Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
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: 4287485
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 24
Found at i:511894 original size:20 final size:20
Alignment explanation
Indices: 511869--511932 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
511859 GTATAGTTAC
511869 ATATAATTCATATAATTTAT
1 ATATAATTCATATAATTTAT
* * *
511889 ATATAA-ACTATGTAGTTTAT
1 ATATAATTC-ATATAATTTAT
* *
511909 ATATAGTTCA-AT-AGTTAT
1 ATATAATTCATATAATTTAT
511927 ATATAA
1 ATATAA
511933 ACTATATAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 9 0.27
19 2 0.06
20 21 0.64
21 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (20 bp):
ATATAATTCATATAATTTAT
Found at i:511978 original size:25 final size:23
Alignment explanation
Indices: 511935--511996 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
511925 ATATATAAAC
*
511935 TATATAATATTATAATTTATACAT
1 TATATAGT-TTATAATTTATACAT
*
511959 GGTATATAGTTTATACTTTATACAT
1 --TATATAGTTTATAATTTATACAT
*
511984 AATATAGTTTATA
1 TATATAGTTTATA
511997 TATATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.36
25 14 0.42
26 7 0.21
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.48
Consensus pattern (23 bp):
TATATAGTTTATAATTTATACAT
Found at i:512011 original size:23 final size:24
Alignment explanation
Indices: 511952--512012 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
511942 TATTATAATT
* *
511952 TATACATGGTATATAGTTTATACTT
1 TATACAT-ATATATAGTTTATACTA
511977 TATACATA-ATATAGTTTATA-TA
1 TATACATATATATAGTTTATACTA
*
511999 TATATATATATATA
1 TATACATATATATA
512013 TTAGTTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 8 0.25
23 17 0.53
25 7 0.22
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (24 bp):
TATACATATATATAGTTTATACTA
Found at i:512657 original size:215 final size:213
Alignment explanation
Indices: 512016--512696 Score: 1032
Period size: 214 Copynumber: 3.2 Consensus size: 213
512006 ATATATATTA
* *
512016 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTCCAAATTT
1 GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
*
512081 TATTTGCACCTGAAATTGA-C--AC--A-TACTTATTTCTATTTTTAAATTGGCCCATAACTTTT
66 TATTTGCATCTGAAATTGACCATACTTATTACTTATTTCTATTTTTAAATTGG-CCATAACTTTT
* *
512140 TAAATGGGTATAATTTAGTACTTTTTGTATTAATTTTAACCTCAAAATTTAAAATTATTTCGATT
130 TAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
512205 TGATCCCT--T---T-TGT
195 TGATCCCTCATCAATGTGT
*
512218 GTTGTTTAA--TATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTT
1 GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
*
512281 TATTTGCATCCGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCTATAACTTT
66 TATTTGCATCTGAAATTGA-CCATACTTATTACTTATTTCTATTTTTAAATTGGCC-ATAACTTT
*
512346 TTAAATGGGTAT-ATTTAGTACTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGAT
129 TTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGAT
512410 TTGATCCCTCATCAATGTGT
194 TTGATCCCTCATCAATGTGT
* * * *
512430 GTTGTTTAATTTATTTATATTTATATTTTTAATTTCATATTTGTTCTATTTAGTCCTCCAAATTT
1 GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
* * * * * *
512495 TATCTACATATGAAATTGATCCATACTTATTACTTAATTCTATTTTTTAATTGGACATAACTTTT
66 TATTTGCATCTGAAATTGA-CCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTT
* *
512560 TAAATGGGTATAATTTAGTATTTATTTGTATTAATTTCAACCTCACAATTTAAAATTATTTTGAT
130 TAAATGGGTATAATTTAGTACTT-TTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGAT
512625 TTGATCCCTCATCAATGTGT
194 TTGATCCCTCATCAATGTGT
512645 GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
512697 ATTCTTAAAT
Statistics
Matches: 434, Mismatches: 27, Indels: 23
0.90 0.06 0.05
Matches are distributed among these distances:
200 69 0.16
202 10 0.02
204 2 0.00
206 61 0.14
207 44 0.10
208 1 0.00
211 1 0.00
212 12 0.03
213 20 0.05
214 107 0.25
215 107 0.25
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.51
Consensus pattern (213 bp):
GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
TATTTGCATCTGAAATTGACCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTTT
AAATGGGTATAATTTAGTACTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTT
GATCCCTCATCAATGTGT
Found at i:516562 original size:11 final size:11
Alignment explanation
Indices: 516546--516571 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
516536 ATTTTGCCAC
516546 TCCGCTGTTAA
1 TCCGCTGTTAA
516557 TCCGCTGTTAA
1 TCCGCTGTTAA
516568 TCCG
1 TCCG
516572 TTAACGGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.35
Consensus pattern (11 bp):
TCCGCTGTTAA
Found at i:520786 original size:29 final size:29
Alignment explanation
Indices: 520751--520832 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
520741 AAACTAAATT
*
520751 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
520780 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
520809 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
520833 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:521983 original size:12 final size:14
Alignment explanation
Indices: 521954--521985 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
521944 GGATCATTGC
521954 AAGCATACAAAGAG
1 AAGCATACAAAGAG
521968 AAGCATA-AAA-AG
1 AAGCATACAAAGAG
521980 AAGCAT
1 AAGCAT
521986 GAGTTTACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 3 0.17
14 7 0.39
ACGTcount: A:0.59, C:0.12, G:0.19, T:0.09
Consensus pattern (14 bp):
AAGCATACAAAGAG
Found at i:522144 original size:15 final size:15
Alignment explanation
Indices: 522121--522150 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
522111 ACGAGGCTGG
522121 AATTACAACAATAAC
1 AATTACAACAATAAC
*
522136 AATTCCAACAATAAC
1 AATTACAACAATAAC
522151 TATGAGAAAG
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:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AATTACAACAATAAC
Found at i:525558 original size:29 final size:29
Alignment explanation
Indices: 525523--525604 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
525513 AAACTAAATT
*
525523 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
525552 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
525581 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
525605 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:527231 original size:20 final size:20
Alignment explanation
Indices: 527206--527266 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
527196 CCGTTAGACA
*
527206 GGGGGGAATCGGTATCCCCT
1 GGGGGGAATCTGTATCCCCT
527226 GGGGGGAATCTGT-TCCCCCT
1 GGGGGGAATCTGTAT-CCCCT
*
527246 AGGGGGAATCTGTA-CCCCT
1 GGGGGGAATCTGTATCCCCT
527265 GG
1 GG
527267 ACAATCTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (20 bp):
GGGGGGAATCTGTATCCCCT
Found at i:528755 original size:19 final size:21
Alignment explanation
Indices: 528708--528755 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
528698 TCTAAATCCT
*
528708 TTTTCAAAATTTCATTTTGGC
1 TTTTCAAAATCTCATTTTGGC
*
528729 TTTT-AAAATCT-ATTTTTG-
1 TTTTCAAAATCTCATTTTGGC
528747 TTTTCAAAA
1 TTTTCAAAA
528756 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 10 0.42
20 6 0.25
21 4 0.17
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTTCAAAATCTCATTTTGGC
Found at i:529668 original size:34 final size:32
Alignment explanation
Indices: 529615--529686 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 32
529605 CCTTACAAAC
*
529615 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
529647 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
529681 TACCCT
1 T-CCCT
529687 TTACAAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 7 0.20
33 5 0.14
34 19 0.54
35 4 0.11
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:530071 original size:18 final size:19
Alignment explanation
Indices: 530031--530110 Score: 97
Period size: 19 Copynumber: 4.1 Consensus size: 19
530021 CCGTTAGACA
530031 GGGGGAATCGGTACCCCTG
1 GGGGGAATCGGTACCCCTG
* *
530050 GGGGGAATCTGTTCCCCTGG
1 GGGGGAATCGGTACCCCT-G
*
530070 GGGGGAATCGATACCCCCTGG
1 GGGGGAATCGGTA-CCCCT-G
*
530091 GGGGGAATCTGTACCCCTG
1 GGGGGAATCGGTACCCCTG
530110 G
1 G
530111 ACAATTTGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 18 0.35
20 16 0.31
21 18 0.35
ACGTcount: A:0.15, C:0.26, G:0.40, T:0.19
Consensus pattern (19 bp):
GGGGGAATCGGTACCCCTG
Found at i:530072 original size:20 final size:20
Alignment explanation
Indices: 530031--530110 Score: 110
Period size: 20 Copynumber: 4.0 Consensus size: 20
530021 CCGTTAGACA
*
530031 GGGGGAATCGGTACCCCT-G
1 GGGGGAATCTGTACCCCTGG
*
530050 GGGGGAATCTGTTCCCCTGG
1 GGGGGAATCTGTACCCCTGG
530070 GGGGGAATC-GATACCCCCTGG
1 GGGGGAATCTG-TA-CCCCTGG
530091 GGGGGAATCTGTACCCCTGG
1 GGGGGAATCTGTACCCCTGG
530111 ACAATTTGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 17 0.31
20 18 0.33
21 18 0.33
22 1 0.02
ACGTcount: A:0.15, C:0.26, G:0.40, T:0.19
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCTGG
Found at i:530087 original size:21 final size:21
Alignment explanation
Indices: 530031--530107 Score: 99
Period size: 21 Copynumber: 3.8 Consensus size: 21
530021 CCGTTAGACA
*
530031 GGGGGAATCGGTA-CCCCT-G
1 GGGGGAATCTGTACCCCCTGG
*
530050 GGGGGAATCTGT-TCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
530070 GGGGGAATC-GATACCCCCTGG
1 GGGGGAATCTG-TACCCCCTGG
530091 GGGGGAATCTGTACCCC
1 GGGGGAATCTGTACCCC
530108 TGGACAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
19 17 0.33
20 11 0.22
21 22 0.43
22 1 0.02
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:568756 original size:15 final size:15
Alignment explanation
Indices: 568736--568780 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
568726 TAATAAGGTT
568736 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
568751 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
568766 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
568781 TAGATTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:568827 original size:22 final size:22
Alignment explanation
Indices: 568811--568853 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
568801 AATTTATTAG
568811 TATGGATTAATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
*
568833 TATGGATTGATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
568854 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:568832 original size:54 final size:54
Alignment explanation
Indices: 568736--569058 Score: 423
Period size: 54 Copynumber: 6.1 Consensus size: 54
568726 TAATAAGGTT
* * * * *
568736 ATTTATTTTAAAATAATTTATT--T-TAAAATAATTTATTATAAAATATAGATTG
1 ATTTATTTT-AAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
568788 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
568842 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* * * * ***
568896 ATTTATTTT-AA-AA--TA-T-GAATTGATTTA-TTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTA-AAATATGGATTG
568944 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
*
568998 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
569052 ATTTATT
1 ATTTATT
569059 ATTGTAGTTG
Statistics
Matches: 238, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
47 7 0.03
48 26 0.11
49 3 0.01
50 4 0.02
51 12 0.05
52 13 0.05
53 4 0.02
54 162 0.68
55 7 0.03
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
Found at i:568894 original size:22 final size:22
Alignment explanation
Indices: 568869--568924 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
568859 TATTAGTATA
568869 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
568891 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
*
568913 AATTGATTTATT
1 GATTGATTTATT
568925 ATTGTAGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATG
Found at i:569029 original size:134 final size:134
Alignment explanation
Indices: 568887--569170 Score: 532
Period size: 134 Copynumber: 2.1 Consensus size: 134
568877 TATTTTAAAA
568887 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
1 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
568952 TAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA
66 TAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA
569017 TTAG
131 TTAG
*
569021 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
1 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
* *
569086 TGAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA
66 TAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA
569151 TTAG
131 TTAG
*
569155 TATTGATTGATTTATT
1 TATGGATTGATTTATT
569171 ATTGTAGTTG
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 146 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (134 bp):
TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
TAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA
TTAG
Found at i:569035 original size:18 final size:18
Alignment explanation
Indices: 569012--569059 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
569002 ATTTTAAATA
*
569012 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
569030 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
569052 ATTTATTA
1 ATTTATTA
569060 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:569109 original size:32 final size:32
Alignment explanation
Indices: 569068--569287 Score: 197
Period size: 32 Copynumber: 7.7 Consensus size: 32
569058 TATTGTAGTT
*
569068 GTATGGATTGATTTATTTTGAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
569100 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
569123 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
569154 GTATTGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
*
569180 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
569212 GTATGGATTGATTTATTTT--A-AA---A-TA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
569237 -TA--GATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
569266 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
569288 ATATGGATTG
Statistics
Matches: 154, Mismatches: 6, Indels: 56
0.71 0.03 0.26
Matches are distributed among these distances:
22 28 0.18
23 4 0.03
24 3 0.02
25 5 0.03
26 21 0.14
27 2 0.01
28 8 0.05
29 4 0.03
30 7 0.05
31 6 0.04
32 66 0.43
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:569110 original size:112 final size:112
Alignment explanation
Indices: 568989--569282 Score: 360
Period size: 112 Copynumber: 2.6 Consensus size: 112
568979 TATTTTAAAA
** ** *
568989 TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
1 TATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATGGATTTGAAATAATTTATAAATATGGATT
* *
569051 GATTTATTATTGTAGTTGTATGGATTGATTTATTTTGAATAATTTATTAG
63 GATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAG
** * * * *
569101 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGAT
569166 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAG
* ** * ***
569213 TATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGAT
569278 TTATT
66 TTATT
569283 TTAAAATATG
Statistics
Matches: 163, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
110 3 0.02
111 10 0.06
112 146 0.90
113 4 0.02
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.53
Consensus pattern (112 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGAT
TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAG
Found at i:569117 original size:22 final size:22
Alignment explanation
Indices: 569101--569143 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
569091 AATTTATTAG
569101 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
569123 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
569144 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:569138 original size:54 final size:54
Alignment explanation
Indices: 569069--569304 Score: 364
Period size: 54 Copynumber: 4.3 Consensus size: 54
569059 ATTGTAGTTG
*
569069 TATGGATTGATTTATTTTGAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* ***
569123 TATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAA
*
569181 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
569235 TATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
569289 TATGGATTGATTTATT
1 TATGGATTGATTTATT
569305 ATTGTAGTTG
Statistics
Matches: 166, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
54 112 0.67
55 3 0.02
56 4 0.02
57 3 0.02
58 44 0.27
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:569223 original size:246 final size:236
Alignment explanation
Indices: 568833--569345 Score: 882
Period size: 246 Copynumber: 2.1 Consensus size: 236
568823 TATTTTAAAA
568833 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
*
568898 TTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTA
66 TTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTA
*
568963 TTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
131 TTAGTATAGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGAT
569028 TGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
196 TGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
* *
569069 TATGGATTGATTTATTTTGAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
569134 TTATTTTAAATAATTTATTAGTATTGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTT
66 TTATTTT-AA-AA--TA-T-G-A---ATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTT
*
569199 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTAT
121 AAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTAT
*
569264 TTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
186 TAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
569315 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
569346 TTGTAGTTGT
Statistics
Matches: 260, Mismatches: 7, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
236 70 0.27
237 2 0.01
238 2 0.01
240 2 0.01
241 1 0.00
242 1 0.00
243 1 0.00
246 181 0.70
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (236 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTA
TTAGTATAGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGAT
TGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
Found at i:569243 original size:134 final size:138
Alignment explanation
Indices: 568934--569345 Score: 412
Period size: 134 Copynumber: 3.0 Consensus size: 138
568924 TATTGTAGTT
568934 GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTT-AATAA--TA-T--TATAGATTGATTTATTTTAAAATATGGATTGA
***
568999 TTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTA--T
60 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
*
569058 T--AT--TGTAGTT-
125 TAAATAATTTA-TTA
569068 GTATGGATTGATTTATTTTGAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTT-AATAA--TATTA-TA--GATTGATTTATTTTAAAATATGGATTGA
* *
569133 TTTATTTTAAATAATTTATTAGTATTGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTT
60 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
569198 TAAATAATTTATTA
125 TAAATAATTTATTA
* * *
569212 GTATGGATTGATTTATTTT-A-AA-A-TATAGATTGATTTATTTT-AAATA---ATTTATTTGTA
1 GTATGGATTGATTTATTTTAATAATATTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
** * * *
569269 TGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTA
66 TTAAATAATTTA--TT--AGTATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTA
569334 AATAATTTATTA
127 AATAATTTATTA
569346 TTGTAGTTGT
Statistics
Matches: 243, Mismatches: 17, Indels: 36
0.82 0.06 0.12
Matches are distributed among these distances:
130 16 0.07
131 2 0.01
132 4 0.02
133 6 0.02
134 161 0.66
135 1 0.00
136 4 0.02
137 4 0.02
138 14 0.06
140 2 0.01
141 2 0.01
142 3 0.01
143 2 0.01
144 22 0.09
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (138 bp):
GTATGGATTGATTTATTTTAATAATATTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
TTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
ATTTATTA
Found at i:569394 original size:31 final size:31
Alignment explanation
Indices: 569359--569418 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
569349 TAGTTGTATG
* *
569359 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
569390 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
569419 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:572447 original size:21 final size:21
Alignment explanation
Indices: 572423--572463 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
572413 GTTAAGGATT
*
572423 GTTTTGAT-TATTTTTATTTAA
1 GTTTGGATGTATTTTT-TTTAA
572444 GTTTGGATGTATTTTTTTTA
1 GTTTGGATGTATTTTTTTTA
572464 TTAATATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (21 bp):
GTTTGGATGTATTTTTTTTAA
Found at i:579366 original size:24 final size:24
Alignment explanation
Indices: 579297--579359 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
579287 TCAGTAGAGT
*
579297 TATTGCTCTTGTCATCACTGTTAC
1 TATTGTTCTTGTCATCACTGTTAC
579321 TATTGTTCTTGTCATCACTGTTAC
1 TATTGTTCTTGTCATCACTGTTAC
579345 TATTGTTCTTGTCAT
1 TATTGTTCTTGTCAT
579360 TTGTGTTGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.51
Consensus pattern (24 bp):
TATTGTTCTTGTCATCACTGTTAC
Found at i:579543 original size:24 final size:24
Alignment explanation
Indices: 579516--579594 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
579506 CGTTGCTGTT
579516 CTTGTTGTTGCATTCGTTGCCATC
1 CTTGTTGTTGCATTCGTTGCCATC
* * * ** *
579540 CTTGGTGGTGTCGATGTTGTTGCTGTT
1 CTTGTTGTTG-C-AT-TCGTTGCCATC
*
579567 CTTGTTGTCGCATTCGTTGCCATC
1 CTTGTTGTTGCATTCGTTGCCATC
579591 CTTG
1 CTTG
579595 GTGGTGTCGA
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
24 19 0.49
25 3 0.08
26 3 0.08
27 14 0.36
ACGTcount: A:0.06, C:0.22, G:0.27, T:0.46
Consensus pattern (24 bp):
CTTGTTGTTGCATTCGTTGCCATC
Found at i:579566 original size:51 final size:51
Alignment explanation
Indices: 579507--579659 Score: 227
Period size: 51 Copynumber: 3.0 Consensus size: 51
579497 TGATGTTGTC
579507 GTTGCTGTTCTTGTTGTTGCATTCGTTGCCATCCTTGGTGGTGTCGATGTT
1 GTTGCTGTTCTTGTTGTTGCATTCGTTGCCATCCTTGGTGGTGTCGATGTT
*
579558 GTTGCTGTTCTTGTTGTCGCATTCGTTGCCATCCTTGGTGGTGTCGATGTT
1 GTTGCTGTTCTTGTTGTTGCATTCGTTGCCATCCTTGGTGGTGTCGATGTT
* * * * * *
579609 GCTGTTGCTCTTGTTGTTGCCTTCGTTGCCATTCTTAGG-GGTGTTGATGTT
1 GTTGCTGTTCTTGTTGTTGCATTCGTTGCCATCCTT-GGTGGTGTCGATGTT
579660 ATCAGTGGTG
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 91 0.98
52 2 0.02
ACGTcount: A:0.06, C:0.18, G:0.29, T:0.46
Consensus pattern (51 bp):
GTTGCTGTTCTTGTTGTTGCATTCGTTGCCATCCTTGGTGGTGTCGATGTT
Found at i:579609 original size:24 final size:25
Alignment explanation
Indices: 579531--579610 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 25
579521 TGTTGCATTC
579531 GTTGCCATCCTTGGTGGTGTCGATGTT
1 GTTGCCATCCTTGGTGGTGTCGA--TT
** *
579558 GTTGCTGTTCTT-GT--TGTCGCATT
1 GTTGCCATCCTTGGTGGTGTCG-ATT
579581 CGTTGCCATCCTTGGTGGTGTCGA-T
1 -GTTGCCATCCTTGGTGGTGTCGATT
579606 GTTGC
1 GTTGC
579611 TGTTGCTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
23 2 0.05
24 19 0.45
25 4 0.10
26 3 0.07
27 14 0.33
ACGTcount: A:0.06, C:0.20, G:0.31, T:0.42
Consensus pattern (25 bp):
GTTGCCATCCTTGGTGGTGTCGATT
Found at i:581175 original size:6 final size:6
Alignment explanation
Indices: 581164--581197 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
581154 TCGGCAGCGT
581164 TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGAG
1 TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGAG
581198 AGGTGGCCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (6 bp):
TGAGTG
Found at i:582815 original size:40 final size:40
Alignment explanation
Indices: 582771--582890 Score: 188
Period size: 41 Copynumber: 3.0 Consensus size: 40
582761 ATCATTACAT
* *
582771 TAATCTTTTGGAGTTTTAATAAAAAAATTGATAGGTTTAG
1 TAATCTTTTGGTGTTTTAATAAAAAAATTGGTAGGTTTAG
582811 TAATCTTTTGGTGTTTTAATAAAAAAAATTGGTAGGTTTAG
1 TAATCTTTTGGTGTTTTAAT-AAAAAAATTGGTAGGTTTAG
* *
582852 TAATCTTTTAGTGTTTTAAT-AAAACATTGGTAGGTTTAG
1 TAATCTTTTGGTGTTTTAATAAAAAAATTGGTAGGTTTAG
582891 AAAAATAATT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 18 0.24
40 19 0.25
41 38 0.51
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.44
Consensus pattern (40 bp):
TAATCTTTTGGTGTTTTAATAAAAAAATTGGTAGGTTTAG
Found at i:584043 original size:14 final size:14
Alignment explanation
Indices: 584024--584056 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
584014 CAAACATAGA
584024 AAATTAAAGTAA-TG
1 AAATTAAAG-AACTG
584038 AAATTAAAGAACTG
1 AAATTAAAGAACTG
584052 AAATT
1 AAATT
584057 CAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (14 bp):
AAATTAAAGAACTG
Found at i:584109 original size:26 final size:25
Alignment explanation
Indices: 584058--584117 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
584048 ACTGAAATTC
*
584058 AATAAAA-A-AAAGTAAATGACATA
1 AATAAAATATAAAGTAAAGGACATA
584081 AATTAAAATATAAAGTAAAGGAC-TAA
1 AA-TAAAATATAAAGTAAAGGACAT-A
584107 AATAAAATATA
1 AATAAAATATA
584118 TCAGAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.06
24 5 0.16
25 11 0.34
26 14 0.44
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (25 bp):
AATAAAATATAAAGTAAAGGACATA
Found at i:584113 original size:25 final size:26
Alignment explanation
Indices: 584058--584117 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
584048 ACTGAAATTC
*
584058 AATAAAA-A-AAAGTAAATGACATAA
1 AATAAAATATAAAGTAAAGGACATAA
*
584082 ATTAAAATATAAAGTAAAGGAC-TAA
1 AATAAAATATAAAGTAAAGGACATAA
584107 AATAAAATATA
1 AATAAAATATA
584118 TCAGAAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 14 0.45
26 11 0.35
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (26 bp):
AATAAAATATAAAGTAAAGGACATAA
Found at i:585653 original size:39 final size:39
Alignment explanation
Indices: 585589--586168 Score: 808
Period size: 39 Copynumber: 15.0 Consensus size: 39
585579 AGGTTGAATA
** * * *
585589 AGTTCTTCAGACCATGAACTTCTTCTTCCTCTTCAAATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * *
585628 AGTTATTCAGATTATGAACTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * *
585667 AGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAAACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
585706 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* *
585745 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACA
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
585784 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
585823 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
585862 AGTTCTTCAAATTATGAACT-C--ATTCCTCTTCATATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * *
585898 AGTTCTTCAGACTATCAACTCTTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* *
585937 AGTTCTTCAGATTACGAACTTCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* *
585976 AGTT-TTCAGATTACGAACTTCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * *
586014 AGTTCTTCAGATTATGAGCTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
586053 AGCTCTTCAGACTATGAACTCATTCTTCATCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* *
586092 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTTAGACG
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
* * *
586131 AGTTCTTTAGACTATGAACTCCTTCTTCATCTTCAGAC
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGAC
586169 TATGAACTTT
Statistics
Matches: 485, Mismatches: 52, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
36 29 0.06
38 39 0.08
39 417 0.86
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (39 bp):
AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
Found at i:585718 original size:78 final size:78
Alignment explanation
Indices: 585589--586692 Score: 1335
Period size: 78 Copynumber: 14.3 Consensus size: 78
585579 AGGTTGAATA
* * * * *
585589 AGTTCTTCAGACCATGAACTTCTTCTTCCTCTTCAAATGAGTTATTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
585654 TCCTCTTCATATG
66 TCCTCTTCATACG
* *
585667 AGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAAACGAGTTCTTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
585732 TCCTCTTCAGACG
66 TCCTCTTCATACG
*
585745 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACAAGTTCTTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
585810 TCCTCTTCAGACG
66 TCCTCTTCATACG
* * *
585823 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAAATTATGAACT-C--AT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
585885 TCCTCTTCATATG
66 TCCTCTTCATACG
* * * *
585898 AGTTCTTCAGACTATCAACTCTTTCTTCCTCTTCAGACGAGTTCTTCAGATTACGAACTTCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
585963 TCCTCTTCAGACG
66 TCCTCTTCATACG
* * * *
585976 AGTT-TTCAGATTACGAACTTCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAGCTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
586040 TCCTCTTCATATG
66 TCCTCTTCATACG
* * * *
586053 AGCTCTTCAGACTATGAACTCATTCTTCATCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
* *
586118 TCCTCTTTAGACG
66 TCCTCTTCATACG
* * * ** * * **
586131 AGTTCTTTAGACTATGAACTCCTTCTTCATCTTCAGACTATGAACTT---TTTCT-TCCT-CTTC
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGA-GTTCTTCAGATTATGAACTCCTTC
** *** *
586191 AGACGAATTC-TTC-
65 -TTCCTCTTCATACG
* * *
586204 AGATT-ATGA-ACTCAT----T-CTTCTTCTTCTTCAGACGAGTTCTTCAGATTATGAACTCCTT
1 AG-TTCTTCAGACT-ATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTT
* * *
586262 TTTCCGCTTCATATG
64 CTTCCTCTTCATACG
* * *
586277 AGTTCTTCACACTATGAACTCCTTCTTCTTCTTCAGACGAGTTCTTCAGATTATGAACTCATTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
586342 TCCTCTTCAGACG
66 TCCTCTTCATACG
* * * *
586355 AGTTCTTCAGATTATGAACTCATTCTTCCTCTTCAGATGAGTTCTTCAGACTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
* *
586420 TCCTCTTTATATG
66 TCCTCTTCATACG
* * * * *
586433 AGTTCTTCAGACTATGAACTCTTTCTTCCTCTTCATATGAGTTCTTCAGACTATGAATTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
586498 TCCTCTTCAGACG
66 TCCTCTTCATACG
* * * * * *
586511 AGTTCTTCAGACTATGAAATTCTTCTTCCTCTTCATATGAGTTCTTCAGACTATGAACTCTTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
586576 TCTTCTTCATACG
66 TCCTCTTCATACG
* *
586589 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
586654 TCCTCTTCATATG
66 TCCTCTTCATACG
*
586667 AGTTCTTCAGACTATGAACTTCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCT
586693 GGAAATATTT
Statistics
Matches: 883, Mismatches: 121, Indels: 44
0.84 0.12 0.04
Matches are distributed among these distances:
67 4 0.00
68 17 0.02
69 1 0.00
70 3 0.00
71 6 0.01
72 9 0.01
73 12 0.01
74 10 0.01
75 71 0.08
76 3 0.00
77 68 0.08
78 675 0.76
79 4 0.00
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (78 bp):
AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
TCCTCTTCATACG
Found at i:585800 original size:117 final size:117
Alignment explanation
Indices: 585589--586692 Score: 1423
Period size: 117 Copynumber: 9.6 Consensus size: 117
585579 AGGTTGAATA
* * * * * *
585589 AGTTCTTCAGACCATGAACTTCTTCTTCCTCTTCAAATGAGTTATTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* * * *
585654 TCCTCTTCATATGAGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAAACG
66 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
*
585706 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* *
585771 TCCTCTTCAGACAAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
66 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
585823 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAAATTATGAACT-C--AT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* * * *
585885 TCCTCTTCATATGAGTTCTTCAGACTATCAACTCTTTCTTCCTCTTCAGACG
66 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * * * *
585937 AGTTCTTCAGATTACGAACTTCTTCTTCCTCTTCAGACGAGTT-TTCAGATTACGAACTTCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* * * *
586001 TCCTCTTCAGACGAGTTCTTCAGATTATGAGCTCCTTCTTCCTCTTCATATG
66 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * *
586053 AGCTCTTCAGACTATGAACTCATTCTTCATCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* *
586118 TCCTCTTTAGACGAGTTCTTTAGACTATGAACT-C--C-T--TCTT----C-
66 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
** * *
586159 A--TCTTCAGACTATGAACTTTTTCTTCCTCTTCAGACGAATTCTTCAGATTATGAACTCATTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTC---CT
* * * * * *
586222 TCTTCTTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTTTTCCGCTTCATATG
63 TCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
586277 AGTTCTTCACACTATGAACTCCTTCTTCTTCTTCAGACGAGTTCTTCAGATTATGAACTCATTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* * *
586342 TCCTCTTCAGACGAGTTCTTCAGATTATGAACTCATTCTTCCTCTTCAGATG
66 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
586394 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTTATATGAGTTCTTCAGACTATGAACTCTTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* * *
586459 TCCTCTTCATATGAGTTCTTCAGACTATGAATTCCTTCTTCCTCTTCAGACG
66 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * * *
586511 AGTTCTTCAGACTATGAAATTCTTCTTCCTCTTCATATGAGTTCTTCAGACTATGAACTCTTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
* *
586576 TCTTCTTCATACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
66 TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
586628 AGTTCTTCAGACTATGAACTCATTCTTCCTCTTCATATGAGTTCTTCAGACTATGAACTTCTTCT
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
586693 GGAAATATTT
Statistics
Matches: 871, Mismatches: 96, Indels: 40
0.86 0.10 0.04
Matches are distributed among these distances:
104 52 0.06
106 1 0.00
107 34 0.04
108 1 0.00
111 5 0.01
113 17 0.02
114 90 0.10
116 84 0.10
117 534 0.61
118 1 0.00
120 52 0.06
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (117 bp):
AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
TCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
Found at i:585811 original size:20 final size:20
Alignment explanation
Indices: 585786--585850 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
585776 TTCAGACAAG
585786 TTCTTCAGATTATGAACTCC
1 TTCTTCAGATTATGAACTCC
*** ***
585806 TTCTTCCTCTTCA-G-ACGAG
1 TTCTTCAGATT-ATGAACTCC
585825 TTCTTCAGATTATGAACTCC
1 TTCTTCAGATTATGAACTCC
585845 TTCTTC
1 TTCTTC
585851 CTCTTCAGAC
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
18 1 0.03
19 11 0.37
20 17 0.57
21 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.11, T:0.42
Consensus pattern (20 bp):
TTCTTCAGATTATGAACTCC
Found at i:586081 original size:20 final size:20
Alignment explanation
Indices: 586056--586119 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
586046 TCATATGAGC
586056 TCTTCAGACTATGAACTCAT
1 TCTTCAGACTATGAACTCAT
* * *
586076 TCTTCA-TCT-TCAGAC-GAGT
1 TCTTCAGACTATGA-ACTCA-T
*
586095 TCTTCAGACTATGAACTCCT
1 TCTTCAGACTATGAACTCAT
586115 TCTTC
1 TCTTC
586120 CTCTTTAGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
18 3 0.09
19 11 0.34
20 16 0.50
21 2 0.06
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (20 bp):
TCTTCAGACTATGAACTCAT
Found at i:586170 original size:26 final size:26
Alignment explanation
Indices: 586134--586194 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
586124 TTAGACGAGT
*
586134 TCTTTAGACTATGAACTCCTTCTTCA
1 TCTTCAGACTATGAACTCCTTCTTCA
** *
586160 TCTTCAGACTATGAACTTTTTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCA
586186 TCTTCAGAC
1 TCTTCAGAC
586195 GAATTCTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.08, T:0.43
Consensus pattern (26 bp):
TCTTCAGACTATGAACTCCTTCTTCA
Found at i:586176 original size:65 final size:65
Alignment explanation
Indices: 586095--586229 Score: 198
Period size: 65 Copynumber: 2.1 Consensus size: 65
586085 TCAGACGAGT
* * * *
586095 TCTTCAGACTATGAACTCCTTCTTCCTCTTTAGACGAGTTCTTTAGACTATGAACTCCTTCTTCA
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAATTCTTCAGACTATGAACTCATTCTTCA
** * *
586160 TCTTCAGACTATGAACTTTTTCTTCCTCTTCAGACGAATTCTTCAGATTATGAACTCATTCTTCT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAATTCTTCAGACTATGAACTCATTCTTCA
586225 TCTTC
1 TCTTC
586230 TTCAGACGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.21, C:0.27, G:0.10, T:0.42
Consensus pattern (65 bp):
TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAATTCTTCAGACTATGAACTCATTCTTCA
Found at i:586214 original size:39 final size:39
Alignment explanation
Indices: 586160--586692 Score: 724
Period size: 39 Copynumber: 13.6 Consensus size: 39
586150 TCCTTCTTCA
** *
586160 TCTTCAGACTATGAACTTTTTCTTCCTCTTCAGACGAAT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* *
586199 TCTTCAGATTATGAACTCATTCTTCTTCTTCTTCAGACGAGT
1 TCTTCAGACTATGAACTC---CTTCTTCCTCTTCAGACGAGT
* * * * *
586241 TCTTCAGATTATGAACTCCTTTTTCCGCTTCATATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* *
586280 TCTTCACACTATGAACTCCTTCTTCTTCTTCAGACGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* *
586319 TCTTCAGATTATGAACTCATTCTTCCTCTTCAGACGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * *
586358 TCTTCAGATTATGAACTCATTCTTCCTCTTCAGATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * *
586397 TCTTCAGACTATGAACTCCTTCTTCCTCTTTATATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * *
586436 TCTTCAGACTATGAACTCTTTCTTCCTCTTCATATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
*
586475 TCTTCAGACTATGAATTCCTTCTTCCTCTTCAGACGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * * *
586514 TCTTCAGACTATGAAATTCTTCTTCCTCTTCATATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * *
586553 TCTTCAGACTATGAACTCTTTCTTCTTCTTCATACGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
586592 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
* * *
586631 TCTTCAGACTATGAACTCATTCTTCCTCTTCATATGAGT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
*
586670 TCTTCAGACTATGAACTTCTTCT
1 TCTTCAGACTATGAACTCCTTCT
586693 GGAAATATTT
Statistics
Matches: 442, Mismatches: 49, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
39 406 0.92
42 36 0.08
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (39 bp):
TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGT
Found at i:586343 original size:20 final size:20
Alignment explanation
Indices: 586318--586382 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
586308 TTCAGACGAG
586318 TTCTTCAGATTATGAACTCA
1 TTCTTCAGATTATGAACTCA
*** *
586338 TTCTTCCTCTTCA-G-AC-GA
1 TTCTTCAGATT-ATGAACTCA
586356 GTTCTTCAGATTATGAACTCA
1 -TTCTTCAGATTATGAACTCA
586377 TTCTTC
1 TTCTTC
586383 CTCTTCAGAT
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 17 0.53
21 2 0.06
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.42
Consensus pattern (20 bp):
TTCTTCAGATTATGAACTCA
Found at i:586866 original size:36 final size:35
Alignment explanation
Indices: 586825--587090 Score: 114
Period size: 36 Copynumber: 7.3 Consensus size: 35
586815 GTGAAACTTC
*
586825 CTCAAGCGAGAAACAGTTTGTTTTAATAAAAACAAT
1 CTCAAGTGAGAAA-AGTTTGTTTTAATAAAAACAAT
* * ***
586861 CTCAAGTGAGATAAA--TTGCTATTTCGAGT-GAAATTTT
1 CTCAAGTGAGA-AAAGTTTG-T-TTT--AATAAAAACAAT
* *
586898 CTCCAGTGAGAAACAGTTTGTTTTAAGAAAAACAAT
1 CTCAAGTGAGAAA-AGTTTGTTTTAATAAAAACAAT
* * * * * ***
586934 CTCAAGTGAGATAAATTGTTATTTCGAGT-GAAATTTT
1 CTCAAGTGAGA-AAAGT-TTGTTT-TAATAAAAACAAT
* *
586971 CTCAAGCGAGAAAAAGTTTGTTTTAAGAAAAACAAT
1 CTCAAGTGAG-AAAAGTTTGTTTTAATAAAAACAAT
* **
587007 CTCAAGTGAGATAAA--TTGCTATTTCAAGT-GAAACTTT
1 CTCAAGTGAGA-AAAGTTTG-T-TTT-AA-TAAAAACAAT
* * *
587044 CTCAAGCGAGAAACAATTTGTTTTAAGAAAAACAAT
1 CTCAAGTGAGAAA-AGTTTGTTTTAATAAAAACAAT
587080 CTCAAGTGAGA
1 CTCAAGTGAGA
587091 TAAATTGCTA
Statistics
Matches: 163, Mismatches: 44, Indels: 46
0.64 0.17 0.18
Matches are distributed among these distances:
34 6 0.04
35 5 0.03
36 75 0.46
37 65 0.40
38 6 0.04
39 6 0.04
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (35 bp):
CTCAAGTGAGAAAAGTTTGTTTTAATAAAAACAAT
Found at i:586881 original size:73 final size:73
Alignment explanation
Indices: 586700--587103 Score: 657
Period size: 73 Copynumber: 5.5 Consensus size: 73
586690 TCTGGAAATA
* * *
586700 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCCAGCGATAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCAAGCGAGAA
* *
586765 ATAGTTTA
66 ACAGTTTG
* * *
586773 TTTTAAG-AAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCAAGCGAGAA
586837 ACAGTTTG
66 ACAGTTTG
* * *
586845 TTTTAATAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCCAGTGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCAAGCGAGAA
586910 ACAGTTTG
66 ACAGTTTG
*
586918 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCAAGCGAGAA
*
586983 AAAGTTTG
66 ACAGTTTG
* *
586991 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCAAGCGAGAA
*
587056 ACAATTTG
66 ACAGTTTG
587064 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
587104 GAAAACATCC
Statistics
Matches: 306, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
72 63 0.21
73 243 0.79
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (73 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCAAGCGAGAA
ACAGTTTG
Found at i:587078 original size:219 final size:218
Alignment explanation
Indices: 586700--587103 Score: 736
Period size: 219 Copynumber: 1.8 Consensus size: 218
586690 TCTGGAAATA
* *
586700 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCCAGCGATAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAGAA
*
586765 ATAGTTTATTTTAAGAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCAA
66 AAAGTTTATTTTAAGAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCAA
* *
586830 GCGAGAAACAGTTTGTTTTAATAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAAT
131 GCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAAT
586895 TTTCTCCAGTGAGAAACAGTTTG
196 TTTCTCCAGTGAGAAACAGTTTG
586918 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAGAA
* *
586983 AAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCA
66 AAAGTTTATTTTAAG-AAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCA
587048 AGCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
130 AGCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
587104 GAAAACATCC
Statistics
Matches: 178, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
218 76 0.43
219 102 0.57
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (218 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAGAA
AAAGTTTATTTTAAGAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTCCTCAA
GCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAAT
TTTCTCCAGTGAGAAACAGTTTG
Found at i:587882 original size:22 final size:23
Alignment explanation
Indices: 587801--587877 Score: 106
Period size: 22 Copynumber: 3.5 Consensus size: 23
587791 AATAAATCTT
* *
587801 TCATCTTTGAAAAGAT-AATTTA
1 TCATCTTTGAAGAGATGAATATA
*
587823 TCATCTTTGAAGAGA-GAATCTA
1 TCATCTTTGAAGAGATGAATATA
587845 TCATCTTTGAAGA-ATGAATATA
1 TCATCTTTGAAGAGATGAATATA
587867 TCATCTTTGAA
1 TCATCTTTGAA
587878 TAATGTAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 1 0.02
22 49 0.98
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (23 bp):
TCATCTTTGAAGAGATGAATATA
Found at i:588914 original size:38 final size:38
Alignment explanation
Indices: 588862--588934 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
588852 TGCCCAAATA
588862 TTCATACTGATGTGGGCCTTCAAAATGCCCAACATTTT
1 TTCATACTGATGTGGGCCTTCAAAATGCCCAACATTTT
* *
588900 TTCATACTGTTGTGGGCCTTCAAAATGCCCCACAT
1 TTCATACTGATGTGGGCCTTCAAAATGCCCAACAT
588935 GGATCTGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (38 bp):
TTCATACTGATGTGGGCCTTCAAAATGCCCAACATTTT
Found at i:590680 original size:9 final size:9
Alignment explanation
Indices: 590642--590706 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
590632 GATTCAATTT
590642 TTTTCTTTTC
1 TTTT-TTTTC
**
590652 TTTTTCATC
1 TTTTTTTTC
**
590661 TTTTTCATC
1 TTTTTTTTC
590670 TTTTTTTTC
1 TTTTTTTTC
590679 TTTTTTTTC
1 TTTTTTTTC
590688 TTTTTTTTTTC
1 --TTTTTTTTC
590699 TTTTTTTT
1 TTTTTTTT
590707 TATGATGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 36 0.73
10 4 0.08
11 9 0.18
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:592641 original size:79 final size:80
Alignment explanation
Indices: 592534--592692 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 80
592524 GTAAAGCTTA
592534 TATCTCACAAGGGAATTTTTTTCTTTCATTGATTCTTCATTCATCATCAATTCACCAATGCCCCC
1 TATCTCACAAGGGAATTTTTTTCTTTCATTGATTCTTCATTCATCATCAATTCACCAATGCCCCC
592599 TGGGACCAAATCTTG
66 TGGGACCAAATCTTG
592614 TATCTCACAAGGG-ATTTTTTTCTTTCATTGATTCTTCATTCATCATCAATTCACCAATGCCCCC
1 TATCTCACAAGGGAATTTTTTTCTTTCATTGATTCTTCATTCATCATCAATTCACCAATGCCCCC
592678 TGGGACCAAATCTTG
66 TGGGACCAAATCTTG
592693 AAGCTGTCTT
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 66 0.84
80 13 0.16
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (80 bp):
TATCTCACAAGGGAATTTTTTTCTTTCATTGATTCTTCATTCATCATCAATTCACCAATGCCCCC
TGGGACCAAATCTTG
Found at i:593216 original size:14 final size:14
Alignment explanation
Indices: 593199--593246 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
593189 AAACGTAAAA
593199 ATGCAAAGATACGG
1 ATGCAAAGATACGG
**
593213 ATGCAAA-ATTA-AA
1 ATGCAAAGA-TACGG
593226 ATGCAAAGATACGG
1 ATGCAAAGATACGG
593240 ATGCAAA
1 ATGCAAA
593247 ATGAAAATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.17
Consensus pattern (14 bp):
ATGCAAAGATACGG
Found at i:593228 original size:27 final size:27
Alignment explanation
Indices: 593196--593262 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
593186 TAAAAACGTA
*
593196 AAAATGCAAAGATACGGATGCAAAATT
1 AAAATGCAAAGATACGGATGCAAAATG
593223 AAAATGCAAAGATACGGATGCAAAATG
1 AAAATGCAAAGATACGGATGCAAAATG
593250 AAAATGCAAAGAT
1 AAAATGCAAAGAT
593263 GCAAAAATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.54, C:0.10, G:0.19, T:0.16
Consensus pattern (27 bp):
AAAATGCAAAGATACGGATGCAAAATG
Found at i:593263 original size:21 final size:22
Alignment explanation
Indices: 593239--593281 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
593229 CAAAGATACG
593239 GATGC-AAAATGAAAATGCAAA
1 GATGCAAAAATGAAAATGCAAA
593260 GATGCAAAAATGAAAATGCAAA
1 GATGCAAAAATGAAAATGCAAA
593282 AAATGTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.58, C:0.09, G:0.19, T:0.14
Consensus pattern (22 bp):
GATGCAAAAATGAAAATGCAAA
Found at i:593271 original size:16 final size:14
Alignment explanation
Indices: 593250--593312 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 14
593240 ATGCAAAATG
593250 AAAATGCAAAGATGCA
1 AAAATG-AAA-ATGCA
593266 AAAATGAAAATGCAA
1 AAAATGAAAATGC-A
593281 AAAATGTAGAAATGCA
1 AAAATG-A-AAATGCA
593297 AAAAT-AAGAATGCA
1 AAAATGAA-AATGCA
593311 AA
1 AA
593313 TTGTGCAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.02
14 13 0.30
15 10 0.23
16 13 0.30
17 6 0.14
ACGTcount: A:0.62, C:0.08, G:0.16, T:0.14
Consensus pattern (14 bp):
AAAATGAAAATGCA
Found at i:593280 original size:14 final size:15
Alignment explanation
Indices: 593240--593301 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 15
593230 AAAGATACGG
593240 ATGCAAAATG--AAA
1 ATGCAAAATGCAAAA
593253 ATGCAAAGATGCAAAA
1 ATGCAAA-ATGCAAAA
593269 ATG-AAAATGCAAAAA
1 ATGCAAAATGC-AAAA
*
593284 ATGTAGAAATGCAAAA
1 ATGCA-AAATGCAAAA
593300 AT
1 AT
593302 AAGAATGCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.16
14 7 0.16
15 10 0.23
16 13 0.30
17 6 0.14
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (15 bp):
ATGCAAAATGCAAAA
Found at i:593283 original size:8 final size:8
Alignment explanation
Indices: 593250--593301 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
593240 ATGCAAAATG
593250 AAAATGCA
1 AAAATGCA
*
593258 AAGATGCA
1 AAAATGCA
593266 AAAATG--
1 AAAATGCA
593272 AAAATGCAA
1 AAAATGC-A
*
593281 AAAATGTA
1 AAAATGCA
*
593289 GAAATGCA
1 AAAATGCA
593297 AAAAT
1 AAAAT
593302 AAGAATGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
6 6 0.17
8 23 0.66
9 6 0.17
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (8 bp):
AAAATGCA
Found at i:593295 original size:17 final size:15
Alignment explanation
Indices: 593250--593312 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
593240 ATGCAAAATG
593250 AAAATGCAAAGATGC-A
1 AAAATG-AAA-ATGCAA
593266 AAAATGAAAATGCAA
1 AAAATGAAAATGCAA
593281 AAAATGTAGAAATGC-A
1 AAAATG-A-AAATGCAA
593297 AAAAT-AAGAATGCAA
1 AAAATGAA-AATGCAA
593312 A
1 A
593313 TTGTGCAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.02
14 10 0.24
15 12 0.29
16 13 0.31
17 6 0.14
ACGTcount: A:0.62, C:0.08, G:0.16, T:0.14
Consensus pattern (15 bp):
AAAATGAAAATGCAA
Found at i:599648 original size:35 final size:35
Alignment explanation
Indices: 599602--599677 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
599592 AAAACAGTCC
* *
599602 TCAATTTCATTCTAAACCCTAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
599637 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
599672 TCAATT
1 TCAATT
599678 AAATTCAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:600218 original size:130 final size:130
Alignment explanation
Indices: 600072--600319 Score: 397
Period size: 130 Copynumber: 1.9 Consensus size: 130
600062 TATTTATATA
* ** *
600072 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATATGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATG
* *
600137 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
600202 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATG
* * * *
600267 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCATCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
600320 GAAGAAAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:600292 original size:23 final size:21
Alignment explanation
Indices: 600246--600292 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
600236 AATTAATCAT
600246 TTAACCAGGATCTGACATATG
1 TTAACCAGGATCTGACATATG
* *
600267 TTAACACATGATCATGATATATG
1 TTAAC-CAGGATC-TGACATATG
600290 TTA
1 TTA
600293 TTGGTGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
TTAACCAGGATCTGACATATG
Found at i:600350 original size:130 final size:129
Alignment explanation
Indices: 600086--600350 Score: 282
Period size: 130 Copynumber: 2.0 Consensus size: 129
600076 ATTTGGTCCT
* ** * *
600086 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATATGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATGTTAACACATGATCA
* *** * * **** *
600151 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
600216 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATGTTAACACATGATCA
* * * * *
600281 TGATATATGTTATTGGTGACACATGTCACCATCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
600345 -A
128 CA
600346 AAATT
1 AAATT
600351 TGGGTCTTGG
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
130 97 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:600800 original size:16 final size:18
Alignment explanation
Indices: 600779--600812 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
600769 ATTTCTTATT
600779 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
600795 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
600813 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:604097 original size:12 final size:13
Alignment explanation
Indices: 604067--604096 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
604057 ACTCCAGTTT
604067 TTTTTAAAAAATA
1 TTTTTAAAAAATA
604080 TTTTTAAAAAATA
1 TTTTTAAAAAATA
604093 TTTT
1 TTTT
604097 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTTAAAAAATA
Found at i:607445 original size:90 final size:90
Alignment explanation
Indices: 607292--607855 Score: 851
Period size: 90 Copynumber: 6.3 Consensus size: 90
607282 ACCCAAAAGA
* * * * * **
607292 CTTATAGATGACCCGAATGATTTAAAAATCAAGAAACCCTTGAAGGCTTAGTTTCTAAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
*
607357 TTTGAAAACATCATGCACTGAAGAT
66 TTTGAAAACATCATGCACTGAAGGT
* * * *
607382 CTTATGGATGGCCTGAAGGACTTAAAAATCAATAAACCCCCGAAGGCTTAGTTTTTAAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
*
607447 TTTGAAAACATCCTGCACTGAAGGT
66 TTTGAAAACATCATGCACTGAAGGT
* *
607472 CTTATGGATGACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
*
607537 TTTGAAAACATCCTGCACTGAAGGT
66 TTTGAAAACATCATGCACTGAAGGT
* * * *
607562 CATATGGATGACCCGAATGACTTACAAATTAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
* *
607627 TTTGAAAATATCATGCACTAAAGGT
66 TTTGAAAACATCATGCACTGAAGGT
*
607652 CTTATGGATGGTCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
607717 TTTGAAAACAT-ACTGCACTGAAGGT
66 TTTGAAAACATCA-TGCACTGAAGGT
* * * * *
607742 CTTATGGATGGTCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGTTTAGTTTCTTAAATCTTA
1 CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
607807 TTTGAAAACATCATGCACTGAAGGT
66 TTTGAAAACATCATGCACTGAAGGT
*
607832 CTTATGGATGGCCCGAATGACTTA
1 CTTATGGATGGCCCGAAGGACTTA
607856 TCATCTTGCT
Statistics
Matches: 435, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
89 1 0.00
90 433 1.00
91 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (90 bp):
CTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
TTTGAAAACATCATGCACTGAAGGT
Found at i:607972 original size:42 final size:42
Alignment explanation
Indices: 607814--607987 Score: 152
Period size: 42 Copynumber: 4.1 Consensus size: 42
607804 TTATTTGAAA
* * * * *
607814 ACATCATGCACTGAAGGTCTTATGGATGGCCCGAATGACTTA-
1 ACATCATGCTC-GAAAGACTTATTGATGACCCGAATGACTTAC
* * * * * * *
607856 TCATCTTGCTCAAAAGACTTATAGATGACCCAAAAGATTTAC
1 ACATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTAC
** * * * *
607898 GTATCATACTCGAAAGACTTACTGATGACCCGAAGGATTTAC
1 ACATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTAC
*
607940 ACATCATGCTCGAAAGACTTATTGATGGCCCGAATGACTTAC
1 ACATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTAC
*
607982 TCATCA
1 ACATCA
607988 AGAAACCCCC
Statistics
Matches: 103, Mismatches: 28, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
41 22 0.21
42 81 0.79
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (42 bp):
ACATCATGCTCGAAAGACTTATTGATGACCCGAATGACTTAC
Found at i:608122 original size:43 final size:43
Alignment explanation
Indices: 608016--608275 Score: 398
Period size: 43 Copynumber: 6.0 Consensus size: 43
608006 AGTTTCTTAG
*
608016 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAG-
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
* *
608058 -TGTTCATCAAGAAACCCCTACATATCACGTTGGTCTCTCAAGC
1 TTG-TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
608101 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
608144 TTGTCATCAAGGAACCCCCTACATATCACGTTGGTCCCTCAAGC
1 TTGTCATCAAGGAA-CCCCTACATATCACGTTGGTCCCTCAAGC
* * ** *
608188 TTGTCATCAAGGAACCCTTACATATCACGATGACCCCTCAAAC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
* *
608231 TTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
608274 TT
1 TT
608276 AGTTTCTTAT
Statistics
Matches: 201, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 2 0.01
42 36 0.18
43 118 0.59
44 45 0.22
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (43 bp):
TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
Found at i:608194 original size:87 final size:86
Alignment explanation
Indices: 608016--608275 Score: 398
Period size: 87 Copynumber: 3.0 Consensus size: 86
608006 AGTTTCTTAG
* *
608016 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAG--TGTTCATCAAGAAACCCCTAC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG-TCATCAAGGAACCCCTAC
*
608079 ATATCACGTTGGTCTCTCAAGC
65 ATATCACGTTGGTCCCTCAAGC
608101 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGAACCCCCTAC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGAA-CCCCTAC
608166 ATATCACGTTGGTCCCTCAAGC
65 ATATCACGTTGGTCCCTCAAGC
* * ** *
608188 TTGTCATCAAGGAACCCTTACATATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACA
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
* *
608253 TATCACGATGATCCCTCAAGC
66 TATCACGTTGGTCCCTCAAGC
608274 TT
1 TT
608276 AGTTTCTTAT
Statistics
Matches: 162, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
85 41 0.25
86 39 0.24
87 82 0.51
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (86 bp):
TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGAACCCCTACA
TATCACGTTGGTCCCTCAAGC
Found at i:608205 original size:23 final size:22
Alignment explanation
Indices: 608179--608247 Score: 52
Period size: 23 Copynumber: 3.1 Consensus size: 22
608169 TCACGTTGGT
608179 CCCTCAAGCTTGTCATCAAGGAA
1 CCCTCAA-CTTGTCATCAAGGAA
* * * * * *
608202 CCCT-TACATATCA-CGATGAC
1 CCCTCAACTTGTCATCAAGGAA
608222 CCCTCAAACTTGTCATCAAGGAA
1 CCCTC-AACTTGTCATCAAGGAA
608245 CCC
1 CCC
608248 CTACATATCA
Statistics
Matches: 31, Mismatches: 12, Indels: 6
0.63 0.24 0.12
Matches are distributed among these distances:
20 8 0.26
21 5 0.16
22 7 0.23
23 11 0.35
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (22 bp):
CCCTCAACTTGTCATCAAGGAA
Found at i:608228 original size:130 final size:128
Alignment explanation
Indices: 608016--608275 Score: 396
Period size: 130 Copynumber: 2.0 Consensus size: 128
608006 AGTTTCTTAG
608016 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGTGTTCATCAAGAAACCCCTACAT
1 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGTGTTCATCAAGAAACCCCTACAT
* ** * * * *
608081 ATCACGTTGGTCTCTCAAGCTTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
66 ATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAGC
* * *
608144 TTGTCATCAAGGAACCCCCTACATATCACGTTGGTCCCTCAAGCT-TGTCATCAAGGAACCCTTA
1 TTGTCACCAAGGAA-CCCCTACATATCACGTTGGTCCCTCAAG-TGT-TCATCAAGAAACCCCTA
608208 CATATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAG
63 CATATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAG
608273 C
128 C
608274 TT
1 TT
608276 AGTTTCTTAT
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
128 13 0.11
129 29 0.24
130 77 0.65
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (128 bp):
TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGTGTTCATCAAGAAACCCCTACAT
ATCACGATGACCCCTCAAACTTGTCATCAAGGAACCCCTACATATCACGATGATCCCTCAAGC
Found at i:608715 original size:41 final size:41
Alignment explanation
Indices: 608669--608750 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
608659 CACATAGATC
*
608669 ATTTCTA-TCTAAAATGGTCATTCAAAATACCCCAACATTTT
1 ATTTCTAGT-TAAAATGGACATTCAAAATACCCCAACATTTT
* * * *
608710 ATTTCTAGTTGAAATGGACTTTCAAAATATCCCAACCTTTT
1 ATTTCTAGTTAAAATGGACATTCAAAATACCCCAACATTTT
608751 CATGCTGGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (41 bp):
ATTTCTAGTTAAAATGGACATTCAAAATACCCCAACATTTT
Found at i:608861 original size:52 final size:50
Alignment explanation
Indices: 608746--608936 Score: 219
Period size: 52 Copynumber: 3.8 Consensus size: 50
608736 ATATCCCAAC
* *
608746 CTTTTCATGCTGGTGTGAGCCTTCAAGA--CCCCACATGAATTACGTT-TGT
1 CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATG-ATTAC-TTCTAT
* * * *
608795 CTATTCATACTGATGTGACCCTTCAAGATGCCCCCCATAGATTACTTCTAT
1 CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACAT-GATTACTTCTAT
**
608846 CTTTTTCATGCTGATGCAAGCCTTCAAGATGCCCCTACATGGATTACTTCTAT
1 C-TTTTCATGCTGATGTGAGCCTTCAAGATGCCCC-ACAT-GATTACTTCTAT
*
608899 CTTTTCATGCTGATGTGAGCCTTCAAGAT-ACCCACATG
1 CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATG
608937 GATAATGTGG
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 25 0.21
50 6 0.05
51 18 0.15
52 55 0.46
53 16 0.13
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (50 bp):
CTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGATTACTTCTAT
Found at i:610090 original size:6 final size:6
Alignment explanation
Indices: 610068--610138 Score: 65
Period size: 6 Copynumber: 11.5 Consensus size: 6
610058 TTCCTCATTC
* * *
610068 TTTCTT TTT-TA TTTCTT TTTCTT TTT-TAT TTTCAT TTTCAT TTTCTTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT TTTCTT TTTC-TT
610116 TTTCTTT TTTCTT TTTCATT TTT
1 TTTC-TT TTTCTT TTTC-TT TTT
610139 TCCTTCTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.09
6 34 0.61
7 17 0.30
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:610099 original size:24 final size:25
Alignment explanation
Indices: 610072--610137 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
610062 TCATTCTTTC
*
610072 TTTTTTA-TTTCTTTTTCTTTTTTA
1 TTTTTTATTTTCATTTTCTTTTTTA
* *
610096 -TTTTCATTTTCATTTTCTTTTTTC
1 TTTTTTATTTTCATTTTCTTTTTTA
*
610120 TTTTTTCTTTTTCATTTT
1 TTTTTT-ATTTTCATTTT
610138 TTCCTTCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.15
24 15 0.44
25 4 0.12
26 10 0.29
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTATTTTCATTTTCTTTTTTA
Found at i:610132 original size:32 final size:29
Alignment explanation
Indices: 610065--610153 Score: 57
Period size: 32 Copynumber: 3.2 Consensus size: 29
610055 ATCTTCCTCA
*
610065 TTCTTTCTT-TTTT-ATTTCTTTTTCTTTT
1 TTCTTTTTTATTTTCATTT-TTTTTCTTTT
* *
610093 TT-ATTTTCATTTTCA--TTT--TCTTTT
1 TTCTTTTTTATTTTCATTTTTTTTCTTTT
*
610117 TTCTTTTTTCTTTTTCATTTTTTCCTTCTTTT
1 TTCTTTTTT-ATTTTCATTTTTT--TTCTTTT
610149 TTCTT
1 TTCTT
610154 CCTTTTTGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 8 0.18
25 4 0.09
26 8 0.18
27 4 0.09
28 9 0.20
29 1 0.02
32 11 0.24
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.79
Consensus pattern (29 bp):
TTCTTTTTTATTTTCATTTTTTTTCTTTT
Found at i:610153 original size:7 final size:7
Alignment explanation
Indices: 610065--610140 Score: 52
Period size: 7 Copynumber: 10.4 Consensus size: 7
610055 ATCTTCCTCA
610065 TTCTTTCT
1 TTCTTT-T
610073 TT-TTTAT
1 TTCTTT-T
610080 TTC-TTT
1 TTCTTTT
610086 TTCTTTT
1 TTCTTTT
*
610093 TTATTTT
1 TTCTTTT
610100 CATT-TTCATT
1 --TTCTT--TT
610110 TTCTTTT
1 TTCTTTT
610117 TTCTTTT
1 TTCTTTT
610124 TTC-TTT
1 TTCTTTT
610130 TTCATTTT
1 TTC-TTTT
610138 TTC
1 TTC
610141 CTTCTTTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
6 10 0.18
7 29 0.51
8 12 0.21
9 4 0.07
10 2 0.04
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (7 bp):
TTCTTTT
Found at i:610159 original size:22 final size:21
Alignment explanation
Indices: 610112--610160 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
610102 TTTTCATTTT
*
610112 CTTTTTTCTTTTTTCTTTTTC
1 CTTTTTTCTTTTTTCTTCTTC
*
610133 ATTTTTTCCTTCTTTT-TTCTTC
1 CTTTTTT-CTT-TTTTCTTCTTC
610155 CTTTTT
1 CTTTTT
610161 GAGTGTAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 13 0.57
23 4 0.17
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (21 bp):
CTTTTTTCTTTTTTCTTCTTC
Found at i:612651 original size:2 final size:2
Alignment explanation
Indices: 612646--612682 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
612636 GATATATATA
612646 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
612683 TTATGTGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:612854 original size:22 final size:22
Alignment explanation
Indices: 612785--612846 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
612775 TGCACATGTG
*
612785 ATATGTGA-CAGAAGAAAAGGT
1 ATATGTGATCACAAGAAAAGGT
612806 ATATGTGATCACAAGAAAAGGT
1 ATATGTGATCACAAGAAAAGGT
612828 ATATGTGATCACAAGAAAA
1 ATATGTGATCACAAGAAAA
612847 ATGATATGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 8 0.21
22 31 0.79
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (22 bp):
ATATGTGATCACAAGAAAAGGT
Found at i:613108 original size:22 final size:23
Alignment explanation
Indices: 613048--613113 Score: 62
Period size: 27 Copynumber: 2.7 Consensus size: 23
613038 CTTAAGGAGT
613048 GGTCCTTCGGGACAAATACAGTACATA
1 GGTCCTTCGGGACAAATACAG---A-A
* *
613075 GGTCTTTTGGGACAAATACAG-A
1 GGTCCTTCGGGACAAATACAGAA
*
613097 GGTCCTTCGGGATAAAT
1 GGTCCTTCGGGACAAAT
613114 TTCATAGCCC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 15 0.44
27 19 0.56
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (23 bp):
GGTCCTTCGGGACAAATACAGAA
Found at i:619725 original size:2 final size:2
Alignment explanation
Indices: 619718--619764 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
619708 TGGTGCATAC
619718 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
619758 AT AT AT A
1 AT AT AT A
619765 GCATGCACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:622211 original size:10 final size:9
Alignment explanation
Indices: 622172--622214 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
622162 TTGATTTAAA
622172 TATTAAATT
1 TATTAAATT
622181 TATTAAATT
1 TATTAAATT
*
622190 AATTTAAA-T
1 TA-TTAAATT
622199 TATTAAAATT
1 TATT-AAATT
622209 TATTAA
1 TATTAA
622215 TAATAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 2 0.07
9 17 0.59
10 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TATTAAATT
Found at i:622214 original size:18 final size:18
Alignment explanation
Indices: 622172--622214 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
622162 TTGATTTAAA
622172 TATTAAATTTATTAAATT
1 TATTAAATTTATTAAATT
*
622190 AATTTAAA-TTATTAAAATT
1 TA-TTAAATTTATT-AAATT
622209 TATTAA
1 TATTAA
622215 TAATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAAATTTATTAAATT
Found at i:624869 original size:22 final size:22
Alignment explanation
Indices: 624844--624906 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 22
624834 GTAACGCGAT
624844 TTTGAAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGAGAG
*
624866 TTTGAAAAACGTGTTGTTGCGATAG
1 TTTGAAAAA--TG-TGTTGCGAGAG
624891 --TGAAAAA-GTGTTGCGA
1 TTTGAAAAATGTGTTGCGA
624907 TAGTGAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
19 8 0.22
20 1 0.03
22 9 0.24
23 7 0.19
24 2 0.05
25 10 0.27
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (22 bp):
TTTGAAAAATGTGTTGCGAGAG
Found at i:624904 original size:19 final size:19
Alignment explanation
Indices: 624880--624916 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
624870 AAAAACGTGT
624880 TGTTGCGATAGTGAAAAAG
1 TGTTGCGATAGTGAAAAAG
624899 TGTTGCGATAGTGAAAAA
1 TGTTGCGATAGTGAAAAA
624917 TCCAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (19 bp):
TGTTGCGATAGTGAAAAAG
Found at i:625238 original size:21 final size:21
Alignment explanation
Indices: 625214--625253 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
625204 ACAAATGCAA
*
625214 CGAATTTGGAAAATCGCAACG
1 CGAACTTGGAAAATCGCAACG
**
625235 CGAACTTGGACTATCGCAA
1 CGAACTTGGAAAATCGCAA
625254 AATCGCGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (21 bp):
CGAACTTGGAAAATCGCAACG
Found at i:627054 original size:91 final size:90
Alignment explanation
Indices: 626890--627081 Score: 269
Period size: 91 Copynumber: 2.1 Consensus size: 90
626880 GTAAGATGTT
* * * * * **
626890 TACA-AGATAATTTGAACTTTTAATATTAAACAATTGAAAATCTTTCAAACATATATTATCTTTT
1 TACACAGATTATTTGAACTATTAATATTAAACAATTAAAAATCTTCCAAACATATACTATCTCGT
626954 AATCACCCTTTACTAATAAAAGAAAG
66 AATCACCC-TTACTAATAAAAGAAAG
*
626980 TACACAGATTATTTGAACTATTAATATTAAACAATTAAAAATCTTCCAAATATATACTATCTCGT
1 TACACAGATTATTTGAACTATTAATATTAAACAATTAAAAATCTTCCAAACATATACTATCTCGT
*
627045 AATCACCCTTACTAATAAAATAAAG
66 AATCACCCTTACTAATAAAAGAAAG
**
627070 TATGCAGATTAT
1 TACACAGATTAT
627082 ATAGCTAAAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 30 0.33
91 60 0.67
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (90 bp):
TACACAGATTATTTGAACTATTAATATTAAACAATTAAAAATCTTCCAAACATATACTATCTCGT
AATCACCCTTACTAATAAAAGAAAG
Found at i:630194 original size:50 final size:49
Alignment explanation
Indices: 630140--630263 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
630130 TTAGCAGAAA
* * *
630140 AGCGCGCCTCCTGCACCGCGTTATATGTTGATTTGGCGTCACATGAGTAT
1 AGCGCGCC-CCTGCACCGCGTTATACGGTGATTTGGCGCCACATGAGTAT
* * * *
630190 AGCGCGCCCCCTGCCCCGCGATATACGGTGATTTGGCGCCACGTGGGTAT
1 AGCGCG-CCCCTGCACCGCGTTATACGGTGATTTGGCGCCACATGAGTAT
630240 AGCGCGCCCCATG-ATCCGCGTTAT
1 AGCGCGCCCC-TGCA-CCGCGTTAT
630264 CCCTGGATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
49 4 0.06
50 56 0.90
51 2 0.03
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.24
Consensus pattern (49 bp):
AGCGCGCCCCTGCACCGCGTTATACGGTGATTTGGCGCCACATGAGTAT
Found at i:630738 original size:111 final size:111
Alignment explanation
Indices: 630539--630760 Score: 401
Period size: 111 Copynumber: 2.0 Consensus size: 111
630529 TGGAAATCAT
*
630539 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
630604 TATTTAGTTGATTTATTATATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTATATGCATGATTATTAGATTAAGAATTAA
630650 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
630715 TAATTAGTTGATTCATT-TAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTAT-ATGCATGATTATTAGATTAAGAATTAA
630761 TTTTTGTAAT
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
110 1 0.01
111 106 0.99
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTATATGCATGATTATTAGATTAAGAATTAA
Found at i:632541 original size:6 final size:6
Alignment explanation
Indices: 632526--632588 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
632516 ACTTGCTCAG
* * * * * *
632526 GACGAC GACGAT GACGAT GCCGAC GACGAC GATGGT GACGAT GACGAT
1 GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT
*
632574 GACGAT GATGAT GAC
1 GACGAT GACGAT GAC
632589 AGCGAGGAGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.35, T:0.14
Consensus pattern (6 bp):
GACGAT
Found at i:632551 original size:15 final size:15
Alignment explanation
Indices: 632529--632584 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
632519 TGCTCAGGAC
632529 GACGACGATGACGAT
1 GACGACGATGACGAT
* *
632544 GCCGACGACGACGAT
1 GACGACGATGACGAT
**
632559 GGTGACGATGACGAT
1 GACGACGATGACGAT
*
632574 GACGATGATGA
1 GACGACGATGA
632585 TGACAGCGAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.30, C:0.20, G:0.36, T:0.14
Consensus pattern (15 bp):
GACGACGATGACGAT
Found at i:632841 original size:35 final size:33
Alignment explanation
Indices: 632802--632886 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
632792 ATATTTTAGT
632802 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
632837 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
632872 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
632887 TAAATATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:645690 original size:33 final size:29
Alignment explanation
Indices: 645627--645695 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 29
645617 ATTTATTATT
*
645627 AAATA-TAATTTTATAATTTTATTAATAA
1 AAATATTAATTTGATAATTTTATTAATAA
645655 AAATATTAATATTGATATATTTTATTGAAATAA
1 AAATATTAAT-TTGATA-ATTTTATT--AATAA
645688 AAATATTA
1 AAATATTA
645696 TAAATTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 5 0.14
29 4 0.11
30 5 0.14
31 8 0.23
33 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (29 bp):
AAATATTAATTTGATAATTTTATTAATAA
Found at i:645705 original size:31 final size:29
Alignment explanation
Indices: 645637--645767 Score: 79
Period size: 31 Copynumber: 4.3 Consensus size: 29
645627 AAATATAATT
*
645637 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
645667 TGATATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
* * * * *
645700 TTATATTATTTATTTATTAAAGTAATAGT-A
1 TTATA-T-TTTATTAATAAAAATATTAATAA
* * *
645730 TTATATTATATT-TTAAAAATATTAATTA
1 TTATATTTTATTAATAAAAATATTAATAA
*
645758 GTATATTTTA
1 TTATATTTTA
645768 AATATATTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
27 9 0.12
28 14 0.18
29 1 0.01
30 7 0.09
31 20 0.26
32 7 0.09
33 20 0.26
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:645713 original size:33 final size:33
Alignment explanation
Indices: 645642--645710 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
645632 TAATTTTATA
*
645642 ATTTTATT--AATAAAAATATTAATATTGATAT
1 ATTTTATTGAAATAAAAATATTAAAATTGATAT
645673 ATTTTATTGAAATAAAAATATTATAAATT-ATATT
1 ATTTTATTGAAATAAAAATATTA-AAATTGATA-T
645707 ATTT
1 ATTT
645711 ATTTATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 8 0.24
33 16 0.48
34 9 0.27
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (33 bp):
ATTTTATTGAAATAAAAATATTAAAATTGATAT
Found at i:645752 original size:21 final size:21
Alignment explanation
Indices: 645728--645780 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
645718 AAAGTAATAG
645728 TATTATATTATATTTTAAAAA
1 TATTATATTATATTTTAAAAA
* *
645749 TATTAATTAGTATATTTTAAATA
1 TATT-A-TATTATATTTTAAAAA
645772 TATT-TATTA
1 TATTATATTA
645781 AAATATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.15
21 4 0.15
22 1 0.04
23 18 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTATATTATATTTTAAAAA
Found at i:645753 original size:91 final size:86
Alignment explanation
Indices: 645599--645767 Score: 207
Period size: 91 Copynumber: 1.9 Consensus size: 86
645589 TATTATTTTT
* *
645599 AAAATATTAAAATAATTTATTTATTATTAAATATAATTTTATAATTTTATTAATAAAAATATTAA
1 AAAATATTAAAATAATTTATTTATTATTAAATATAATATTATAATTATATTAATAAAAATATTAA
*
645664 TATTGATATATTTTATTGAAATA
66 T-TAG-TATATTTTATTGAAATA
* * *
645687 AAAATATTATAAATTATATTATTTATTTATTAAAGTAATAGTATTAT-ATTATATT-TTAAAAAT
1 AAAATATTA-AAATAAT-TTATTTA-TTATTAAA-T-ATAATATTATAATTATATTAATAAAAAT
645750 ATTAATTAGTATATTTTA
61 ATTAATTAGTATATTTTA
645768 AATATATTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
88 9 0.13
89 15 0.21
90 9 0.13
91 21 0.30
92 8 0.11
93 8 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (86 bp):
AAAATATTAAAATAATTTATTTATTATTAAATATAATATTATAATTATATTAATAAAAATATTAA
TTAGTATATTTTATTGAAATA
Found at i:645765 original size:23 final size:23
Alignment explanation
Indices: 645736--645780 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
645726 AGTATTATAT
645736 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
645759 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
645781 AAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:645786 original size:23 final size:23
Alignment explanation
Indices: 645737--645805 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
645727 GTATTATATT
* * **
645737 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTTATTAAA
645760 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
645783 ATATTATTAGAT-TATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
645806 TATTAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:645809 original size:34 final size:34
Alignment explanation
Indices: 645728--645809 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 34
645718 AAAGTAATAG
645728 TATTATATT-ATATTTTAAAAATATTAATTAGTA
1 TATTATATTAATATTTTAAAAATATTAATTAGTA
*
645761 TATT-T-TAAATATATTTATTAAAATATT-ATTAG-A
1 TATTATATTAATAT-TTTA--AAAATATTAATTAGTA
645794 TTATTATATTAATATT
1 -TATTATATTAATATT
645810 AAATAATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
31 1 0.03
32 5 0.12
33 9 0.22
34 9 0.22
35 10 0.25
36 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (34 bp):
TATTATATTAATATTTTAAAAATATTAATTAGTA
Found at i:645898 original size:23 final size:23
Alignment explanation
Indices: 645868--645918 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
645858 TTAAAATAAA
645868 AATATAA-TAACTTATATTATTAT
1 AATATAATTAA-TTATATTATTAT
* *
645891 AATATAATTGATTATTTTATTAT
1 AATATAATTAATTATATTATTAT
645914 AATAT
1 AATAT
645919 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AATATAATTAATTATATTATTAT
Found at i:645958 original size:30 final size:29
Alignment explanation
Indices: 645901--645962 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
645891 AATATAATTG
* *
645901 ATTATTTTATTATAATATTAAAAAAATAAT
1 ATTATATTATTAAAATATTAAAAAAAT-AT
*
645931 ATTATATTATTAGAAATATT-AATAAATAT
1 ATTATATTATTA-AAATATTAAAAAAATAT
645960 ATT
1 ATT
645963 TTAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 17 0.61
31 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
ATTATATTATTAAAATATTAAAAAAATAT
Found at i:646233 original size:42 final size:43
Alignment explanation
Indices: 646187--646277 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
646177 TCCTCCAACT
*
646187 AAACACTGAAAAACAT-TTTTCGAAAAAA-GAATTACTTAAAAC
1 AAACACTGAAAAA-ATATTTTCGAAAAAACGAATTACGTAAAAC
* * *
646229 AAACAC-GAAAAAATATTTTCTAAAAAACGAATTACGTGAAAT
1 AAACACTGAAAAAATATTTTCGAAAAAACGAATTACGTAAAAC
646271 AAACACT
1 AAACACT
646278 AAATTTCGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.05
41 17 0.40
42 23 0.55
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.23
Consensus pattern (43 bp):
AAACACTGAAAAAATATTTTCGAAAAAACGAATTACGTAAAAC
Found at i:650090 original size:24 final size:24
Alignment explanation
Indices: 650063--650113 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
650053 ATTTAATACG
650063 TTTAATACCTAAACTATCAATTGT
1 TTTAATACCTAAACTATCAATTGT
* *
650087 TTTAGTACCTAAACTCTCAATTGT
1 TTTAATACCTAAACTATCAATTGT
650111 TTT
1 TTT
650114 CAAAACTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (24 bp):
TTTAATACCTAAACTATCAATTGT
Found at i:652557 original size:27 final size:27
Alignment explanation
Indices: 652496--652551 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
652486 TTAAGCTTAT
**
652496 AAAATAAAATAACATTTTTTTATAGAA
1 AAAATAAAATAACATTTACTTATAGAA
*
652523 AAAATAAAATAACATTTGACTTATGGAA
1 AAAATAAAATAACATTT-ACTTATAGAA
652551 A
1 A
652552 TATAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATAAAATAACATTTACTTATAGAA
Found at i:659529 original size:52 final size:51
Alignment explanation
Indices: 659464--659563 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 51
659454 TTTTTTTTTG
*
659464 GCCCGGGGCGAAATAAAAGAAAT-GAGCCCCTATTTATGTTCTTTATTTATTT
1 GCCCGGGACGAAATAAAAGAAATGGA-CCCCTATTTAT-TTCTTTATTTATTT
*
659516 GCCCGGGATGAAATAAAAGAAATGGACCCCTATTTATTTCTTTATTTA
1 GCCCGGGACGAAATAAAAGAAATGGACCCCTATTTATTTCTTTATTTA
659564 GCGACAAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
51 11 0.24
52 32 0.71
53 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
GCCCGGGACGAAATAAAAGAAATGGACCCCTATTTATTTCTTTATTTATTT
Found at i:659717 original size:6 final size:6
Alignment explanation
Indices: 659706--659754 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
659696 TATGTGTATG
* * ***
659706 CGCATA CACATA CGCATA CGCATA TGCATA TATATA CGCATA CGCATA
1 CGCATA CGCATA CGCATA CGCATA CGCATA CGCATA CGCATA CGCATA
659754 C
1 C
659755 TATTGTATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (6 bp):
CGCATA
Found at i:659767 original size:6 final size:6
Alignment explanation
Indices: 659758--659798 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
659748 CGCATACTAT
659758 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTAT
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTAT
659799 GTTACGGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TGTATA
Found at i:662917 original size:30 final size:30
Alignment explanation
Indices: 662881--662948 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
662871 TGGGATGATT
662881 TTGAAGCTAAATGAGTTAGAGTATTTATAG
1 TTGAAGCTAAATGAGTTAGAGTATTTATAG
662911 TTGAAGCTAAATGAGTTAGAGTATTTATAG
1 TTGAAGCTAAATGAGTTAGAGTATTTATAG
662941 TTGAAGCT
1 TTGAAGCT
662949 TAAGGACTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (30 bp):
TTGAAGCTAAATGAGTTAGAGTATTTATAG
Found at i:668231 original size:58 final size:58
Alignment explanation
Indices: 668039--668491 Score: 672
Period size: 58 Copynumber: 7.8 Consensus size: 58
668029 TTTCCCATAT
* * * * *
668039 GGAAATTCATACATTTAGTATGAATCTCTTAACGATTTGCACACAAAAGTGCCCAATAA
1 GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACAC-GAAGTGCCCAATAC
* * * *
668098 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTACATACGAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACA-ATTTGCACACGAAGTGCCCAATAC
*
668157 GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCTCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCCCAATAC
* *
668215 GAAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCCTAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCCCAATAC
* *
668273 GAAAATTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCCCAATAC
* * * *
668331 GGAAATTCATACACTCAATATGAATTTCTTAACATTTTGCACACGAAGTGCCTAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCCCAATAC
* * *
668389 GTAAATTCATACATTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCTCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCCCAATAC
* *
668447 GGAAATTCATACACTTAATATGAATTTCTTAACATTTTTGCACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACA-ATTTGCACAC
668492 TTAGTGTCAT
Statistics
Matches: 359, Mismatches: 33, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
58 266 0.74
59 86 0.24
60 7 0.02
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (58 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTGCACACGAAGTGCCCAATAC
Found at i:672652 original size:11 final size:10
Alignment explanation
Indices: 672630--672670 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
672620 ATTTGATTAA
*
672630 TTTAATTATT
1 TTTAAATATT
672640 TTTATAATATT
1 TTTA-AATATT
672651 TTTAAA-A-T
1 TTTAAATATT
672659 TTTAAATATT
1 TTTAAATATT
672669 TT
1 TT
672671 AGATAGCGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 7 0.26
9 2 0.07
10 9 0.33
11 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTAAATATT
Found at i:673151 original size:38 final size:38
Alignment explanation
Indices: 673109--673182 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
673099 CGGTCCCCCC
*
673109 GCGTTATGACATTACACTACTAGACCTAGATTTCGACA
1 GCGTTACGACATTACACTACTAGACCTAGATTTCGACA
673147 GCGTTACGACATTACACTACTAGACCTAGATTTCGA
1 GCGTTACGACATTACACTACTAGACCTAGATTTCGA
673183 TCATTCGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (38 bp):
GCGTTACGACATTACACTACTAGACCTAGATTTCGACA
Found at i:674034 original size:23 final size:23
Alignment explanation
Indices: 673984--674035 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
673974 TTCCTCCAAT
**
673984 TTTTTTAAATTTGAAAATTATAA
1 TTTTTTAAATTTGAAAAAAATAA
*
674007 TTTTTTATAATTTTAAAAAAATAA
1 TTTTTTA-AATTTGAAAAAAATAA
674031 TTTTT
1 TTTTT
674036 AATAGACTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTTTAAATTTGAAAAAAATAA
Found at i:674512 original size:13 final size:13
Alignment explanation
Indices: 674494--674531 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
674484 TATTATGTAA
674494 ATAAATTTTATAT
1 ATAAATTTTATAT
*
674507 ATAAATTATATAT
1 ATAAATTTTATAT
674520 ATAAATTTTATA
1 ATAAATTTTATA
674532 AATCTAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAAATTTTATAT
Found at i:674534 original size:22 final size:25
Alignment explanation
Indices: 674506--674553 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
674496 AAATTTTATA
674506 TATAAAT-TA-TATA-TATAAATTT
1 TATAAATCTAGTATACTATAAATTT
*
674528 TATAAATCTAGTATACTATTAATTT
1 TATAAATCTAGTATACTATAAATTT
674553 T
1 T
674554 TTTATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 2 0.09
24 4 0.18
25 9 0.41
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
TATAAATCTAGTATACTATAAATTT
Found at i:674966 original size:2 final size:2
Alignment explanation
Indices: 674959--674992 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
674949 AAACTATGTA
674959 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
674993 GAAATATTCT
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:676652 original size:12 final size:12
Alignment explanation
Indices: 676607--676663 Score: 62
Period size: 12 Copynumber: 4.6 Consensus size: 12
676597 CGAGTGACGT
676607 TTATTATATATA
1 TTATTATATATA
676619 CGTTATTATATATA
1 --TTATTATATATA
676633 -TATATATATATA
1 TTAT-TATATATA
* *
676645 TAATTATAAATA
1 TTATTATATATA
676657 TTATTAT
1 TTATTAT
676664 TTACAAAGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 3 0.08
12 21 0.55
13 2 0.05
14 12 0.32
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (12 bp):
TTATTATATATA
Done.