Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006871.1 Hibiscus syriacus cultivar Beakdansim tig00017501_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: 103509
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3240 original size:16 final size:16
Alignment explanation
Indices: 3219--3280 Score: 106
Period size: 16 Copynumber: 3.8 Consensus size: 16
3209 GTTGTGTAGC
3219 TGATGTGTAGAGCTGT
1 TGATGTGTAGAGCTGT
3235 TGATGTGTAGAGCTGT
1 TGATGTGTAGAGCTGT
*
3251 TGATGTGTAGAGCTGC
1 TGATGTGTAGAGCTGT
3267 TGATGTGTATGAGC
1 TGATGTGTA-GAGC
3281 AGTTAATACT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
16 40 0.91
17 4 0.09
ACGTcount: A:0.19, C:0.08, G:0.37, T:0.35
Consensus pattern (16 bp):
TGATGTGTAGAGCTGT
Found at i:10867 original size:21 final size:21
Alignment explanation
Indices: 10842--10883 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10832 AAATTAATAA
*
10842 TTAATTTTTATATAAATAAAT
1 TTAATTATTATATAAATAAAT
*
10863 TTAATTATTATATTAATAAAT
1 TTAATTATTATATAAATAAAT
10884 ATCATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATTATTATATAAATAAAT
Found at i:10908 original size:16 final size:15
Alignment explanation
Indices: 10887--10928 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
10877 AATAAATATC
10887 ATAAAATAATTTTTAA
1 ATAAAAT-ATTTTTAA
10903 ATAAAAT-TTTTTAA
1 ATAAAATATTTTTAA
*
10917 AAAAAATTATTT
1 ATAAAA-TATTT
10929 AGGTGACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAAATATTTTTAA
Found at i:14203 original size:117 final size:117
Alignment explanation
Indices: 13997--14330 Score: 490
Period size: 117 Copynumber: 2.9 Consensus size: 117
13987 CATAAAGGCA
* * * *
13997 CGTTCCTAGGGGCGCGCCTTCGATTATTTTGTCAGATAATATGTTATCATTGCTCTATTATGTCA
1 CGTTCCTGGGGGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
* * *
14062 CTCATATCCCTCGGGGGTACTATTCATGTCAATACCCAAAGTGGTAAAAGCG
66 CTCATGTCCCTCGGGGGAACTATTCATGTCAATACCCAAAGTGGTAAAAGAG
* * * *
14114 CGTTCCTGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTTTCGTTACCCTATTATGTCA
1 CGTTCCTGGGGGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
* * *
14179 CTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGAG
66 CTCATGTCCCTCGGGGGAACTATTCATGTCAATACCCAAAGTGGTAAAAGAG
* * *
14231 CATTCCCGGAGGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
1 CGTTCCTGGGGGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
* *
14296 CTCATGTCCC-CCGGAGAACTATTCATGTCAATACC
66 CTCATGTCCCTCGGGGGAACTATTCATGTCAATACC
14331 TATTATTTCT
Statistics
Matches: 193, Mismatches: 24, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
116 21 0.11
117 172 0.89
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (117 bp):
CGTTCCTGGGGGGGCGCCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
CTCATGTCCCTCGGGGGAACTATTCATGTCAATACCCAAAGTGGTAAAAGAG
Found at i:14428 original size:138 final size:138
Alignment explanation
Indices: 14215--14974 Score: 1252
Period size: 138 Copynumber: 5.5 Consensus size: 138
14205 TGTCAGTACC
* * * *
14215 CAAAGTGGTGAAAGAGCATTCCCGGAGGG-GCGCCTTCGATTATTTTGTCAGAGAATATGTTATC
1 CAAAGTGGTGAAAGCGCGTTCCTGG-GGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATC
*
14279 ATTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAATACCTATTATTTCTGAT
65 ATTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTGAT
14344 GGGACTTGG
130 GGGACTTGG
14353 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* * * * * *
14418 TTGCCCTATTATGCCACTCACGTCCCTCGGAGAACTATTTATGTTAATACCTATTATTTCTGATG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTGATG
14483 GGACTTGG
131 GGACTTGG
* *
14491 CAAAGTGGTGAAAGAGCGTTCCTGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* *
14556 TTGCCCTATTATGTCACTCATGTCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTTATG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTGATG
14621 GGACTTGG
131 GGACTTGG
*
14629 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
14694 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTGATG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTGATG
14759 GGACTTGG
131 GGACTTGG
* * *
14767 CAAAGTGGTGAAAGGGCGTTCCTGGGGGCGCGTCTTCTATTATTTTGTCAGAGAATATGTTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
* * *
14832 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTAATATCAGTACCTATTATTTCTGAGG
66 TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTGATG
* *
14897 GGGCTTAG
131 GGACTTGG
* ** *
14905 CAAAGTGGTGAAAGCGCGTTCCCGGGGGTACGCCTTCCATTATTTTGTCAGAGAATATATTATCA
1 CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
14970 TTGCC
66 TTGCC
14975 TCACTCATGT
Statistics
Matches: 581, Mismatches: 40, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
137 3 0.01
138 578 0.99
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (138 bp):
CAAAGTGGTGAAAGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCCCGGAGAACTATTCATGTCAGTACCTATTATTTCTGATG
GGACTTGG
Found at i:15109 original size:63 final size:63
Alignment explanation
Indices: 15026--15152 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
15016 GTTATGTGAA
* *
15026 GTTTGAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATCAGTTGGTT
1 GTTTAAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
* *
15089 GTTTAAATATATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
1 GTTTAAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
15152 G
1 G
15153 AGACATTGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.37
Consensus pattern (63 bp):
GTTTAAATAAATTGGATAAAATGTTATGAATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
Found at i:15238 original size:14 final size:14
Alignment explanation
Indices: 15219--15249 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
15209 TGATAAGTTG
15219 GTTTTAATGTATAT
1 GTTTTAATGTATAT
15233 GTTTTAATGTATAT
1 GTTTTAATGTATAT
15247 GTT
1 GTT
15250 AAGGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:15396 original size:34 final size:34
Alignment explanation
Indices: 15357--15429 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
15347 TTAAGTTGAA
15357 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
* * *
15391 TTTAATTTTAAATTTTGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
*
15425 ATTAA
1 TTTAA
15430 AAACATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (34 bp):
TTTAATGTTAAATTTCGAATACCATAATTTGTAT
Found at i:15960 original size:21 final size:21
Alignment explanation
Indices: 15936--15987 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
15926 GGTCTCATAA
15936 AACCCTGCGGGCTAGGAATAT
1 AACCCTGCGGGCTAGGAATAT
** *
15957 AACCCTGAAGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATAT
15978 AACCCTGCGG
1 AACCCTGCGG
15988 AGATGACATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.17
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATAT
Found at i:17838 original size:30 final size:30
Alignment explanation
Indices: 17757--17852 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 30
17747 TAATTAGCAC
* *
17757 AAAAAATAATTAATTA-ATAA--ATTTAAAT
1 AAAAAATAA-TATTTATATAATTATTTTAAT
* * *
17785 AAATAATAAT-TATATAAATATTATTTTAAT
1 AAAAAATAATATTTATATA-ATTATTTTAAT
* *
17815 AAAAAATAATATTTATATAATTATATTACT
1 AAAAAATAATATTTATATAATTATTTTAAT
*
17845 ATAAAATA
1 AAAAAATA
17853 TAAAAAATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 9 0.17
30 32 0.62
31 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAAAATAATATTTATATAATTATTTTAAT
Found at i:20409 original size:41 final size:41
Alignment explanation
Indices: 20364--20495 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
20354 CTGGTTCTAC
20364 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
1 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
* * *** **
20405 CCATGCAGT--G-G-AATAGAGAGGTCGTTCTCCCCATGCGAGGTCC
1 CCATGCA-TACGAGCCATA-CGA-GT-G--CGAGCCATGCGAGGTGG
20448 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
1 CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
20489 CCATGCA
1 CCATGCA
20496 GTGGAATAGA
Statistics
Matches: 67, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
38 3 0.04
39 3 0.04
40 3 0.04
41 27 0.40
42 2 0.03
43 20 0.30
44 3 0.04
45 3 0.04
46 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.32, T:0.17
Consensus pattern (41 bp):
CCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGG
Found at i:20510 original size:55 final size:55
Alignment explanation
Indices: 20450--20560 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
20440 CGAGGTCCCC
20450 ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAG
1 ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAG
20505 ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAG
1 ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAG
20560 A
1 A
20561 GAGGTCGTTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.28, C:0.22, G:0.34, T:0.16
Consensus pattern (55 bp):
ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAG
Found at i:20616 original size:15 final size:15
Alignment explanation
Indices: 20596--20664 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
20586 CCCATGCATA
*
20596 CGAGCCATACGAGTG
1 CGAGCCATGCGAGTG
20611 CGAGCCATGCGAG-G
1 CGAGCCATGCGAGTG
* *
20625 TC--CCCATGC-A-TA
1 -CGAGCCATGCGAGTG
*
20637 CGAGCCATACGAGTG
1 CGAGCCATGCGAGTG
20652 CGAGCCATGCGAG
1 CGAGCCATGCGAG
20665 GTGGCCATGC
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 11 0.27
14 2 0.05
15 26 0.63
ACGTcount: A:0.25, C:0.30, G:0.32, T:0.13
Consensus pattern (15 bp):
CGAGCCATGCGAGTG
Found at i:20627 original size:41 final size:41
Alignment explanation
Indices: 20574--20675 Score: 186
Period size: 41 Copynumber: 2.5 Consensus size: 41
20564 GTCGTTCTCC
20574 CCATGCGAGGTCCCCATGCATACGAGCCATACGAGTGCGAG
1 CCATGCGAGGTCCCCATGCATACGAGCCATACGAGTGCGAG
20615 CCATGCGAGGTCCCCATGCATACGAGCCATACGAGTGCGAG
1 CCATGCGAGGTCCCCATGCATACGAGCCATACGAGTGCGAG
**
20656 CCATGCGAGGTGGCCATGCA
1 CCATGCGAGGTCCCCATGCA
20676 GTGGAATAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.24, C:0.31, G:0.30, T:0.15
Consensus pattern (41 bp):
CCATGCGAGGTCCCCATGCATACGAGCCATACGAGTGCGAG
Found at i:20723 original size:29 final size:29
Alignment explanation
Indices: 20689--20798 Score: 220
Period size: 29 Copynumber: 3.8 Consensus size: 29
20679 GAATAGGGTG
20689 TAGGTCGCCATGTAGTCCCGGCGACCTTA
1 TAGGTCGCCATGTAGTCCCGGCGACCTTA
20718 TAGGTCGCCATGTAGTCCCGGCGACCTTA
1 TAGGTCGCCATGTAGTCCCGGCGACCTTA
20747 TAGGTCGCCATGTAGTCCCGGCGACCTTA
1 TAGGTCGCCATGTAGTCCCGGCGACCTTA
20776 TAGGTCGCCATGTAGTCCCGGCG
1 TAGGTCGCCATGTAGTCCCGGCG
20799 CCATTCCCAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 81 1.00
ACGTcount: A:0.16, C:0.31, G:0.29, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGTAGTCCCGGCGACCTTA
Found at i:20869 original size:27 final size:23
Alignment explanation
Indices: 20804--20863 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
20794 CGGCGCCATT
20804 CCCATCATCCATTCACATGCAGC
1 CCCATCATCCATTCACATGCAGC
20827 CCCATCATCCATTCACATGCAGC
1 CCCATCATCCATTCACATGCAGC
20850 CCCATCATCCATTC
1 CCCATCATCCATTC
20864 CTTCACGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.25, C:0.45, G:0.07, T:0.23
Consensus pattern (23 bp):
CCCATCATCCATTCACATGCAGC
Found at i:21002 original size:25 final size:25
Alignment explanation
Indices: 20974--21025 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
20964 TGTACAATTA
*
20974 TTGGTGAAATAATTAAGGCAGTCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
*
20999 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
21024 TT
1 TT
21026 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (25 bp):
TTGGTGAAATAATTAAGGCAGCCGG
Found at i:21115 original size:25 final size:25
Alignment explanation
Indices: 21087--21140 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
21077 ATTGCCATCG
21087 AGAAAGAAA-GGAGAGAAGGAAAGAA
1 AGAAAGAAAGGGAGA-AAGGAAAGAA
*
21112 AGAAAGAAAGGGAGAAAGGAAAGTA
1 AGAAAGAAAGGGAGAAAGGAAAGAA
21137 AGAA
1 AGAA
21141 GAATTCGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (25 bp):
AGAAAGAAAGGGAGAAAGGAAAGAA
Found at i:21408 original size:45 final size:47
Alignment explanation
Indices: 21346--21436 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 47
21336 TTATATAGTT
21346 AAAAAATAATTAATTAGTTTGTATT-GTT-AATAGTT-AGTTATATA
1 AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATA
* *
21390 AAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATAT
21437 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 6 0.15
45 17 0.41
46 3 0.07
47 7 0.17
48 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (47 bp):
AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATA
Found at i:23820 original size:17 final size:17
Alignment explanation
Indices: 23798--23830 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23788 CAATGATTTT
*
23798 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
23815 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
23831 GATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:23899 original size:17 final size:17
Alignment explanation
Indices: 23879--23917 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
23869 AATAATTAAA
23879 TATTAACAATAAATCCT
1 TATTAACAATAAATCCT
23896 TATTAACAATAAATCCT
1 TATTAACAATAAATCCT
23913 TATTA
1 TATTA
23918 TAATGATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (17 bp):
TATTAACAATAAATCCT
Found at i:23926 original size:26 final size:27
Alignment explanation
Indices: 23897--23969 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 27
23887 ATAAATCCTT
* *
23897 ATTAACAAT-AAATCCTTATTATAATG
1 ATTAACAATCAAATCATTACTATAATG
**
23923 ATT-ATTATCAAATCATTACTATAATG
1 ATTAACAATCAAATCATTACTATAATG
**
23949 ATT-ATTATCAAATCATTACTA
1 ATTAACAATCAAATCATTACTA
23970 AATCATCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 3 0.07
26 39 0.93
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (27 bp):
ATTAACAATCAAATCATTACTATAATG
Found at i:23929 original size:12 final size:12
Alignment explanation
Indices: 23912--23956 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
23902 CAATAAATCC
23912 TTATTATAATGA
1 TTATTATAATGA
*
23924 TTATTATCAAATCA
1 TTATTAT--AATGA
*
23938 TTACTATAATGA
1 TTATTATAATGA
23950 TTATTAT
1 TTATTAT
23957 CAAATCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 17 0.63
14 10 0.37
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (12 bp):
TTATTATAATGA
Found at i:23972 original size:11 final size:9
Alignment explanation
Indices: 23958--24058 Score: 61
Period size: 8 Copynumber: 11.0 Consensus size: 9
23948 GATTATTATC
23958 AAATCATTACT
1 AAATCATT--T
*
23969 AAATCA-TC
1 AAATCATTT
23977 AAATCA-TT
1 AAATCATTT
23985 AAAT-ATTT
1 AAATCATTT
23993 AAATCATTAT
1 AAATCATT-T
24003 CAAATCATTACT
1 -AAATCATT--T
*
24015 AAATCA-TC
1 AAATCATTT
24023 AAATCA-TT
1 AAATCATTT
24031 AAAT-ATTT
1 AAATCATTT
*
24039 AATTCATTATT
1 AAATCA-T-TT
24050 AAATCATTT
1 AAATCATTT
24059 TTATAATGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
7 2 0.03
8 33 0.45
9 6 0.08
10 5 0.07
11 27 0.36
12 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (9 bp):
AAATCATTT
Found at i:23979 original size:19 final size:19
Alignment explanation
Indices: 23955--24031 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
23945 AATGATTATT
23955 ATCAAATCATTACTAAATC
1 ATCAAATCATTACTAAATC
*
23974 ATCAAATCATTAAATATTTAAATC
1 ATCAAATCA-T---TA-CTAAATC
23998 ATTATCAAATCATTACTAAATC
1 ---ATCAAATCATTACTAAATC
24020 ATCAAATCATTA
1 ATCAAATCATTA
24032 AATATTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
19 21 0.44
20 1 0.02
22 6 0.12
23 4 0.08
24 6 0.12
26 1 0.02
27 9 0.19
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATCATTACTAAATC
Found at i:24009 original size:46 final size:46
Alignment explanation
Indices: 23952--24544 Score: 418
Period size: 46 Copynumber: 12.3 Consensus size: 46
23942 TATAATGATT
23952 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
1 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
*
23998 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAATTC
1 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
* ** * * * * * * *
24044 ATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATT
1 ATTATCAAATCATTACTA-AATCATCA--AATCATTAAATATT-TAA--ATC
* * * * * * * *
24096 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTACTA-AATCATCA-AATC-ATTAAATA-TTTAA--ATC
****
24148 ATTATCAAATCATTACTAAAT-ATTTGTTCATTAAATATTTAAATC
1 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
* * * * * * * * *
24193 ATTAT-AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTACTA-AATCATCA-AATC-ATTAAATA-TTTAA--ATC
24244 ATTATCAAATCATTACTAAATCATCAAATCATT-AATATTTAAATC
1 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
*
24289 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAATTC
1 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
* ** * * * * * * *
24335 ATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATT
1 ATTATCAAATCATTACTA-AATCATCA--AATCATTAAATATT-TAA--ATC
* * * * * * * *
24387 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTACTA-AATCATCA-AATC-ATTAAATA-TTTAA--ATC
24439 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
1 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
*
24485 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAATTC
1 ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
*
24531 ATTATTAAATCATT
1 ATTATCAAATCATT
24545 TTTATAATGA
Statistics
Matches: 451, Mismatches: 71, Indels: 50
0.79 0.12 0.09
Matches are distributed among these distances:
44 11 0.02
45 45 0.10
46 149 0.33
47 22 0.05
48 17 0.04
49 33 0.07
50 15 0.03
51 28 0.06
52 129 0.29
53 2 0.00
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (46 bp):
ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATC
Found at i:24078 original size:26 final size:26
Alignment explanation
Indices: 24044--24622 Score: 424
Period size: 26 Copynumber: 23.6 Consensus size: 26
24034 TATTTAATTC
* *
24044 ATTATTAAATCATTTTTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
24070 ATTAAT-AAATCATTATTATAATGATT
1 ATT-ATCAAATCATTATTATAATGATT
*
24096 ATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
*
24122 ATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
*
24148 ATTATCAAATCATTACTA-AAT-ATT
1 ATTATCAAATCATTATTATAATGATT
* * * *
24172 -TGT-TC-ATTAAATATT-TAA--ATC
1 AT-TATCAAATCATTATTATAATGATT
24193 ATTAT-AAATCATTATTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
*
24218 ATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
* * *
24244 ATTATCAAATCATTACTA-AATCATC
1 ATTATCAAATCATTATTATAATGATT
* * * *
24269 A-AATC--ATTAATATT-TAA--ATC
1 ATTATCAAATCATTATTATAATGATT
* * *
24289 ATTATCAAATCATTACTA-AATCATC
1 ATTATCAAATCATTATTATAATGATT
* * * * *
24314 A-AATC-ATTAAATATT-TAAT--TC
1 ATTATCAAATCATTATTATAATGATT
* *
24335 ATTATTAAATCATTTTTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
24361 ATTAAT-AAATCATTATTATAATGATT
1 ATT-ATCAAATCATTATTATAATGATT
*
24387 ATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
*
24413 ATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
* * *
24439 ATTATCAAATCATTACTA-AATCATC
1 ATTATCAAATCATTATTATAATGATT
* * * * *
24464 A-AATC-ATTAAATATT-TAA--ATC
1 ATTATCAAATCATTATTATAATGATT
* * *
24485 ATTATCAAATCATTACTA-AATCATC
1 ATTATCAAATCATTATTATAATGATT
* * * * *
24510 A-AATC-ATTAAATATT-TAAT--TC
1 ATTATCAAATCATTATTATAATGATT
* *
24531 ATTATTAAATCATTTTTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
24557 ATTAAT-AAATCATTATTATAATGATT
1 ATT-ATCAAATCATTATTATAATGATT
*
24583 ATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTATTATAATGATT
24609 ATTATC-AATCATTA
1 ATTATCAAATCATTA
24623 CTAATATTTG
Statistics
Matches: 451, Mismatches: 62, Indels: 81
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.01
21 16 0.04
22 32 0.07
23 60 0.13
24 24 0.05
25 44 0.10
26 265 0.59
27 6 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATCAAATCATTATTATAATGATT
Found at i:24271 original size:19 final size:19
Alignment explanation
Indices: 24247--24322 Score: 80
Period size: 19 Copynumber: 3.6 Consensus size: 19
24237 AATGATTATT
24247 ATCAAATCATTACTAAATC
1 ATCAAATCATTACTAAATC
*
24266 ATCAAATCATTAATATTTAAATC
1 ATCAAATCA-T--TA-CTAAATC
24289 ATTATCAAATCATTACTAAATC
1 ---ATCAAATCATTACTAAATC
24311 ATCAAATCATTA
1 ATCAAATCATTA
24323 AATATTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
19 21 0.44
20 1 0.02
22 8 0.17
23 8 0.17
25 1 0.02
26 9 0.19
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (19 bp):
ATCAAATCATTACTAAATC
Found at i:24358 original size:291 final size:293
Alignment explanation
Indices: 23904--24499 Score: 1124
Period size: 291 Copynumber: 2.0 Consensus size: 293
23894 CTTATTAACA
*
23904 ATAAATCCTTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACT
1 ATAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACT
23969 AAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCATTAAA
66 AAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCATTAAA
24034 TATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATTATT
131 TATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATTATT
24099 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTAC
196 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTAC
****
24164 TAAAT-ATTTGTTCATTAAATATTTAAATCATT
261 TAAATCATCAAATCATTAAATATTTAAATCATT
24196 ATAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACT
1 ATAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACT
24261 AAATCATCAAATCATT-AATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCATTAAA
66 AAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCATTAAA
24325 TATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATTATT
131 TATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATTATT
24390 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTAC
196 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTAC
24455 TAAATCATCAAATCATTAAATATTTAAATCATT
261 TAAATCATCAAATCATTAAATATTTAAATCATT
24488 ATCAAATCATTA
1 AT-AAATCATTA
24500 CTAAATCATC
Statistics
Matches: 297, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
291 183 0.62
292 105 0.35
293 9 0.03
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (293 bp):
ATAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACT
AAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCATTAAA
TATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATTATT
ATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTAC
TAAATCATCAAATCATTAAATATTTAAATCATT
Found at i:24466 original size:19 final size:19
Alignment explanation
Indices: 24442--24518 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
24432 AATGATTATT
24442 ATCAAATCATTACTAAATC
1 ATCAAATCATTACTAAATC
*
24461 ATCAAATCATTAAATATTTAAATC
1 ATCAAATCA-T---TA-CTAAATC
24485 ATTATCAAATCATTACTAAATC
1 ---ATCAAATCATTACTAAATC
24507 ATCAAATCATTA
1 ATCAAATCATTA
24519 AATATTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
19 21 0.44
20 1 0.02
22 6 0.12
23 4 0.08
24 6 0.12
26 1 0.02
27 9 0.19
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATCATTACTAAATC
Found at i:24552 original size:196 final size:196
Alignment explanation
Indices: 24193--24776 Score: 850
Period size: 196 Copynumber: 2.9 Consensus size: 196
24183 TATTTAAATC
*
24193 ATTAT-AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
24257 TACTAAATCATCAAATCATT-AATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCAT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCAT
24321 TAAATATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGAT
131 TAAATATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGAT
24386 T
196 T
24387 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
24452 TACTAAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCAT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCAT
24517 TAAATATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGAT
131 TAAATATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGAT
24582 T
196 T
* * *
24583 ATTATCAAATCATTACTATAATGATTATTATC-AATCATTACTAATATTTGTTCATTAAATAGTT
1 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACT-ATA-ATG---ATT-ATTA-TC
* * * *
24647 AAATCATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAA
59 AAATCATTACTAAATC---A-T-CAA--ATCA-T-T-AAAT-A-T--T-TAA--ATCATTATCAA
*
24712 ATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTA
107 ATCATTACTAAATCATCAAATCATTAAATATTTAATTCATTATTAAATCATTTTTATAATGATTA
24777 ATAAATACAT
Statistics
Matches: 355, Mismatches: 9, Indels: 27
0.91 0.02 0.07
Matches are distributed among these distances:
194 5 0.01
195 88 0.25
196 145 0.41
197 2 0.01
200 3 0.01
201 3 0.01
202 16 0.05
205 1 0.00
206 1 0.00
207 2 0.01
209 3 0.01
210 1 0.00
211 1 0.00
212 4 0.01
213 1 0.00
214 1 0.00
216 1 0.00
217 3 0.01
219 74 0.21
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (196 bp):
ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCAT
TAAATATTTAATTCATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGAT
T
Found at i:24668 original size:95 final size:98
Alignment explanation
Indices: 24585--24776 Score: 309
Period size: 98 Copynumber: 2.0 Consensus size: 98
24575 TAATGATTAT
****
24585 TATCAAATCATTACTATAATGATTATTATC-AATCATTACT-AAT-ATTTGTTCATTAAATAGTT
1 TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAGTT
24647 AAATCATTATTAAATCATTATTATAATGATTAT
66 AAATCATTATTAAATCATTATTATAATGATTAT
*
24680 TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
1 TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAGTT
*
24745 AAATCATTATTAAATCATTTTTATAATGATTA
66 AAATCATTATTAAATCATTATTATAATGATTA
24777 ATAAATACAT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
95 30 0.34
96 10 0.11
97 3 0.03
98 45 0.51
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (98 bp):
TATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAGTT
AAATCATTATTAAATCATTATTATAATGATTAT
Found at i:24687 original size:26 final size:26
Alignment explanation
Indices: 24652--24721 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
24642 TAGTTAAATC
* *
24652 ATTATTAAATCATTATTATAATGATT
1 ATTATCAAATCATTACTATAATGATT
24678 ATTATCAAATCATTACTATAATGATT
1 ATTATCAAATCATTACTATAATGATT
24704 ATTATCAAATCATTACTA
1 ATTATCAAATCATTACTA
24722 AATCATCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (26 bp):
ATTATCAAATCATTACTATAATGATT
Found at i:24707 original size:170 final size:171
Alignment explanation
Indices: 24044--24707 Score: 565
Period size: 170 Copynumber: 3.9 Consensus size: 171
24034 TATTTAATTC
* ** *
24044 ATTATTAAATCATTTTTATAATGATTATTAAT-AAATCATTATTATAATGATTATTATCAAATCA
1 ATTATCAAATCATTACTATAATGATTATT-ATCAAATCATTACTATAATGATTATTATCAAATCA
* * * * * * * * *
24108 TTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAAT-ATT
65 TTACTA-AATCATCA-AATC-ATTAAATAGT-TAA--ATCATTATCAAATCATTACTAAATCATA
** *
24172 TGTTCATTAAAT-ATTTA-AATCATTA-TAAATCATTATTATAATGATT
124 AATT-ATTAAATCATTTATAATGATTATTAAATCATTATTATAATGATT
* * *
24218 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTA-AATCATCA-AATCATTAAT-
1 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCA--AATC
*
24280 ATT--TAAATCATTATCAAATCATTACTAAATCA-TCAAATCA-T-T-AAAT-ATT--T-AAT--
64 ATTACTAAATC---ATCAAATCA-T--TAAAT-AGTTAAATCATTATCAAATCATTACTAAATCA
*
24333 T-CATTATTAAATCATTTTTATAATGATTATTAATAAATCATTATTATAATGATT
122 TAAATTATTAAATCA--TTTATAATGATTA-T--TAAATCATTATTATAATGATT
24387 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
* *
24452 TACTAAATCATCAAATCATTAAATATTTAAATCATTATCAAATCATTACTAAATCATCAAATCAT
66 TACTAAATCATCAAATCATTAAATAGTTAAATCATTATCAAATCATTACTAAATCAT-AAATTAT
* * *
24517 TAAAT-ATTTA-ATTCATTATTAAATCATTTTTATAATGATT
130 TAAATCATTTATAATGATTATTAAATCATTATTATAATGATT
*
24557 ATTAAT-AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATC-AATCA
1 ATT-ATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCA
**** * * * *
24620 TTACT-AAT-ATTTGTTCATTAAATAGTTAAATCATTATTAAATCATTATTATAATGAT-TATTA
65 TTACTAAATCATCAAATCATTAAATAGTTAAATCATTATCAAATCATTACTA-AATCATAAATTA
*
24682 TCAAATCATTACTATAATGATTATTA
129 TTAAATCATT--TATAATGATTATTA
24708 TCAAATCATT
Statistics
Matches: 408, Mismatches: 41, Indels: 86
0.76 0.08 0.16
Matches are distributed among these distances:
161 7 0.02
162 3 0.01
163 1 0.00
164 7 0.02
165 9 0.02
166 20 0.05
167 42 0.10
168 14 0.03
169 94 0.23
170 99 0.24
171 12 0.03
172 15 0.04
173 25 0.06
174 48 0.12
175 2 0.00
176 1 0.00
177 9 0.02
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (171 bp):
ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATAGTTAAATCATTATCAAATCATTACTAAATCATAAATTATT
AAATCATTTATAATGATTATTAAATCATTATTATAATGATT
Found at i:27659 original size:26 final size:24
Alignment explanation
Indices: 27601--27659 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
27591 CTAATAAACC
*
27601 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
27625 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
27653 TAATAAT
1 TAATAAT
27660 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:28499 original size:28 final size:30
Alignment explanation
Indices: 28459--28521 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
28449 ATTTTTTATA
*
28459 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
*
28489 TAATAT-A-ATATAACTTAAACTTACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
28517 TAATA
1 TAATA
28522 ATTTATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 24 0.77
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:28528 original size:28 final size:28
Alignment explanation
Indices: 28463--28528 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
28453 TTTATATAAT
*
28463 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
*
28491 AT-ATAATATAACTTAAACTTACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
28519 ATAATTTATA
1 ATAATATATA
28529 CTAACAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:28891 original size:32 final size:32
Alignment explanation
Indices: 28855--28918 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
28845 GGAATCTCTG
28855 AGCTATGAGCTATGATGCAACGCATGCATGCA
1 AGCTATGAGCTATGATGCAACGCATGCATGCA
28887 AGCTATGAGCTATGATGCAACGCATGCATGCA
1 AGCTATGAGCTATGATGCAACGCATGCATGCA
28919 GCAGGACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (32 bp):
AGCTATGAGCTATGATGCAACGCATGCATGCA
Found at i:29038 original size:15 final size:15
Alignment explanation
Indices: 29018--29197 Score: 137
Period size: 15 Copynumber: 11.1 Consensus size: 15
29008 CATCCCCTCC
29018 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
29033 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
* * *
29048 CGTCCAATGCACCATCCCCTC
1 C--CCCATG---CATTCCC-A
29069 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
29084 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
* *
29099 CGTCCCATGCATCCCCTC
1 C--CCCATGCATTCCC-A
29117 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
* *
29132 CATCCCATG-TTGATCCCTC
1 C--CCCATGCAT--TCCC-A
29151 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
* *
29166 CCCCATGCATCCCCTC
1 CCCCATGCATTCCC-A
29182 CCCCATGCATTCCCA
1 CCCCATGCATTCCCA
29197 C
1 C
29198 GTCCCATGTT
Statistics
Matches: 131, Mismatches: 18, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
15 47 0.36
16 36 0.27
17 29 0.22
18 6 0.05
19 6 0.05
20 6 0.05
21 1 0.01
ACGTcount: A:0.18, C:0.53, G:0.08, T:0.21
Consensus pattern (15 bp):
CCCCATGCATTCCCA
Found at i:29093 original size:51 final size:51
Alignment explanation
Indices: 28993--29132 Score: 241
Period size: 51 Copynumber: 2.8 Consensus size: 51
28983 ATGCACAGTT
28993 CCACGTCCAATGCACCATCCCCTCCCCCCATGCATTCCCACCCCATGCATTC
1 CCACGTCCAATGCACCATCCCCT-CCCCCATGCATTCCCACCCCATGCATTC
29045 CCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACCCCATGCATTC
1 CCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACCCCATGCATTC
*
29096 CCACGTCCCATG---CATCCCCTCCCCCATGCATTCCCAC
1 CCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCAC
29133 ATCCCATGTT
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
48 25 0.29
51 39 0.45
52 23 0.26
ACGTcount: A:0.19, C:0.54, G:0.08, T:0.19
Consensus pattern (51 bp):
CCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACCCCATGCATTC
Found at i:29161 original size:82 final size:83
Alignment explanation
Indices: 29019--29197 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 83
29009 ATCCCCTCCC
* *
29019 CCCATGCATTCCCACCCCATGCATTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCA
1 CCCATGCATCCCCACCCCATGCATTCCCACATCCAATGCACCATCCCCTCCCCCATGCATTCCCA
29084 CCCCATGCATTCCCACGT
66 CCCCATGCATTCCCACGT
* * ***
29102 CCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATG-TTGAT-CCCTCCCCCATGCATTCCC
1 CCCATGCATCCCC-ACCCCATGCATTCCCACATCCAATGCACCATCCCCTCCCCCATGCATTCCC
* * *
29165 ACCCCATGCATCCCCTC-C
65 ACCCCATGCATTCCCACGT
*
29183 CCCATGCATTCCCAC
1 CCCATGCATCCCCAC
29198 GTCCCATGTT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 12 0.14
82 34 0.41
83 14 0.17
84 22 0.27
ACGTcount: A:0.18, C:0.53, G:0.08, T:0.21
Consensus pattern (83 bp):
CCCATGCATCCCCACCCCATGCATTCCCACATCCAATGCACCATCCCCTCCCCCATGCATTCCCA
CCCCATGCATTCCCACGT
Found at i:29181 original size:65 final size:66
Alignment explanation
Indices: 29084--29210 Score: 229
Period size: 65 Copynumber: 1.9 Consensus size: 66
29074 TGCATTCCCA
29084 CCCCATGCATTCCCACGTCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGATCCC
1 CCCCATGCATTCCCACG-CCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGATCCC
29149 TC
65 TC
*
29151 CCCCATGCATTCCCAC-CCCATGCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGAT
1 CCCCATGCATTCCCACGCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGAT
29211 TGCATGGCAT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 43 0.73
67 16 0.27
ACGTcount: A:0.17, C:0.50, G:0.09, T:0.24
Consensus pattern (66 bp):
CCCCATGCATTCCCACGCCCATGCATCCCCTCCCCCATGCATTCCCACATCCCATGTTGATCCCT
C
Found at i:29228 original size:45 final size:45
Alignment explanation
Indices: 29172--29261 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
29162 CCCACCCCAT
29172 GCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATG
1 GCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATG
29217 GCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATG
1 GCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATG
29262 TCCCATGTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.16, C:0.42, G:0.16, T:0.27
Consensus pattern (45 bp):
GCATCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATG
Found at i:29286 original size:17 final size:18
Alignment explanation
Indices: 29243--29296 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
29233 GCATTCCCAC
29243 GTCCCATGTTGATTGCAT
1 GTCCCATGTTGATTGCAT
29261 GTCCCATGTTGATTGCAT
1 GTCCCATGTTGATTGCAT
29279 GT-CCATGTTGATTGCAT
1 GTCCCATGTTGATTGCAT
29296 G
1 G
29297 GCCCTATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 16 0.44
18 20 0.56
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (18 bp):
GTCCCATGTTGATTGCAT
Found at i:29351 original size:29 final size:29
Alignment explanation
Indices: 29318--29377 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
29308 TAATACACAC
29318 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
29347 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
29376 AG
1 AG
29378 ACCACTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.37, G:0.32, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:30020 original size:40 final size:40
Alignment explanation
Indices: 29942--30037 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
29932 ATCAATATTT
** *
29942 TAATTTTATCAATTTTAAAATTAGTGTTTAATTTTAAGTG
1 TAATTTTATCAATTTTAAAATTAACGATTAATTTTAAGTG
**
29982 TAATTTTATCAATTTTATTATTAACGATT-ATTTATAAGTG
1 TAATTTTATCAATTTTAAAATTAACGATTAATTT-TAAGTG
* *
30022 TAATTATATCATTTTT
1 TAATTTTATCAATTTT
30038 TCGTTAATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.08
40 44 0.92
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (40 bp):
TAATTTTATCAATTTTAAAATTAACGATTAATTTTAAGTG
Found at i:30386 original size:35 final size:35
Alignment explanation
Indices: 30343--30425 Score: 130
Period size: 35 Copynumber: 2.4 Consensus size: 35
30333 ATTAAAAGAG
**
30343 AAATAAATAAAAAATGAAGAAAATGTTAAATTTTA
1 AAATAAATAAAAAATGAAGAAAACATTAAATTTTA
*
30378 AAATAAATAAAAAATGAAGAAAACATTAATTTTTA
1 AAATAAATAAAAAATGAAGAAAACATTAAATTTTA
*
30413 AAAGAAATAAAAA
1 AAATAAATAAAAA
30426 TAAAATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.25
Consensus pattern (35 bp):
AAATAAATAAAAAATGAAGAAAACATTAAATTTTA
Found at i:31556 original size:7 final size:7
Alignment explanation
Indices: 31544--31671 Score: 63
Period size: 7 Copynumber: 18.1 Consensus size: 7
31534 GAAGCAAAAA
31544 AAATAAT
1 AAATAAT
31551 AAATAAAT
1 AAAT-AAT
*
31559 ATATAAT
1 AAATAAT
*
31566 ATA-AAT
1 AAATAAT
31572 -AATAAT
1 AAATAAT
*
31578 ATATAAT
1 AAATAAT
*
31585 ATATATAT
1 AAATA-AT
*
31593 ATATATAT
1 AAATA-AT
*
31601 ACA-AAT
1 AAATAAT
31607 -AATAAT
1 AAATAAT
31613 AAATAAT
1 AAATAAT
*
31620 -ATTAAT
1 AAATAAT
31626 ATAATATAT
1 A-AATA-AT
31635 AATATAAT
1 AA-ATAAT
*
31643 AAATGAT
1 AAATAAT
31650 -AATATAT
1 AAATA-AT
31657 ATAA-AAT
1 A-AATAAT
31664 AAATAAT
1 AAATAAT
31671 A
1 A
31672 TTAATATAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 28
0.73 0.07 0.21
Matches are distributed among these distances:
5 2 0.02
6 21 0.21
7 40 0.41
8 27 0.28
9 8 0.08
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (7 bp):
AAATAAT
Found at i:31572 original size:21 final size:21
Alignment explanation
Indices: 31548--31704 Score: 97
Period size: 21 Copynumber: 7.0 Consensus size: 21
31538 CAAAAAAAAT
31548 AATAAATAAATATATAATATA
1 AATAAATAAATATATAATATA
31569 AAT-AAT-AATATATAATATA
1 AATAAATAAATATATAATATA
* * * *
31588 TATATATATATATACAA-ATAA
1 AATAAATAAATATATAATAT-A
31609 TAATAAATAATATTAATATAATATA
1 -AATAAATAA-A-T-ATATAATATA
*
31634 TAATATAATAAAT-GATAATATA
1 -AATA-AATAAATATATAATATA
*
31656 TATAAAATAAATAATATTAATATA
1 AAT-AAATAAAT-ATA-TAATATA
31680 ATATATAATTAAAACTATATAATAT
1 A-ATA-AA-T-AAA-TATATAATAT
31705 TATATTTTCA
Statistics
Matches: 106, Mismatches: 12, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
19 15 0.14
20 7 0.07
21 20 0.19
22 15 0.14
23 2 0.02
24 10 0.09
25 16 0.15
26 14 0.13
27 6 0.06
28 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
AATAAATAAATATATAATATA
Found at i:31665 original size:51 final size:52
Alignment explanation
Indices: 31551--31688 Score: 183
Period size: 51 Copynumber: 2.7 Consensus size: 52
31541 AAAAAATAAT
* * *
31551 AAAT-AAATATATAATATAAATAATAATATATAATATATATATATATATATAC
1 AAATAAAATAAATAATATTAAT-ATAATATATAATATATATAAATATATATAC
*
31603 AAATAATAATAAATAATATTAATATAATATATAATATA-ATAAATGATA-ATAT
1 AAATAA-AATAAATAATATTAATATAATATATAATATATATAAAT-ATATATAC
*
31655 ATATAAAATAAATAATATTAATATAATATATAAT
1 AAATAAAATAAATAATATTAATATAATATATAAT
31689 TAAAACTATA
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
51 28 0.36
52 17 0.22
53 19 0.24
54 14 0.18
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (52 bp):
AAATAAAATAAATAATATTAATATAATATATAATATATATAAATATATATAC
Found at i:31700 original size:2 final size:2
Alignment explanation
Indices: 31557--31686 Score: 62
Period size: 2 Copynumber: 73.5 Consensus size: 2
31547 TAATAAATAA
*
31557 AT AT AT A- AT AT AA AT A- AT A- AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
31595 AT AT AT AC AA AT A- AT A- AT AA AT A- AT AT -T A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
31631 AT AT A- AT AT A- AT AA AT GAT A- AT AT AT AT A- AA AT AA AT A-
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
31669 AT AT -T A- AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
31687 ATTAAAACTA
Statistics
Matches: 97, Mismatches: 12, Indels: 38
0.66 0.08 0.26
Matches are distributed among these distances:
1 18 0.19
2 77 0.79
3 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (2 bp):
AT
Found at i:31706 original size:16 final size:14
Alignment explanation
Indices: 31543--31706 Score: 60
Period size: 15 Copynumber: 11.1 Consensus size: 14
31533 TGAAGCAAAA
31543 AAAATAATAA-A-T
1 AAAATAATAATATT
31555 -AAATATATAATA-T
1 AAAATA-ATAATATT
31568 -AAATAATAATATAT
1 AAAATAATAATAT-T
31582 AATATATATATATATATAT
1 AA-A-ATA-ATA-ATAT-T
31601 ACAAATAATAATA--
1 A-AAATAATAATATT
*
31614 AATAATATTAATA-T
1 AA-AATAATAATATT
*
31628 AATATATAAT-ATAAT
1 AA-A-ATAATAATATT
31643 AAATGATAAT-ATATAT
1 AAA--ATAATAATAT-T
31659 AAAATAAATAATATT
1 AAAAT-AATAATATT
*
31674 AATATAATATATAATT
1 AAAATAATA-AT-ATT
31690 AAAACTATATAATATT
1 AAAA-TA-ATAATATT
31706 A
1 A
31707 TATTTTCAAA
Statistics
Matches: 124, Mismatches: 6, Indels: 40
0.73 0.04 0.24
Matches are distributed among these distances:
11 5 0.04
12 11 0.09
13 17 0.14
14 15 0.12
15 26 0.21
16 22 0.18
17 10 0.08
18 9 0.07
19 8 0.06
20 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (14 bp):
AAAATAATAATATT
Found at i:31709 original size:51 final size:50
Alignment explanation
Indices: 31555--31709 Score: 163
Period size: 51 Copynumber: 3.0 Consensus size: 50
31545 AATAATAAAT
* * * * *
31555 AAATATATAATATAAATAATAATATATAA-TATATATATATATATATACAAATA
1 AAATAAATAATATTAAT-ATAATATATAATTA-AAATATATA-ATAT-TATATA
31608 ATAATAAATAATATTAATATAATATATAATATAATAA-ATGATAATA-TATATA
1 A-AATAAATAATATTAATATAATATATAAT-TAA-AATAT-ATAATATTATATA
31660 AAATAAATAATATTAATATAATATATAATTAAAACTATATAATATTATAT
1 AAATAAATAATATTAATATAATATATAATTAAAA-TATATAATATTATAT
31710 TTTCAAAAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 18
0.79 0.04 0.16
Matches are distributed among these distances:
49 2 0.02
50 9 0.10
51 35 0.39
52 5 0.06
53 12 0.13
54 20 0.22
55 6 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (50 bp):
AAATAAATAATATTAATATAATATATAATTAAAATATATAATATTATATA
Found at i:31729 original size:17 final size:17
Alignment explanation
Indices: 31709--31741 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31699 TAATATTATA
31709 TTTTCAAAAATAATATG
1 TTTTCAAAAATAATATG
*
31726 TTTTCAAAAATTATAT
1 TTTTCAAAAATAATAT
31742 ACTATATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTCAAAAATAATATG
Found at i:31785 original size:35 final size:36
Alignment explanation
Indices: 31738--31998 Score: 159
Period size: 36 Copynumber: 7.2 Consensus size: 36
31728 TTCAAAAATT
* *
31738 ATATACTATATATGTTTCCAAAAGATCGTTTTTAAAA
1 ATATATTATATATGTTTTCAAAA-ATCGTTTTTAAAA
* *
31775 AT-TA-TATATATGTTTTCAAAATAT-GTTTTCAAAG
1 ATATATTATATATGTTTTCAAAA-ATCGTTTTTAAAA
* *
31809 CTATATTATATACGTTTTCAAAAATCGTTTTTAAAA
1 ATATATTATATATGTTTTCAAAAATCGTTTTTAAAA
* * * * * *
31845 CTATATAATATATATTTTTAAAACAT--ATTTTCAAA
1 ATATATTATATATGTTTTCAAAA-ATCGTTTTTAAAA
*
31880 ATCATATTATATA--TTTTCAAAAACCGATTTTTAAAA
1 AT-ATATTATATATGTTTTCAAAAATCG-TTTTTAAAA
** *
31916 ACTATATGT-TATATACTTTCAAAAAAT-GTCTTCTAAAA
1 A-TATAT-TATATATGTTTTC-AAAAATCGT-TTTTAAAA
* * *
31954 CTATATATTAT-T-TGTTTTAAAAAAT-ATTTTAAAAA
1 --ATATATTATATATGTTTTCAAAAATCGTTTTTAAAA
31989 ATTATATTAT
1 A-TATATTAT
31999 TGTATATATA
Statistics
Matches: 177, Mismatches: 29, Indels: 39
0.72 0.12 0.16
Matches are distributed among these distances:
33 2 0.01
34 25 0.14
35 36 0.20
36 77 0.44
37 11 0.06
38 14 0.08
39 11 0.06
40 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (36 bp):
ATATATTATATATGTTTTCAAAAATCGTTTTTAAAA
Found at i:31800 original size:13 final size:13
Alignment explanation
Indices: 31782--31807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31772 AAAATTATAT
31782 ATATGTTTTCAAA
1 ATATGTTTTCAAA
31795 ATATGTTTTCAAA
1 ATATGTTTTCAAA
31808 GCTATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:31887 original size:72 final size:71
Alignment explanation
Indices: 31688--31942 Score: 221
Period size: 72 Copynumber: 3.5 Consensus size: 71
31678 TAATATATAA
*
31688 TTAAAACTATATAATATTATATTTTCAAAAATAATATGTTTTCAAAAATTATATACTATATATGT
1 TTAAAACTATATAATA-TATATTTT-AAAAA-AATA--TTTTC-AAAATCATAT--TATATA-GT
*
31753 TTCCAAAAGATCGTTT
57 TTTCAAAA-ATCGTTT
* * * * * *
31769 TTAAAAAT-TAT-ATATATGTTTTCAAAATATGTTTTC-AAAGCTATATTATATACGTTTTCAAA
1 TTAAAACTATATAATATATATTTTAAAAAAATATTTTCAAAATC-ATATTATATA-GTTTTCAAA
31831 AATCGTTT
64 AATCGTTT
* *
31839 TTAAAACTATATAATATATATTTTTAAAACATATTTTCAAAATCATATTATATA-TTTTCAAAAA
1 TTAAAACTATATAATATATATTTTAAAAAAATATTTTCAAAATCATATTATATAGTTTTCAAAAA
*
31903 CCGATTT
66 TCG-TTT
** * *
31910 TTAAAAACTATATGTTATATACTTTCAAAAAAT
1 TT-AAAACTATATAATATATATTTTAAAAAAAT
31943 GTCTTCTAAA
Statistics
Matches: 147, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
70 26 0.18
71 23 0.16
72 59 0.40
73 8 0.05
74 5 0.03
76 2 0.01
77 4 0.03
78 7 0.05
79 3 0.02
80 3 0.02
81 7 0.05
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (71 bp):
TTAAAACTATATAATATATATTTTAAAAAAATATTTTCAAAATCATATTATATAGTTTTCAAAAA
TCGTTT
Found at i:32846 original size:15 final size:15
Alignment explanation
Indices: 32822--32852 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32812 ATTCACACGG
*
32822 TTTCTTTTAATTTTC
1 TTTCTCTTAATTTTC
32837 TTTCTCTTAATTTTC
1 TTTCTCTTAATTTTC
32852 T
1 T
32853 AATTTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCTCTTAATTTTC
Found at i:36479 original size:16 final size:16
Alignment explanation
Indices: 36458--36489 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36448 TATATAGAGA
36458 TTTTTTCGCAGGGATT
1 TTTTTTCGCAGGGATT
*
36474 TTTTTTTGCAGGGATT
1 TTTTTTCGCAGGGATT
36490 ACTGCCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.09, G:0.25, T:0.53
Consensus pattern (16 bp):
TTTTTTCGCAGGGATT
Found at i:37283 original size:16 final size:16
Alignment explanation
Indices: 37257--37303 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
37247 GAGAATTTGA
*
37257 CTGAGATTTGAGAGAG
1 CTGAGAGTTGAGAGAG
*
37273 TTGAGAGTTGAGAGAG
1 CTGAGAGTTGAGAGAG
*
37289 CTGGGAGTTGAGAGA
1 CTGAGAGTTGAGAGA
37304 ATAAAAGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.43, T:0.23
Consensus pattern (16 bp):
CTGAGAGTTGAGAGAG
Found at i:40028 original size:36 final size:37
Alignment explanation
Indices: 39977--40060 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
39967 TGATAACCAA
39977 CTTTGAAAAAATAG-TTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
40014 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
40051 -GTTGAAAAAT
1 CTTTGAAAAAT
40061 GATAATGGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 17 0.39
37 27 0.61
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.43
Consensus pattern (37 bp):
CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:44599 original size:37 final size:38
Alignment explanation
Indices: 44544--44627 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 38
44534 TAGTAACCAA
44544 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
* *
44581 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
*
44618 -GTTGAAAAAT
1 CTTTGAAAAAT
44628 GATAATGGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 9 0.21
37 33 0.77
38 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (38 bp):
CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:45533 original size:45 final size:45
Alignment explanation
Indices: 45417--45534 Score: 182
Period size: 45 Copynumber: 2.6 Consensus size: 45
45407 TCCGGTAAAA
** *
45417 CGCTACCTAAAACATTATTTTTCTACAAAAAATGTTAATATTGTG
1 CGCTACCTAAAACATTATTTTTCTACCGAAAATGTTAATATTGGG
* *
45462 TGCTATCTAAAACATTATTTTTCTACCGAAAATGTTAATATTGGG
1 CGCTACCTAAAACATTATTTTTCTACCGAAAATGTTAATATTGGG
*
45507 CGCTACCTAAAATATTATTTTTCTACCG
1 CGCTACCTAAAACATTATTTTTCTACCG
45535 GTTTTTAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (45 bp):
CGCTACCTAAAACATTATTTTTCTACCGAAAATGTTAATATTGGG
Found at i:46422 original size:40 final size:40
Alignment explanation
Indices: 46378--46453 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
46368 AACGCAATCT
* * *
46378 CAAATTTGCAACACGAATTTCAATTTCGTAACACAGTTTC
1 CAAATTCGCAACACAAATTTCAATTTCGCAACACAGTTTC
* **
46418 CAAATTCGCAACTCAAATTTCCTTTTCGCAACACAG
1 CAAATTCGCAACACAAATTTCAATTTCGCAACACAG
46454 AAGTCAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.30
Consensus pattern (40 bp):
CAAATTCGCAACACAAATTTCAATTTCGCAACACAGTTTC
Found at i:46518 original size:25 final size:26
Alignment explanation
Indices: 46481--46529 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
46471 CGCGTTTATT
* * *
46481 TTCGCAACGCGAAT-TTTATTTCGAA
1 TTCGAAACACGAATATTAATTTCGAA
46506 TTCGAAACACGAATATTAATTTCG
1 TTCGAAACACGAATATTAATTTCG
46530 CAACACAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (26 bp):
TTCGAAACACGAATATTAATTTCGAA
Found at i:46674 original size:22 final size:22
Alignment explanation
Indices: 46624--46674 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
46614 TCACTCTCTA
* *
46624 CGGCGTCATCCGTCCCCATCTC
1 CGGCGACATCCGTCCCCATATC
* *
46646 CGACGACATCTGTCCCCATATC
1 CGGCGACATCCGTCCCCATATC
*
46668 TGGCGAC
1 CGGCGAC
46675 CTCCCTCCAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.43, G:0.20, T:0.22
Consensus pattern (22 bp):
CGGCGACATCCGTCCCCATATC
Found at i:47044 original size:14 final size:15
Alignment explanation
Indices: 47015--47047 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
47005 CTTGAAACTT
47015 AAATTCGCAACACGA
1 AAATTCGCAACACGA
*
47030 AAATT-GCAACTCGA
1 AAATTCGCAACACGA
47044 AAAT
1 AAAT
47048 GAAATTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.18
Consensus pattern (15 bp):
AAATTCGCAACACGA
Found at i:48688 original size:42 final size:42
Alignment explanation
Indices: 48642--48738 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
48632 TCCGACATCG
** * * *
48642 AGAGCCATCACCTGATCGAGCCTCTTCTCCACTTCGACACTA
1 AGAGCCATCACCTGATCGAGCCGATTCTACACCTCGACACCA
* *
48684 AGAGCCATCATCTGATCGAGCCGATTCTACACCTCGACACCG
1 AGAGCCATCACCTGATCGAGCCGATTCTACACCTCGACACCA
48726 AGAGCCATCACCT
1 AGAGCCATCACCT
48739 ATTCCATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (42 bp):
AGAGCCATCACCTGATCGAGCCGATTCTACACCTCGACACCA
Found at i:48879 original size:21 final size:21
Alignment explanation
Indices: 48853--48902 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
48843 GTTAGGGGAG
48853 TTACGTGATGAGGTCAATGCT
1 TTACGTGATGAGGTCAATGCT
* **
48874 TTACGTAATGAGGTCGGTGCT
1 TTACGTGATGAGGTCAATGCT
48895 TTACGTGA
1 TTACGTGA
48903 CGATAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAATGCT
Found at i:48967 original size:42 final size:43
Alignment explanation
Indices: 48921--49015 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 43
48911 GTGCATGGCA
* *
48921 TGATGAGGTAGGGT-CTTTACGTGGTAAGGTAGCTGTTTTACG
1 TGATGAGGTAGGGTGCTTTACGTGGTAAGGTAGATGCTTTACG
** * * * *
48963 TGATGA-CAATGGTGCTTTACGTGGTGAGTTATATGCTTTACG
1 TGATGAGGTAGGGTGCTTTACGTGGTAAGGTAGATGCTTTACG
49005 TGATGAGGTAG
1 TGATGAGGTAG
49016 CTGCTCTGCG
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
41 4 0.10
42 35 0.88
43 1 0.03
ACGTcount: A:0.21, C:0.09, G:0.34, T:0.36
Consensus pattern (43 bp):
TGATGAGGTAGGGTGCTTTACGTGGTAAGGTAGATGCTTTACG
Found at i:49020 original size:21 final size:21
Alignment explanation
Indices: 48921--49020 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 21
48911 GTGCATGGCA
*
48921 TGATGAGGTAG-GGTCTTTACG
1 TGATGAGGTAGCTG-CTTTACG
* * *
48942 TGGTAAGGTAGCTGTTTTACG
1 TGATGAGGTAGCTGCTTTACG
** *
48963 TGATGA-CAATGGTGCTTTACG
1 TGATGAGGTA-GCTGCTTTACG
* * **
48984 TGGTGAGTTATATGCTTTACG
1 TGATGAGGTAGCTGCTTTACG
49005 TGATGAGGTAGCTGCT
1 TGATGAGGTAGCTGCT
49021 CTGCGTGAGA
Statistics
Matches: 57, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
20 1 0.02
21 54 0.95
22 2 0.04
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.36
Consensus pattern (21 bp):
TGATGAGGTAGCTGCTTTACG
Found at i:49346 original size:21 final size:21
Alignment explanation
Indices: 49312--49356 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
49302 GAAGAAGCCC
49312 GATCCACCTACCATTGTTCAG
1 GATCCACCTACCATTGTTCAG
* *
49333 GATCCTCCTCCCATTGTTCAG
1 GATCCACCTACCATTGTTCAG
49354 GAT
1 GAT
49357 TCACATGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.16, T:0.31
Consensus pattern (21 bp):
GATCCACCTACCATTGTTCAG
Found at i:49406 original size:21 final size:22
Alignment explanation
Indices: 49365--49415 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
49355 ATTCACATGT
* *
49365 CATCGTTC-AAGTGGCCTCTCC
1 CATCGTTCAAAATGGCCCCTCC
49386 CATCGTTCAAAAT-GCCCCTCC
1 CATCGTTCAAAATGGCCCCTCC
* *
49407 TATCATTCA
1 CATCGTTCA
49416 GGATCCACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.22, C:0.37, G:0.12, T:0.29
Consensus pattern (22 bp):
CATCGTTCAAAATGGCCCCTCC
Found at i:49442 original size:20 final size:21
Alignment explanation
Indices: 49412--49485 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
49402 CCTCCTATCA
49412 TTCAGGATCCACCTCCCACCG
1 TTCAGGATCCACCTCCCACCG
49433 TTCA-GATCCACCTCCCACCG
1 TTCAGGATCCACCTCCCACCG
*
49453 TTCAGGATCTACCTCCCACCG
1 TTCAGGATCCACCTCCCACCG
49474 TTCAGGATCCAC
1 TTCAGGATCCAC
49486 ATGCATACTA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 20 0.40
21 30 0.60
ACGTcount: A:0.20, C:0.45, G:0.14, T:0.22
Consensus pattern (21 bp):
TTCAGGATCCACCTCCCACCG
Found at i:50837 original size:34 final size:37
Alignment explanation
Indices: 50799--50884 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 37
50789 GAAAATCAAA
50799 TTCACGTTGCGAT-T-TTTAT-GTTGCGAATTTTATT
1 TTCACGTTGCGATATATTTATCGTTGCGAATTTTATT
*
50833 TTCACGTTGCGAATATGATTTTTGCGTTGCGAATTTTATT
1 TTCACGTTGCG-ATAT-ATTTAT-CGTTGCGAATTTTATT
*
50873 TTCGCGTTGCGA
1 TTCACGTTGCGA
50885 ATCGGAGAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 11 0.25
35 2 0.05
36 1 0.02
38 4 0.09
39 1 0.02
40 25 0.57
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (37 bp):
TTCACGTTGCGATATATTTATCGTTGCGAATTTTATT
Found at i:50841 original size:20 final size:20
Alignment explanation
Indices: 50818--50886 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
50808 CGATTTTTAT
*
50818 GTTGCGAATTTTATTTTCAC
1 GTTGCGAATTTTATTTTCGC
* * *
50838 GTTGCGAATATGATTTTTGC
1 GTTGCGAATTTTATTTTCGC
50858 GTTGCGAATTTTATTTTCGC
1 GTTGCGAATTTTATTTTCGC
50878 GTTGCGAAT
1 GTTGCGAAT
50887 CGGAGAAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.46
Consensus pattern (20 bp):
GTTGCGAATTTTATTTTCGC
Found at i:50864 original size:40 final size:40
Alignment explanation
Indices: 50809--50886 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
50799 TTCACGTTGC
*
50809 GATTTTTATGTTGCGAATTTTATTTTCACGTTGCGAATAT
1 GATTTTTACGTTGCGAATTTTATTTTCACGTTGCGAATAT
* *
50849 GATTTTTGCGTTGCGAATTTTATTTTCGCGTTGCGAAT
1 GATTTTTACGTTGCGAATTTTATTTTCACGTTGCGAAT
50887 CGGAGAAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.49
Consensus pattern (40 bp):
GATTTTTACGTTGCGAATTTTATTTTCACGTTGCGAATAT
Found at i:53464 original size:24 final size:24
Alignment explanation
Indices: 53431--53484 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
53421 TGAAACATCT
53431 TCAAAATCCGAGTATTGACCAAGA
1 TCAAAATCCGAGTATTGACCAAGA
* *
53455 TCAAAGTCCGGGTATTGACCAAGA
1 TCAAAATCCGAGTATTGACCAAGA
53479 T-AAAAT
1 TCAAAAT
53485 TTCGAATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
TCAAAATCCGAGTATTGACCAAGA
Found at i:58402 original size:19 final size:16
Alignment explanation
Indices: 58367--58415 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 16
58357 GACACCATTT
58367 AAAATATTTAAAAATA
1 AAAATATTTAAAAATA
58383 AAAATATTATAAACAAATAA
1 AAAATATT-T-AA-AAAT-A
*
58403 AAAATAATTAAAA
1 AAAATATTTAAAA
58416 GTATGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 8 0.29
17 3 0.11
18 4 0.14
19 5 0.18
20 8 0.29
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATATTTAAAAATA
Found at i:67570 original size:2 final size:2
Alignment explanation
Indices: 67563--67590 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67553 CACCTTCATA
67563 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
67591 TAATTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72681 original size:6 final size:6
Alignment explanation
Indices: 72670--72694 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
72660 ATAAAAATAC
72670 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
72695 AGGAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:74460 original size:30 final size:30
Alignment explanation
Indices: 74421--74489 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
74411 CCCTCTAGGA
*
74421 TTAGA-TTTTTACAC-TTATTCCCCTAGAAT
1 TTAGATTTTTTACACTTTAGT-CCCTAGAAT
*
74450 TTAGATTTTTTACACTTTAGTCCCTAGACT
1 TTAGATTTTTTACACTTTAGTCCCTAGAAT
74480 TTAGATTTTT
1 TTAGATTTTT
74490 ATCATCTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 5 0.14
30 27 0.75
31 4 0.11
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (30 bp):
TTAGATTTTTTACACTTTAGTCCCTAGAAT
Found at i:74500 original size:30 final size:29
Alignment explanation
Indices: 74421--74502 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
74411 CCCTCTAGGA
*
74421 TTAGATTTTTA-CACTTATTCCCCTAGAAT
1 TTAGATTTTTATCACTTAGT-CCCTAGAAT
*
74450 TTAGATTTTT-TACACTTTAGTCCCTAGACT
1 TTAGATTTTTAT-CAC-TTAGTCCCTAGAAT
74480 TTAGATTTTTATCATCTTAGTCC
1 TTAGATTTTTATCA-CTTAGTCC
74503 TTTAATTAGG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
29 10 0.22
30 30 0.65
31 6 0.13
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (29 bp):
TTAGATTTTTATCACTTAGTCCCTAGAAT
Found at i:77897 original size:9 final size:9
Alignment explanation
Indices: 77883--77981 Score: 58
Period size: 9 Copynumber: 10.6 Consensus size: 9
77873 TTGGCAACAC
77883 AAAGAGAAA
1 AAAGAGAAA
*
77892 AAAGAGAAG
1 AAAGAGAAA
** * *
77901 CTATAGCAA
1 AAAGAGAAA
*
77910 AAAGAAAAA
1 AAAGAGAAA
* *
77919 AAACATAAAA
1 AAAGA-GAAA
77929 AAGAGAGAGAA
1 AA-AGAGA-AA
77940 TAAAGAAAGAAA
1 -AAAG--AGAAA
77952 AAAGAGAAA
1 AAAGAGAAA
77961 AAAG-GAAA
1 AAAGAGAAA
77969 AAAGA-AAA
1 AAAGAGAAA
77977 AAAGA
1 AAAGA
77982 AAACATATCA
Statistics
Matches: 69, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
8 16 0.23
9 29 0.42
10 7 0.10
11 10 0.14
12 4 0.06
13 3 0.04
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.04
Consensus pattern (9 bp):
AAAGAGAAA
Found at i:77939 original size:24 final size:24
Alignment explanation
Indices: 77912--77978 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
77902 TATAGCAAAA
*
77912 AGAA-AAAAAACATAAAAAAGAGAG
1 AGAATAAAAAA-AGAAAAAAGAGAG
* *
77936 AGAATAAAGAAAGAAAAAAGAGAA
1 AGAATAAAAAAAGAAAAAAGAGAG
* **
77960 AAAAGGAAAAAAGAAAAAA
1 AGAATAAAAAAAGAAAAAA
77979 AGAAAACATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (24 bp):
AGAATAAAAAAAGAAAAAAGAGAG
Found at i:77974 original size:15 final size:16
Alignment explanation
Indices: 77908--77984 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 16
77898 AAGCTATAGC
*
77908 AAAAAGAAAAAAAACATA
1 AAAAAGAAAAAAGA-A-A
* *
77926 AAAAAG-AGAGAGAATA
1 AAAAAGAAAAAAGAA-A
77942 AAGAAAGAAAAAAGAGAA
1 AA-AAAGAAAAAAGA-AA
*
77960 AAAAGGAAAAAAG-AA
1 AAAAAGAAAAAAGAAA
77975 AAAAAGAAAA
1 AAAAAGAAAA
77985 CATATCAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 11 0.22
16 5 0.10
17 18 0.37
18 14 0.29
19 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Found at i:80253 original size:59 final size:59
Alignment explanation
Indices: 80183--80355 Score: 170
Period size: 66 Copynumber: 2.8 Consensus size: 59
80173 ACTAAGTTTT
80183 ATTTTCAGAGGTTTCTTGACATTGTAT-TTTTAAATGAGTTTTTAAAGAAACTAAGTACG
1 ATTTTCAGAGGTTTCTTGACATTG-ATGTTTTAAATGAGTTTTTAAAGAAACTAAGTACG
* * * * * *
80242 ATTTCCAGAGGTTTCTTGAAGATTAACATGGTGTTTCAAAAGAATTTTTAAAAGAAACTAAGTAT
1 ATTTTCAGAGGTTTCTTG-ACATT--GAT-GT-TTT-AAATGAGTTTTT-AAAGAAACTAAGTAC
80307 G
59 G
* * *
80308 ATTTTCAGAGATTTCTTGGCA-TGATCTTCTTAAATGAGTTTTTAAAGA
1 ATTTTCAGAGGTTTCTTGACATTGATGTT-TTAAATGAGTTTTTAAAGA
80356 GATGAGGGGT
Statistics
Matches: 91, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
59 22 0.24
60 15 0.16
61 5 0.05
62 2 0.02
63 1 0.01
64 4 0.04
65 11 0.12
66 31 0.34
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (59 bp):
ATTTTCAGAGGTTTCTTGACATTGATGTTTTAAATGAGTTTTTAAAGAAACTAAGTACG
Found at i:80438 original size:88 final size:89
Alignment explanation
Indices: 80276--80443 Score: 223
Period size: 88 Copynumber: 1.9 Consensus size: 89
80266 AACATGGTGT
* * * *
80276 TTCAAAAGAATTTTTAAAAGAAACTAAGTATGATTTTCAGAGATTTCTTGGCATGATCTTCTTAA
1 TTCAAAAGAATTTTTAAAAGAAACTAAGTATAATTTTAAGAGATTTCTTGACATGATCGTCTTAA
*
80341 ATGAGTTTTTAAAGAGATGAGGGG
66 ATGAATTTTTAAAGAGATGAGGGG
* * * * *
80365 TTCAAATG-ATTTTTCAAAGAAACTAAGTCTAATTTTAAGAGGTTTCTTGATATGAT-GTCTTCA
1 TTCAAAAGAATTTTTAAAAGAAACTAAGTATAATTTTAAGAGATTTCTTGACATGATCGTCTT-A
80428 AATGAATTTTTAAAGA
65 AATGAATTTTTAAAGA
80444 AACTAAGTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 4 0.06
88 57 0.84
89 7 0.10
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (89 bp):
TTCAAAAGAATTTTTAAAAGAAACTAAGTATAATTTTAAGAGATTTCTTGACATGATCGTCTTAA
ATGAATTTTTAAAGAGATGAGGGG
Found at i:80534 original size:57 final size:55
Alignment explanation
Indices: 80365--80535 Score: 198
Period size: 57 Copynumber: 3.0 Consensus size: 55
80355 AGATGAGGGG
* * *
80365 TTCAAATGATTTTTCAAAGAAACTAAGTCTAATTTTAAGAGGTTTCTTGATATGATGTC
1 TTCAAATGATTTTT-AAAGAAACTAAGTCTGATTTT-AGAGATTTCTTG--ATGATTTC
* * * *
80424 TTCAAATGAATTTTTAAAGAAACTAAGTCCGATTTTTGGGATTTTCTTTATGATTTC
1 TTCAAATG-ATTTTTAAAGAAACTAAGTCTGATTTTAGAGA-TTTCTTGATGATTTC
*
80481 TTCAAATGAGTTTTTAAAGAACCTAAGTCTGATTTTCAGAGATTTCTTGATGATT
1 TTCAAATGA-TTTTTAAAGAAACTAAGTCTGATTTT-AGAGATTTCTTGATGATT
80536 ACTCAACCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
56 1 0.01
57 51 0.53
58 5 0.05
59 33 0.34
60 6 0.06
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (55 bp):
TTCAAATGATTTTTAAAGAAACTAAGTCTGATTTTAGAGATTTCTTGATGATTTC
Found at i:81453 original size:116 final size:116
Alignment explanation
Indices: 81229--81733 Score: 510
Period size: 116 Copynumber: 4.4 Consensus size: 116
81219 GGATATATCA
* * * *
81229 AACATTTCTGAGGAAGGGTTCGTAATGAGAAGAACTC-GT---CTA-GAAGAAGAAGTTCATAAT
1 AACATTTCAGAAGAAGGGTTCGTAATGAGAAGAACTCATTCAACGAGGAAGAAGAAGTTCATAAT
* * * * * * ** *
81289 GAAAAAAACTTGTTCAAAACCCGACATAT-CTGTCATACAATTAAATGGATC
66 GAGAAGAACTTGTTCGAAACTCGACACATAC-GTCACACAAGGAGATGGATC
*
81340 AACATTTCAGAAGAAGGGTTCGTAATGGGAAGAACTCATTCAACGAGGAAGAAGAAGTTCATAAT
1 AACATTTCAGAAGAAGGGTTCGTAATGAGAAGAACTCATTCAACGAGGAAGAAGAAGTTCATAAT
* * * *
81405 GAGAAGAACTTGTTTGAAACTCGGCACAT-CTCTCGCACAAGGAGATGGATC
66 GAGAAGAACTTGTTCGAAACTCGACACATAC-GTCACACAAGGAGATGGATC
*
81456 AACATTTCAGAAG-AGGAGTTCGTAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAA
1 AACATTTCAGAAGAAGG-GTTCGTAATGAGAAGAACTCATTCAACGAGGAAGAAGAAGTTCATAA
** * * *
81520 CAATAAGAACTTGTTCTG-AACTTGACACATACGTCACACAAAGAGATGGATC
65 TGAGAAGAACTTGTTC-GAAACTCGACACATACGTCACACAAGGAGATGGATC
* * ** ** * *
81572 AACATTTCTGAAGAAGGGTTCGTAATGAGAAAAACTCACCCAGTGAGGAAGAAGGAGTCCATAAT
1 AACATTTCAGAAGAAGGGTTCGTAATGAGAAGAACTCATTCAACGAGGAAGAAGAAGTTCATAAT
* * * *
81637 GCGAAGAACTTGTTCGAAACTCAACACATACATCACACAAGGAGATAGA-C
66 GAGAAGAACTTGTTCGAAACTCGACACATACGTCACACAAGGAGATGGATC
* ** * *
81687 TAACATTTC-GAAAAAAGATTTCATAATGAGAAGAACTCATTCGACGA
1 -AACATTTCAG-AAGAAGGGTTCGTAATGAGAAGAACTCATTCAACGA
81734 AGGGTTCGTA
Statistics
Matches: 327, Mismatches: 55, Indels: 19
0.82 0.14 0.05
Matches are distributed among these distances:
111 34 0.10
112 1 0.00
115 8 0.02
116 279 0.85
117 5 0.02
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (116 bp):
AACATTTCAGAAGAAGGGTTCGTAATGAGAAGAACTCATTCAACGAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCGAAACTCGACACATACGTCACACAAGGAGATGGATC
Found at i:81929 original size:106 final size:106
Alignment explanation
Indices: 81737--81969 Score: 342
Period size: 106 Copynumber: 2.2 Consensus size: 106
81727 TCGACGAAGG
*
81737 GTTCGTAATGAGAAGAACTCATCCAACAATGGAGAAAAAGTTCGTAATGAGAATAGCTTGTTCAA
1 GTTCGTAATGAGAAGAACTCATCCAACAATGGAGAAAAAGTTCATAATGAGAATAGCTTGTTCAA
** *
81802 CCTGGAATCGTCCATTGCACAAGAAGGTGGATAAATAAAGA
66 CCTGGAATCGTCCATCACACAAGAAGGTGGATAAACAAAGA
* *
81843 GTTCATAATGAGAAGAACTCATCCAACAA-GGAAGAAGAAGTTCATAATGAGAATAGCTTGTTCA
1 GTTCGTAATGAGAAGAACTCATCCAACAATGG-AGAAAAAGTTCATAATGAGAATAGCTTGTTCA
* * ** * *
81907 ACCTGGGATTGTCTGTCACACAAGGAGGTGGATTAACAAAGA
65 ACCTGGAATCGTCCATCACACAAGAAGGTGGATAAACAAAGA
81949 GTTCGTAATGAGAAGAACTCA
1 GTTCGTAATGAGAAGAACTCA
81970 CAAGGAATAA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 2 0.02
106 111 0.98
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (106 bp):
GTTCGTAATGAGAAGAACTCATCCAACAATGGAGAAAAAGTTCATAATGAGAATAGCTTGTTCAA
CCTGGAATCGTCCATCACACAAGAAGGTGGATAAACAAAGA
Found at i:83950 original size:18 final size:18
Alignment explanation
Indices: 83917--83968 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
83907 TTATATCTAT
*
83917 TCTTTTAAATTGTTTTAA
1 TCTTTTAAATTATTTTAA
*
83935 TCTTTTAATTTATTTT-A
1 TCTTTTAAATTATTTTAA
83952 T-TTCCTTAAATTATTTT
1 TCTT--TTAAATTATTTT
83969 CTTTTTAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 25 0.86
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (18 bp):
TCTTTTAAATTATTTTAA
Found at i:84323 original size:29 final size:28
Alignment explanation
Indices: 84287--84382 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 28
84277 CTAGCATTAT
84287 ATTTTTACACTTAGGACCCTAAACTTTAG
1 ATTTTTACACTTAGG-CCCTAAACTTTAG
* * *
84316 ATTTTTACACATAGGCCCTTAGACTTTTG
1 ATTTTTACACTTAGGCCC-TAAACTTTAG
* *
84345 ATCTTTTACACTTTAGTCCCTATACTTTAG
1 AT-TTTTACAC-TTAGGCCCTAAACTTTAG
84375 ATTTTTAC
1 ATTTTTAC
84383 CATTTGAGTC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 3 0.05
29 30 0.53
30 18 0.32
31 6 0.11
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (28 bp):
ATTTTTACACTTAGGCCCTAAACTTTAG
Found at i:84393 original size:30 final size:29
Alignment explanation
Indices: 84303--84393 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 29
84293 ACACTTAGGA
*
84303 CCCTAAACTTTAGATTTTTACACA--TAGG
1 CCCTAAACTTTAGATTTTTAC-CATTTAGT
* *
84331 CCCTTAGACTTTTGATCTTTTA-CACTTTAGT
1 CCC-TAAACTTTAGAT-TTTTACCA-TTTAGT
*
84362 CCCTATACTTTAGATTTTTACCATTTGAGT
1 CCCTAAACTTTAGATTTTTACCATTT-AGT
84392 CC
1 CC
84394 TTTAATTAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
28 5 0.10
29 18 0.35
30 22 0.43
31 6 0.12
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.43
Consensus pattern (29 bp):
CCCTAAACTTTAGATTTTTACCATTTAGT
Found at i:88750 original size:46 final size:46
Alignment explanation
Indices: 88683--88779 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
88673 GGTAATTGGA
*
88683 AATGGAGTTGATTTGGAAGCAAAGCGACTAACAACTTGTGCACAAC
1 AATGGAGTTGATTTGGAAGCAAAGCGACCAACAACTTGTGCACAAC
* * *
88729 AATGGAGTTGATTTGGAAGCAAAGTGGCCAACAACTTGTGTACAAC
1 AATGGAGTTGATTTGGAAGCAAAGCGACCAACAACTTGTGCACAAC
88775 AATGG
1 AATGG
88780 CAGAATTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (46 bp):
AATGGAGTTGATTTGGAAGCAAAGCGACCAACAACTTGTGCACAAC
Found at i:97774 original size:21 final size:20
Alignment explanation
Indices: 97729--97779 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
97719 CTGGCCCATC
* * *
97729 TGTTAATTTTATAATCTTTA
1 TGTTATTTTTATAATATCTA
97749 T-TTATTTTTATATATATCTA
1 TGTTATTTTTATA-ATATCTA
*
97769 TGTTATATTTA
1 TGTTATTTTTA
97780 AAAGTCTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (20 bp):
TGTTATTTTTATAATATCTA
Found at i:98282 original size:5 final size:5
Alignment explanation
Indices: 98272--98461 Score: 302
Period size: 5 Copynumber: 38.4 Consensus size: 5
98262 GACAACCAAA
98272 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
98322 ATATT ATATT ATATT A-ATAT ATATT ATATT ATATT -TATT ATATT ATA-T
1 ATATT ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT
98370 ATATT ATATT ATATT -TATAT ATTATT ATATT ATATT AT-TAT ATATT
1 ATATT ATATT ATATT ATAT-T A-TATT ATATT ATATT ATAT-T ATATT
98416 -TATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
98462 GAAATAAAAG
Statistics
Matches: 175, Mismatches: 0, Indels: 20
0.90 0.00 0.10
Matches are distributed among these distances:
4 18 0.10
5 149 0.85
6 5 0.03
7 3 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:100539 original size:2 final size:2
Alignment explanation
Indices: 100534--100595 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
100524 TGTAAAAGTG
100534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100576 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
100596 TTATCATAGC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102500 original size:53 final size:50
Alignment explanation
Indices: 102439--102537 Score: 137
Period size: 50 Copynumber: 1.9 Consensus size: 50
102429 TTAATTTACT
*
102439 AAATATTTTTTATTTTT-ATTTAAAAATATATATTATTATTATCTTCAATAAAA
1 AAATA-TTTTAATTTTTAATTT--AAATATAT-TTATTATTATCTTCAATAAAA
*
102492 AAATATTTTAATTTTTAATTTAAATATATTTATTCTTATCTTCAAT
1 AAATATTTTAATTTTTAATTTAAATATATTTATTATTATCTTCAAT
102538 TACAAATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 16 0.37
51 8 0.19
52 10 0.23
53 9 0.21
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (50 bp):
AAATATTTTAATTTTTAATTTAAATATATTTATTATTATCTTCAATAAAA
Found at i:102501 original size:51 final size:50
Alignment explanation
Indices: 102446--102556 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 50
102436 ACTAAATATT
102446 TTTTATTTTT-ATTTAAAAATATATATTATTATTATCTTCAA-TAAAAAAATA
1 TTTTATTTTTAATTT--AAATATAT-TTATTATTATCTTCAATTAAAAAAATA
* * *
102497 TTTTAATTTTTAATTTAAATATATTTATTCTTATCTTCAATTACAAATATA
1 TTTT-ATTTTTAATTTAAATATATTTATTATTATCTTCAATTAAAAAAATA
102548 TCTTTATTT
1 T-TTTATTT
102557 CTTTTGATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
50 15 0.28
51 25 0.47
52 9 0.17
53 4 0.08
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (50 bp):
TTTTATTTTTAATTTAAATATATTTATTATTATCTTCAATTAAAAAAATA
Found at i:102612 original size:17 final size:16
Alignment explanation
Indices: 102580--102630 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
102570 AATTCTTGTT
102580 TTAACTTAAATATATA
1 TTAACTTAAATATATA
*
102596 TTAACTTAAAATGTATA
1 TTAACTT-AAATATATA
***
102613 TTTTTTTAAATATATA
1 TTAACTTAAATATATA
102629 TT
1 TT
102631 TTATTCTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (16 bp):
TTAACTTAAATATATA
Found at i:102690 original size:29 final size:29
Alignment explanation
Indices: 102658--102756 Score: 113
Period size: 29 Copynumber: 3.6 Consensus size: 29
102648 TTAATTTTTT
102658 TTTTATTTTTATCTTAACTAAAAAATATA
1 TTTTATTTTTATCTTAACTAAAAAATATA
* *
102687 TTTTAATTTTATTTTAACTACAAAAAT-TA
1 TTTTATTTTTATCTTAACTA-AAAAATATA
102716 ---TA-TTTT-T-TTAACTAAAAATATATA
1 TTTTATTTTTATCTTAACTAAAAA-ATATA
102740 TTTTATTTTTATCTTAA
1 TTTTATTTTTATCTTAA
102757 TTTTAAAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
22 4 0.07
23 9 0.15
24 3 0.05
25 4 0.07
26 2 0.03
27 2 0.03
28 4 0.07
29 21 0.36
30 10 0.17
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTTATTTTTATCTTAACTAAAAAATATA
Found at i:102834 original size:29 final size:30
Alignment explanation
Indices: 102796--102857 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
102786 ATATTTAAGG
102796 TAAGAATAAAATATATTGTAAAGTTAA-AA
1 TAAGAATAAAATATATTGTAAAGTTAAGAA
* * *
102825 TAAGACTAAAATATATTTTTAAGTTAAGAA
1 TAAGAATAAAATATATTGTAAAGTTAAGAA
102855 TAA
1 TAA
102858 ATTATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.34
Consensus pattern (30 bp):
TAAGAATAAAATATATTGTAAAGTTAAGAA
Found at i:102888 original size:53 final size:54
Alignment explanation
Indices: 102768--102905 Score: 147
Period size: 53 Copynumber: 2.5 Consensus size: 54
102758 TTTAAAATAT
* *
102768 TATAAGAATAAAATATAAATATTTAAGGTAAGAATAAAATATATTGTAAAGTTAA
1 TATAAGAATAAAATAT-AATTTTTAAGTTAAGAATAAAATATATTGTAAAGTTAA
* * * *
102823 AATAAGACTAAAATAT-ATTTTTAAGTTAAGAATAAATTATATT-TAATAATTTAA
1 TATAAGAATAAAATATAATTTTTAAGTTAAGAATAAAATATATTGT-A-AAGTTAA
**
102877 TATAA-AATAAAATATGCTTTTTAATGTTA
1 TATAAGAATAAAATATAATTTTTAA-GTTA
102906 GGATGTGTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
52 1 0.01
53 34 0.49
54 17 0.24
55 18 0.26
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.38
Consensus pattern (54 bp):
TATAAGAATAAAATATAATTTTTAAGTTAAGAATAAAATATATTGTAAAGTTAA
Done.