Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 300 of 335
Found at i:89222180 original size:3 final size:3
Alignment explanation
Indices: 89222172--89222243 Score: 110
Period size: 3 Copynumber: 24.0 Consensus size: 3
89222162 TGATAAAAAG
89222172 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
89222219 TCAA TAA TAA TAA TGA TGA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA
89222244 ATAAAGTGAG
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 61 0.94
4 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:89225269 original size:27 final size:27
Alignment explanation
Indices: 89225231--89225284 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
89225221 CCAAAAATTT
*
89225231 TTTTTACGGGATAAAATTAAATTATAA
1 TTTTTACAGGATAAAATTAAATTATAA
89225258 TTTTTACAGGATAAAATTAAATTATAA
1 TTTTTACAGGATAAAATTAAATTATAA
89225285 ATATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (27 bp):
TTTTTACAGGATAAAATTAAATTATAA
Found at i:89226240 original size:39 final size:39
Alignment explanation
Indices: 89226196--89226278 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
89226186 TAATAGGTAG
* **
89226196 GTTAAAATTATAAACATATAAAAAGTGTAAGGAGATTTA
1 GTTAAAATTAGAAACATATAAAAAGAATAAGGAGATTTA
*
89226235 GTTAAAATTAGAAACATATAGAAAGAATAAGGAGATTTA
1 GTTAAAATTAGAAACATATAAAAAGAATAAGGAGATTTA
*
89226274 ATTAA
1 GTTAA
89226279 CTCCCAATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.29
Consensus pattern (39 bp):
GTTAAAATTAGAAACATATAAAAAGAATAAGGAGATTTA
Found at i:89229409 original size:102 final size:102
Alignment explanation
Indices: 89229193--89229417 Score: 296
Period size: 102 Copynumber: 2.2 Consensus size: 102
89229183 ATTGGTATAC
* *
89229193 AAAATACGAGTTTT-AAAAAAAAAATTTTGTGCTAGTCTGTCAATGGCCTACACCAAGTACAAAT
1 AAAATACGAGTTTTAAAAAAAAAAATTTTGTGCTAGCCTGTCAATGGCCGACACCAAGTACAAAT
89229257 AAAAAAATTCAAATTTAAAAAAAAATTTTGATGTCCA
66 AAAAAAATTCAAATTTAAAAAAAAATTTTGATGTCCA
* *
89229294 AAAATACGCGTTTTAAAAAAGAAAAATTTTTTGTGCTGGCCTGTCAATGGCCGACACCAAGTAC-
1 AAAATACGAGTTTTAAAAAA-AAAAA--TTTTGTGCTAGCCTGTCAATGGCCGACACCAAGTACA
* *** * *
89229358 AA-AAAAAAA-TCAATTTTTTTAAAAAATTTTGATGTTCG
63 AATAAAAAAATTCAAATTTAAAAAAAAATTTTGATGTCCA
*
89229396 AAAATACGAGTTTTTAAAAAAA
1 AAAATACGAGTTTTAAAAAAAA
89229418 TATTTTTTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
101 15 0.14
102 46 0.43
103 12 0.11
104 2 0.02
105 33 0.31
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (102 bp):
AAAATACGAGTTTTAAAAAAAAAAATTTTGTGCTAGCCTGTCAATGGCCGACACCAAGTACAAAT
AAAAAAATTCAAATTTAAAAAAAAATTTTGATGTCCA
Found at i:89229724 original size:205 final size:204
Alignment explanation
Indices: 89229513--89229940 Score: 610
Period size: 205 Copynumber: 2.1 Consensus size: 204
89229503 TTTCGGACAT
*
89229513 CAAAATTTTTTTTTAAAAAA-ATTGATTTTTTTGGTACTTGGTGTCGGCCATTGACAGG-CAGCA
1 CAAAATTTTTTTTTAAAAAATATTAATTTTTTT--TACTTGGTGTCGGCCATTGACAGGCCAGCA
* *
89229576 CCAAATTTTTTTAAAAAAACTCGTATTTTTGGACATCAAATTTTTTTAAAAAACTCGTATTGGTG
64 CCAAATTTTTTTAAAAAAACTCGTATTTTCGAACATCAAATTTTTTTAAAAAACTCGTATTGGTG
** * * * *
89229641 CCGGCCATTGGCAGGC-CGACACAAAAAAAATTTGAAATTTTTTTTGTACTTGGTGCCGATCATT
129 CCGGCCATTGAAAGACAAG-CACAAAAAAAA-TTGAAATTTTTTTTGTACTTAGTGCCGACCATT
89229705 GACAGGCCAACAC
192 GACAGGCCAACAC
* *
89229718 CAAAATTTTTTTTTAAAAAATTTTTAATTTTTTTTACTTGGTGTCGGCTATTGACAGGCCAGCAC
1 CAAAATTTTTTTTTAAAAAA-TATTAATTTTTTTTACTTGGTGTCGGCCATTGACAGGCCAGCAC
* * *
89229783 CAAATTTTTTTTAAAAAACTTGTATTTTCGAACATCAATTTTTTTTAAAAAACTCGTATTGGTGC
65 CAAATTTTTTTAAAAAAACTCGTATTTTCGAACATCAAATTTTTTTAAAAAACTCGTATTGGTGC
* * * * *
89229848 CGGCTATTGAAAGACAAGCATAAAGAAAATTGAATTTTTTTTTGTACTTAGTGCCGACCATTGAT
130 CGGCCATTGAAAGACAAGCACAAAAAAAATTGAAATTTTTTTTGTACTTAGTGCCGACCATTGAC
89229913 AGGCCAACAC
195 AGGCCAACAC
*
89229923 CAAATTTTTTTTTTAAAA
1 CAAAATTTTTTTTTAAAA
89229941 CTCGTATTTT
Statistics
Matches: 199, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
205 102 0.51
206 86 0.43
207 11 0.06
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (204 bp):
CAAAATTTTTTTTTAAAAAATATTAATTTTTTTTACTTGGTGTCGGCCATTGACAGGCCAGCACC
AAATTTTTTTAAAAAAACTCGTATTTTCGAACATCAAATTTTTTTAAAAAACTCGTATTGGTGCC
GGCCATTGAAAGACAAGCACAAAAAAAATTGAAATTTTTTTTGTACTTAGTGCCGACCATTGACA
GGCCAACAC
Found at i:89229771 original size:65 final size:65
Alignment explanation
Indices: 89229665--89229800 Score: 179
Period size: 65 Copynumber: 2.1 Consensus size: 65
89229655 GCCGACACAA
89229665 AAAAAATTTGAAATTTTTTTTGTACTTGGTGCCGATCATTGACAGGCCAACACCAAAATTTTTTT
1 AAAAAATTTGAAATTTTTTTTGTACTTGGTGCCGATCATTGACAGGCCAACACC-AAA-TTTTTT
89229730 TT
64 TT
** * * *
89229732 AAAAAATTTTTAA-TTTTTTT-TACTTGGTGTCG-GCTATTGACAGGCCAGCACCAAATTTTTTT
1 AAAAAATTTGAAATTTTTTTTGTACTTGGTGCCGATC-ATTGACAGGCCAACACCAAATTTTTTT
89229794 T
65 T
89229795 AAAAAA
1 AAAAAA
89229801 CTTGTATTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
63 14 0.22
64 4 0.06
65 27 0.43
66 7 0.11
67 11 0.17
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (65 bp):
AAAAAATTTGAAATTTTTTTTGTACTTGGTGCCGATCATTGACAGGCCAACACCAAATTTTTTTT
Found at i:89231098 original size:15 final size:15
Alignment explanation
Indices: 89231078--89231109 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
89231068 GGGACCATTG
89231078 GATTTTATAAAGAGA
1 GATTTTATAAAGAGA
89231093 GATTTTATAAAGAGA
1 GATTTTATAAAGAGA
89231108 GA
1 GA
89231110 AAGCAGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (15 bp):
GATTTTATAAAGAGA
Found at i:89232216 original size:191 final size:194
Alignment explanation
Indices: 89231851--89232224 Score: 560
Period size: 191 Copynumber: 1.9 Consensus size: 194
89231841 TGGAAAGGGA
89231851 AATTGGAGAGAAAAGGGAGTAACTTGCACAGACTTACTGGAAAGGGGAACCGACGGACAACCCAA
1 AATTGGAGAG-AAAGGGAGTAACTTGCACAGACTTACTGGAAAGGGGAACCGACGGACAACCCAA
* * *
89231916 GATTTATCTTGCCTTGCTACCAGATACTCAAATCGTGAAATGTCACAATTGAGCCATCACAGAGC
65 AATTTACCTTGCCTTGCTACCAGATAC-C--ATCGTGAAATATCACAATTGAGCCATCACAGAGC
* *
89231981 TACTGATCCATTGGGCAAATTTGGGACCAAAAGAAGCCACATGGGAGGATTTTCGGTTCTATAGG
127 TACTGATCCAGTGGGCAAATTTGGGACCAAAAGAAGCAACATGGGAGGATTTTCGGTTCTATAGG
89232046 CTC
192 CTC
* * * *
89232049 AATTGGAGAG-AAGGGAGTAACTTTCAGAGACTTACTGGAAATGGGAACTGACGGACAACCCAAA
1 AATTGGAGAGAAAGGGAGTAACTTGCACAGACTTACTGGAAAGGGGAACCGACGGACAACCCAAA
*
89232113 ATTTACCTTGCCTTGGTACCAGATA-C-TCGTGAAATATCACAATTGAGCCATCATGCA-A-CTA
66 ATTTACCTTGCCTTGCTACCAGATACCATCGTGAAATATCACAATTGAGCCATCA--CAGAGCTA
*
89232174 TTGATCCAGTGGGCAAATTTGGGACCAAAAGAAGCAACATGGGAGGATTTT
129 CTGATCCAGTGGGCAAATTTGGGACCAAAAGAAGCAACATGGGAGGATTTT
89232225 GCTCAATTTT
Statistics
Matches: 163, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
191 77 0.47
192 1 0.01
193 2 0.01
194 1 0.01
196 72 0.44
198 10 0.06
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (194 bp):
AATTGGAGAGAAAGGGAGTAACTTGCACAGACTTACTGGAAAGGGGAACCGACGGACAACCCAAA
ATTTACCTTGCCTTGCTACCAGATACCATCGTGAAATATCACAATTGAGCCATCACAGAGCTACT
GATCCAGTGGGCAAATTTGGGACCAAAAGAAGCAACATGGGAGGATTTTCGGTTCTATAGGCTC
Found at i:89232456 original size:78 final size:78
Alignment explanation
Indices: 89232327--89232486 Score: 320
Period size: 78 Copynumber: 2.1 Consensus size: 78
89232317 GAAATAAAAC
89232327 CTAATTTTGACCTAGACCCTAAATTGATTTAGCAGACTCAAATGAGAAAAAGGCTAAAAGAAATT
1 CTAATTTTGACCTAGACCCTAAATTGATTTAGCAGACTCAAATGAGAAAAAGGCTAAAAGAAATT
89232392 GGACCAAAGAAGA
66 GGACCAAAGAAGA
89232405 CTAATTTTGACCTAGACCCTAAATTGATTTAGCAGACTCAAATGAGAAAAAGGCTAAAAGAAATT
1 CTAATTTTGACCTAGACCCTAAATTGATTTAGCAGACTCAAATGAGAAAAAGGCTAAAAGAAATT
89232470 GGACCAAAGAAGA
66 GGACCAAAGAAGA
89232483 CTAA
1 CTAA
89232487 CGATGCCCAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (78 bp):
CTAATTTTGACCTAGACCCTAAATTGATTTAGCAGACTCAAATGAGAAAAAGGCTAAAAGAAATT
GGACCAAAGAAGA
Found at i:89244951 original size:9 final size:9
Alignment explanation
Indices: 89244936--89244971 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
89244926 ATTGAATTAA
89244936 ATAATATAT
1 ATAATATAT
89244945 AT--TATAT
1 ATAATATAT
89244952 ATAATATAT
1 ATAATATAT
89244961 ATAATATAT
1 ATAATATAT
89244970 AT
1 AT
89244972 TTTTGAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.28
9 18 0.72
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATAATATAT
Found at i:89244957 original size:16 final size:16
Alignment explanation
Indices: 89244936--89244970 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
89244926 ATTGAATTAA
*
89244936 ATAATATATATTATAT
1 ATAATATATATAATAT
89244952 ATAATATATATAATAT
1 ATAATATATATAATAT
89244968 ATA
1 ATA
89244971 TTTTTGAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATATATAATAT
Found at i:89245995 original size:33 final size:35
Alignment explanation
Indices: 89245951--89246036 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 35
89245941 ATAACACTGA
89245951 TAAAAAGATAATATATTATATATAAA-ATTACA-GT
1 TAAAAA-ATAATATATTATATATAAATATTACATGT
* * * *
89245985 TAGAAAATAATATATCATATATAAATTTTACATTT
1 TAAAAAATAATATATTATATATAAATATTACATGT
89246020 TAAAAAATAATAATATT
1 TAAAAAATAAT-ATATT
89246037 TTAAAAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
33 18 0.42
34 10 0.23
35 11 0.26
36 4 0.09
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (35 bp):
TAAAAAATAATATATTATATATAAATATTACATGT
Found at i:89246376 original size:19 final size:20
Alignment explanation
Indices: 89246351--89246396 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
89246341 GGCAATAAAA
89246351 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* *
89246371 -ATAAAAATTATTAAAATTT
1 AATAAAAATCAATAAAATTT
89246390 AATAAAA
1 AATAAAA
89246397 GAATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:89251998 original size:5 final size:5
Alignment explanation
Indices: 89251988--89252029 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
89251978 GATTGGATAT
* *
89251988 TTTTA TTTTA TTTTA TTTGA ATTTA TTTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA T
89252030 ATTGTTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:89255904 original size:18 final size:19
Alignment explanation
Indices: 89255867--89255905 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
89255857 TTTTTCCCTT
89255867 GAAAATTATAGAAGAGTTG
1 GAAAATTATAGAAGAGTTG
89255886 GAAAATT-TAAGAA-AGTTG
1 GAAAATTAT-AGAAGAGTTG
89255904 GA
1 GA
89255906 GAGTTATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (19 bp):
GAAAATTATAGAAGAGTTG
Found at i:89256424 original size:7 final size:7
Alignment explanation
Indices: 89256412--89256443 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
89256402 TTTCACTATT
89256412 TATAATA
1 TATAATA
89256419 TATAATA
1 TATAATA
89256426 TATAATA
1 TATAATA
89256433 TATAATA
1 TATAATA
89256440 TATA
1 TATA
89256444 TTTTTACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:89257326 original size:19 final size:19
Alignment explanation
Indices: 89257292--89257354 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
89257282 ATAAATTTTT
89257292 TAATATATTTTAATATTTCA
1 TAATA-ATTTTAATATTTCA
89257312 -AATAATTTTATATATTTCA
1 TAATAATTTTA-ATATTTCA
* *
89257331 TTATAATTTTTAA-ATTTAA
1 TAATAA-TTTTAATATTTCA
89257350 TAATA
1 TAATA
89257355 TGTACTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.16
19 21 0.57
20 5 0.14
21 5 0.14
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATTTTAATATTTCA
Found at i:89257707 original size:16 final size:14
Alignment explanation
Indices: 89257670--89257705 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
89257660 GCTTGTATGC
89257670 ATAT-AAAAGCTAT
1 ATATAAAAAGCTAT
89257683 ATATAAAAAGCTAT
1 ATATAAAAAGCTAT
89257697 ATATAAAAA
1 ATATAAAAA
89257706 AAAACATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (14 bp):
ATATAAAAAGCTAT
Found at i:89257939 original size:24 final size:23
Alignment explanation
Indices: 89257912--89257957 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
89257902 AATAGTATAG
89257912 ATTTAGTTTAATTTTGTAAAAAAA
1 ATTTAGTTTAATTTTG-AAAAAAA
89257936 ATTTAGTTTAATTTTGAAAAAA
1 ATTTAGTTTAATTTTGAAAAAA
89257958 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (23 bp):
ATTTAGTTTAATTTTGAAAAAAA
Found at i:89265662 original size:23 final size:21
Alignment explanation
Indices: 89265636--89265692 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
89265626 ACCACGAAAG
*
89265636 TTTATAAAATTTATAAATAATAA
1 TTTATAAAATTCAT-AA-AATAA
89265659 TTTATTAAAAATTCATAAAATAA
1 TTTA-T-AAAATTCATAAAATAA
*
89265682 TTTAAAAAATT
1 TTTATAAAATT
89265693 AATTTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 6 0.20
23 13 0.43
24 3 0.10
25 8 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTATAAAATTCATAAAATAA
Found at i:89265669 original size:25 final size:25
Alignment explanation
Indices: 89265641--89265704 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
89265631 GAAAGTTTAT
**
89265641 AAAATTTATAAATAATAATTTATTA
1 AAAATTTATAAATAATAATTTAAAA
*
89265666 AAAATTCAT-AA-AATAATTTAAAA
1 AAAATTTATAAATAATAATTTAAAA
89265689 AATTAATTTATAAATA
1 AA--AATTTATAAATA
89265705 TTATTAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 12 0.39
24 2 0.06
25 14 0.45
26 2 0.06
27 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
AAAATTTATAAATAATAATTTAAAA
Found at i:89267918 original size:15 final size:15
Alignment explanation
Indices: 89267898--89267927 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89267888 ATAAAGATTA
*
89267898 TAATAATGATAAAAG
1 TAATAATAATAAAAG
89267913 TAATAATAATAAAAG
1 TAATAATAATAAAAG
89267928 AAAGAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (15 bp):
TAATAATAATAAAAG
Found at i:89269111 original size:21 final size:21
Alignment explanation
Indices: 89269087--89269134 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
89269077 GGTACATGCT
*
89269087 CATGTGGTCTTGAGACACGCC
1 CATGTGGTCTAGAGACACGCC
*
89269108 CATGTGGTCTAGGGACACGCC
1 CATGTGGTCTAGAGACACGCC
*
89269129 CGTGTG
1 CATGTG
89269135 ACCCTTAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (21 bp):
CATGTGGTCTAGAGACACGCC
Found at i:89274507 original size:43 final size:42
Alignment explanation
Indices: 89274447--89274605 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
89274437 AACATATACA
* *
89274447 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAACA-CG
* * * *
89274490 ATGCCACTGTCCTAGACAAGGTCTTACACGAAATCAGATACG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAACACG
* * * * **
89274532 ATACCAATGTCCCAGACATGGTCTTGCACGCAAAACAGAAGTCG
1 ATGCCACTGTCCCAGACATGGTCTTACACG-AAATCA-AACACG
** *
89274576 ATGCCAAC-GTCTTAGACGTGGTCTTACACG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACG
89274606 CAGAATAGAT
Statistics
Matches: 91, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 29 0.32
43 36 0.40
44 25 0.27
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAACACG
Found at i:89278066 original size:27 final size:27
Alignment explanation
Indices: 89278036--89278130 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
89278026 ACCCTCAAAT
*
89278036 TGGTAAAATGACTGTTTTTCCCTTATG
1 TGGTAAAATGACTGTTTTACCCTTATG
* * *
89278063 TGGTAAAATGACTATTTTACTCTTATA
1 TGGTAAAATGACTGTTTTACCCTTATG
* * *
89278090 TGGTAAAATGATTGTTTTGCCCTGATG
1 TGGTAAAATGACTGTTTTACCCTTATG
*
89278117 TGATAAAATGACTG
1 TGGTAAAATGACTG
89278131 AAATGCCCCT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (27 bp):
TGGTAAAATGACTGTTTTACCCTTATG
Found at i:89278147 original size:54 final size:53
Alignment explanation
Indices: 89278036--89278173 Score: 143
Period size: 54 Copynumber: 2.5 Consensus size: 53
89278026 ACCCTCAAAT
* * ** * * *
89278036 TGGTAAAATGACTGTTTTTCCCTTATGTGGTAAAATGACTATTTTACTCTTATA
1 TGGTAAAATGACTGTTTTGCCC-TATGTGATAAAATGACTATAATACCCCTACA
* *
89278090 TGGTAAAATGATTGTTTTGCCCTGATGTGATAAAATGACTGA-AATGCCCCTACA
1 TGGTAAAATGACTGTTTTGCCCT-ATGTGATAAAATGACT-ATAATACCCCTACA
*
89278144 TGGTAAATTGACTGTTTTGCCCCTATGTGA
1 TGGTAAAATGACTGTTTTG-CCCTATGTGA
89278174 GGTATTTATA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
53 1 0.01
54 64 0.91
55 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (53 bp):
TGGTAAAATGACTGTTTTGCCCTATGTGATAAAATGACTATAATACCCCTACA
Found at i:89278164 original size:27 final size:27
Alignment explanation
Indices: 89278036--89278169 Score: 117
Period size: 27 Copynumber: 5.0 Consensus size: 27
89278026 ACCCTCAAAT
* * *
89278036 TGGTAAAATGACTGTTTTTCCCTTATG
1 TGGTAAAATGACTGTTTTGCCCCTATA
* * * *
89278063 TGGTAAAATGACTATTTTACTCTTATA
1 TGGTAAAATGACTGTTTTGCCCCTATA
* *
89278090 TGGTAAAATGATTGTTTTG-CCCTGATG
1 TGGTAAAATGACTGTTTTGCCCCT-ATA
* *** *
89278117 TGATAAAATGACTGAAATGCCCCTACA
1 TGGTAAAATGACTGTTTTGCCCCTATA
*
89278144 TGGTAAATTGACTGTTTTGCCCCTAT
1 TGGTAAAATGACTGTTTTGCCCCTAT
89278170 GTGAGGTATT
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
26 2 0.02
27 76 0.93
28 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
TGGTAAAATGACTGTTTTGCCCCTATA
Found at i:89278554 original size:18 final size:18
Alignment explanation
Indices: 89278533--89278570 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
89278523 ACTATTTTTA
* *
89278533 CACTGTTTATTGTTACTG
1 CACTATTTACTGTTACTG
89278551 CACTATTTACTGTTACTG
1 CACTATTTACTGTTACTG
89278569 CA
1 CA
89278571 ATGGCAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (18 bp):
CACTATTTACTGTTACTG
Found at i:89280216 original size:23 final size:23
Alignment explanation
Indices: 89280190--89280237 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
89280180 ATCATTAACA
89280190 ATGAATAAACACAATCAAATAAT
1 ATGAATAAACACAATCAAATAAT
89280213 ATGAATAAACACAATCAAATAAT
1 ATGAATAAACACAATCAAATAAT
89280236 AT
1 AT
89280238 CTTCACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.60, C:0.12, G:0.04, T:0.23
Consensus pattern (23 bp):
ATGAATAAACACAATCAAATAAT
Found at i:89283927 original size:48 final size:48
Alignment explanation
Indices: 89283804--89283928 Score: 123
Period size: 48 Copynumber: 2.6 Consensus size: 48
89283794 TTAGGTTAAA
* * *
89283804 AAACC-TCATTGCTGGGCCATTCGGGATGGTAAAGTATTGAAATAGAGT
1 AAACCATCATTGTTAGGCCA-TCGGGATGGTAAAGTATTGAAATAGAGC
* *
89283852 AAACCATCATTGTTAGGCCATCTGGGATGGTAATA-TATTG-TATAGTGC
1 AAACCATCATTGTTAGGCCATC-GGGATGGTAA-AGTATTGAAATAGAGC
*
89283900 AAACCATCCTTGTCT-GGCCACTCGGGATG
1 AAACCATCATTGT-TAGGCCA-TCGGGATG
89283929 ATATAATGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
48 35 0.53
49 30 0.45
50 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (48 bp):
AAACCATCATTGTTAGGCCATCGGGATGGTAAAGTATTGAAATAGAGC
Found at i:89286226 original size:6 final size:6
Alignment explanation
Indices: 89286212--89286244 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
89286202 AGTGAACTAG
*
89286212 ATGAGA ATGAAA ATGAGA ATGAGA ATGAGA ATG
1 ATGAGA ATGAGA ATGAGA ATGAGA ATGAGA ATG
89286245 GTTAGAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.18
Consensus pattern (6 bp):
ATGAGA
Found at i:89287357 original size:18 final size:18
Alignment explanation
Indices: 89287324--89287358 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89287314 TGAGGGTAGG
*
89287324 ATCTGAATCTGAATCTGA
1 ATCTGAATATGAATCTGA
*
89287342 ATCTGAATATGCATCTG
1 ATCTGAATATGAATCTG
89287359 CATAAGTAAC
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:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
ATCTGAATATGAATCTGA
Found at i:89287361 original size:6 final size:6
Alignment explanation
Indices: 89287324--89287349 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
89287314 TGAGGGTAGG
89287324 ATCTGA ATCTGA ATCTGA ATCTGA AT
1 ATCTGA ATCTGA ATCTGA ATCTGA AT
89287350 ATGCATCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (6 bp):
ATCTGA
Found at i:89297190 original size:48 final size:48
Alignment explanation
Indices: 89297126--89297415 Score: 456
Period size: 48 Copynumber: 6.0 Consensus size: 48
89297116 CAAGATAAAT
* * *
89297126 ATATATATGTGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
89297174 ATATGTATATGTGGTAAAGACGAATGGCTAATGTGAAATATG-ATTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA-TGAG
*
89297222 ATATGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
89297270 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
89297318 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAGTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
89297366 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
89297414 AT
1 AT
89297416 GTGTGTATAT
Statistics
Matches: 221, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
47 1 0.00
48 219 0.99
49 1 0.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:89297606 original size:37 final size:37
Alignment explanation
Indices: 89297556--89297665 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
89297546 GGAAATATAT
89297556 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
89297593 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
89297630 TCCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
89297666 TCGAGCTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:89303191 original size:99 final size:92
Alignment explanation
Indices: 89303065--89303284 Score: 241
Period size: 99 Copynumber: 2.3 Consensus size: 92
89303055 TCCATCAAGT
* * *
89303065 CGATGCCATGTCCTAAACATGGTCTTACACTGACTATCAAAATCG-AGGCTGACGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-AAATCGTA-GCCGACG-CATGTCCCA
*
89303129 GACATTGTCTTACACTAGCTTTCACATATCCG-TGC
61 GACA-TGTCTTACACTAGC-TT-ACATAT-CGAGGC
** *
89303164 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATTTCGTAGCCGATGCATGTCCCAGACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACAAATCGTAGCCGACGCATGTCCCAGACAT
* *
89303229 GTCTTACACTGGCTTACATCTCGAGGC
66 GTCTTACACTAGCTTACATATCGAGGC
*
89303256 CGAT-ACATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
89303285 AGCACTCGTC
Statistics
Matches: 109, Mismatches: 10, Indels: 13
0.83 0.08 0.10
Matches are distributed among these distances:
90 10 0.09
91 16 0.15
92 11 0.10
93 2 0.02
94 13 0.12
95 13 0.12
96 9 0.08
97 2 0.02
98 1 0.01
99 32 0.29
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACAAATCGTAGCCGACGCATGTCCCAGACAT
GTCTTACACTAGCTTACATATCGAGGC
Found at i:89303258 original size:46 final size:47
Alignment explanation
Indices: 89303018--89303332 Score: 245
Period size: 46 Copynumber: 6.7 Consensus size: 47
89303008 GGTATAATGT
* * *
89303018 CGATGCCATGTCCTAGACATGGTCTTACACTGGCT-CATCCATC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT--ATCGAGGC
* * * *
89303065 CGATGCCATGTCCTAAACATGGTCTTACACTGACTATCAAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-C-ATATCGAGGC
* * * * *
89303114 TGACGCCATGTCCCAGACATTGTCTTACACTAGCTTTCACATATCCG-TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--T-ACATAT-CGAGGC
* *
89303164 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATTTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATCG-AGGC
*
89303210 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATATCGAGGC
* * * * * *
89303256 CGAT-ACATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTA--CATATCGAGGC
**
89303302 TAATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
89303333 AGCTCACAAT
Statistics
Matches: 221, Mismatches: 29, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
44 13 0.06
45 17 0.08
46 61 0.28
47 47 0.21
48 13 0.06
49 30 0.14
50 35 0.16
51 4 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATCGAGGC
Found at i:89309177 original size:46 final size:46
Alignment explanation
Indices: 89309110--89309337 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
89309100 AGTGTGCTCT
89309110 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
89309156 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
89309202 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
89309248 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
89309294 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
89309338 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:89310250 original size:12 final size:12
Alignment explanation
Indices: 89310219--89310276 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
89310209 TAGGTATTAC
* *
89310219 AGGAGGTGCAAC
1 AGGAGGTACAAT
*
89310231 AAGAGGTACAAT
1 AGGAGGTACAAT
*
89310243 AGGGGGTACAAT
1 AGGAGGTACAAT
*
89310255 AGGATGTACAAT
1 AGGAGGTACAAT
89310267 AGGAGGTACA
1 AGGAGGTACA
89310277 TCAAGGTGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.40, C:0.10, G:0.34, T:0.16
Consensus pattern (12 bp):
AGGAGGTACAAT
Found at i:89310286 original size:24 final size:23
Alignment explanation
Indices: 89310219--89310297 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
89310209 TAGGTATTAC
*
89310219 AGGAGGTGCAACAAGAG-GTACAAT
1 AGGAGGTAC-ACAAG-GTGTACAAT
*
89310243 AGGGGGTACA-ATAGGATGTACAAT
1 AGGAGGTACACA-AGG-TGTACAAT
*
89310267 AGGAGGTACATCAAGGTGTACAGT
1 AGGAGGTACA-CAAGGTGTACAAT
89310291 AGGAGGT
1 AGGAGGT
89310298 GGTGGTCGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
22 2 0.04
23 3 0.07
24 37 0.80
25 3 0.07
26 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (23 bp):
AGGAGGTACACAAGGTGTACAAT
Found at i:89311506 original size:42 final size:42
Alignment explanation
Indices: 89311442--89311530 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
89311432 AGAACATATG
* *
89311442 TTTTCTCCCTACTTATTGATTAATTTACCCCCATTTAATTAT
1 TTTTATCCCTACTTATTGATTAATATACCCCCATTTAATTAT
* *
89311484 TTTTATCCCTACTTATTGATTAATATACCTCTATTTAATTAT
1 TTTTATCCCTACTTATTGATTAATATACCCCCATTTAATTAT
89311526 TTTTA
1 TTTTA
89311531 ACACATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (42 bp):
TTTTATCCCTACTTATTGATTAATATACCCCCATTTAATTAT
Found at i:89314090 original size:35 final size:35
Alignment explanation
Indices: 89314051--89314120 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
89314041 TTATTTATTG
*
89314051 TAAATAGAAAATTTACTTTAAATGTATAAAAATGA
1 TAAATAGAAAATTCACTTTAAATGTATAAAAATGA
89314086 TAAATAGAAAATTCACTTTAAATGTATAAAAATGA
1 TAAATAGAAAATTCACTTTAAATGTATAAAAATGA
89314121 ATAAGAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (35 bp):
TAAATAGAAAATTCACTTTAAATGTATAAAAATGA
Found at i:89315549 original size:19 final size:20
Alignment explanation
Indices: 89315525--89315569 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
89315515 AAAAAGTTTG
89315525 GAATTTTT-ATAAATT-TTTT
1 GAATTTTTGA-AAATTATTTT
89315544 GAATTTTTGAAAATTATTTT
1 GAATTTTTGAAAATTATTTT
89315564 -AATTTT
1 GAATTTT
89315570 GTTTTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
GAATTTTTGAAAATTATTTT
Found at i:89322430 original size:25 final size:24
Alignment explanation
Indices: 89322396--89322478 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
89322386 TCTTGAACAG
*
89322396 GCTTGCAACTATCACTTCTCGCTAA
1 GCTTGCAACT-TCACTTCTTGCTAA
* *
89322421 GCTTGCAACTTTGACATCTTGCTAA
1 GCTTGCAAC-TTCACTTCTTGCTAA
* *
89322446 GCTTGCAGCTTGCACATTTTTGCTAA
1 GCTTGCAACTT-CAC-TTCTTGCTAA
89322472 GCTTGCA
1 GCTTGCA
89322479 GCTTGTACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.04
25 30 0.62
26 16 0.33
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (24 bp):
GCTTGCAACTTCACTTCTTGCTAA
Found at i:89322475 original size:26 final size:25
Alignment explanation
Indices: 89322411--89322489 Score: 97
Period size: 26 Copynumber: 3.1 Consensus size: 25
89322401 CAACTATCAC
* *
89322411 TTCTCGCTAAGCTTGCAACTTTGACA
1 TTCTTGCTAAGCTTGCAGC-TTGACA
89322437 -TCTTGCTAAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTG-ACA
*
89322462 TTTTTGCTAAGCTTGCAGCTTGTACA
1 TTCTTGCTAAGCTTGCAGCTTG-ACA
89322488 TT
1 TT
89322490 GGAAAGCTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.06
25 19 0.40
26 25 0.53
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (25 bp):
TTCTTGCTAAGCTTGCAGCTTGACA
Found at i:89323618 original size:21 final size:21
Alignment explanation
Indices: 89323589--89323632 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
89323579 AGTCTAGCTG
* *
89323589 AAAAGCTGAATTTGGTTGATA
1 AAAAACTGAATTCGGTTGATA
*
89323610 AAAAACTGAATTCGTTTGATA
1 AAAAACTGAATTCGGTTGATA
89323631 AA
1 AA
89323633 GTTGTGATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (21 bp):
AAAAACTGAATTCGGTTGATA
Found at i:89327255 original size:165 final size:162
Alignment explanation
Indices: 89326978--89327356 Score: 524
Period size: 165 Copynumber: 2.3 Consensus size: 162
89326968 TGTGCCCAAT
* * *
89326978 TTGCAAATTCTAAAGATAAAGAGTTGCTTTGGAATGGAAGAAATAATTCAAGACTCACAAGTATC
1 TTGCAAACTCTAAAGATAAAGAGCTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
* * *
89327043 AACCATAAGCTTCCAATGCCTAAGGGTATTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
66 AACCATAAGCTTCCAATGCCTAAGGGAAGTACAAGTCACAAAATGCAATAAATTGAAATTTCTCT
* *
89327108 TCCCCATGTGTGTTGCTAATAGTCTTGGGAAA
131 TCCCAATGTGTGTTACTAATAGTCTTGGGAAA
* * * *
89327140 TTGCAAACTCTGAAGATAGAGAGGTGCTTTGGAATGGAAGAAGTAATCCAAGACTCACAAGTACT
1 TTGCAAACTCTAAAGATAAAGAGCTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAG---T
* * * * *
89327205 ATCAACCATAAGCTTTCAATGCCTAATGGAAGTACAAGTGACAAAATGCAATAATTTGAAATTTG
63 ATCAACCATAAGCTTCCAATGCCTAAGGGAAGTACAAGTCACAAAATGCAATAAATTGAAATTTC
89327270 TCTTCCCAATGTGTGTTACTAATAGTCTTGGGAAA
128 TCTTCCCAATGTGTGTTACTAATAGTCTTGGGAAA
* * ** * *
89327305 TTGCAAGCTCTAAAGATAAAGAGCTGCTCTCAAATGAAAGAAATAATTCAAG
1 TTGCAAACTCTAAAGATAAAGAGCTGCTTTGGAATGGAAGAAATAATCCAAG
89327357 GACCAGAAGT
Statistics
Matches: 188, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
162 55 0.29
165 133 0.71
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (162 bp):
TTGCAAACTCTAAAGATAAAGAGCTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
AACCATAAGCTTCCAATGCCTAAGGGAAGTACAAGTCACAAAATGCAATAAATTGAAATTTCTCT
TCCCAATGTGTGTTACTAATAGTCTTGGGAAA
Found at i:89331129 original size:18 final size:18
Alignment explanation
Indices: 89331094--89331132 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
89331084 CTCTTGCTTA
89331094 TCTATTTTTTTTAAAATTT
1 TCTATTTTTTTT-AAATTT
89331113 TCTATTTTTATTT-AATTT
1 TCTATTTTT-TTTAAATTT
89331131 TC
1 TC
89331133 AAATTTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 9 0.47
20 3 0.16
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTATTTTTTTTAAATTT
Found at i:89340182 original size:15 final size:16
Alignment explanation
Indices: 89340162--89340195 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
89340152 ATAATAATTT
89340162 AAAATGAAAATT-TAA
1 AAAATGAAAATTATAA
89340177 AAAATGAAAATTATAA
1 AAAATGAAAATTATAA
89340193 AAA
1 AAA
89340196 TAAATGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAATGAAAATTATAA
Found at i:89340194 original size:14 final size:14
Alignment explanation
Indices: 89340157--89340194 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
89340147 GTGACATAAT
89340157 AATT-TAAAATGAA
1 AATTATAAAATGAA
*
89340170 AATTTAAAAAATGAA
1 AA-TTATAAAATGAA
89340185 AATTATAAAA
1 AATTATAAAA
89340195 ATAAATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 9 0.43
15 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
AATTATAAAATGAA
Found at i:89343510 original size:21 final size:21
Alignment explanation
Indices: 89343484--89343529 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
89343474 GAAGTCTAGC
* *
89343484 TAAAAAGCTGAATTTGGTTGA
1 TAAAAAACTGAATTCGGTTGA
*
89343505 TAAAAAACTGAATTCGTTTGA
1 TAAAAAACTGAATTCGGTTGA
89343526 TAAA
1 TAAA
89343530 GTTGTGATGA
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:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (21 bp):
TAAAAAACTGAATTCGGTTGA
Found at i:89347146 original size:165 final size:162
Alignment explanation
Indices: 89346842--89347164 Score: 477
Period size: 165 Copynumber: 2.0 Consensus size: 162
89346832 TGTGCCCAAT
** * **
89346842 TTGCAAACTTTGAAGATAAAGAGGTGCTTTGGAATGGAAGAAATAATCCAAGACTCACAAGTATC
1 TTGCAAACCCTGAAGATAAAGAGATGCTTTGGAATGGAAGAAATAATCCAAGACAAACAAGTATC
* * * * * * *
89346907 AACCATAAGCTTTCAATACTTAAGGGAAGTACAAGTTACAGAATGTAATGATTTGAAATTTCTCT
66 AACCATAAGCTTCCAATACCTAAGGAAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
89346972 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
131 TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
**
89347004 TTGCAAACCCTGAAGATAGTGAGATGCTTTGGAATGGAAGAAATAATCCAAGACAAACAAGTATC
1 TTGCAAACCCTGAAGATAAAGAGATGCTTTGGAATGGAAGAAATAATCCAAGACAAACAAG--T-
89347069 ATCAACCATAAGCTTCCAA-AGCCTAAGGAAAGTACAAGTCACAGAATGCAATAAATTGAAATTT
63 ATCAACCATAAGCTTCCAATA-CCTAAGGAAAGTACAAGTCACAGAATGCAATAAATTGAAATTT
89347133 CTCTTCCCAATGTGTGTTGCTAATAGTCTTGG
127 CTCTTCCCAATGTGTGTTGCTAATAGTCTTGG
89347165 CACTACAGGA
Statistics
Matches: 143, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
162 54 0.38
164 2 0.01
165 87 0.61
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (162 bp):
TTGCAAACCCTGAAGATAAAGAGATGCTTTGGAATGGAAGAAATAATCCAAGACAAACAAGTATC
AACCATAAGCTTCCAATACCTAAGGAAAGTACAAGTCACAGAATGCAATAAATTGAAATTTCTCT
TCCCAATGTGTGTTGCTAATAGTCTTGGGAAA
Found at i:89347296 original size:40 final size:41
Alignment explanation
Indices: 89347252--89347355 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 41
89347242 CATTTTACCA
* *
89347252 AAAACGCTGCTAAAA-ACTGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCTGCTAAAAGACAGAGCAATAGCGGCGCTTTTAGT
** * **
89347292 AAAACAATGCTAAAAGACAGATCTTTAGCGGCGCTTTTAGT
1 AAAACGCTGCTAAAAGACAGAGCAATAGCGGCGCTTTTAGT
*
89347333 AAAACGCCGCTAAAAGACAGAGC
1 AAAACGCTGCTAAAAGACAGAGC
89347356 TTTAGCCAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 13 0.25
41 39 0.75
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAACGCTGCTAAAAGACAGAGCAATAGCGGCGCTTTTAGT
Found at i:89348023 original size:24 final size:24
Alignment explanation
Indices: 89347996--89348044 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
89347986 CGTATATTTA
*
89347996 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
89348020 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
89348044 T
1 T
89348045 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:89348381 original size:7 final size:7
Alignment explanation
Indices: 89348322--89348382 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
89348312 GAGTTACTAT
*
89348322 TTTAAGG
1 TTTATGG
89348329 TTTATGG
1 TTTATGG
*
89348336 ATTATGG
1 TTTATGG
*
89348343 ATTATAGG
1 TTTAT-GG
89348351 TTTATGG
1 TTTATGG
* *
89348358 ATTATGA
1 TTTATGG
**
89348365 TTTACAG
1 TTTATGG
89348372 TTTATGG
1 TTTATGG
89348379 TTTA
1 TTTA
89348383 AGGGTTGGGG
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 36 0.86
8 6 0.14
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:89348394 original size:14 final size:15
Alignment explanation
Indices: 89348377--89348446 Score: 74
Period size: 14 Copynumber: 4.9 Consensus size: 15
89348367 TACAGTTTAT
89348377 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
89348391 GGTTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
* *
89348406 TG-TTAGGGGTTAGG
1 GGTTTAAGGGTTAGG
* *
89348420 GG-TTATGGGTTATG
1 GGTTTAAGGGTTAGG
89348434 GGTTTAAGGGTTA
1 GGTTTAAGGGTTA
89348447 TGTTGTATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:89348395 original size:21 final size:22
Alignment explanation
Indices: 89348371--89348442 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 22
89348361 ATGATTTACA
*
89348371 GTTTATGGTTTAAGG-GTT-GGG
1 GTTTAAGGTTT-AGGTGTTAGGG
89348392 GTTTAAGGTTTAGGTGTTAGGG
1 GTTTAAGGTTTAGGTGTTAGGG
* * *
89348414 G-TTAGGGGTTATGG-GTTATGG
1 GTTTAAGGTTTA-GGTGTTAGGG
89348435 GTTTAAGG
1 GTTTAAGG
89348443 GTTATGTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 3 0.07
21 28 0.67
22 11 0.26
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (22 bp):
GTTTAAGGTTTAGGTGTTAGGG
Found at i:89348444 original size:22 final size:22
Alignment explanation
Indices: 89348390--89348448 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
89348380 TTAAGGGTTG
*
89348390 GGGTTTAAGGTTTA-GGTGTTA
1 GGGTTTAAGGGTTATGGTGTTA
* *
89348411 GGGGTTAGGGGTTATGG-GTTA
1 GGGTTTAAGGGTTATGGTGTTA
89348432 TGGGTTTAAGGGTTATG
1 -GGGTTTAAGGGTTATG
89348449 TTGTATGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (22 bp):
GGGTTTAAGGGTTATGGTGTTA
Found at i:89348823 original size:22 final size:23
Alignment explanation
Indices: 89348798--89348861 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
89348788 AATTTTTTAA
*
89348798 AAAAATTATTTAAAATT-AATAT
1 AAAAATTATTAAAAATTCAATAT
89348820 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
* *
89348842 AAAAATTATAAAAAAGTCAA
1 AAAAATTATTAAAAATTCAA
89348862 ACATTAGCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 8 0.23
22 17 0.49
23 10 0.29
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:89348897 original size:40 final size:40
Alignment explanation
Indices: 89348853--89348975 Score: 176
Period size: 40 Copynumber: 3.1 Consensus size: 40
89348843 AAAATTATAA
* *
89348853 AAAAGTCAAACATTAGCGGCGTTTATGATAAAAACGCCGC
1 AAAAGACAAACAATAGCGGCGTTTATGATAAAAACGCCGC
*
89348893 AAAAGACAAGCAATAGCGGCGTTTAT-ATAAAAACGCCGC
1 AAAAGACAAACAATAGCGGCGTTTATGATAAAAACGCCGC
* * **
89348932 AAAAGGCAATCAATAGTAGCGTTTATGATAAAAACGCCGC
1 AAAAGACAAACAATAGCGGCGTTTATGATAAAAACGCCGC
89348972 AAAA
1 AAAA
89348976 AGTAATTTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 35 0.47
40 40 0.53
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.18
Consensus pattern (40 bp):
AAAAGACAAACAATAGCGGCGTTTATGATAAAAACGCCGC
Found at i:89348934 original size:39 final size:40
Alignment explanation
Indices: 89348866--89348975 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 40
89348856 AGTCAAACAT
89348866 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
* *
89348906 TAGCGGCGTTTAT-ATAAAAACGCCGCAAAAGGCAATCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
**
89348945 TAGTAGCGTTTATGATAAAAACGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
89348976 AGTAATTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
39 35 0.54
40 30 0.46
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
Found at i:89352120 original size:33 final size:33
Alignment explanation
Indices: 89352073--89352139 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
89352063 ATCCTTTGGA
*
89352073 TCTCTTTGCTACTAGTTCCAATGCGTATCTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATCTTCT
*
89352106 TCTCATTGCTACTAGTTCCAATGCGTATGTTCT
1 TCTCATTGCTACTAGTTCCAATGCGTATCTTCT
89352139 T
1 T
89352140 AAGTATGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.13, T:0.45
Consensus pattern (33 bp):
TCTCATTGCTACTAGTTCCAATGCGTATCTTCT
Found at i:89352588 original size:241 final size:241
Alignment explanation
Indices: 89352164--89352598 Score: 834
Period size: 241 Copynumber: 1.8 Consensus size: 241
89352154 ATGAATTAAT
89352164 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
89352229 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* *
89352294 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATCATGAATCTTAAAAAATTC
89352359 AAAAAGACTTGAAAAAAATTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAATTCTATCGAGCTCATTTACTATTGAATA
* *
89352405 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACATT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
89352470 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
89352535 CTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATCATGAATCTTAAAAAATT
131 CTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATCATGAATCTTAAAAAATT
89352599 ACTATATTCA
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 190 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (241 bp):
TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATCATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAATTCTATCGAGCTCATTTACTATTGAATA
Found at i:89352740 original size:9 final size:9
Alignment explanation
Indices: 89352717--89352844 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
89352707 ATTGATCATT
*
89352717 ACTTAAATA
1 ACTTACATA
*
89352726 AATTACATA
1 ACTTACATA
89352735 ACTTACATA
1 ACTTACATA
* *
89352744 ACTCATATA
1 ACTTACATA
89352753 ACTTACATA
1 ACTTACATA
*
89352762 ATTTACATAACA
1 ACTTACAT---A
89352774 ACTTACATA
1 ACTTACATA
*
89352783 ACTCACATA
1 ACTTACATA
89352792 ACTTACATA
1 ACTTACATA
*
89352801 ATTTACATA
1 ACTTACATA
*
89352810 ACTCACATA
1 ACTTACATA
*
89352819 ACGTACATAACA
1 ACTTACAT---A
89352831 ACTTACATA
1 ACTTACATA
89352840 ACTTA
1 ACTTA
89352845 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:89352786 original size:39 final size:39
Alignment explanation
Indices: 89352734--89352811 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
89352724 TAAATTACAT
*
89352734 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
89352773 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
89352812 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:89352811 original size:57 final size:57
Alignment explanation
Indices: 89352730--89352842 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
89352720 TAAATAAATT
* * **
89352730 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
89352787 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
89352843 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:89380136 original size:22 final size:22
Alignment explanation
Indices: 89380111--89380154 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
89380101 CAAATGAAAG
*
89380111 AAAATTACCTTGACTGGATGCT
1 AAAATTACCTTGACTGCATGCT
*
89380133 AAAATTACGTTGACTGCATGCT
1 AAAATTACCTTGACTGCATGCT
89380155 TTATAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (22 bp):
AAAATTACCTTGACTGCATGCT
Found at i:89380498 original size:3 final size:3
Alignment explanation
Indices: 89380490--89380533 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
89380480 TCAATTGTAA
89380490 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
89380534 CAACGAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:89383054 original size:10 final size:10
Alignment explanation
Indices: 89383035--89383077 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
89383025 TTATAAAATC
89383035 TAAAAATAAA
1 TAAAAATAAA
*
89383045 TAAAAGTAAA
1 TAAAAATAAA
**
89383055 TAAAAAT-TT
1 TAAAAATAAA
89383064 TAAAAATAAA
1 TAAAAATAAA
89383074 TAAA
1 TAAA
89383078 GTGGGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:89386595 original size:21 final size:21
Alignment explanation
Indices: 89386569--89386623 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
89386559 CCTGTGTGAC
89386569 TCACACGGTCGTGTCACTAGA
1 TCACACGGTCGTGTCACTAGA
* * *
89386590 TCACACGG-CTATGTCGCTAGG
1 TCACACGGTC-GTGTCACTAGA
*
89386611 TCACATGGTCGTG
1 TCACACGGTCGTG
89386624 CTGAGAGCCC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.25
Consensus pattern (21 bp):
TCACACGGTCGTGTCACTAGA
Found at i:89387117 original size:15 final size:15
Alignment explanation
Indices: 89387078--89387119 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
89387068 TCCTTTTCAT
*
89387078 TTTAATA-AATTATA
1 TTTAATATATTTATA
*
89387092 TATACATATATTTATA
1 TTTA-ATATATTTATA
89387108 TTTAATATATTT
1 TTTAATATATTT
89387120 TCTAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.13
15 11 0.48
16 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATATATTTATA
Found at i:89388001 original size:60 final size:60
Alignment explanation
Indices: 89387936--89388053 Score: 236
Period size: 60 Copynumber: 2.0 Consensus size: 60
89387926 CGACCATGGG
89387936 TGGATCCTTTTTAAGAAAAGCAACGTTCATTAAAAACAAAAATAAAACAAGTGGGAGGCA
1 TGGATCCTTTTTAAGAAAAGCAACGTTCATTAAAAACAAAAATAAAACAAGTGGGAGGCA
89387996 TGGATCCTTTTTAAGAAAAGCAACGTTCATTAAAAACAAAAATAAAACAAGTGGGAGG
1 TGGATCCTTTTTAAGAAAAGCAACGTTCATTAAAAACAAAAATAAAACAAGTGGGAGG
89388054 TTTACTTTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.22
Consensus pattern (60 bp):
TGGATCCTTTTTAAGAAAAGCAACGTTCATTAAAAACAAAAATAAAACAAGTGGGAGGCA
Found at i:89388725 original size:18 final size:20
Alignment explanation
Indices: 89388684--89388728 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
89388674 TATTCCAAGC
* *
89388684 TCAATATTAGTCAATATTTT
1 TCAATATTAATCAATATTTA
89388704 TCAATATTAATC-A-ATTTA
1 TCAATATTAATCAATATTTA
89388722 TCAATAT
1 TCAATAT
89388729 CATTCAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 1 0.04
20 11 0.48
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
TCAATATTAATCAATATTTA
Found at i:89388763 original size:18 final size:19
Alignment explanation
Indices: 89388730--89388792 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 19
89388720 TATCAATATC
* *
89388730 ATTCAGTAATAGTCAATTA
1 ATTCAGTAAAAATCAATTA
**
89388749 ATT-AGTAGCAATCAATT-
1 ATTCAGTAAAAATCAATTA
89388766 ATTCAGTAAAAATCAATT-
1 ATTCAGTAAAAATCAATTA
89388784 ATTCAGTAA
1 ATTCAGTAA
89388793 CAGTTAGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
17 3 0.08
18 32 0.84
19 3 0.08
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (19 bp):
ATTCAGTAAAAATCAATTA
Found at i:89389019 original size:44 final size:44
Alignment explanation
Indices: 89388970--89389053 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
89388960 ACAGTAGTAG
* *
89388970 TACGACACACATGGTGCCTCATCGACTCGAA-GTCGAAGTAACAA
1 TACGACACACATAGTGCCTCACCGACTC-AAGGTCGAAGTAACAA
**
89389014 TACGACACTTATAGTGCCTCACCGACTCAAGGTCGAAGTA
1 TACGACACACATAGTGCCTCACCGACTCAAGGTCGAAGTA
89389054 TCCCTAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (44 bp):
TACGACACACATAGTGCCTCACCGACTCAAGGTCGAAGTAACAA
Found at i:89389740 original size:11 final size:11
Alignment explanation
Indices: 89389717--89389758 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
89389707 TTAATATTTA
89389717 AATTTCTTATTC
1 AATTTC-TATTC
89389729 AATTTCTATTC
1 AATTTCTATTC
89389740 AATTTCTATTC
1 AATTTCTATTC
*
89389751 AGTTTCTA
1 AATTTCTA
89389759 CTTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 23 0.79
12 6 0.21
ACGTcount: A:0.26, C:0.17, G:0.02, T:0.55
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:89389743 original size:23 final size:23
Alignment explanation
Indices: 89389717--89389767 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
89389707 TTAATATTTA
89389717 AATTTCTTATTCAATTTCTA-TTC
1 AATTTC-TATTCAATTTCTACTTC
* *
89389740 AATTTCTATTCAGTTTCTACTTT
1 AATTTCTATTCAATTTCTACTTC
89389763 AATTT
1 AATTT
89389768 TAATTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.57
Consensus pattern (23 bp):
AATTTCTATTCAATTTCTACTTC
Found at i:89390257 original size:5 final size:5
Alignment explanation
Indices: 89390247--89390275 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
89390237 CTTTATTTAT
89390247 TAATA TAATA TAATA TAATA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAATA TAAT
89390276 CATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:89390579 original size:38 final size:38
Alignment explanation
Indices: 89390537--89390615 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
89390527 TCATATGCCG
89390537 CCTCAACTTATGCTAAATGACATATTTACCATTTTGGT
1 CCTCAACTTATGCTAAATGACATATTTACCATTTTGGT
*
89390575 CCTCAACTTATGCTAAATGGCATATTTACCATTTTGGT
1 CCTCAACTTATGCTAAATGACATATTTACCATTTTGGT
89390613 CCT
1 CCT
89390616 TTTTACTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (38 bp):
CCTCAACTTATGCTAAATGACATATTTACCATTTTGGT
Found at i:89392244 original size:24 final size:24
Alignment explanation
Indices: 89392212--89392258 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
89392202 GGGCCCAACA
89392212 AGCCCAAAACTCAACCTACCCAAT
1 AGCCCAAAACTCAACCTACCCAAT
* *
89392236 AGCCTAAAACTCAACCTATCCAA
1 AGCCCAAAACTCAACCTACCCAA
89392259 ACCCAACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.38, G:0.04, T:0.15
Consensus pattern (24 bp):
AGCCCAAAACTCAACCTACCCAAT
Found at i:89393590 original size:2 final size:2
Alignment explanation
Indices: 89393583--89393616 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
89393573 ATTTTATACC
89393583 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
89393617 GTGTACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89393688 original size:23 final size:23
Alignment explanation
Indices: 89393662--89393716 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
89393652 TTGTTTTGTT
89393662 ATTTATTT-ATTTATTTTTATATC
1 ATTT-TTTGATTTATTTTTATATC
*
89393685 ATTTTTTGTTTTATTTTTATATTC
1 ATTTTTTGATTTATTTTTATA-TC
89393709 GATTTTTT
1 -ATTTTTT
89393717 TTCTTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 3 0.11
23 16 0.57
24 2 0.07
25 7 0.25
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (23 bp):
ATTTTTTGATTTATTTTTATATC
Found at i:89393723 original size:25 final size:23
Alignment explanation
Indices: 89393671--89393716 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 23
89393661 TATTTATTTA
89393671 TTTATTTTTATATCATTTTTTGT
1 TTTATTTTTATATCATTTTTTGT
89393694 TTTATTTTTATATTCGATTTTTT
1 TTTATTTTTATA-TC-ATTTTTT
89393717 TTCTTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 2 0.10
25 7 0.33
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTATTTTTATATCATTTTTTGT
Found at i:89397890 original size:88 final size:90
Alignment explanation
Indices: 89397686--89397895 Score: 273
Period size: 88 Copynumber: 2.4 Consensus size: 90
89397676 CAGTAGACCA
* * * *
89397686 TTCAAGTACCCAATTGAGTGCAAAAAAAAAATCGGGGGCTTAATTGCTTTTTTGAAAAAGTTTGA
1 TTCAAGTACCCAATTGAGTGCAAAATAAAAGTCGGGGGATTAATTGCCTTTTTGAAAAAGTTTGA
* *
89397751 GGGCTTTTTTGATACAAATTGAAAG
66 GGGCCTTTTTAATACAAATTGAAAG
*
89397776 TTCAAGTACCCAATTGAGTGCAAAATAAAAGT-TGGGGATTAATTGCCTTTTT-AAAAGAGTTTG
1 TTCAAGTACCCAATTGAGTGCAAAATAAAAGTCGGGGGATTAATTGCCTTTTTGAAAA-AGTTTG
** *
89397839 AGGGCCTTTTTAAT-GTATTTGAAAG
65 AGGGCCTTTTTAATACAAATTGAAAG
* **
89397864 TTCAAGTACCAAAGGGAGTGCAAAATAAAAGT
1 TTCAAGTACCCAATTGAGTGCAAAATAAAAGT
89397896 AAGGGCTTAA
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
88 41 0.39
89 35 0.33
90 30 0.28
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (90 bp):
TTCAAGTACCCAATTGAGTGCAAAATAAAAGTCGGGGGATTAATTGCCTTTTTGAAAAAGTTTGA
GGGCCTTTTTAATACAAATTGAAAG
Found at i:89397915 original size:88 final size:89
Alignment explanation
Indices: 89397721--89397915 Score: 250
Period size: 88 Copynumber: 2.2 Consensus size: 89
89397711 AAAAAATCGG
* *
89397721 GGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTTGATACAAATTGAAAGTTCAAGTACC
1 GGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCCTTTTTAATACAAATTGAAAGTTCAAGTACC
* ** **
89397786 CAATTGAGTGCAAAATAAAAGTTG
66 AAAGGGAGTGCAAAATAAAAGTAA
* * ** *
89397810 GGGATTAATTGCCTTTTT-AAAAGAGTTTGAGGGCCTTTTTAAT-GTATTTGAAAGTTCAAGTAC
1 GGGCTTAATTGCTTTTTTGAAAA-AGTTTGAGGGCCTTTTTAATACAAATTGAAAGTTCAAGTAC
89397873 CAAAGGGAGTGCAAAATAAAAGTAA
65 CAAAGGGAGTGCAAAATAAAAGTAA
*
89397898 GGGCTTAATTACTTTTTT
1 GGGCTTAATTGCTTTTTT
89397916 TTAAAAAATT
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
88 56 0.62
89 34 0.38
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (89 bp):
GGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCCTTTTTAATACAAATTGAAAGTTCAAGTACC
AAAGGGAGTGCAAAATAAAAGTAA
Found at i:89397937 original size:88 final size:88
Alignment explanation
Indices: 89397769--89397937 Score: 189
Period size: 88 Copynumber: 1.9 Consensus size: 88
89397759 TTGATACAAA
* ** ** *
89397769 TTGAAAGTTCAAGTACCCAATTGAGTGCAAAATAAAAGTTGGGGATTAATTGCCTTTTTAAAAGA
1 TTGAAAGTTCAAGTACCAAAGGGAGTGCAAAATAAAAGTAAGGGATTAATTACCTTTTTAAAAGA
* ** *
89397834 GTTTGAGGGCCTTTTTAATGTAT
66 ATTTGAAAGACTTTTTAATGTAT
* *
89397857 TTGAAAGTTCAAGTACCAAAGGGAGTGCAAAATAAAAGTAAGGGCTTAATTACTTTTTTTTAAAA
1 TTGAAAGTTCAAGTACCAAAGGGAGTGCAAAATAAAAGTAAGGGATTAATTAC--CTTTTTAAAA
*
89397922 -AATTT-AAAGATTTTTT
64 GAATTTGAAAGACTTTTT
89397938 TTAAAAAATT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
88 53 0.80
89 4 0.06
90 9 0.14
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (88 bp):
TTGAAAGTTCAAGTACCAAAGGGAGTGCAAAATAAAAGTAAGGGATTAATTACCTTTTTAAAAGA
ATTTGAAAGACTTTTTAATGTAT
Found at i:89404044 original size:16 final size:17
Alignment explanation
Indices: 89404023--89404055 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89404013 TAAGTGAGAA
89404023 TTGTTT-TATTTTATTT
1 TTGTTTGTATTTTATTT
*
89404039 TTGTTTGTTTTTTATTT
1 TTGTTTGTATTTTATTT
89404056 CAATTTCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (17 bp):
TTGTTTGTATTTTATTT
Found at i:89419168 original size:16 final size:16
Alignment explanation
Indices: 89419143--89419190 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
89419133 AAGCTTATTA
*
89419143 AACCCCAAAAAAACCT
1 AACCCAAAAAAAACCT
89419159 AACCCAAAAAAAAACCT
1 AACCC-AAAAAAAACCT
89419176 AACCCCCAAAAAAAA
1 AA--CCCAAAAAAAA
89419191 AACCAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 5 0.18
17 12 0.43
18 8 0.29
19 3 0.11
ACGTcount: A:0.62, C:0.33, G:0.00, T:0.04
Consensus pattern (16 bp):
AACCCAAAAAAAACCT
Found at i:89419171 original size:19 final size:18
Alignment explanation
Indices: 89419149--89419191 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
89419139 ATTAAACCCC
89419149 AAAAAAACCTAA-CCCAA
1 AAAAAAACCTAACCCCAA
89419166 AAAAAAACCTAACCCCCAA
1 AAAAAAACCTAA-CCCCAA
89419185 AAAAAAA
1 AAAAAAA
89419192 ACCAAGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 12 0.50
19 12 0.50
ACGTcount: A:0.67, C:0.28, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAAACCTAACCCCAA
Found at i:89419502 original size:14 final size:13
Alignment explanation
Indices: 89419476--89419519 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
89419466 CTTTATAATC
*
89419476 TTTTTTCTTTCTT
1 TTTTTTTTTTCTT
89419489 TTTGTTTTTTTCTT
1 TTT-TTTTTTTCTT
*
89419503 TTCTTTTCTTTCTT
1 TT-TTTTTTTTCTT
89419517 TTT
1 TTT
89419520 ATATACATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.15
14 22 0.81
15 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:89420180 original size:11 final size:11
Alignment explanation
Indices: 89420156--89420200 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
89420146 TTCTAATACG
*
89420156 TATATATATAT
1 TATATATATTT
*
89420167 TATATGTATTT
1 TATATATATTT
*
89420178 TATATATATTA
1 TATATATATTT
*
89420189 TGTATATATTT
1 TATATATATTT
89420200 T
1 T
89420201 TTTAATGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:89432674 original size:72 final size:72
Alignment explanation
Indices: 89432551--89436779 Score: 4917
Period size: 72 Copynumber: 57.1 Consensus size: 72
89432541 ACTGAATCAA
* ** **
89432551 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89432616 TGTTTTC
66 TGTTTTC
*
89432623 AAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89432688 TGTTTTC
66 TGTTTTC
* * * *
89432695 CAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT-
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89432759 TGGTTTTTC
66 T-G-TTTTC
* ** **
89432768 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTAATTTCAA
1 ----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
89432833 TTTCTGTTTTC
62 TTTCTGTTTTC
* *
89432844 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89432909 TGTTTTC
66 TGTTTTC
* ** * * * *
89432916 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATTCTGAGGTATTTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACAC-GT-TGAGGTAATTTCAAT
89432980 TTCTGTCTTTC
63 TTCTGT-TTTC
* *
89432991 AAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAAT
1 ---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAAT
89433056 TTCTGTTTTC
63 TTCTGTTTTC
* * ** * * * *
89433066 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGTTCACATTCTGAGGTATTTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACAC-GT-TGAGGTAATTTCAAT
**
89433130 TTCTACCTTTC
63 TTCT-GTTTTC
* *
89433141 AAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTTAAGACACGTTGAGGTAATTTCA
1 -----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
89433206 ATTTCTGTTTTC
61 ATTTCTGTTTTC
* * * *
89433218 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATATGCTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89433283 TGTTTTTC
66 TG-TTTTC
* ** * *
89433291 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 ----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
89433356 TTTCAGTTTTC
62 TTTCTGTTTTC
* ** * *
89433367 AAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89433432 TGTTTTC
66 TGTTTTC
* * *
89433439 AAAATTTAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89433504 TGTTTTC
66 TGTTTTC
89433511 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
89433576 TGTTTTA
66 TGTTTTC
89433583 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89433648 TGTTTTC
66 TGTTTTC
* * **
89433655 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTGTTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89433720 TGTTTTTC
66 TG-TTTTC
* ** * ** ** *
89433728 AAAAAAAAAAATCAACTCATATTATGATAGGTGAGTTGAGCCTCGGGACACGCTT-CGGTAATTT
1 ------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TTGAGGTAATTT
*
89433792 CAATTTCTGTTTCC
59 CAATTTCTGTTTTC
* *
89433806 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89433871 TGTTTTC
66 TGTTTTC
** ** * * *
89433878 AGAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTTCACATGCTGAGGTATTTTCAA
1 A-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCAA
89433941 TTTCTGTCTTTC
62 TTTCTGT-TTTC
* *
89433953 AAAAAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 ----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
89434018 TTTCTATTTTC
62 TTTCTGTTTTC
* * ** * * *
89434029 AAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACATGCTGAGGTATTTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCAAT
89434093 TTCTGTCTTTC
63 TTCTGT-TTTC
*
89434104 AAAAAAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 -----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
*
89434169 ATTTCTTTTTTC
61 ATTTCTGTTTTC
* *
89434181 AAAATTCAACTCAAATTGCGAGAAATGAGTTGCGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89434246 TGTTTTC
66 TGTTTTC
* *
89434253 AAAATTAAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89434318 TGTTTTC
66 TGTTTTC
* * * * * * *
89434325 ATAATTCAACTCATATTTCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTTAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
89434390 TATTTTTC
66 T-GTTTTC
* * ** ** *
89434398 AAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
1 ----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
89434463 TTTCTGTTTTC
62 TTTCTGTTTTC
* * * *
89434474 AAAATTCAACTCATGTTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89434539 TGTTTTC
66 TGTTTTC
* ** * *
89434546 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACTTGCTGAGGTAATTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACAC--GTTGAGGTAATTTCAAT
*
89434610 TTCTATCTTTC
63 TTCTGT-TTTC
89434621 AAAAAATAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 ----AA-AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
89434686 ATTTCTGTTTTC
61 ATTTCTGTTTTC
* * * * *
89434698 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTGAAGACATGCTGAGGCATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
* *
89434763 TATTTTAAAAA
66 TGTTTT----C
* ** ** *
89434774 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTT-CGGTAATTTCAATTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TTGAGGTAATTTCAATTT
89434838 CTGTTTTC
65 CTGTTTTC
* * *
89434846 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
89434911 TGTTTAC
66 TGTTTTC
* ** * * * *
89434918 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTC-AGTTCACATGCTGAGGTATTTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCAAT
89434982 TTCTGTCTTTC
63 TTCTGT-TTTC
* * * *
89434993 AAAAAAAATTTAACTCATATTACGAGAAATGAGTTTAGCCTCAAGACACGTTGAGGTATTTTCAA
1 ----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
89435058 TTTCTGTTTTC
62 TTTCTGTTTTC
* ** * * * *
89435069 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCAAT
89435133 TTCTGTCTTTC
63 TTCTGT-TTTC
89435144 AAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
1 ------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
*
89435209 AATTTCTATTTTC
60 AATTTCTGTTTTC
*
89435222 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89435287 TGTTTTC
66 TGTTTTC
* * *
89435294 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
89435359 TATTTTTC
66 T-GTTTTC
* ** * *
89435367 AAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTACACGCTGAGGTAATTT
1 ------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGTTGAGGTAATTT
89435431 CAATTTCTGTTTTC
59 CAATTTCTGTTTTC
* * ** ** *
89435445 GAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
89435510 TATTTTC
66 TGTTTTC
* *
89435517 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89435582 TGTTTTC
66 TGTTTTC
89435589 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89435654 TGTTTTC
66 TGTTTTC
89435661 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89435726 TGTTTTC
66 TGTTTTC
*
89435733 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89435798 TGTTTTC
66 TGTTTTC
* * * * * * *
89435805 AAAATTCAATTAATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGATGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
*
89435870 TGTTTTAAAAAA
66 TGTTTT-----C
* * ** ** * *
89435882 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89435947 TGTTTTC
66 TGTTTTC
* * *
89435954 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
* *
89436019 TATTTTTTAAAAAAA
66 --TGTTTT------C
* ** * * *
89436034 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89436099 TGTTTTC
66 TGTTTTC
* * *
89436106 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89436171 TGTTTTC
66 TGTTTTC
* * * * * *
89436178 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-GGTTCA-GTTGCTGAGGTATTTTCAA
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACG-T--TGAGGTAATTTCAA
89436241 TTTCTGTCTTTC
62 TTTCTGT-TTTC
*
89436253 AAAAAAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 -----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
89436318 ATTTCTGTTTTC
61 ATTTCTGTTTTC
* *
89436330 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89436395 TGTTTTC
66 TGTTTTC
* * * * * *
89436402 AAAATTCAACTCCTATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89436467 TGTTTTTC
66 TG-TTTTC
* ** * ** *
89436475 AAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCGGGACACGCTT-CGGTAATTT
1 ------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TTGAGGTAATTT
* *
89436539 CAATTTCTATTTTG
59 CAATTTCTGTTTTC
* *
89436553 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
89436618 TGTTTTC
66 TGTTTTC
* ** * * * *
89436625 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTTCAAT
89436689 TTCTGTCTTTC
63 TTCTGT-TTTC
* *
89436700 AAAAAAATTCAACTCATATGGCGAGAAATGAGTTGAGCCTCAAGACACGTTGCGGTAATTTCAAT
1 ---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAAT
*
89436765 TTCTGCCTTTC
63 TTCTG-TTTTC
89436776 AAAA
1 AAAA
89436780 AAAAAAATCG
Statistics
Matches: 3581, Mismatches: 423, Indels: 305
0.83 0.10 0.07
Matches are distributed among these distances:
71 20 0.01
72 2176 0.61
73 43 0.01
74 207 0.06
75 39 0.01
76 127 0.04
77 294 0.08
78 180 0.05
79 250 0.07
80 202 0.06
81 42 0.01
82 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:89433845 original size:223 final size:216
Alignment explanation
Indices: 89432551--89436893 Score: 4958
Period size: 223 Copynumber: 19.5 Consensus size: 216
89432541 ACTGAATCAA
* ** * *
89432551 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
89432616 TGTTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
* * *
89432681 CAATTTCTGTTTTCCAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
131 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
89432746 GTATTTTCAATTT-TGGTTTTTC
196 GTAATTTCAATTTCT-G-TTTTC
* ** ** * *
89432768 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTAATTTCAA
1 ----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAA
*
89432833 TTTCTGTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
62 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
* ** * *
89432898 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
127 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACAC-
* *
89432962 TTCTGAGGTATTTTCAATTTCTGTCTTTC
190 GT-TGAGGTAATTTCAATTTCTGT-TTTC
* *
89432991 AAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAAT
1 ---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAT
* * ** * * *
89433056 TTCTGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGTTCACATTCTGAGG
63 TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACAC-GT-TGAGG
** * *
89433120 TATTTTCAATTTCTACCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTTA
125 TATTTTCAATTTCT-GTTTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
89433185 AGACACGTTGAGGTAATTTCAATTTCTGTTTTC
184 AGACACGTTGAGGTAATTTCAATTTCTGTTTTC
* *
89433218 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATATGCTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* ** * *
89433283 TGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
66 TG-TTTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* * * ** *
89433348 AATTTCAATTTCAGTTTTCAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
126 ATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*
89433413 CTGAGGTAATTTCAATTTCTGTTTTC
191 TTGAGGTAATTTCAATTTCTGTTTTC
* * *
89433439 AAAATTTAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
89433504 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
*
89433569 CAATTTCTGTTTTAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
131 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
89433634 GTAATTTCAATTTCTGTTTTC
196 GTAATTTCAATTTCTGTTTTC
* *
89433655 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTGTTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* ** * ** ** *
89433720 TGTTTTTCAAAAAAAAAAATCAACTCATATTATGATAGGTGAGTTGAGCCTCGGGACACGCTT-C
66 TG-TTTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TTGA
* * *
89433784 GGTAATTTCAATTTCTGTTTCCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGAC
123 GGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
*
89433849 ACGTTGAGGTATTTTCAATTTCTGTTTTC
188 ACGTTGAGGTAATTTCAATTTCTGTTTTC
** ** *
89433878 AGAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTTCACATGCTGAGGTATTTTCAA
1 A-AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAA
*
89433941 TTTCTGTCTTTCAAAAAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTG
62 TTTCTGT-TTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
* * * **
89434006 AGGTATTTTCAATTTCTATTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGT
122 AGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-
* * *
89434070 TCACATGCTGAGGTATTTTCAATTTCTGTCTTTC
186 --ACACGTTGAGGTAATTTCAATTTCTGT-TTTC
* * *
89434104 AAAAAAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 -----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCA
* * *
89434169 ATTTCTTTTTTCAAAATTCAACTCAAATTGCGAGAAATGAGTTGCGCCTCAAGACACGTTGAGGT
61 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* *
89434234 AATTTCAATTTCTGTTTTCAAAATTAAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
126 ATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*
89434299 CTGAGGTAATTTCAATTTCTGTTTTC
191 TTGAGGTAATTTCAATTTCTGTTTTC
* * * * *
89434325 ATAATTCAACTCATATTTCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTTAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* * * ** ** *
89434390 TATTTTTCAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
66 T-GTTTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* * * *
89434455 AATTTCAATTTCTGTTTTCAAAATTCAACTCATGTTACGAGAAATGAGTTGAGCCTCAAGACACA
126 ATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*
89434520 TTGAGGTATTTTCAATTTCTGTTTTC
191 TTGAGGTAATTTCAATTTCTGTTTTC
* ** * *
89434546 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACTTGCTGAGGTAATTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACAC--GCTGAGGTATTTTCAAT
*
89434610 TTCTATCTTTCAAAAAATAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
63 TTCTGT-TTTC----AA-AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
* *
89434675 AGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTGAAGA
122 AGGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
* * * * * *
89434740 CATGCTGAGGCATTTTCAATTTCTATTTTAAAAA
187 CACGTTGAGGTAATTTCAATTTCTGTTTT----C
* ** ** ** *
89434774 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTTCGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
89434839 TGTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
* * ** * * *
89434904 CAATTTCTGTTTACAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGACTC-AGTTCACATGCT
131 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTT
*
89434968 GAGGTATTTTCAATTTCTGTCTTTC
193 GAGGTAATTTCAATTTCTGT-TTTC
* * * *
89434993 AAAAAAAATTTAACTCATATTACGAGAAATGAGTTTAGCCTCAAGACACGTTGAGGTATTTTCAA
1 ----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAA
* ** * * *
89435058 TTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAG
62 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAG
89435122 GTATTTTCAATTTCTGTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
124 GTATTTTCAATTTCTGT-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
89435187 CAAGACACGTTGAGGTAATTTCAATTTCTATTTTC
182 CAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
** *
89435222 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
89435287 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
* * ** *
89435352 CAATTTCTATTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTAC
131 CAATTTCT-GTTTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-AC
*
89435416 ACGCTGAGGTAATTTCAATTTCTGTTTTC
188 ACGTTGAGGTAATTTCAATTTCTGTTTTC
* * ** ** *
89435445 GAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
89435510 TATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
89435575 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
131 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
89435640 GTAATTTCAATTTCTGTTTTC
196 GTAATTTCAATTTCTGTTTTC
* *
89435661 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
89435726 TGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
* * * * * *
89435791 CAATTTCTGTTTTCAAAATTCAATTAATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAT
131 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
* *
89435856 GTATTTTCAATTTCTGTTTTAAAAAA
196 GTAATTTCAATTTCTGTTTT-----C
* * ** **
89435882 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTT-AATTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
* *
89435946 CTGTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTT
65 CTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
* * * ** *
89436011 TCAATTTCTATTTTTTAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
130 TCAATTTC--TGTTTT------CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
* *
89436076 CACGCTGAGGTAATTTCAATTTTTGTTTTC
187 CACGTTGAGGTAATTTCAATTTCTGTTTTC
* * *
89436106 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGATGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* * * * *
89436171 TGTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-GGTTCA-GTTGCTGAGGTA
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACG-T--TGAGGTA
*
89436234 TTTTCAATTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG
127 TTTTCAATTTCTGT-TTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
89436299 ACACGTTGAGGTAATTTCAATTTCTGTTTTC
186 ACACGTTGAGGTAATTTCAATTTCTGTTTTC
* *
89436330 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* * * *
89436395 TGTTTTCAAAATTCAACTCCTATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
* * ** * **
89436460 CAATTTTTGTTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCGGGACA
131 CAATTTCTG-TTTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* * *
89436525 CGCTT-CGGTAATTTCAATTTCTATTTTG
189 CG-TTGAGGTAATTTCAATTTCTGTTTTC
* *
89436553 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* ** * * *
89436618 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTAT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAT
*
89436682 TTTCAATTTCTGTCTTTCAAAAAAATTCAACTCATATGGCGAGAAATGAGTTGAGCCTCAAGACA
128 TTTCAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* *
89436747 CGTTGCGGTAATTTCAATTTCTGCCTTTC
189 CGTTGAGGTAATTTCAATTTCTG-TTTTC
* * ** ** * *
89436776 AAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATT
1 ------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAGACACGCTGAGGTATT
* **
89436840 TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
57 TTCAATTTCTGT-TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
89436894 TTCAGATCAC
Statistics
Matches: 3598, Mismatches: 391, Indels: 253
0.85 0.09 0.06
Matches are distributed among these distances:
216 514 0.14
217 12 0.00
219 2 0.00
220 107 0.03
221 593 0.16
222 255 0.07
223 808 0.22
224 585 0.16
225 229 0.06
226 50 0.01
227 21 0.01
228 65 0.02
229 160 0.04
230 65 0.02
231 55 0.02
232 40 0.01
233 2 0.00
234 35 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (216 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
GTAATTTCAATTTCTGTTTTC
Found at i:89436991 original size:30 final size:30
Alignment explanation
Indices: 89436955--89437031 Score: 145
Period size: 30 Copynumber: 2.6 Consensus size: 30
89436945 CAACTCATAT
*
89436955 TGCGAGAGGTGAGTTGAGTTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
89436985 TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
89437015 TGCGAGAGGTGAGTTGA
1 TGCGAGAGGTGAGTTGA
89437032 ACCTCGAGTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.21, C:0.08, G:0.34, T:0.38
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
Found at i:89440079 original size:20 final size:22
Alignment explanation
Indices: 89440035--89440079 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
89440025 ATGCCCATAT
*
89440035 ATGTGTTTGTGTATTAAATTGA
1 ATGTGTTGGTGTATTAAATTGA
89440057 ATGTGTTGGTG-ATTAAA-TGA
1 ATGTGTTGGTGTATTAAATTGA
89440077 ATG
1 ATG
89440080 AATTTTGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (22 bp):
ATGTGTTGGTGTATTAAATTGA
Found at i:89441761 original size:41 final size:41
Alignment explanation
Indices: 89441702--89441836 Score: 198
Period size: 41 Copynumber: 3.3 Consensus size: 41
89441692 AATAGGTCTG
* **
89441702 CTCACACAAGCTGCCAGTCAAGATGTAGCTACACGGTGCTA
1 CTCACACAAGCTGTCAGTCAAGACATAGCTACACGGTGCTA
*
89441743 CTCACACAAGCTGTCAGTCAAGACATAGCTACACGGTGCTG
1 CTCACACAAGCTGTCAGTCAAGACATAGCTACACGGTGCTA
* * **
89441784 CTCACAGAAGCTTTCAGTCAAGACATAGCTATTCGGTGCTA
1 CTCACACAAGCTGTCAGTCAAGACATAGCTACACGGTGCTA
89441825 CTCACACAAGCT
1 CTCACACAAGCT
89441837 ATCAAGTAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (41 bp):
CTCACACAAGCTGTCAGTCAAGACATAGCTACACGGTGCTA
Found at i:89456235 original size:20 final size:20
Alignment explanation
Indices: 89456206--89456279 Score: 53
Period size: 20 Copynumber: 3.5 Consensus size: 20
89456196 TTAACTCCCT
*
89456206 ATTTTCAATTATACCCCTAA
1 ATTTTGAATTATACCCCTAA
89456226 ATTTTGAATTTAATTTGACTCCCT--
1 ATTTTGAA-TT-A--T-AC-CCCTAA
* *
89456250 ATTTTTAATTATACCCCAAA
1 ATTTTGAATTATACCCCTAA
89456270 ATTTTGAATT
1 ATTTTGAATT
89456280 TTTCACGATT
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
18 3 0.07
19 2 0.05
20 17 0.40
21 2 0.05
22 2 0.05
23 2 0.05
24 8 0.19
25 2 0.05
26 4 0.10
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (20 bp):
ATTTTGAATTATACCCCTAA
Found at i:89456247 original size:44 final size:44
Alignment explanation
Indices: 89456193--89456280 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
89456183 CTTGAAACTA
*
89456193 AATTTAACTCCCTATTTTCAATTATACCCCTAAATTTTGAATTT
1 AATTTAACTCCCTATTTTCAATTATACCCCAAAATTTTGAATTT
* *
89456237 AATTTGACTCCCTATTTTTAATTATACCCCAAAATTTTGAATTT
1 AATTTAACTCCCTATTTTCAATTATACCCCAAAATTTTGAATTT
89456281 TTCACGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (44 bp):
AATTTAACTCCCTATTTTCAATTATACCCCAAAATTTTGAATTT
Found at i:89456583 original size:18 final size:16
Alignment explanation
Indices: 89456560--89456595 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
89456550 GTCGGTCACC
89456560 TTTCTTTCTTTCTTTATT
1 TTTCTTTC-TTCTTT-TT
89456578 TTTCTTTCTTCTTTTT
1 TTTCTTTCTTCTTTTT
89456594 TT
1 TT
89456596 ATTAATTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 6 0.33
18 8 0.44
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTCTTCTTTTT
Found at i:89458247 original size:20 final size:19
Alignment explanation
Indices: 89458219--89458258 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
89458209 GATAGAATTG
*
89458219 TTATTCTTAGAAAATATAAT
1 TTATACTTAGAAAATA-AAT
89458239 TTATACTTAGAAAATAAAT
1 TTATACTTAGAAAATAAAT
89458258 T
1 T
89458259 CATCACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
TTATACTTAGAAAATAAAT
Found at i:89460006 original size:16 final size:16
Alignment explanation
Indices: 89459972--89460005 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
89459962 CTTAAATTCA
89459972 TTTAAATAAATTAATT
1 TTTAAATAAATTAATT
*
89459988 TTTAATTAAA-TAATT
1 TTTAAATAAATTAATT
89460003 TTT
1 TTT
89460006 TTAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAATAAATTAATT
Found at i:89460047 original size:19 final size:20
Alignment explanation
Indices: 89459998--89460047 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
89459988 TTTAATTAAA
* *
89459998 TAATTTTTTTAAATCAATTC
1 TAATTTTATTAAATCAATAC
*
89460018 TAATTTCATTAAATCAATAC
1 TAATTTTATTAAATCAATAC
89460038 -AATTTTATTA
1 TAATTTTATTA
89460048 TAAAATAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTTTATTAAATCAATAC
Found at i:89464280 original size:6 final size:6
Alignment explanation
Indices: 89464247--89464293 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
89464237 AATGTGGCAG
* * *
89464247 ACAGAT -CAGAT ATAGAT ACATAT GCAGAT ACAGAT ACAGAT ACAGAT
1 ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT
89464294 TCTATCTCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (6 bp):
ACAGAT
Found at i:89487545 original size:58 final size:58
Alignment explanation
Indices: 89487455--89487584 Score: 158
Period size: 58 Copynumber: 2.2 Consensus size: 58
89487445 GGGTTTACGG
89487455 AAGGGCCTGAATGTAGAAGATATGCCTCACCTCCGTC-AAGAGCCCAAAGAGTTCACGA
1 AAGGGCCTGAATGTAGAAGATATGCCTCACCTCCGTCGAA-AGCCCAAAGAGTTCACGA
* * * * *
89487513 AAGGG-CTGAAATGTAGAAGATATGTCTTACCTCCGTCGAAAGCCTAAAGGGTTCA-TA
1 AAGGGCCTG-AATGTAGAAGATATGCCTCACCTCCGTCGAAAGCCCAAAGAGTTCACGA
*
89487570 GAAGGGCCCGAATGT
1 -AAGGGCCTGAATGT
89487585 CCTACTCCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
57 4 0.06
58 54 0.87
59 4 0.06
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (58 bp):
AAGGGCCTGAATGTAGAAGATATGCCTCACCTCCGTCGAAAGCCCAAAGAGTTCACGA
Found at i:89490191 original size:32 final size:32
Alignment explanation
Indices: 89490150--89490210 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
89490140 GCTTCGGATA
*
89490150 ACTCTGATTCTACGCATTATGATTCGAATATT
1 ACTCTGATTCTACGCATTATAATTCGAATATT
89490182 ACTCTGATTCTACGCATTATAATTCGAAT
1 ACTCTGATTCTACGCATTATAATTCGAAT
89490211 TTTAATGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (32 bp):
ACTCTGATTCTACGCATTATAATTCGAATATT
Found at i:89493967 original size:15 final size:15
Alignment explanation
Indices: 89493947--89493989 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
89493937 TGACAACATT
89493947 CAATAATAAAAAAGC
1 CAATAATAAAAAAGC
*
89493962 CAATAATATAAAAAGG
1 CAATAATA-AAAAAGC
*
89493978 AAATAA-AAAAAA
1 CAATAATAAAAAA
89493990 TTTAATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 9 0.36
16 11 0.44
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
CAATAATAAAAAAGC
Found at i:89494933 original size:32 final size:32
Alignment explanation
Indices: 89494894--89494958 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
89494884 ATCTTATGAA
89494894 AATAACACATTTATGACAAATTTTATGAAATT
1 AATAACACATTTATGACAAATTTTATGAAATT
*
89494926 AATAACACATTTGTGACAAATTTTATGAAATT
1 AATAACACATTTATGACAAATTTTATGAAATT
89494958 A
1 A
89494959 TGTTTTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (32 bp):
AATAACACATTTATGACAAATTTTATGAAATT
Found at i:89504064 original size:18 final size:18
Alignment explanation
Indices: 89504041--89504076 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
89504031 TATTAAGAGC
89504041 TAAAATGTTCAACAGTAT
1 TAAAATGTTCAACAGTAT
89504059 TAAAATGTTCAACAGTAT
1 TAAAATGTTCAACAGTAT
89504077 CAGATTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
TAAAATGTTCAACAGTAT
Found at i:89504943 original size:10 final size:10
Alignment explanation
Indices: 89504902--89504943 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
89504892 TATAAAATTA
89504902 AAAATTAAAT
1 AAAATTAAAT
*
89504912 AAAAGTAAAT
1 AAAATTAAAT
**
89504922 AAAATT-TTT
1 AAAATTAAAT
89504931 AAAATTAAAT
1 AAAATTAAAT
89504941 AAA
1 AAA
89504944 GTGAGAGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATTAAAT
Found at i:89506361 original size:19 final size:19
Alignment explanation
Indices: 89506313--89506365 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
89506303 TCTTGATGCT
* *
89506313 CAAAGTGCATACCGGAACA
1 CAAAGTGCATTCTGGAACA
* *
89506332 TAAAATGCATTCTGGAACA
1 CAAAGTGCATTCTGGAACA
89506351 CAAAGTGCATTCTGG
1 CAAAGTGCATTCTGG
89506366 CGCATAAGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
CAAAGTGCATTCTGGAACA
Found at i:89507175 original size:40 final size:40
Alignment explanation
Indices: 89507117--89507209 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
89507107 TACTCTAACT
* * * *
89507117 ATCACATGGCCGTATCCTGTGCATAGCCTGGCCTTCGTCG
1 ATCACACGGCCGTATCCTGCGCACAGCCTAGCCTTCGTCG
* * * *
89507157 ATCACACGGTCGTGTCCTGCGTACGGCCTAGCCTTCGTCG
1 ATCACACGGCCGTATCCTGCGCACAGCCTAGCCTTCGTCG
89507197 ATCACACGGCCGT
1 ATCACACGGCCGT
89507210 CTACGAGTAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.15, C:0.34, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCACACGGCCGTATCCTGCGCACAGCCTAGCCTTCGTCG
Found at i:89523443 original size:136 final size:135
Alignment explanation
Indices: 89523199--89523468 Score: 461
Period size: 136 Copynumber: 2.0 Consensus size: 135
89523189 TGGGTAGATT
*
89523199 TTTTCGTATTAATTTGCATCTATAGTAGATTATGTCTGCAGATCATCCTATCTTAAAACCTAAAA
1 TTTTCGTATTAATTTGCATCTATAGTAGATTATGTCTACAGATCATCCTATCTTAAAACCTAAAA
*
89523264 CTGTTGATAATCACTAGAGGAAATCATTGCTTCAGATCTTATTACCTTGACTATCTTACAAAGCA
66 CTGTTGATAATCACTAGAGGAAACCATTGCTTCAGATCTTATTACCTTGACTATCTTACAAAGC-
89523329 TAGCTC
130 TAGCTC
* * *
89523335 TTTTCGTATTAATTTGTATCTATAGTAGATTATGTCTACTA-ATCATCCTGTCTTAAAATCTAAA
1 TTTTCGTATTAATTTGCATCTATAGTAGATTATGTCTAC-AGATCATCCTATCTTAAAACCTAAA
*
89523399 ACTGTTGATAATCACTAGATGAAACCATTGCTTCAGATCTTATTACCTTGACTATCTTACAAAGC
65 ACTGTTGATAATCACTAGAGGAAACCATTGCTTCAGATCTTATTACCTTGACTATCTTACAAAGC
89523464 TAGCT
130 TAGCT
89523469 GCTATAATAG
Statistics
Matches: 127, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
135 5 0.04
136 121 0.95
137 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (135 bp):
TTTTCGTATTAATTTGCATCTATAGTAGATTATGTCTACAGATCATCCTATCTTAAAACCTAAAA
CTGTTGATAATCACTAGAGGAAACCATTGCTTCAGATCTTATTACCTTGACTATCTTACAAAGCT
AGCTC
Found at i:89528781 original size:12 final size:12
Alignment explanation
Indices: 89528764--89528788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89528754 GGGTGGTTTC
89528764 GTGACCACATGG
1 GTGACCACATGG
89528776 GTGACCACATGG
1 GTGACCACATGG
89528788 G
1 G
89528789 GGTATGTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (12 bp):
GTGACCACATGG
Found at i:89528887 original size:51 final size:51
Alignment explanation
Indices: 89528801--89528911 Score: 186
Period size: 51 Copynumber: 2.2 Consensus size: 51
89528791 TATGTCAATA
**
89528801 CACACGGCTGTGTACTTTTGTTAGTTAGGGTTTTCGAGTTAATTTGGGCGT
1 CACACGGCCATGTACTTTTGTTAGTTAGGGTTTTCGAGTTAATTTGGGCGT
* *
89528852 CACATGGCCATGTACTTTTGTTAGTTAGGGTTTTCGAGTTGATTTGGGCGT
1 CACACGGCCATGTACTTTTGTTAGTTAGGGTTTTCGAGTTAATTTGGGCGT
89528903 CACACGGCC
1 CACACGGCC
89528912 GTGTGGTCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.16, C:0.17, G:0.29, T:0.38
Consensus pattern (51 bp):
CACACGGCCATGTACTTTTGTTAGTTAGGGTTTTCGAGTTAATTTGGGCGT
Found at i:89547244 original size:18 final size:18
Alignment explanation
Indices: 89547206--89547245 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
89547196 TTTATAAAAT
* * *
89547206 CAGATGCAGATACAGATA
1 CAGATGCAAATACAAACA
89547224 CAGATGCAAATACAAACA
1 CAGATGCAAATACAAACA
89547242 CAGA
1 CAGA
89547246 AATAGATCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.20, G:0.17, T:0.12
Consensus pattern (18 bp):
CAGATGCAAATACAAACA
Found at i:89549113 original size:43 final size:43
Alignment explanation
Indices: 89549047--89549189 Score: 155
Period size: 43 Copynumber: 3.3 Consensus size: 43
89549037 CGAGATGTGG
* * *
89549047 TTACATGTAAAACCCTGTGTGGGACAGTGGCATTG-TATTGCGA
1 TTACATGTAAGACCCTGTGTGGGACAGTGGCATCGCTAAT-CGA
* * *
89549090 TTACGTGTAAGACCATGTGTGGGACATTGGCATCGCTAATCGA
1 TTACATGTAAGACCCTGTGTGGGACAGTGGCATCGCTAATCGA
* * * *
89549133 TTTCATGTATGACCCTGTGTGAGACAGTGGCATCGATAAGT-GA
1 TTACATGTAAGACCCTGTGTGGGACAGTGGCATCGCTAA-TCGA
*
89549176 TAACATGTAAGACC
1 TTACATGTAAGACC
89549190 ATATCAAGGA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
43 78 0.95
44 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCCTGTGTGGGACAGTGGCATCGCTAATCGA
Found at i:89550346 original size:30 final size:30
Alignment explanation
Indices: 89550305--89550411 Score: 160
Period size: 30 Copynumber: 3.6 Consensus size: 30
89550295 GCACAGCCTA
* * *
89550305 GCACAAGGCCTGGACACGAGCGTGTGTAAG
1 GCACACGGCCTGGACACGGGCGTGTGCAAG
*
89550335 GCACACAGCCTGGACACGGGCGTGTGCAAG
1 GCACACGGCCTGGACACGGGCGTGTGCAAG
* *
89550365 GCACACGGCTTGGACACGGGCATGTGCAAG
1 GCACACGGCCTGGACACGGGCGTGTGCAAG
89550395 GCACACGGCCTGGACAC
1 GCACACGGCCTGGACAC
89550412 ATTGGCATGT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.24, C:0.29, G:0.36, T:0.11
Consensus pattern (30 bp):
GCACACGGCCTGGACACGGGCGTGTGCAAG
Found at i:89552219 original size:12 final size:12
Alignment explanation
Indices: 89552202--89552232 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
89552192 TCAAAATAAG
89552202 TTTATAATTAAT
1 TTTATAATTAAT
89552214 TTTATAATTAAT
1 TTTATAATTAAT
89552226 TGTTATA
1 T-TTATA
89552233 TGTATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTTATAATTAAT
Found at i:89553020 original size:2 final size:2
Alignment explanation
Indices: 89553013--89553043 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
89553003 CTTGATAGGA
89553013 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
89553044 CTTTGGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89554555 original size:30 final size:30
Alignment explanation
Indices: 89554521--89554579 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
89554511 AACCTTTACC
* *
89554521 CAAAATCTCCAAATTATACCACCCAAAACT
1 CAAAATCCCCAAATTATACAACCCAAAACT
* *
89554551 CAAAATCCCCAAATTCTACAACCCTAAAC
1 CAAAATCCCCAAATTATACAACCCAAAAC
89554580 AATTTATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.19
Consensus pattern (30 bp):
CAAAATCCCCAAATTATACAACCCAAAACT
Done.