ACTAAAAAAAACCCTTAATCCAA-CCTTAAAATTT
65 ACATGTGGAACT--AAAAAACCCTTAATACAATCCTTAAAATTT
3843363 TATAATACCT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 39 0.43
120 16 0.18
121 28 0.31
122 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (120 bp):
TGGTCGAACCTACCTTTACTCCTCCTAAATTTTTTCCAAATAAATGAAAGAAAACAAAGTTGACA
CATGTGGAACTAAAAAACCCTTAATACAATCCTTAAAATTTATTATAAATTAACC
Found at i:3846445 original size:37 final size:38
Alignment explanation
Indices: 3846403--3846481 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
3846393 TCAATAGTTG
* * *
3846403 TTTTT-CAGGTTTAAGCTTTGGTTTCAAATCAATAACT
1 TTTTTCCAAGTTTAAGCTCTAGTTTCAAATCAATAACT
3846440 TTTTTCCAAGTTTAAGCTCTAGTTTCAAATCAATAACT
1 TTTTTCCAAGTTTAAGCTCTAGTTTCAAATCAATAACT
3846478 TTTT
1 TTTT
3846482 AAGCTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 5 0.13
38 33 0.87
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (38 bp):
TTTTTCCAAGTTTAAGCTCTAGTTTCAAATCAATAACT
Found at i:3848140 original size:785 final size:769
Alignment explanation
Indices: 3846610--3848693 Score: 2063
Period size: 783 Copynumber: 2.6 Consensus size: 769
3846600 ATCAGTAAAA
* * * * *
3846610 TTAATCTTTAAGTTCTAACTCCTTTAGTTATTTGAATATATAGTTTTGACATTATTTTGAGCAAA
1 TTAAGCTTTAAGTTCTAACTTCTTTAGTCATTTGAATATGTAGTTTTGACATTATTTTAAGCAAA
* * * * * * * *
3846675 TTAGAAGATAGCAAGAAAAACTTAAAAAGTGTAATCTTGGCATATAATTATATAATAATATTTAT
66 TTAAAAGATAACCACAAAAA-TTAAAAAGTGTAGT-TTTGCATA-AATTATATAATCATATTTGT
* * * *
3846740 AAATGATTACCATATTTTTATTTTGTTTAAAAACAATATGGGTCACTTATCACTTTATGTAATTT
128 AAATGATTACCATATTTTTATTTTGTTTAAAAACAATATGGCTTAC-TATCAATTTAT-AAATTT
* * * * * * * * *
3846805 TGATTTGATTAAGATTCAACCAAGGAATTCAGATGTATAAGTAACCCTATCCATTCCTTTATAAT
191 TAATTTGA-TAAGGTTCAACCAAAGAATTCAAAAGTATAGGTAACCCTATTCATCCCTTCATAAT
* * * *
3846870 TTATGACAATGCTACT-TCAAACAAGGAATTGAAAGGCATAAAGTTGTTATACACTATTTTAATA
255 TTATGACAATGATGCTCT-AAATAAGGAATTGAAAGG--T--A-TT-TTCTACACTATTTTAA-A
* ** *
3846934 -GATA-CAGAAGTAAAAAAAAAATTAATTCAAAGGTGAAAATGCTCTTACCAGATTAATTAAATT
312 GGATATGA-AAGT--AAAAAAAA-TAATTCAAAGGTGAAAATGCTCCCACCAAATTAATTAAATT
* * * * * * * * *
3846997 CCATATATAATGAGTTAAATGAAAAATAATATTTAGTATAAAGTTCAAAAAAACGATTTAAAATA
373 CAACATATAATGA-TTGAATGAAAAGT-AGATTTAGTATTAAGTTC-AAACAATGGTTTAAAATA
* *
3847062 GAAAAATTAGTTGCTGCATGTATTTTCTTACTCAATATGTAAATTCAAACTCCTTTCTTAAATAT
435 G-AAAATTAGTAGGTGCATGTATTTTCTTACTCAATATGTAAATTCAAA-TCCTTTCTTAAATAT
* * *
3847127 ATTTGTTCAATGATCGTGGTATCAATTCAATTTAATAAGTTCAACTTGAAGGGAAAAAATCATCA
498 ATTTGTTCAAAGATCGTCGTATCAATTCAATTTAATAAGTTCAACTTGAAGGAAAAAAATCATCA
*
3847192 CCATAAGTTAGGTTTAAGTCAATGGCTTTCAAACCAATAGCTAATTTTTGAATCTAAGCTTCAAG
563 CCATAAGTTAGGTTTAAGTCAATGGCTTTCAAACCAATAGCTAATTTTTCAATCTAAGCTTCAAG
* * * * *
3847257 TTCAAGTCAATAGCTTTTTATAACTCCTTTAGTTTTTTTTATACAAAAGAAGCTTCAATCAGAGA
628 CTCAAGTCAATAGCTTTATACAACTCCATTAGTTTTTTTTATACAAAAAAAGCTTCAATCAGAGA
* ** * *
3847322 ATGAGAGAAAAGATTATAGATTCTATAATTTGAA-TCTTAAACTTGTTAAATACGATATTTTAAA
693 ATGAGAGAAAAGATTATAAATTCTATAATTTGAATTCCAAAAC-TATTAAATACGATATCTT-AA
*
3847386 GATGTTACATGAAT-TAATAGAG
756 G--G----AT--ATCT-ACAGAG
* * * *
3847408 TTAAGCTTCAAGTTCTAACTTTTTTAATCATTTGAATATGTAGTTTTGGCATTATTTTAAGCAAA
1 TTAAGCTTTAAGTTCTAACTTCTTTAGTCATTTGAATATGTAGTTTTGACATTATTTTAAGCAAA
* ** * **
3847473 TTAAAAGATAATCACAAAAATTTGTAAAGTGTAGTTTTCGCATAAACTTATATTATCACGTTTGT
66 TTAAAAGATAACCACAAAAA-TTAAAAAGTGTAGTTTT-GCATAAA-TTATATAATCATATTTGT
* * *
3847538 AAATGATTACCATATTTTTATTTTGTTTAAAAACAATATTGCTTACTGAACATTTTATACAATTT
128 AAATGATTACCATATTTTTATTTTGTTTAAAAACAATATGGCTTACT-ATCAATTTATA-AATTT
* *
3847603 TAATTCGATAAGGTTCAATCAAAGAATTCAAAAGTATAGGTAACCCTATTCATCCCTTCATAATT
191 TAATTTGATAAGGTTCAACCAAAGAATTCAAAAGTATAGGTAACCCTATTCATCCCTTCATAATT
* * *
3847668 TATGACAATGTTGCTCTAAATAAGGAATTGGAAGGT-TTTCTCCACACT-TTTTGAAAGGATATG
256 TATGACAATGATGCTCTAAATAAGGAATTGAAAGGTATTT-TCTACACTATTTT-AAAGGATATG
* * *
3847731 AAAGTAAAAAAACT-A-TCAAAGGTGAAAATGCTCCCACCAAATTACTTAAACTCAACATATAAT
319 AAAGTAAAAAAAATAATTCAAAGGTGAAAATGCTCCCACCAAATTAATTAAATTCAACATATAAT
*
3847794 GGATTGAATGAAAAGTAGCATTTAGTATTAAGTTCAAACAATGGTTTAAAATAGAAATATTAGTC
384 -GATTGAATGAAAAGTAG-ATTTAGTATTAAGTTCAAACAATGGTTTAAAATAGAAA-ATTAGTA
* *
3847859 GGTGCATGTATGTTCTCACTCAATATGTAAATTCAAATCCTTTCCTTAAATAT-TATTGTTCAAA
446 GGTGCATGTATTTTCTTACTCAATATGTAAATTCAAATCCTTT-CTTAAATATAT-TTGTTCAAA
* * *
3847923 GATCG-CGTATTAGTTCAATTTAAT-AGATTCGACTTG-AGGAAAAAAATCACTCA-CATAAGTT
509 GATCGTCGTATCAATTCAATTTAATAAG-TTCAACTTGAAGGAAAAAAATCA-TCACCATAAGTT
* * * * * ***
3847984 A-TTGTTAAGTCAATGGCTTTCAAATCAATTGC-ACTTTTCTTCATATTTAAGCTTTGGGCTCAT
572 AGGT-TTAAGTCAATGGCTTTCAAACCAATAGCTA-ATTT-TTCA-ATCTAAGCTTCAAGCTCA-
* *
3848047 A-TCATTAG-TTTATACAACTCCATTAGTTTTTTTTTATACAAAAAAAGCTTCAATTTAGA-AAT
632 AGTCAATAGCTTTATACAACTCCATTAG-TTTTTTTTATACAAAAAAAGCTTCAA-TCAGAGAAT
* * *
3848109 GAGAGAAAATATTATAAATTCT-TGAATTTGAATTCCAAAACTATTGAATACTATATCTTAAGGA
695 GAGAGAAAAGATTATAAATTCTAT-AATTTGAATTCCAAAACTATTAAATACGATATCTTAAGGA
3848173 TATCTACAGAG
759 TATCTACAGAG
* * ** * * * * *
3848184 CTAGGCTTTGGGTTCTAACTTCTTTAGTCTTTTGAATATGTAGTTTTAACACTATTTTTTAGTAA
1 TTAAGCTTTAAGTTCTAACTTCTTTAGTCATTTGAATATGTAGTTTTGACATTA-TTTTAAGCAA
* * * * * * * *
3848249 ATTTAAAA-ATAACCACAAAACTCAAAAGGTATAGTCTTTACAAATAATTATATGACCATATTTG
65 A-TTAAAAGATAACCACAAAAATTAAAAAGTGTAGT-TTTGCATA-AATTATATAATCATATTTG
*
3848313 TAAATGATTACCATATTTTTATTTTGTTT-AAAACAATATGGCTTACCTATCAATTTATATATTT
127 TAAATGATTACCATATTTTTATTTTGTTTAAAAACAATATGGCTTA-CTATCAATTTATAAATTT
* * * * *
3848377 TAATTTGATAAAGGCTCAAGCAAAGAATTCAAAGGTAT-GAGTAACCCTATTCATCCTTTCACAA
191 TAATTTGAT-AAGGTTCAACCAAAGAATTCAAAAGTATAG-GTAACCCTATTCATCCCTTCATAA
* * * * * * * *
3848441 TTTATGATAGTCATGCTCCAAATAAGGAATTGAATAGCCTAAAGTTTATCTAAACTCTTTTAATG
254 TTTATGACAATGATGCTCTAAATAAGGAATTGAA-AG-GT--A-TTT-TCTACACTATTTTAAAG
* * * *
3848506 GATATGGAATTAAAAAAAATAATTTAAAGGTGAAAATGCTCCCATCAAATTAATTAAATTCAACA
313 GATATGAAAGTAAAAAAAATAATTCAAAGGTGAAAATGCTCCCACCAAATTAATTAAATTCAACA
* * *
3848571 TATAATTTATTGATTGAAAAGTAAGTTTTAGTATTAAGTTCAAACAATGGTTTAAAATAGAAAAG
378 TATAA-TGATTGAATGAAAAGT-AGATTTAGTATTAAGTTCAAACAATGGTTTAAAATAGAAAA-
* * * * *
3848636 TTAGTAAGTGCATATATTTTGTTACTTAATATGTAAATTCAAATCTTTTTCTTAAATA
440 TTAGTAGGTGCATGTATTTTCTTACTCAATATGTAAATTCAAATC-CTTTCTTAAATA
3848694 AACTTGTTTA
Statistics
Matches: 1077, Mismatches: 163, Indels: 107
0.80 0.12 0.08
Matches are distributed among these distances:
774 13 0.01
775 99 0.09
776 108 0.10
777 27 0.03
778 8 0.01
781 29 0.03
782 9 0.01
783 191 0.18
784 65 0.06
785 168 0.16
786 78 0.07
787 3 0.00
788 1 0.00
789 7 0.01
790 6 0.01
791 18 0.02
792 1 0.00
795 1 0.00
797 82 0.08
798 163 0.15
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (769 bp):
TTAAGCTTTAAGTTCTAACTTCTTTAGTCATTTGAATATGTAGTTTTGACATTATTTTAAGCAAA
TTAAAAGATAACCACAAAAATTAAAAAGTGTAGTTTTGCATAAATTATATAATCATATTTGTAAA
TGATTACCATATTTTTATTTTGTTTAAAAACAATATGGCTTACTATCAATTTATAAATTTTAATT
TGATAAGGTTCAACCAAAGAATTCAAAAGTATAGGTAACCCTATTCATCCCTTCATAATTTATGA
CAATGATGCTCTAAATAAGGAATTGAAAGGTATTTTCTACACTATTTTAAAGGATATGAAAGTAA
AAAAAATAATTCAAAGGTGAAAATGCTCCCACCAAATTAATTAAATTCAACATATAATGATTGAA
TGAAAAGTAGATTTAGTATTAAGTTCAAACAATGGTTTAAAATAGAAAATTAGTAGGTGCATGTA
TTTTCTTACTCAATATGTAAATTCAAATCCTTTCTTAAATATATTTGTTCAAAGATCGTCGTATC
AATTCAATTTAATAAGTTCAACTTGAAGGAAAAAAATCATCACCATAAGTTAGGTTTAAGTCAAT
GGCTTTCAAACCAATAGCTAATTTTTCAATCTAAGCTTCAAGCTCAAGTCAATAGCTTTATACAA
CTCCATTAGTTTTTTTTATACAAAAAAAGCTTCAATCAGAGAATGAGAGAAAAGATTATAAATTC
TATAATTTGAATTCCAAAACTATTAAATACGATATCTTAAGGATATCTACAGAG
Found at i:3850722 original size:21 final size:20
Alignment explanation
Indices: 3850688--3850726 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3850678 CACATTTTTG
*
3850688 TCTAAATGTATCGATACATT
1 TCTAAATATATCGATACATT
3850708 TCTAGAATATATCGATACA
1 TCTA-AATATATCGATACA
3850727 AGGTCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (20 bp):
TCTAAATATATCGATACATT
Found at i:3850822 original size:13 final size:13
Alignment explanation
Indices: 3850804--3850829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3850794 ACATAAGTGT
3850804 TGTATCGATACAA
1 TGTATCGATACAA
3850817 TGTATCGATACAA
1 TGTATCGATACAA
3850830 AGCTATTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3850885 original size:13 final size:13
Alignment explanation
Indices: 3850867--3850893 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3850857 CATTACTCAA
3850867 TGTATCGATACAT
1 TGTATCGATACAT
3850880 TGTATCGATACAT
1 TGTATCGATACAT
3850893 T
1 T
3850894 TGATCTCCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3857926 original size:18 final size:18
Alignment explanation
Indices: 3857890--3857943 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
3857880 ATGAAAAAGT
* * *
3857890 CAAAAGTAAACACATAAA
1 CAAAAGTAAAAAAAAAAA
3857908 CAAAAGTAAAAAAAAAAA
1 CAAAAGTAAAAAAAAAAA
*
3857926 CAAAA-CAAAAAAACAAAA
1 CAAAAGTAAAAAAA-AAAA
3857944 AACACACAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 7 0.23
18 24 0.77
ACGTcount: A:0.78, C:0.13, G:0.04, T:0.06
Consensus pattern (18 bp):
CAAAAGTAAAAAAAAAAA
Found at i:3857935 original size:13 final size:12
Alignment explanation
Indices: 3857915--3857945 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
3857905 AAACAAAAGT
3857915 AAAAAAAAAAAC
1 AAAAAAAAAAAC
3857927 AAAACAAAAAAAC
1 AAAA-AAAAAAAC
3857940 AAAAAA
1 AAAAAA
3857946 CACACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:3857952 original size:19 final size:19
Alignment explanation
Indices: 3857915--3857956 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3857905 AAACAAAAGT
3857915 AAAAAAAAAAACAAAACAA
1 AAAAAAAAAAACAAAACAA
*
3857934 AAAAACAAAAAAC-ACACAA
1 AAAAA-AAAAAACAAAACAA
3857953 AAAA
1 AAAA
3857957 GTGCAAAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAACAAAACAA
Found at i:3859294 original size:30 final size:31
Alignment explanation
Indices: 3859258--3859400 Score: 152
Period size: 31 Copynumber: 4.6 Consensus size: 31
3859248 TTTAAAGTCT
3859258 ACGACTCAGTGGCAT-TTTGTC-CCAAAGCCC
1 ACGACTCAGTGGCATCTTT-TCTCCAAAGCCC
* *
3859288 ACGACTCAGTGGCATTTTTTCTCCAAAGTCC
1 ACGACTCAGTGGCATCTTTTCTCCAAAGCCC
* *
3859319 ACAACTCAGTGGCAATCTCTTT-T-CAAAGTCC
1 ACGACTCAGTGGC-ATCT-TTTCTCCAAAGCCC
*
3859350 ACGACTCAGTGGCATCTTTTCTTCAAAGCCC
1 ACGACTCAGTGGCATCTTTTCTCCAAAGCCC
* *
3859381 ACAACTTC-GTGGCACCTTTT
1 ACGAC-TCAGTGGCATCTTTT
3859401 TCTTTTCAAA
Statistics
Matches: 99, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.03
30 22 0.22
31 65 0.66
32 6 0.06
33 3 0.03
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (31 bp):
ACGACTCAGTGGCATCTTTTCTCCAAAGCCC
Found at i:3859326 original size:31 final size:31
Alignment explanation
Indices: 3859251--3859382 Score: 153
Period size: 31 Copynumber: 4.3 Consensus size: 31
3859241 ATACCTTTTT
* *
3859251 AAAGTCTACGACTCAGTGGCATTTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
*
3859281 AAAGCCCACGACTCAGTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* *
3859312 AAAGTCCACAACTCAGTGGCAATCTCTTT-T-C
1 AAAGTCCACGACTCAGTGGC-AT-TTTTTCTCC
* *
3859343 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
*
3859374 AAAGCCCAC
1 AAAGTCCAC
3859383 AACTTCGTGG
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
29 3 0.03
30 28 0.32
31 49 0.56
32 3 0.03
33 4 0.05
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCTCC
Found at i:3859414 original size:34 final size:34
Alignment explanation
Indices: 3859311--3859712 Score: 394
Period size: 34 Copynumber: 11.8 Consensus size: 34
3859301 ATTTTTTCTC
* * *
3859311 CAAAGTCCACAACTCAGTGGCA---ATCTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
3859342 CAAAGTCCACGACTCAGTGGCATC-TTTTC--TT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
3859373 CAAAGCCCACAACTTCGTGGCACCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* **
3859407 CAAAGCCCACAACTTGGTGGCACTCTTTTTCCCTTTT
1 CAAAGTCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* *
3859444 -AAAGTCCACAACCCCGTGGCACCTTGTTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
3859477 -TAAGTCCACAACTCCGTGGCACTCCTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTT
*
3859511 TAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
3859545 CAAAGTCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CAAAGTCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
3859582 -AAAGTCCACAACCCCGTGGCACCTTTTTCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
3859615 TAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT
1 CAAAGTCCACAACTCCGTGGCAC-C-TTTTT-CTTTT
* *
3859652 --AAGTCCACAACTCCGTAGCATCTTTTTCCTTTT
1 CAAAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
* * *
3859685 CAAAAGCCCACAAGTCAGTGGCAACCTT
1 C-AAAGTCCACAACTCCGTGGC-ACCTT
3859713 CAAAAGCCCA
Statistics
Matches: 318, Mismatches: 32, Indels: 36
0.82 0.08 0.09
Matches are distributed among these distances:
31 42 0.13
32 5 0.02
33 44 0.14
34 86 0.27
35 63 0.20
36 59 0.19
37 19 0.06
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (34 bp):
CAAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:3859467 original size:70 final size:70
Alignment explanation
Indices: 3859312--3859707 Score: 472
Period size: 70 Copynumber: 5.8 Consensus size: 70
3859302 TTTTTTCTCC
* * * * * *
3859312 AAAGTCCACAACTCAGTGGCA---ATCTCTTTTCAAAGTCCACGACTCAGTGGCA-TC-TTTT--
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
3859370 C-TTC
66 CTTTT
* * **
3859374 AAAGCCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTGGTGGCACTCTTTTTCC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
3859439 CTTTT
66 CTTTT
* * * * *
3859444 AAAGTCCACAACCCCGTGGCACCTTGTTCTTTT-TAAGTCCACAACTCCGTGGCACTCCTTTT-C
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
3859507 TTTTT
66 CTTTT
*
3859512 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
3859577 CTTTT
66 CTTTT
* * *
3859582 AAAGTCCACAACCCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
3859647 CTTTT
66 CTTTT
* * * *
3859652 -AAGTCCACAACTCCGTAGCATCTTTTTCCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 AAAGTCCACAACTCCGTGGCACCTTTTT-CTTTTC-AAAGCCCACAACTCCGTGGCA
3859708 ACCTTCAAAA
Statistics
Matches: 287, Mismatches: 35, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
62 18 0.06
65 25 0.09
66 2 0.01
67 4 0.01
68 36 0.13
69 76 0.26
70 107 0.37
71 19 0.07
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (70 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
CTTTT
Found at i:3859555 original size:138 final size:138
Alignment explanation
Indices: 3859336--3859707 Score: 520
Period size: 138 Copynumber: 2.7 Consensus size: 138
3859326 AGTGGCAATC
* * * * * *
3859336 TCTTTTCAAAGTCCACGACTCAGTGGCA-T-CTTTTC-TTCAAAGCCCACAACTTCGTGGCACCT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACTCCTTTTCTTTTAAAGTCCACAACTCCGTGGCACCT
**
3859398 TTTTCTTTTCAAAGCCCACAACTTGGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGG
66 TTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGG
3859463 CACCTTGT
131 CACCTTGT
3859471 TCTTTTT-AAGTCCACAACTCCGTGGCACTCCTTTTCTTTTTAAAGTCCACAACTCCGTGGCACC
1 TCTTTTTAAAGTCCACAACTCCGTGGCACTCCTTTTC-TTTTAAAGTCCACAACTCCGTGGCACC
*
3859535 TTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTG
65 TTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTG
*
3859600 GCACCTTTT
130 GCACCTTGT
* * * *
3859609 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT-AAGTCCACAACTCCGTAGCAT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACTC-CTTTT-CTTTTAAAGTCCACAACTCCGTGGCAC
* *
3859673 CTTTTTCCTTTTCAAAAGCCCACAAGTCAGTGGCA
64 CTTTTT-CTTTTC-AAAGCCCACAACTCCGTGGCA
3859708 ACCTTCAAAA
Statistics
Matches: 211, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
134 18 0.09
135 7 0.03
136 6 0.03
138 100 0.47
139 47 0.22
140 14 0.07
141 19 0.09
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.35
Consensus pattern (138 bp):
TCTTTTTAAAGTCCACAACTCCGTGGCACTCCTTTTCTTTTAAAGTCCACAACTCCGTGGCACCT
TTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGG
CACCTTGT
Found at i:3859804 original size:49 final size:49
Alignment explanation
Indices: 3859744--3860991 Score: 1293
Period size: 49 Copynumber: 25.8 Consensus size: 49
3859734 GGCATTTTCT
* * * * *
3859744 TTTAAGCCCAATATCACTGGCTTTGAATCAGCATATTGGCACCTTTGTT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* *
3859793 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
*
3859836 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-------C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * * *
3859878 ---AAGCCCAGTATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * **
3859924 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
**
3859973 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* *
3860022 TTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG---TC
* * * *
3860074 TTTAAATCCAATGTCGTTAGCCTTGAATCAGCACATTGGCACC-TTG--
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* ***
3860120 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGATGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG---TC
*
3860169 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTG--
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* *
3860215 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG---TC
* **
3860264 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
*
3860313 TTTAAGTTCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * * *
3860356 TTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCATCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-GTC
* *
3860408 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT---C
* **
3860460 TTTAAGTCCTATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * ** *
3860509 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * * * *
3860558 TTTAAGTCCAATATCACTGGCCTTGAATCAGTATATTGGCGCATTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG---TC
*
3860610 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
*
3860659 TTT-AGTACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
1 TTTAAGT-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* **
3860708 TTT-AGTACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGT-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* **
3860757 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* *
3860806 TTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* **
3860849 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
** * * *
3860898 TTTAAGTCCTGTATCGTTGGCCTTGAATCAGCATATTGGCACCTTCGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-GTC
** * **
3860950 TTTAAAACCCAATGTCATTGGCCTTGAATCAGCACATTGGCA
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
3860992 TTCTTCTCAT
Statistics
Matches: 1034, Mismatches: 107, Indels: 112
0.83 0.09 0.09
Matches are distributed among these distances:
39 33 0.03
42 1 0.00
43 186 0.18
44 8 0.01
46 1 0.00
48 6 0.01
49 505 0.49
50 4 0.00
51 6 0.01
52 253 0.24
53 31 0.03
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
Found at i:3860165 original size:95 final size:97
Alignment explanation
Indices: 3859923--3860992 Score: 1024
Period size: 95 Copynumber: 11.0 Consensus size: 97
3859913 GCACCTTTGT
* * * *
3859923 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
*
3859985 ATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
66 GTCGCTGGCCTTGAATCAGCACATTGGCA---TCA
* * *
3860020 TCTTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAATCCAA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
* *
3860085 TGTCGTTAGCCTTGAATCAGCACATTGGCA-C-
65 TGTCGCTGGCCTTGAATCAGCACATTGGCATCA
* **
3860116 CTTGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGATGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
3860181 GTCGCTGGCCTTGAATCAGCACATTGGCA-C-
66 GTCGCTGGCCTTGAATCAGCACATTGGCATCA
*
3860211 CTTGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
3860276 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
66 GTCGCTGGCCTTGAATCAGCACATTGGCA---TCA
* * *
3860311 TCTTTAAGTTCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-CACCTTTAAGTCCAA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
* * *
3860367 TATCACTGGCCTTGAATCAGCATATTGGCGCCTTCATCA
65 TGTCGCTGGCCTTGAATCAGCACATT-G-G----CATCA
* *
3860406 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCACCTTTAAGTCCTA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
* ** **
3860471 TATCGCTGGCCTTGAATCAGCATGTTGGCACCTTTGT
65 TGTCGCTGGCCTTGAATCAGCACATTGGCA----TCA
* * * * *
3860508 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATTTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
* * * *
3860570 ATCACTGGCCTTGAATCAGTATATTGGCGCATTTGTCA
66 GTCGCTGGCCTTGAATCAGCACATT-G-GCA----TCA
* * *
3860608 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTG---TCTTT-AGTACCA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGT-CCA
**
3860669 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT
64 ATGTCGCTGGCCTTGAATCAGCACATTGGCA----TCA
* * *
3860707 CTTT-AGTACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAA
1 CTTTAAGT-CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
3860768 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
65 TGTCGCTGGCCTTGAATCAGCACATTGGCA---TCA
* *
3860804 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATT---G-----G-CACCTTTAAGTCCAA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
3860860 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
65 TGTCGCTGGCCTTGAATCAGCACATTGGCA---TCA
** * * * **
3860896 TCTTTAAGTCCTGTATCGTTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCCA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT-AAGTCCA
**
3860961 ATGTCATTGGCCTTGAATCAGCACATTGGCAT
64 ATGTCGCTGGCCTTGAATCAGCACATTGGCAT
3860993 TCTTCTCATC
Statistics
Matches: 843, Mismatches: 76, Indels: 105
0.82 0.07 0.10
Matches are distributed among these distances:
92 122 0.14
93 2 0.00
94 1 0.00
95 219 0.26
96 1 0.00
97 7 0.01
98 192 0.23
99 15 0.02
100 11 0.01
101 196 0.23
102 36 0.04
103 3 0.00
104 38 0.05
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (97 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCATCA
Found at i:3860247 original size:22 final size:22
Alignment explanation
Indices: 3860182--3860247 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
3860172 AAGTCCAATG
*
3860182 TCGCTGGCCTTGAATCAGCACA
1 TCGCTGGCCTTGAATCAGCATA
3860204 T---TGGCACCTTGAAGTC--CAATA
1 TCGCTGG--CCTTGAA-TCAGC-ATA
3860225 TCGCTGGCCTTGAATCAGCATA
1 TCGCTGGCCTTGAATCAGCATA
3860247 T
1 T
3860248 TGGCGCCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 18
0.64 0.02 0.34
Matches are distributed among these distances:
19 3 0.09
20 1 0.03
21 12 0.35
22 14 0.41
23 1 0.03
24 3 0.09
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (22 bp):
TCGCTGGCCTTGAATCAGCATA
Found at i:3860979 original size:53 final size:51
Alignment explanation
Indices: 3860856--3861088 Score: 200
Period size: 53 Copynumber: 4.5 Consensus size: 51
3860846 ACCTTTAAGT
* **
3860856 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-TCATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTAAAC
** * *
3860905 CCTGTATCGTTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAAC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTC-TCATCTTT-AAAC
* * * *
3860958 CCAATGTCATTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-CCTTCTCATCTTTAA-AC
** * ** * *
3861011 TTAATGTCGCTGATCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAAC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-CC---TTCTCATCTTTAAAC
* *
3861066 CCAATATCGTTGGCCGTGAATCA
1 CCAATGTCGTTGGCCTTGAATCA
3861089 ACGTATTGGT
Statistics
Matches: 143, Mismatches: 32, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
49 31 0.22
50 1 0.01
52 10 0.07
53 67 0.47
54 4 0.03
55 18 0.13
56 12 0.08
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (51 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTAAAC
Found at i:3861671 original size:19 final size:19
Alignment explanation
Indices: 3861647--3861774 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
3861637 CAAACAGAAA
3861647 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
3861666 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
3861680 -TGTATCGATGCATAAGTG
1 TTGTATCGATACATAAGTG
3861698 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
* *
3861712 -TATATCGATGCATAAGTG
1 TTGTATCGATACATAAGTG
3861730 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
3861744 -TGTATTGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
3861762 TTATATCGATACA
1 TTGTATCGATACA
3861775 ATGTATCGCT
Statistics
Matches: 82, Mismatches: 9, Indels: 36
0.65 0.07 0.28
Matches are distributed among these distances:
13 29 0.35
15 6 0.07
17 6 0.07
19 41 0.50
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:3861694 original size:32 final size:32
Alignment explanation
Indices: 3861648--3861787 Score: 226
Period size: 32 Copynumber: 4.4 Consensus size: 32
3861638 AAACAGAAAT
3861648 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3861680 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
3861712 TATATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
3861744 TGTATTGATACATAAGTGTTATATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3861776 TGTATCGCTACA
1 TGTATCGATACA
3861788 AAGCTACTGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 100 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3865207 original size:14 final size:13
Alignment explanation
Indices: 3865185--3865219 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
3865175 TAATGTTTAA
3865185 TAAATTTAATATT
1 TAAATTTAATATT
3865198 TAAATCTTAATATT
1 TAAAT-TTAATATT
3865212 TATAATTT
1 TA-AATTT
3865220 TTTTATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 12 0.60
15 3 0.15
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATTTAATATT
Found at i:3865216 original size:29 final size:30
Alignment explanation
Indices: 3865175--3865231 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
3865165 TATTAAAAAA
*
3865175 TAATGTTTAATAAATTTAATATTTAAATCT
1 TAATATTTAATAAATTTAATATTTAAATCT
* **
3865205 TAATATTT-ATAATTTTTTTATTTAAAT
1 TAATATTTAATAAATTTAATATTTAAAT
3865232 GTTATGTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
TAATATTTAATAAATTTAATATTTAAATCT
Found at i:3869687 original size:10 final size:9
Alignment explanation
Indices: 3869668--3869697 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
3869658 TATTTCACAA
3869668 TTTTACTTTT
1 TTTTA-TTTT
3869678 TTTTATTTT
1 TTTTATTTT
3869687 TTTTATTTT
1 TTTTATTTT
3869696 TT
1 TT
3869698 GTTCAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTATTTT
Found at i:3872006 original size:13 final size:13
Alignment explanation
Indices: 3871988--3872012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3871978 TATTTCATTT
3871988 AAATTTTTTATTG
1 AAATTTTTTATTG
3872001 AAATTTTTTATT
1 AAATTTTTTATT
3872013 AAGTAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
AAATTTTTTATTG
Found at i:3873302 original size:13 final size:13
Alignment explanation
Indices: 3873284--3873309 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3873274 CTTAGAACCA
3873284 ATATTACTTCCAT
1 ATATTACTTCCAT
3873297 ATATTACTTCCAT
1 ATATTACTTCCAT
3873310 TTTTGTCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTACTTCCAT
Found at i:3873441 original size:12 final size:12
Alignment explanation
Indices: 3873424--3873449 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3873414 GCATATATGC
3873424 TGCATTAGTTTA
1 TGCATTAGTTTA
3873436 TGCATTAGTTTA
1 TGCATTAGTTTA
3873448 TG
1 TG
3873450 TATCTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (12 bp):
TGCATTAGTTTA
Found at i:3874030 original size:2 final size:2
Alignment explanation
Indices: 3874023--3874053 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3874013 AGAAGTCAAT
3874023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3874054 TAATTATAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3874975 original size:15 final size:14
Alignment explanation
Indices: 3874950--3875020 Score: 60
Period size: 15 Copynumber: 5.1 Consensus size: 14
3874940 AATATTGACA
*
3874950 TAAATATTAATATT
1 TAAATAATAATATT
3874964 TCAAATAATAATATT
1 T-AAATAATAATATT
* *
3874979 TTAGTAATAATATT
1 TAAATAATAATATT
3874993 TAATACTAA-AATA-T
1 TAA-A-TAATAATATT
3875007 T-AAT-ATAATATT
1 TAAATAATAATATT
3875019 TA
1 TA
3875021 TTATTAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
10 1 0.02
11 5 0.11
12 3 0.07
13 1 0.02
14 16 0.35
15 17 0.37
16 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (14 bp):
TAAATAATAATATT
Found at i:3875075 original size:8 final size:8
Alignment explanation
Indices: 3875040--3875093 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
3875030 TTAATTATAC
3875040 AAATATTTA
1 AAATA-TTA
3875049 AAATATTA
1 AAATATTA
*
3875057 TAATA-T-
1 AAATATTA
*
3875063 CAATATTA
1 AAATATTA
3875071 AAATATT-
1 AAATATTA
*
3875078 AATTATTA
1 AAATATTA
3875086 AAATATTA
1 AAATATTA
3875094 GAAAACTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
6 4 0.11
7 8 0.22
8 20 0.54
9 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
AAATATTA
Found at i:3875090 original size:23 final size:23
Alignment explanation
Indices: 3875022--3875093 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
3875012 TAATATTTAT
3875022 TATT-AAA-ATTAATTATACAAA
1 TATTAAAATATTAATTATACAAA
*
3875043 TATTTAAAATATT-ATAATATC-AA
1 TA-TTAAAATATTAATTATA-CAAA
3875066 TATTAAAATATTAATTATTA-AAA
1 TATTAAAATATTAATTA-TACAAA
3875089 TATTA
1 TATTA
3875094 GAAAACTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
21 2 0.05
22 12 0.29
23 22 0.52
24 6 0.14
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTAAAATATTAATTATACAAA
Found at i:3875139 original size:15 final size:15
Alignment explanation
Indices: 3875121--3875167 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
3875111 AAACAATTAG
*
3875121 TTTTTAATATTAATA
1 TTTTTAATAATAATA
* *
3875136 TTTTAAATAGTAATA
1 TTTTTAATAATAATA
3875151 -TTTTAATAATAATA
1 TTTTTAATAATAATA
3875165 TTT
1 TTT
3875168 AATATCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TTTTTAATAATAATA
Found at i:3875141 original size:14 final size:14
Alignment explanation
Indices: 3875122--3875172 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
3875112 AACAATTAGT
3875122 TTTTAATATTAATA
1 TTTTAATATTAATA
*
3875136 TTTTAAATAGTAATA
1 TTTT-AATATTAATA
*
3875151 TTTTAATAATAATA
1 TTTTAATATTAATA
3875165 -TTTAATAT
1 TTTTAATAT
3875173 CAAAATAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.21
14 13 0.39
15 13 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TTTTAATATTAATA
Found at i:3875263 original size:19 final size:19
Alignment explanation
Indices: 3875214--3875264 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3875204 AATGATACTA
*
3875214 TTTATTATTAAAATAATATT
1 TTTATT-TTTAAATAATATT
* * *
3875234 TCTACTATTAAATAATATT
1 TTTATTTTTAAATAATATT
3875253 TTTATTTTTAAA
1 TTTATTTTTAAA
3875265 ACAAATATTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATTTTTAAATAATATT
Found at i:3876986 original size:19 final size:20
Alignment explanation
Indices: 3876941--3876992 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3876931 TTACAAGCCA
*
3876941 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
* *
3876961 ATGTATCAATACATATTGTG
1 ATGTATCGATACATATTGGG
3876981 -TGTATCGATACA
1 ATGTATCGATACA
3876993 AATTTGGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:3877076 original size:20 final size:21
Alignment explanation
Indices: 3877025--3877076 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
3877015 GCCAATGACC
**
3877025 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
* *
3877046 AGTATCTATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
3877066 TGTATCGATAC
1 TGTATCGATAC
3877077 TGTGCAATCT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:3879597 original size:14 final size:14
Alignment explanation
Indices: 3879578--3879604 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3879568 GTTTTCCAGA
3879578 TGTATCGATACATG
1 TGTATCGATACATG
3879592 TGTATCGATACAT
1 TGTATCGATACAT
3879605 TTTGGAAATT
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:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
TGTATCGATACATG
Found at i:3883447 original size:22 final size:21
Alignment explanation
Indices: 3883408--3883448 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3883398 TGCAAGTTTT
* *
3883408 TATTTTTCTTAGCTAATTCAC
1 TATTTTTATTAGCAAATTCAC
3883429 TATTTTTATTAGCCAAATTC
1 TATTTTTATTAG-CAAATTC
3883449 TTAATTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (21 bp):
TATTTTTATTAGCAAATTCAC
Found at i:3885725 original size:32 final size:33
Alignment explanation
Indices: 3885659--3885726 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
3885649 CGTTACAAGC
*
3885659 CAATGTATCGATACATTTTGGGATGTATCCATA
1 CAATGTATCGATACATATTGGGATGTATCCATA
* * *
3885692 CAATGTATCGATGCATATTGTG-TGTATCGATA
1 CAATGTATCGATACATATTGGGATGTATCCATA
3885724 CAA
1 CAA
3885727 ATTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATATTGGGATGTATCCATA
Found at i:3891643 original size:101 final size:100
Alignment explanation
Indices: 3891453--3891644 Score: 235
Period size: 102 Copynumber: 1.9 Consensus size: 100
3891443 TTTAATCCGC
* * * * *
3891453 CAATATTTAAATCACATTTTTACTTAAATAATCACGTTGGGGATACTTCAACCCCATTCTTCCGA
1 CAATATTTAAACCACATTTTTACTTAAATAATCACATCGGAGATACTTCAACCCCATACTTCCGA
*
3891518 GGGAATACTCCAACCCTGTTTTTTTAAAGAAATTAT
66 GGGAATACTCCAACCCCG-TTTTTTAAAGAAATTAT
** *
3891554 CAATATTTAAACCTTATTTTTGCTTAAATAATCATCATCGGAGATAC-TCTAACCCCATACTTCC
1 CAATATTTAAACCACATTTTTACTTAAATAATCA-CATCGGAGATACTTC-AACCCCATACTTCC
*
3891618 GAAGGG-ATACTCCATGCCCCGTTTTTT
64 G-AGGGAATACTCCA-ACCCCGTTTTTT
3891645 GCTTAAAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
101 32 0.42
102 37 0.48
103 8 0.10
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (100 bp):
CAATATTTAAACCACATTTTTACTTAAATAATCACATCGGAGATACTTCAACCCCATACTTCCGA
GGGAATACTCCAACCCCGTTTTTTAAAGAAATTAT
Found at i:3891643 original size:102 final size:101
Alignment explanation
Indices: 3891453--3891644 Score: 244
Period size: 101 Copynumber: 1.9 Consensus size: 101
3891443 TTTAATCCGC
* * * * *
3891453 CAATATTTAAATCACATTTTTACTTAAATAATCACGTTGGGGATACTTCAACCCCATTCTTCCGA
1 CAATATTTAAACCACATTTTTACTTAAATAATCACATCGGAGATACTTCAACCCCATACTTCCGA
*
3891518 GGGAATACTCCAACCCTGTTTTTTTAAAGAAATTAT
66 GGGAATACTCCAACCCCGTTTTTTTAAAGAAATTAT
** *
3891554 CAATATTTAAACCTTATTTTTGCTTAAATAATCATCATCGGAGATAC-TCTAACCCCATACTTCC
1 CAATATTTAAACCACATTTTTACTTAAATAATCA-CATCGGAGATACTTC-AACCCCATACTTCC
*
3891618 GAAGGG-ATACTCCATGCCCCGTTTTTT
64 G-AGGGAATACTCCA-ACCCCGTTTTTT
3891645 GCTTAAAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
101 32 0.42
102 31 0.40
103 14 0.18
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (101 bp):
CAATATTTAAACCACATTTTTACTTAAATAATCACATCGGAGATACTTCAACCCCATACTTCCGA
GGGAATACTCCAACCCCGTTTTTTTAAAGAAATTAT
Found at i:3893305 original size:78 final size:78
Alignment explanation
Indices: 3893181--3893331 Score: 275
Period size: 78 Copynumber: 1.9 Consensus size: 78
3893171 TCAATCTAAG
3893181 AATATAGATTCATTAGCTTCTAAAGAGATTCAATTATTTAATAATAAAAAGATTTCTATAAATTA
1 AATATAGATTCATTAGCTTCTAAAGAGATTCAATTATTTAATAATAAAAAGATTTCTATAAATTA
3893246 TATCTAAGTATAA
66 TATCTAAGTATAA
* *
3893259 AATATAGATTCATTAGCTTCTAAAGAGGTTCAATTATTTAATAATAAAGAGATTTCTATAAATTA
1 AATATAGATTCATTAGCTTCTAAAGAGATTCAATTATTTAATAATAAAAAGATTTCTATAAATTA
*
3893324 TGTCTAAG
66 TATCTAAG
3893332 CAGGAAGAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (78 bp):
AATATAGATTCATTAGCTTCTAAAGAGATTCAATTATTTAATAATAAAAAGATTTCTATAAATTA
TATCTAAGTATAA
Found at i:3895656 original size:31 final size:30
Alignment explanation
Indices: 3895617--3895675 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
3895607 TAATAATATT
3895617 TTTATAATAAACAACAAATTAT-ATTAATGA
1 TTTATAATAAACAA-AAATTATGATTAATGA
* *
3895647 TTTATTAATATACAAATATTATGATTAAT
1 TTTA-TAATAAACAAAAATTATGATTAAT
3895676 AATATTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTATAATAAACAAAAATTATGATTAATGA
Found at i:3895689 original size:24 final size:25
Alignment explanation
Indices: 3895637--3895685 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
3895627 ACAACAAATT
*
3895637 ATATTAATGATTTATTAATATACAA
1 ATATTAATGATTTAATAATATACAA
*
3895662 ATATT-ATGA-TTAATAATATTCAA
1 ATATTAATGATTTAATAATATACAA
3895685 A
1 A
3895686 ATATAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 4 0.18
25 5 0.23
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (25 bp):
ATATTAATGATTTAATAATATACAA
Found at i:3895694 original size:15 final size:15
Alignment explanation
Indices: 3895674--3895717 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
3895664 ATTATGATTA
3895674 ATAATATTCAAAATAT
1 ATAATATT-AAAATAT
3895690 A-AATATTAAAA-ATT
1 ATAATATTAAAATA-T
3895704 ATAATATTAAAATA
1 ATAATATTAAAATA
3895718 ATTTTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.04
14 6 0.24
15 16 0.64
16 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATTAAAATAT
Found at i:3895751 original size:23 final size:23
Alignment explanation
Indices: 3895705--3895768 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
3895695 TTAAAAATTA
* * *
3895705 TAATATTAAAATAATTTT-ATAT
1 TAATATTTAAATATTTTTAAAAT
3895727 TAATATTTAAATATTTTTAAAAT
1 TAATATTTAAATATTTTTAAAAT
* *
3895750 TAAAAATTAAATATTTTTA
1 TAATATTTAAATATTTTTA
3895769 TTAACAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATATTTAAATATTTTTAAAAT
Found at i:3896716 original size:6 final size:7
Alignment explanation
Indices: 3896666--3896715 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
3896656 ATATTTTATA
3896666 TTAATTT
1 TTAATTT
3896673 TTAATTT
1 TTAATTT
*
3896680 TATAATATA
1 T-TAAT-TT
3896689 TTAA--T
1 TTAATTT
*
3896694 TAAATTT
1 TTAATTT
3896701 TTAATTT
1 TTAATTT
3896708 TTAATTT
1 TTAATTT
3896715 T
1 T
3896716 ATATTAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
5 3 0.09
7 23 0.66
8 7 0.20
9 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTAATTT
Found at i:3897137 original size:18 final size:18
Alignment explanation
Indices: 3897114--3897151 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
3897104 TATCCTTCTA
*
3897114 ATTTTTTTTATAATTTTTT
1 ATTTTTTTAAT-ATTTTTT
3897133 ATTTTTTTAATATTTTTT
1 ATTTTTTTAATATTTTTT
3897151 A
1 A
3897152 ACCCACCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTTTAATATTTTTT
Found at i:3903394 original size:183 final size:183
Alignment explanation
Indices: 3902999--3903550 Score: 731
Period size: 183 Copynumber: 3.0 Consensus size: 183
3902989 AGTCTTTCTT
* * *
3902999 TTTTTTTTAATAAAAAAGAATCTAATTTTCAAATATAATTCATGCATTAGTCAAATACTTGTAGT
1 TTTTTTTT-ATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATACTTGTAGT
* * *
3903064 CTGACATTTACAATCAATCAACTTTTCTTTTCTTATATAAAAAAAAAATCCGATTCTCAAATATA
65 CTGACATTTACAATCAATCAACTTTTATTTT-TTTTATAAAAAAAAAATCCGATTCTCAGATATA
* * * *
3903129 ATTCATGTGTTAGTCCAATCATTGCAGTTTGACATTTACAATCAATCAACTTTCC
129 ATTAATGTATTAGTCTAATCATTGCAGTTTGACATTTACAATCAATCAACTTTTC
* * * * *
3903184 TTTTTTTCTAT-AAAAA-AATCCGATTCTCAAATATAATTCATGTATTAGTTTAATCCTTCTAGT
1 TTTTTTT-TATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATACTTGTAGT
**
3903247 CTGACATTTACAATCAATCAACTTTT-TTTTTTTTATAAAAAAAAAATATGATTCTCAGATATAA
65 CTGACATTTACAATCAATCAACTTTTATTTTTTTTATAAAAAAAAAATCCGATTCTCAGATATAA
*
3903311 TTAATGTATTAGTCTAATTC-TTGCAATTTGACATTTACAATCAATCAACTTTTC
130 TTAATGTATTAGTCTAA-TCATTGCAGTTTGACATTTACAATCAATCAACTTTTC
* * *
3903365 TTTTTTTTGGTAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATTCTTGTAAG
1 TTTTTTTT-ATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATACTTGT-AG
* * * * *
3903430 TCTGACATTTACAATCAGTCAACTTTTATTTTTTTCAT--TAAAAAAATCCAATTCTTAGATATA
64 TCTGACATTTACAATCAATCAACTTTTATTTTTTTTATAAAAAAAAAATCCGATTCTCAGATATA
* * * *
3903493 ATTTATGCATTAATCTAATCTTTGCAGTTTGACATTTACAATCAATCAACTTTT-
129 ATTAATGTATTAGTCTAATCATTGCAGTTTGACATTTACAATCAATCAACTTTTC
3903547 TTTT
1 TTTT
3903551 CTATAAAAAA
Statistics
Matches: 324, Mismatches: 35, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
180 1 0.00
181 84 0.26
182 17 0.05
183 170 0.52
184 33 0.10
185 18 0.06
186 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (183 bp):
TTTTTTTTATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATACTTGTAGTC
TGACATTTACAATCAATCAACTTTTATTTTTTTTATAAAAAAAAAATCCGATTCTCAGATATAAT
TAATGTATTAGTCTAATCATTGCAGTTTGACATTTACAATCAATCAACTTTTC
Found at i:3903494 original size:274 final size:275
Alignment explanation
Indices: 3902992--3903550 Score: 709
Period size: 274 Copynumber: 2.0 Consensus size: 275
3902982 TCCTTATAGT
* * *
3902992 CTTTCTTTTTTTTTTAATAAAAAAGAATCTAATTTTCAAATATAATTCATGCATTAGTCAAATAC
1 CTTT-TTTTTTTTTTAATAAAAAAGAATATAATTCTCAAATATAATTAATGCATTAGTCAAATAC
* *
3903057 TTGTAGTCTGACATTTACAATCAATCAACTTTTCTTTTCTTATATAAAAAAAAAATCCGATTCTC
65 TTGCAATCTGACATTTACAATCAATCAACTTTTCTTTTCTTATATAAAAAAAAAATCCGATTCTC
** * * *
3903122 AAATATAATTCATGTGTTAGTCCAATCATTGCAGTTTGACATTTACAATCAATCAACTTTCCTTT
130 AAATATAATTCATGCATTAGTCCAATCATTGAAGTCTGACATTTACAATCAATCAACTTTCATTT
* * * *
3903187 TTTTCTATAAAAAAATCCGATTCTCAAATATAATTCATGTATTAGTTTAATCCTT-CTAGTCTGA
195 TTTTCTATAAAAAAATCCAATTCTCAAATATAATTCATGCATTAATCTAATCCTTGC-AGTCTGA
3903251 CATTTACAATCAATCAA
259 CATTTACAATCAATCAA
* * * * *
3903268 CTTTTTTTTTTTTATAA-AAAAAA-AATATGATTCTCAGATATAATTAATGTATTAGTCTAATTC
1 CTTTTTTTTTTTT-TAATAAAAAAGAATATAATTCTCAAATATAATTAATGCATTAGTCAAATAC
* * * * *
3903331 TTGCAATTTGACATTTACAATCAATCAACTTTTCTTTT-TTTTGGT-AAAAAAGAATCTGATTCT
65 TTGCAATCTGACATTTACAATCAATCAACTTTTCTTTTCTTAT-ATAAAAAAAAAATCCGATTCT
* * * *
3903394 CAGATATAATTCATGCATTAGTCTAATTC-TTGTAAGTCTGACATTTACAATCAGTCAACTTTTA
129 CAAATATAATTCATGCATTAGTCCAA-TCATTG-AAGTCTGACATTTACAATCAATCAACTTTCA
* * * * *
3903458 TTTTTTTC-ATTAAAAAAATCCAATTCTTAGATATAATTTATGCATTAATCTAATCTTTGCAGTT
192 TTTTTTTCTA-TAAAAAAATCCAATTCTCAAATATAATTCATGCATTAATCTAATCCTTGCAGTC
3903522 TGACATTTACAATCAATCAA
256 TGACATTTACAATCAATCAA
3903542 CTTTTTTTT
1 CTTTTTTTT
3903551 CTATAAAAAA
Statistics
Matches: 244, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
273 45 0.18
274 176 0.72
275 16 0.07
276 7 0.03
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (275 bp):
CTTTTTTTTTTTTTAATAAAAAAGAATATAATTCTCAAATATAATTAATGCATTAGTCAAATACT
TGCAATCTGACATTTACAATCAATCAACTTTTCTTTTCTTATATAAAAAAAAAATCCGATTCTCA
AATATAATTCATGCATTAGTCCAATCATTGAAGTCTGACATTTACAATCAATCAACTTTCATTTT
TTTCTATAAAAAAATCCAATTCTCAAATATAATTCATGCATTAATCTAATCCTTGCAGTCTGACA
TTTACAATCAATCAA
Found at i:3904313 original size:19 final size:20
Alignment explanation
Indices: 3904289--3904329 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3904279 TTTCAGAATT
*
3904289 AAAATAAT-TTTTTAATTTA
1 AAAATAATATTTTTAACTTA
3904308 AAAATAATATTTTTAACTTA
1 AAAATAATATTTTTAACTTA
3904328 AA
1 AA
3904330 TTAATTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAATAATATTTTTAACTTA
Found at i:3904334 original size:19 final size:18
Alignment explanation
Indices: 3904287--3904335 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
3904277 AATTTCAGAA
*
3904287 TTAAAATAATTTTTTAAT
1 TTAAAATAATTTTTTAAC
3904305 TTAAAAATAATATTTTTAAC
1 TT-AAAATAAT-TTTTTAAC
*
3904325 TTAAATTAATT
1 TTAAAATAATT
3904336 CAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 15 0.56
20 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAATAATTTTTTAAC
Found at i:3906259 original size:3 final size:3
Alignment explanation
Indices: 3906251--3906284 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3906241 AAAGTTAACT
3906251 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3906285 CATCATCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3907330 original size:2 final size:2
Alignment explanation
Indices: 3907323--3907353 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3907313 GTTCTAATTC
*
3907323 CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3907354 AGGTTGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:3918254 original size:2 final size:2
Alignment explanation
Indices: 3918249--3918287 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3918239 TTTGAGTGTG
3918249 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3918288 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3918292 original size:2 final size:2
Alignment explanation
Indices: 3918287--3918317 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3918277 TATATATATA
*
3918287 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
3918318 AAAAATAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3924785 original size:2 final size:2
Alignment explanation
Indices: 3924778--3924824 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3924768 TCAATCTTAT
3924778 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3924820 TC TC T
1 TC TC T
3924825 TTTGTGGCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:3928427 original size:71 final size:71
Alignment explanation
Indices: 3928308--3928452 Score: 272
Period size: 71 Copynumber: 2.0 Consensus size: 71
3928298 GTTCCAAAAT
*
3928308 GTTACTGATAACTCTGATTTCAATTGCACTGGAGTAGGACATCTAAATGAATGTCCATTCCAAAT
1 GTTACTGATAACTCTGATTTCAATTGCACTGGAGTAGGACATCCAAATGAATGTCCATTCCAAAT
3928373 GGGGGG
66 GGGGGG
3928379 GTTACTGATAACTCTGATTTCAATTGCACTGGAGTAGGACATCCAAATGAATGTCCATTCCAAAT
1 GTTACTGATAACTCTGATTTCAATTGCACTGGAGTAGGACATCCAAATGAATGTCCATTCCAAAT
*
3928444 TGGGGG
66 GGGGGG
3928450 GTT
1 GTT
3928453 TTAGCCCCCC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (71 bp):
GTTACTGATAACTCTGATTTCAATTGCACTGGAGTAGGACATCCAAATGAATGTCCATTCCAAAT
GGGGGG
Found at i:3928864 original size:38 final size:38
Alignment explanation
Indices: 3928812--3928890 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
3928802 ATTTAGGAAG
*
3928812 ATAAATAAAAACTATATTAATGATTCACAATTGAAGCA
1 ATAAATAAAAACTATATTAATCATTCACAATTGAAGCA
* * ** *
3928850 ATAAATAAATACTATCTTAATCATTTGCAATTGAAGTA
1 ATAAATAAAAACTATATTAATCATTCACAATTGAAGCA
3928888 ATA
1 ATA
3928891 TGTAAAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (38 bp):
ATAAATAAAAACTATATTAATCATTCACAATTGAAGCA
Found at i:3931609 original size:2 final size:2
Alignment explanation
Indices: 3931597--3931634 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3931587 CTACTTTTGT
3931597 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3931635 TGTCAGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3933243 original size:2 final size:2
Alignment explanation
Indices: 3933232--3933270 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
3933222 GGAGCTTAGG
3933232 AT AT -T AT 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 AT AT AT AT
3933271 GTGAGAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3933359 original size:17 final size:17
Alignment explanation
Indices: 3933320--3933359 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
3933310 ATATATTTTA
3933320 TAATT-TTTTATAAAAT
1 TAATTATTTTATAAAAT
3933336 TAA-TATTTTA-ACAAAT
1 TAATTATTTTATA-AAAT
3933352 TAATTATT
1 TAATTATT
3933360 AAATTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 15 0.71
17 4 0.19
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTATTTTATAAAAT
Found at i:3933891 original size:2 final size:2
Alignment explanation
Indices: 3933884--3933966 Score: 100
Period size: 2 Copynumber: 41.5 Consensus size: 2
3933874 AACATGAACA
3933884 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
3933926 A- AG -G CTG -G CAG AG AG AG AG AG AG AG AG AA AG AG ATG AG AG
1 AG AG AG -AG AG -AG AG AG AG AG AG AG AG AG AG AG AG A-G AG AG
3933966 A
1 A
3933967 AAAGAGAAAG
Statistics
Matches: 73, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
1 3 0.04
2 66 0.90
3 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.47, T:0.02
Consensus pattern (2 bp):
AG
Found at i:3934060 original size:24 final size:21
Alignment explanation
Indices: 3934010--3934073 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
3934000 GAAGATTAAA
3934010 TATTATATTTAAATATAATTT
1 TATTATATTTAAATATAATTT
* *
3934031 TATTATATTTTTAATATATTATT
1 TATTATA-TTTAAATATAAT-TT
**
3934054 TATTTATAAATAAATATAAT
1 TA-TTATATTTAAATATAAT
3934074 ATTAAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 7 0.21
22 10 0.29
23 12 0.35
24 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATATTTAAATATAATTT
Found at i:3934813 original size:13 final size:13
Alignment explanation
Indices: 3934792--3934872 Score: 53
Period size: 13 Copynumber: 6.4 Consensus size: 13
3934782 ATGATAAATT
* *
3934792 AATTTTTTATTAA
1 AATTATTTAATAA
3934805 AATTATTTAATAA
1 AATTATTTAATAA
3934818 AATTA---ACAT-A
1 AATTATTTA-ATAA
3934828 AATTATTTAATAA
1 AATTATTTAATAA
** *
3934841 TAAAAACTTAATAA
1 -AATTATTTAATAA
**
3934855 AACAATTTAATAA
1 AATTATTTAATAA
3934868 AATTA
1 AATTA
3934873 ATTACTGCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
10 7 0.13
11 2 0.04
12 2 0.04
13 32 0.60
14 10 0.19
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTATTTAATAA
Found at i:3934953 original size:113 final size:113
Alignment explanation
Indices: 3934836--3935047 Score: 298
Period size: 113 Copynumber: 1.9 Consensus size: 113
3934826 TAAATTATTT
* *
3934836 AATAATAAAAACTTAATAAAACAATTTAATAAAATTAATTACTGCTAACTATGATGATACATTAT
1 AATAATAAAAACTTAATAAAACAATTTAATAAAATTAATTACTGCTAAATATAATGATACATTAT
* *
3934901 TTAAATTAATTGCTATTTATTTATGTATAAAAAATTTAAAATTTATAA
66 GTAAATTAATCGCTATTTATTTATGTATAAAAAATTTAAAATTTATAA
* * * * ** * *
3934949 AATAATAATAATTTAATAATATAATTTAATAAAATTAATTGTTGTTAAATATAATGATAGATTAT
1 AATAATAAAAACTTAATAAAACAATTTAATAAAATTAATTACTGCTAAATATAATGATACATTAT
* *
3935014 GTAAATTAGTCGCTATTTATTTATGTGTAAAAAA
66 GTAAATTAATCGCTATTTATTTATGTATAAAAAA
3935048 AATTGGAATG
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
113 85 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (113 bp):
AATAATAAAAACTTAATAAAACAATTTAATAAAATTAATTACTGCTAAATATAATGATACATTAT
GTAAATTAATCGCTATTTATTTATGTATAAAAAATTTAAAATTTATAA
Found at i:3934974 original size:13 final size:14
Alignment explanation
Indices: 3934949--3934980 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
3934939 AAATTTATAA
3934949 AATAATAATAATTT
1 AATAATAATAATTT
3934963 AATAAT-ATAATTT
1 AATAATAATAATTT
3934976 AATAA
1 AATAA
3934981 AATTAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAATAATAATTT
Found at i:3942867 original size:27 final size:27
Alignment explanation
Indices: 3942829--3942882 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
3942819 ACATTTATTC
*
3942829 TTTCATCATCCATCTCGAATGTAATAA
1 TTTCATCATCCATCTCAAATGTAATAA
*
3942856 TTTCATCATCCATTTCAAATGTAATAA
1 TTTCATCATCCATCTCAAATGTAATAA
3942883 AATATTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (27 bp):
TTTCATCATCCATCTCAAATGTAATAA
Found at i:3945097 original size:15 final size:16
Alignment explanation
Indices: 3945070--3945104 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
3945060 CGTATGAAAT
3945070 TTAAAATTAAATTAAA
1 TTAAAATTAAATTAAA
*
3945086 TTAAAA-TAAATTTAA
1 TTAAAATTAAATTAAA
3945101 TTAA
1 TTAA
3945105 TAAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAATTAAATTAAA
Found at i:3951259 original size:17 final size:18
Alignment explanation
Indices: 3951237--3951273 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
3951227 ACGAAGAATC
3951237 TTCTTTTAT-TTTAAT-TT
1 TTCTTTT-TCTTTAATATT
3951254 TTCTTTTTCTTTAATATT
1 TTCTTTTTCTTTAATATT
3951272 TT
1 TT
3951274 TTAATGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 13 0.72
18 4 0.22
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTTTTCTTTAATATT
Found at i:3951858 original size:29 final size:28
Alignment explanation
Indices: 3951826--3951881 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
3951816 ATTATTTTAT
3951826 TATTAAATAAAAAAT-TTTATAAATTTAAA
1 TATTAAA-AAAAAATATTTA-AAATTTAAA
* *
3951855 TATTTAAAAAAATTATTTAAAATTTAA
1 TATTAAAAAAAAATATTTAAAATTTAA
3951882 TTCGTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TATTAAAAAAAAATATTTAAAATTTAAA
Found at i:3952128 original size:11 final size:11
Alignment explanation
Indices: 3952109--3952138 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3952099 TCCCAAAAAA
3952109 AAAAAAAAGGG
1 AAAAAAAAGGG
*
3952120 AAAATAAAGGG
1 AAAAAAAAGGG
3952131 AAAAAAAA
1 AAAAAAAA
3952139 AACCATTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGGG
Found at i:3955536 original size:13 final size:13
Alignment explanation
Indices: 3955518--3955555 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3955508 AAATTAGATT
*
3955518 TTTAAAAAATATA
1 TTTAAAAAATAAA
3955531 TTTAAAAAATAAA
1 TTTAAAAAATAAA
*
3955544 TTAAAAAAATAA
1 TTTAAAAAATAA
3955556 TATAGATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAAATAAA
Found at i:3955547 original size:12 final size:13
Alignment explanation
Indices: 3955519--3955556 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
3955509 AATTAGATTT
*
3955519 TTAAAAAATATAT
1 TTAAAAAATATAA
3955532 TTAAAAAATA-AA
1 TTAAAAAATATAA
3955544 TTAAAAAA-ATAA
1 TTAAAAAATATAA
3955556 T
1 T
3955557 ATAGATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 1 0.04
12 12 0.52
13 10 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAAAATATAA
Found at i:3959382 original size:28 final size:28
Alignment explanation
Indices: 3959350--3959409 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
3959340 AAAATTAAAA
*
3959350 TTAAAACAGTAATAATTTAATAAATT-TT
1 TTAAAA-AATAATAATTTAATAAATTATT
* * *
3959378 TTAAAAAATTATATTTTAATAATTTATT
1 TTAAAAAATAATAATTTAATAAATTATT
3959406 TTAA
1 TTAA
3959410 CTTTAACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
TTAAAAAATAATAATTTAATAAATTATT
Found at i:3961063 original size:10 final size:11
Alignment explanation
Indices: 3961036--3961060 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3961026 GATTTTATAT
3961036 TTTTAATTTGG
1 TTTTAATTTGG
3961047 TTTTAATTTGG
1 TTTTAATTTGG
3961058 TTT
1 TTT
3961061 AATGAAAGTT
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:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTTAATTTGG
Found at i:3966341 original size:74 final size:74
Alignment explanation
Indices: 3966211--3966363 Score: 281
Period size: 74 Copynumber: 2.1 Consensus size: 74
3966201 TGTTAGCCTA
3966211 CACG-GATTCGTAGCTAGTCGCCAATCAGGTCAATGGAACATATGAGGTCAAGGACCTGACCCTC
1 CACGAGATTCGTAGCTAGTCGCCAATCAGGTCAATGGAACATATGAGGTCAAGGACCTGACCCTC
3966275 ATTAAGTAT
66 ATTAAGTAT
* *
3966284 CACGAGATTTGTAGCTAGTCGCCAATCAGGTCAATGGTACATATGAGGTCAAGGACCTGACCCTC
1 CACGAGATTCGTAGCTAGTCGCCAATCAGGTCAATGGAACATATGAGGTCAAGGACCTGACCCTC
3966349 ATTAAGTAT
66 ATTAAGTAT
3966358 CACGAG
1 CACGAG
3966364 GTTATCTTGG
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 4 0.05
74 73 0.95
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (74 bp):
CACGAGATTCGTAGCTAGTCGCCAATCAGGTCAATGGAACATATGAGGTCAAGGACCTGACCCTC
ATTAAGTAT
Found at i:3970708 original size:79 final size:79
Alignment explanation
Indices: 3970612--3970797 Score: 212
Period size: 79 Copynumber: 2.4 Consensus size: 79
3970602 TGTTCCCTTG
* * * * *
3970612 AAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAAATCAGGAT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAAAAAAACCAGGAT
3970676 TGGAGTATCCCCTCA
65 TGGAGTATCCCCTCA
* * ** * * * *
3970691 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGCAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAACCAGGATT
*
3970756 GGAGTATCCCCTCG
66 GGAGTATCCCCTCA
* *
3970770 GAAGTAACGGGGTTGGAGTATCCCCGAT
1 AAAATAACGGGGTTGGAGTATCCCCGAT
3970798 GAAATAACAA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 88 0.99
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (79 bp):
AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAACCAGGATT
GGAGTATCCCCTCA
Found at i:3970805 original size:28 final size:28
Alignment explanation
Indices: 3970749--3970820 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
3970739 GCAATAAAGC
** *
3970749 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3970777 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
**
3970805 CAAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
3970821 TTGACTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:3970940 original size:52 final size:50
Alignment explanation
Indices: 3970808--3970991 Score: 161
Period size: 52 Copynumber: 3.6 Consensus size: 50
3970798 GAAATAACAA
** * * * * * *
3970808 GGTTGGAGTATCCTTGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGG--TGTTTGAAAATAAAACCAG
* * *
3970860 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAACCAG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTT-GAAAATAAAACCAG
* * * * *
3970912 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTGA-AAATAAAACCAG
*
3970964 GGTTGGAATATCCCCGATTATGAAAAAT
1 GGTTGGAGTATCCCCGATTATGAAAAAT
3970992 CAATATTTTG
Statistics
Matches: 107, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
51 12 0.11
52 86 0.80
53 9 0.08
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTGAAAATAAAACCAG
Found at i:3971016 original size:51 final size:52
Alignment explanation
Indices: 3970900--3971029 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 52
3970890 GGTGTTTCGA
* * * * *
3970900 AAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
* * *
3970952 CAATAAAACCGGGGTTGGAATATCCCCGATTAT-GAAAAATCAATATTTTGG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
**
3971003 AAATAAAGTCGGGGTTGGAGTATCCCC
1 AAATAAAACCGGGGTTGGAGTATCCCC
3971030 TCGGAAATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 37 0.56
52 29 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
Found at i:3971111 original size:54 final size:51
Alignment explanation
Indices: 3971044--3971174 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 51
3971034 AAATAACGGG
* *
3971044 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TTTTGAAAATAAAATCAGA
* *
3971098 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCAGA
*
3971149 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
3971175 TTGAGAAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 35 0.51
52 4 0.06
53 10 0.15
54 19 0.28
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCAGA
Found at i:3971153 original size:133 final size:131
Alignment explanation
Indices: 3970911--3971162 Score: 328
Period size: 133 Copynumber: 1.9 Consensus size: 131
3970901 AATAAAACCA
* * *
3970911 GGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAATATC
1 GGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCAGAGTTGGAATATC
* * * *
3970976 CCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCGGAAATAAC
66 CCCGATTATGAAAAATCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCCTCGGAAATAAC
3971041 G
131 G
* * * *
3971042 GGGTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCAGAGTTGGAGT
1 GGGTTGGAGTATCCCCGATTGTGGAA-AAATTAGTG--TTTTAGAAATAAAACCAGAGTTGGAAT
* * *
3971106 ATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCC
63 ATCCCCGATTATGA-AAAATCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCC
3971163 GATTGTGGAG
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
130 3 0.03
131 30 0.29
132 1 0.01
133 69 0.67
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (131 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCAGAGTTGGAATATC
CCCGATTATGAAAAATCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCCTCGGAAATAAC
G
Found at i:3973546 original size:13 final size:13
Alignment explanation
Indices: 3973528--3973553 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3973518 ACAAAGATCC
3973528 ATGTATCGATACA
1 ATGTATCGATACA
3973541 ATGTATCGATACA
1 ATGTATCGATACA
3973554 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3973549 original size:33 final size:33
Alignment explanation
Indices: 3973507--3973573 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3973497 AAAATTTCCA
***
3973507 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
3973540 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
3973573 A
1 A
3973574 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:3973708 original size:21 final size:21
Alignment explanation
Indices: 3973684--3973740 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
3973674 CATTTGTAGG
3973684 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
3973705 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
3973726 ATGTATCGATACATT
1 ATGTATCGATACATT
3973741 TGGATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:3975601 original size:21 final size:21
Alignment explanation
Indices: 3975577--3975622 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3975567 TTAATTGACT
* *
3975577 ATTTATTTTAATCATATTTAA
1 ATTTATTTCAATAATATTTAA
*
3975598 ATTTATTTCAATAATTTTTAA
1 ATTTATTTCAATAATATTTAA
3975619 ATTT
1 ATTT
3975623 TTATTATTAT
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:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTATTTCAATAATATTTAA
Found at i:3977395 original size:2 final size:2
Alignment explanation
Indices: 3977388--3977416 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3977378 GTCCTACCCT
3977388 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3977417 TCCTTATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3980832 original size:26 final size:23
Alignment explanation
Indices: 3980785--3980832 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
3980775 AATTTTAGTT
3980785 TGTCAAAAACATTTTTTGCTTTG
1 TGTCAAAAACATTTTTTGCTTTG
*
3980808 TGTCTAAACACATATTTTTGTCTTT
1 TGTC-AAAAACAT-TTTTTG-CTTT
3980833 ACTTCTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 7 0.33
25 6 0.29
26 4 0.19
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (23 bp):
TGTCAAAAACATTTTTTGCTTTG
Found at i:3981329 original size:23 final size:23
Alignment explanation
Indices: 3981286--3981329 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3981276 ATAGTGTACA
*
3981286 ATATATAATATACAATTATTTTT
1 ATATATAATATACAATAATTTTT
3981309 ATATAATAATATA-AATAATTT
1 ATAT-ATAATATACAATAATTT
3981330 ATGTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATAATATACAATAATTTTT
Found at i:3987003 original size:12 final size:11
Alignment explanation
Indices: 3986985--3987013 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
3986975 TTTCTTCCTT
3986985 CTTTTTTTTTC
1 CTTTTTTTTTC
3986996 CTTTTTTTTTC
1 CTTTTTTTTTC
3987007 CTTTTTT
1 CTTTTTT
3987014 AAATTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
CTTTTTTTTTC
Found at i:3987717 original size:26 final size:25
Alignment explanation
Indices: 3987688--3987744 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
3987678 ATATATATAT
*
3987688 AAATTAATTGTCTAATATATTTTTTA
1 AAATTAATTGTCTAAT-TAATTTTTA
* * * *
3987714 AAATTTATTTTTTTATTAATTTTTA
1 AAATTAATTGTCTAATTAATTTTTA
3987739 AAATTA
1 AAATTA
3987745 TAAATAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
AAATTAATTGTCTAATTAATTTTTA
Found at i:3987845 original size:25 final size:23
Alignment explanation
Indices: 3987811--3987864 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
3987801 TATATGATAT
*
3987811 AAATTATATAATATATAAATATAAA
1 AAATAATATAATATAT-AAT-TAAA
* *
3987836 AAATAATATATTTTATAATTAAA
1 AAATAATATAATATATAATTAAA
3987859 AAATAA
1 AAATAA
3987865 ATTAAGTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 10 0.38
24 3 0.12
25 13 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAATATAATATATAATTAAA
Found at i:3990059 original size:14 final size:14
Alignment explanation
Indices: 3990042--3990079 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
3990032 ATTTTTTTAA
3990042 TTTTTAAAATATAT
1 TTTTTAAAATATAT
*
3990056 TTTTTAAAAAATAT
1 TTTTTAAAATATAT
3990070 TTTTTAAAAT
1 TTTTTAAAAT
3990080 TAAGAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTTAAAATATAT
Found at i:3990164 original size:19 final size:19
Alignment explanation
Indices: 3990140--3990176 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
3990130 CGGAGAAAAT
3990140 TTAAAAAATTTA-ATTAAA
1 TTAAAAAATTTATATTAAA
3990158 TTAAAAAATTTATATTAAA
1 TTAAAAAATTTATATTAAA
3990177 ATCACGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAAAAATTTATATTAAA
Found at i:3990929 original size:19 final size:19
Alignment explanation
Indices: 3990907--3990973 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
3990897 AAAAAATAAG
* *
3990907 GAAAAAAGAAAGAAGGAAA
1 GAAAAAAGAAACAAAGAAA
* *
3990926 GAAAAAAAAAACAATGAAA
1 GAAAAAAGAAACAAAGAAA
*
3990945 G-AAAAAGAAATAAAGAAA
1 GAAAAAAGAAACAAAGAAA
*
3990963 AAAAAAAGAAA
1 GAAAAAAGAAA
3990974 TTGTTTGGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 14 0.35
19 26 0.65
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.03
Consensus pattern (19 bp):
GAAAAAAGAAACAAAGAAA
Found at i:3990952 original size:33 final size:34
Alignment explanation
Indices: 3990896--3990969 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
3990886 AACTTTGGAG
* *
3990896 AAAAAAATAAGGAAAAAAGAAAGAAGGAAAGAAA
1 AAAAAAACAAGGAAAAAAGAAAGAAAGAAAGAAA
* * *
3990930 AAAAAAACAATGAAAGAA-AAAGAAATAAAGAAA
1 AAAAAAACAAGGAAAAAAGAAAGAAAGAAAGAAA
3990963 AAAAAAA
1 AAAAAAA
3990970 GAAATTGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 20 0.57
34 15 0.43
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (34 bp):
AAAAAAACAAGGAAAAAAGAAAGAAAGAAAGAAA
Found at i:3991939 original size:143 final size:143
Alignment explanation
Indices: 3991768--3992058 Score: 386
Period size: 143 Copynumber: 2.0 Consensus size: 143
3991758 AGCCAGACTA
* * * * *
3991768 ATAGTTGCATTGATTGAATAGTGAAAACTTAAGATACATACATTTCATTTTTTATGTGACGAGGG
1 ATAGTTGCATGGATTGAACAGTGAAAACTTAAGATACACACATTTCATTTTTCATGTGACGAGGA
* * * *
3991833 CACGATTACCTTAAAAAATGTTGCATTTCAACTAGGACT-ACCAGTTGACGATAAAAAAGTAATA
66 CACGATTACCTTAAAAAATATTGCATTTCAACTAGGA-TGACCAGTTGACAACAAAAAAGTAACA
*
3991897 AGAGTTGGCCTGTT
130 AGAGTTAGCCTGTT
* * * * * *
3991911 ATAGTTGCATGGATTGAACGGTGGAAACTTGAGATGCACACGTTTCATTTTTCATGTGACGAGTA
1 ATAGTTGCATGGATTGAACAGTGAAAACTTAAGATACACACATTTCATTTTTCATGTGACGAGGA
* * *
3991976 CACGATTATCTTAGAAAATATTGCATTTCAACTAGGATGACCAGTTGACAACAAAAAAGTAACAG
66 CACGATTACCTTAAAAAATATTGCATTTCAACTAGGATGACCAGTTGACAACAAAAAAGTAACAA
*
3992041 GAGTTAGCTTGTT
131 GAGTTAGCCTGTT
3992054 ATAGT
1 ATAGT
3992059 GGAATAAGGT
Statistics
Matches: 127, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
142 1 0.01
143 126 0.99
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (143 bp):
ATAGTTGCATGGATTGAACAGTGAAAACTTAAGATACACACATTTCATTTTTCATGTGACGAGGA
CACGATTACCTTAAAAAATATTGCATTTCAACTAGGATGACCAGTTGACAACAAAAAAGTAACAA
GAGTTAGCCTGTT
Found at i:3995122 original size:163 final size:163
Alignment explanation
Indices: 3994842--3995285 Score: 452
Period size: 163 Copynumber: 2.7 Consensus size: 163
3994832 AATTTATGCA
* * * * *
3994842 TCATGCATTAGTTTTATCAACTTCTTTCATATCAAAAGGAATCTAATTTCTA-TCAGCAATTTAT
1 TCATGCATTAGTCTTATCAACTTCTTTTATATCAAAA--AATTTAA-TTCTATTAAG-AATCTAT
* * * * * * * *
3994906 GTATTAATCACATTTATTTCAAAACATAATTCATACATTAG-TCTCATCTTTCGAATTTCAATCT
62 GCATTTATCATATTTA-TTCAAAACATAATCCATGCATTAGTTCTCATCTTTCGAACTCCAATCC
* ** * * *
3994970 ATTCATTGGTCTAGTTT-TTGCA-TTTGACATTTATAAT
126 ATGCATTAATCTA-TTTCTTGCAGTCTAACATTTACAAT
* * * *
3995007 TTATGCATTAGTCTTATCAACTTCTTTTATATCAGCAAAATTTAATTCTATTTAGAATCTATACA
1 TCATGCATTAGTCTTATCAACTTCTTTTATATCA-AAAAATTTAATTCTATTAAGAATCTATGCA
*
3995072 TTTATCATATTTATTCAAAAGCAAAATCCATGCATTAGTTC-CATCTTTCGAACTCCAATCCATG
65 TTTATCATATTTATTCAAAA-CATAATCCATGCATTAGTTCTCATCTTTCGAACTCCAATCCATG
3995136 CATTAATCTATTTCTTGCAGTCTAACATTTACAAT
129 CATTAATCTATTTCTTGCAGTCTAACATTTACAAT
* * *
3995171 TCATGCATTAGTCTTATCAACTT-TTTTCATATCATAAAAAATTCAATTCCCATCAAGAATCTAT
1 TCATGCATTAGTCTTATCAACTTCTTTT-ATATC--AAAAAATTTAATT-CTATTAAGAATCTAT
* * *
3995235 GCATTTAACATATTTATTCAAAAATATAATCCATGCATTAG-TCTTATCTTT
62 GCATTTATCATATTTATTC-AAAACATAATCCATGCATTAGTTCTCATCTTT
3995286 TGAATTGTAA
Statistics
Matches: 233, Mismatches: 34, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
162 10 0.04
163 73 0.31
164 50 0.21
165 43 0.18
166 53 0.23
167 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (163 bp):
TCATGCATTAGTCTTATCAACTTCTTTTATATCAAAAAATTTAATTCTATTAAGAATCTATGCAT
TTATCATATTTATTCAAAACATAATCCATGCATTAGTTCTCATCTTTCGAACTCCAATCCATGCA
TTAATCTATTTCTTGCAGTCTAACATTTACAAT
Found at i:3995337 original size:39 final size:38
Alignment explanation
Indices: 3995271--3995403 Score: 122
Period size: 39 Copynumber: 3.4 Consensus size: 38
3995261 TAATCCATGC
* * *
3995271 ATTAGTCTTATCTTTTGAATTGTAATAAAAAATTTATAT
1 ATTAGTCATATCTTTTAAATT-CAATAAAAAATTTATAT
* * ** *
3995310 ATTAGTCACATCTTTTAGATTCCAATAAATTATCTATAT
1 ATTAGTCATATCTTTTAAATT-CAATAAAAAATTTATAT
* * * * *
3995349 ATTATTAATATCTTTCAAAATTCAATAAAAAATTCATAC
1 ATTAGTCATATCTTT-TAAATTCAATAAAAAATTTATAT
3995388 ATTAGTCATATCTTTT
1 ATTAGTCATATCTTTT
3995404 TTATATCAGT
Statistics
Matches: 71, Mismatches: 22, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
39 67 0.94
40 4 0.06
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTAGTCATATCTTTTAAATTCAATAAAAAATTTATAT
Found at i:3996757 original size:26 final size:26
Alignment explanation
Indices: 3996701--3996754 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
3996691 CAAGCAACTC
* *
3996701 ATTTTATA-A-TTATATAATATATTA
1 ATTTTATATATTTATATAATAAAATA
3996725 ATTTTATATATTTATAT-ATAAAATA
1 ATTTTATATATTTATATAATAAAATA
3996750 ATTTT
1 ATTTT
3996755 TATCATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 12 0.46
26 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTTTATATATTTATATAATAAAATA
Found at i:4001393 original size:23 final size:22
Alignment explanation
Indices: 4001341--4001394 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
4001331 AAATATTATC
4001341 TAAAAATATTTGAAAATTTAAAG
1 TAAAAA-ATTTGAAAATTTAAAG
* *
4001364 -AATAAAATTTGTTAAATTTATAG
1 TAA-AAAATTTG-AAAATTTAAAG
4001387 TAAAAAAT
1 TAAAAAAT
4001395 ATTACCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 7 0.27
23 17 0.65
24 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAAAAATTTGAAAATTTAAAG
Found at i:4001588 original size:17 final size:17
Alignment explanation
Indices: 4001562--4001596 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4001552 TAAAAATTTA
*
4001562 TTTAAATAATCAAATAT
1 TTTAAATAATAAAATAT
*
4001579 TTTAAGTAATAAAATAT
1 TTTAAATAATAAAATAT
4001596 T
1 T
4001597 ATATATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTAAATAATAAAATAT
Found at i:4001963 original size:7 final size:8
Alignment explanation
Indices: 4001946--4001975 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
4001936 TTAATTATTT
4001946 AAAAATAA
1 AAAAATAA
4001954 AAAAATAA
1 AAAAATAA
4001962 AAAAATAA
1 AAAAATAA
4001970 AAAAAT
1 AAAAAT
4001976 TCTAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:4002271 original size:16 final size:16
Alignment explanation
Indices: 4002250--4002287 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
4002240 TAATCGATTT
4002250 AATCGATTTTTAATTA
1 AATCGATTTTTAATTA
4002266 AATCGATTTTTAATTA
1 AATCGATTTTTAATTA
4002282 AATCGA
1 AATCGA
4002288 CTAGTCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (16 bp):
AATCGATTTTTAATTA
Found at i:4002806 original size:3 final size:3
Alignment explanation
Indices: 4002798--4002835 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4002788 CAAGCTTTAC
4002798 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4002836 GTTTATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4008556 original size:5 final size:6
Alignment explanation
Indices: 4008524--4008558 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
4008514 CCGAACAGGC
4008524 ATAGGG ATAGGG ATAGGG ATAGGG ATA-GG ATAGGG
1 ATAGGG ATAGGG ATAGGG ATAGGG ATAGGG ATAGGG
4008559 TTTTGAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.34, C:0.00, G:0.49, T:0.17
Consensus pattern (6 bp):
ATAGGG
Found at i:4009244 original size:18 final size:18
Alignment explanation
Indices: 4009223--4009257 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4009213 ATTAAATAAA
4009223 ATTTATTTAAAAAATATT
1 ATTTATTTAAAAAATATT
* *
4009241 ATTTTTTTATAAAATAT
1 ATTTATTTAAAAAATAT
4009258 GATATGTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATTTAAAAAATATT
Found at i:4012092 original size:16 final size:16
Alignment explanation
Indices: 4012063--4012104 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4012053 TAAATCATAC
*
4012063 TTTTTCTAACCCAAGA
1 TTTTTCTAATCCAAGA
* *
4012079 TTTTTATAATCCAAGT
1 TTTTTCTAATCCAAGA
4012095 TTTTTCTAAT
1 TTTTTCTAAT
4012105 GGCAATCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.50
Consensus pattern (16 bp):
TTTTTCTAATCCAAGA
Found at i:4017075 original size:115 final size:115
Alignment explanation
Indices: 4016868--4017079 Score: 288
Period size: 116 Copynumber: 1.8 Consensus size: 115
4016858 AAAATAACAA
* * *
4016868 TTATCTTTCACCTAGATTTGATAGTTAATAAAAGATAAAATTATAAACCTATAAATTTTATTATT
1 TTATCTTTCACCTAGATTTAATAGTTAATAAAAGATAAAATTATAAACCTATAAATATTATTATA
*
4016933 TTTTAAAATTTAAAATAACAATTATCATAAAAATCATGAAAAAATTTTTG
66 TTTTAAAATTTAAAATAACAATCATCATAAAAATCATGAAAAAATTTTTG
*
4016983 TTATCTTTCACCTAGATTATAAT-GTTTAATAAAAGATAAAATTATAATA-CTATCAATATTATT
1 TTATCTTTCACCTAGATT-TAATAG-TTAATAAAAGATAAAATTATAA-ACCTATAAATATTATT
* * *
4017046 A-ATTTTAATATTTGAAATTTA-AATCATCATAAAA
63 ATATTTTAAAATTT-AAAATAACAATCATCATAAAA
4017080 TTATTTGGAT
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
115 41 0.48
116 43 0.51
117 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.42
Consensus pattern (115 bp):
TTATCTTTCACCTAGATTTAATAGTTAATAAAAGATAAAATTATAAACCTATAAATATTATTATA
TTTTAAAATTTAAAATAACAATCATCATAAAAATCATGAAAAAATTTTTG
Done.