Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 83 of 163
Found at i:27144302 original size:33 final size:32
Alignment explanation
Indices: 27144231--27144309 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
27144221 GAGGAATGCC
27144231 ATACTGCAGTGGATATGACCTAGGAGGAGTGG
1 ATACTGCAGTGGATATGACCTAGGAGGAGTGG
*
27144263 AGTACTGCAGTGGAT-TCAGACC-AGGAGGAGTGTT
1 A-TACTGCAGTGGATAT--GACCTAGGAGGAGTG-G
*
27144297 ATACTGCGGTGGA
1 ATACTGCAGTGGA
27144310 ACAACCCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.05
33 34 0.83
34 5 0.12
ACGTcount: A:0.27, C:0.14, G:0.37, T:0.23
Consensus pattern (32 bp):
ATACTGCAGTGGATATGACCTAGGAGGAGTGG
Found at i:27146999 original size:43 final size:45
Alignment explanation
Indices: 27146935--27147021 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 45
27146925 ATAAATTTAA
* *
27146935 AAATTAAATCTGAATTAAATCAA-TAA-TAATAACAACAAAAAAC
1 AAATTAAATATGAATTAAATCAATTAATTAATAACAAAAAAAAAC
* *
27146978 AAATTAAATATTATATT-AATCAATTAATTTATAACAAAAAAAAA
1 AAATTAAATATGA-ATTAAATCAATTAATTAATAACAAAAAAAAA
27147022 TTACTTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 17 0.46
44 6 0.16
45 14 0.38
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.29
Consensus pattern (45 bp):
AAATTAAATATGAATTAAATCAATTAATTAATAACAAAAAAAAAC
Found at i:27147157 original size:22 final size:22
Alignment explanation
Indices: 27147129--27147171 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27147119 TCTCCTTCTC
27147129 TTTTTTCTTCTT-CTTCTCTTTT
1 TTTTTTCTT-TTCCTTCTCTTTT
27147151 TTTTTTCTTTTCCTTCTCTTT
1 TTTTTTCTTTTCCTTCTCTTT
27147172 CTTCCCCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTCTTTTCCTTCTCTTTT
Found at i:27150840 original size:40 final size:40
Alignment explanation
Indices: 27150774--27150927 Score: 170
Period size: 40 Copynumber: 3.8 Consensus size: 40
27150764 AGCGGCATTT
*
27150774 TTAGCGGCG-TTTGGACAAAAAACGCCGCTAAAAATCGAGCA
1 TTAGCGGCGCTTT-TAC-AAAAACGCCGCTAAAAATCGAGCA
* * *
27150815 TTAGCGGCGC-TTTACGTAAAACGCCGCTAAAGATCCAGCA
1 TTAGCGGCGCTTTTAC-AAAAACGCCGCTAAAAATCGAGCA
*
27150855 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAAT-GAGCA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAATCGAGCA
* * * *
27150894 ATAGCGGCGTTTTTCCAAAAAACGCCGCAAAAAA
1 TTAGCGGCGCTTTTAC-AAAAACGCCGCTAAAAA
27150928 CCCTAAGCCC
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 17 0.18
40 65 0.67
41 15 0.15
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAATCGAGCA
Found at i:27151040 original size:41 final size:41
Alignment explanation
Indices: 27150965--27151158 Score: 273
Period size: 41 Copynumber: 4.7 Consensus size: 41
27150955 CCTTTCGGGG
** *
27150965 CTTTAGCGGCGTTTTTAAAAAAAGTGCCGCTAATGCTCA-TAT
1 CTTTAGCGGCGTTTTT-GGAAAAGCGCCGCTAATGCTCAGT-T
* *
27151007 TTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTCAGTT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
*
27151048 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGTT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
* * * *
27151089 GTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
27151130 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
27151159 AAAAACATTT
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 122 0.88
42 16 0.12
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGTT
Found at i:27151303 original size:26 final size:26
Alignment explanation
Indices: 27151255--27151305 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
27151245 AAAATGGATA
** *
27151255 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACGTAGAAAT
*
27151281 AATTTGAAATAAAAAAACTTAGAAA
1 AATTTGAAATAAAAAAACGTAGAAA
27151306 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACGTAGAAAT
Found at i:27151575 original size:14 final size:15
Alignment explanation
Indices: 27151547--27151579 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
27151537 AAGGTTTATA
27151547 GATTATGGAATTAGG
1 GATTATGGAATTAGG
27151562 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
27151576 GATT
1 GATT
27151580 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:27151616 original size:7 final size:7
Alignment explanation
Indices: 27151606--27151639 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
27151596 GATTTAATGT
27151606 TTAGGGG
1 TTAGGGG
27151613 TTAGGGG
1 TTAGGGG
27151620 TTAGGGG
1 TTAGGGG
* *
27151627 TTAAGAG
1 TTAGGGG
27151634 TTAGGG
1 TTAGGG
27151640 ATTTAAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:27151666 original size:22 final size:22
Alignment explanation
Indices: 27151647--27151697 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
27151637 GGGATTTAAG
*
27151647 GTTTAGAG-TTTAGAGGTTTAGG
1 GTTTAGAGTTTTAGA-GTTTAGA
*
27151669 GTTTAGGGTTTTAGAGTTTAGA
1 GTTTAGAGTTTTAGAGTTTAGA
27151691 GTTTAGA
1 GTTTAGA
27151698 TTAATTAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (22 bp):
GTTTAGAGTTTTAGAGTTTAGA
Found at i:27151681 original size:15 final size:14
Alignment explanation
Indices: 27151641--27151697 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 14
27151631 GAGTTAGGGA
*
27151641 TTTAAGGTTTAGAG
1 TTTAGGGTTTAGAG
*
27151655 TTTAGAGGTTTAGGG
1 TTTAG-GGTTTAGAG
27151670 TTTAGGGTTTTAGAG
1 TTTAGGG-TTTAGAG
*
27151685 TTTAGAGTTTAGA
1 TTTAGGGTTTAGA
27151698 TTAATTAGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.32
15 25 0.68
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTAGAG
Found at i:27151688 original size:7 final size:7
Alignment explanation
Indices: 27151647--27151697 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
27151637 GGGATTTAAG
27151647 GTTTAGA
1 GTTTAGA
27151654 GTTTAGA
1 GTTTAGA
*
27151661 GGTTTAGG
1 -GTTTAGA
*
27151669 GTTTAGG
1 GTTTAGA
27151676 GTTTTAGA
1 G-TTTAGA
27151684 GTTTAGA
1 GTTTAGA
27151691 GTTTAGA
1 GTTTAGA
27151698 TTAATTAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 28 0.70
8 12 0.30
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (7 bp):
GTTTAGA
Found at i:27151769 original size:63 final size:63
Alignment explanation
Indices: 27151692--27151816 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
27151682 GAGTTTAGAG
* *
27151692 TTTAGATTAATTAGTGTGTT-TTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGTTAGGA
1 TTTAGATTAATTAGTGT-TTCTTAATTTATATATTAAATAAGGTTTAGGAGTTAGGGGTTAGGA
* * *
27151755 TTTAGATTAATTAGTGTTTCTTAATTTATATGTTAAATAAGGTTTATGAGTTAGTGGTTAGG
1 TTTAGATTAATTAGTGTTTCTTAATTTATATATTAAATAAGGTTTAGGAGTTAGGGGTTAGG
27151817 GGTTTAGGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 2 0.04
63 54 0.96
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (63 bp):
TTTAGATTAATTAGTGTTTCTTAATTTATATATTAAATAAGGTTTAGGAGTTAGGGGTTAGGA
Found at i:27152647 original size:28 final size:29
Alignment explanation
Indices: 27152604--27152661 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
27152594 AAAAAATAAT
*
27152604 AATAAATGTTTTATAAAATCACTTAACTA
1 AATAAATGATTTATAAAATCACTTAACTA
27152633 AATAAAT-ATTTATAAAATCACTTAACTA
1 AATAAATGATTTATAAAATCACTTAACTA
27152661 A
1 A
27152662 TAATTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAATGATTTATAAAATCACTTAACTA
Found at i:27154801 original size:43 final size:43
Alignment explanation
Indices: 27154725--27154966 Score: 285
Period size: 43 Copynumber: 5.7 Consensus size: 43
27154715 AAGTTATGTT
* *
27154725 TTTAGCGGCGTTTGTGAA-A-AAACGTCGCTAAAGGTCCTGATC
1 TTTAGCGGCGTTTGT-AAGAGAAGCGCCGCTAAAGGTCCTGATC
* * * *
27154767 TTTAGCGGCATTTATAAGAAAAGCGCCGCTAAAGGTCTTGATC
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCCTGATC
* * * * *
27154810 TTTAGCAGCGTTTGTGAGGGAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCCTGATC
* *
27154853 TTTAGCGGCGTTTGTAGGAGAAGCGCCGCTAAAGG-CCTTGCTC
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCC-TGATC
* *
27154896 TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGG-CCTTGCTC
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCC-TGATC
*
27154939 TTTAGCGGCGTTTGTGAGAGAAGCGCCG
1 TTTAGCGGCGTTTGTAAGAGAAGCGCCG
27154967 AAAATAAATC
Statistics
Matches: 177, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.01
42 15 0.08
43 160 0.90
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCCTGATC
Found at i:27154855 original size:86 final size:86
Alignment explanation
Indices: 27154725--27154966 Score: 324
Period size: 86 Copynumber: 2.8 Consensus size: 86
27154715 AAGTTATGTT
* * * * * * * *
27154725 TTTAGCGGCGTTTGTGA-AAAAACGTCGCTAAAGGTCCTGATCTTTAGCGGCATTTATAAGAAAA
1 TTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTAAGAGAA
*
27154789 GCGCCGCTAAAGGTCTTGATC
66 GCGCCGCTAAAGGCCTTGATC
* * *
27154810 TTTAGCAGCGTTTGTGAGGGAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAGAA
1 TTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTAAGAGAA
*
27154875 GCGCCGCTAAAGGCCTTGCTC
66 GCGCCGCTAAAGGCCTTGATC
* * * *
27154896 TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGCCTTGCTCTTTAGCGGCGTTTGTGAGAGAA
1 TTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTAAGAGAA
27154961 GCGCCG
66 GCGCCG
27154967 AAAATAAATC
Statistics
Matches: 137, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
85 16 0.12
86 121 0.88
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (86 bp):
TTTAGCAGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTAAGAGAA
GCGCCGCTAAAGGCCTTGATC
Found at i:27158546 original size:20 final size:21
Alignment explanation
Indices: 27158498--27158550 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
27158488 ACCATTGTTT
*
27158498 CTAATCTCACCGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
27158519 CCAATCTCACCGCTACA-TAA
1 CTAATCTCACCGCTACAGTAA
27158539 CTAATCTCACCG
1 CTAATCTCACCG
27158551 TCACCGCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.30, C:0.38, G:0.08, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:27159630 original size:54 final size:54
Alignment explanation
Indices: 27159566--27159669 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
27159556 CTGTTATTAG
* *
27159566 ATATCGATTATATTGTAATAGGATTTGGATTATATTTTGTCTTTATTTAATTCA
1 ATATCAATTATACTGTAATAGGATTTGGATTATATTTTGTCTTTATTTAATTCA
* * *
27159620 ATATCAATTATACTGTACTAGGATTTTGATTATATTTTTTCTTTATTTAA
1 ATATCAATTATACTGTAATAGGATTTGGATTATATTTTGTCTTTATTTAA
27159670 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.53
Consensus pattern (54 bp):
ATATCAATTATACTGTAATAGGATTTGGATTATATTTTGTCTTTATTTAATTCA
Found at i:27160876 original size:17 final size:17
Alignment explanation
Indices: 27160848--27160893 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
27160838 AAAAATATAA
* *
27160848 AAAATTATAAAATTTTTT
1 AAAATTA-AAAACTCTTT
27160866 AAAATTAAAAACTCTTT
1 AAAATTAAAAACTCTTT
27160883 AAAATTAAAAA
1 AAAATTAAAAA
27160894 ATAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTAAAAACTCTTT
Found at i:27173232 original size:112 final size:114
Alignment explanation
Indices: 27173073--27173277 Score: 315
Period size: 113 Copynumber: 1.8 Consensus size: 114
27173063 CGCTAAATCT
* * * *
27173073 CTTAACCAAAACGCTGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGCGTTTA-CGCAAAACG
1 CTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTATCTTAAAAGTAGTGGCGTTTATAGCAAAACG
27173137 CCGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAAACGCCGCAAAATAG
66 CCGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAAACGCCGCAAAATAG
* * * *
27173186 CTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCGTTTATAGGAAAACG
1 CTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTATCTTAAAAGTAGTGGCGTTTATAGCAAAACG
*
27173250 CCGTTAAAGTACAGTAATAGCGGCGCTT
66 CCGTTAAAGGACAGTAATAGCGGCGCTT
27173278 CACGGAAGCG
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 32 0.39
113 50 0.61
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (114 bp):
CTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTATCTTAAAAGTAGTGGCGTTTATAGCAAAACG
CCGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAAACGCCGCAAAATAG
Found at i:27173290 original size:113 final size:113
Alignment explanation
Indices: 27173059--27173294 Score: 312
Period size: 113 Copynumber: 2.1 Consensus size: 113
27173049 TTACCACAAT
* ** * * *
27173059 GCGCCGCTAAATCTCTTAACCAAAACGCTGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGCG
1 GCGCCGCAAAATAGCTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTATCTTAAAAGTAGTGGCG
* ***
27173124 TTTACGCAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAA
66 TTTAAGCAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTCACGGAA
* * * *
27173172 ACGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCG
1 GCGCCGCAAAATAGCTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTATCTTAAAAGTAGTGGCG
* *
27173236 TTTATAGGAAAACGCCGTTAAAGTACAGTAATAGCGGCGCTTCACGGAA
66 TTTA-AGCAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTCACGGAA
27173285 GCGCCGCAAA
1 GCGCCGCAAA
27173295 CTATCTGAAC
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
112 32 0.30
113 73 0.70
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (113 bp):
GCGCCGCAAAATAGCTTAACCAAAACGCAGAGTTTTCGTCTTGAGGTATCTTAAAAGTAGTGGCG
TTTAAGCAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTCACGGAA
Found at i:27173799 original size:115 final size:113
Alignment explanation
Indices: 27173533--27173800 Score: 277
Period size: 115 Copynumber: 2.3 Consensus size: 113
27173523 TTCGGCCTCG
* * * * *
27173533 ATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGCTTGGA
1 ATGTATACTAAAATTAGTGGCGCTTTGTGAAACGCCGCTAAAGCATAGTATTAGCGGCGATTGGA
* * * *
27173598 TAAAAGCGCCACCAAATATCTGAACCAAAACGCATCGTTTTGGTCTTG
66 TAAAAGCGCCACCAAATACCTGAAACAAAACGCAACGTTTTGGTCTTA
** * * * *
27173646 ATGTATACTTGATTTAGTGGCGATTTCGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTT
1 ATGTATACTAAAATTAGTGGCGCTTT--GTGAAACGCCGCTAAAGCATAGTATTAGCGGCGATTG
* *** * * *
27173711 GTTGCTAGCGCCGCGACATACCAT-AAACAAAACGCAACGTTTTGGTCTTA
64 GATAAAAGCGCCACCAAATACC-TGAAACAAAACGCAACGTTTTGGTCTTA
*
27173761 ATTTATACTAAAATTAGTGGCGCTTTGTTGAAAGCGCCGC
1 ATGTATACTAAAATTAGTGGCGCTTTG-TGAAA-CGCCGC
27173801 AAAATATCTT
Statistics
Matches: 124, Mismatches: 26, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
113 22 0.18
114 4 0.03
115 97 0.78
116 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (113 bp):
ATGTATACTAAAATTAGTGGCGCTTTGTGAAACGCCGCTAAAGCATAGTATTAGCGGCGATTGGA
TAAAAGCGCCACCAAATACCTGAAACAAAACGCAACGTTTTGGTCTTA
Found at i:27183112 original size:21 final size:21
Alignment explanation
Indices: 27183087--27183154 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
27183077 CAGCAACTTA
* *
27183087 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
* * *
27183108 AAGCAGCGGCTACAACGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
*
27183129 AAGCAAAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
27183150 AAGCA
1 AAGCA
27183155 ACGAGAGAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.40, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:27183158 original size:33 final size:33
Alignment explanation
Indices: 27183120--27183233 Score: 142
Period size: 33 Copynumber: 3.5 Consensus size: 33
27183110 GCAGCGGCTA
* *
27183120 CAACGAGAGAAGCAAAGGCTGCAGCGAGAGAAG
1 CAACGAGAGAAGCAGAGGCAGCAGCGAGAGAAG
*
27183153 CAACGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
1 CAACGAGAGAAGCAGAGGCAGCAGCGAGAGAAG
* * *
27183186 CAGCGAGAGCAGC-GAGAGAAGCAGC-AGGAGAAG
1 CAACGAGAGAAGCAGAG-GCAGCAGCGA-GAGAAG
27183219 CAACGAGAGAAGCAG
1 CAACGAGAGAAGCAG
27183234 CGATTGAAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
32 4 0.06
33 65 0.93
34 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.39, T:0.01
Consensus pattern (33 bp):
CAACGAGAGAAGCAGAGGCAGCAGCGAGAGAAG
Found at i:27183161 original size:12 final size:12
Alignment explanation
Indices: 27183144--27183232 Score: 66
Period size: 12 Copynumber: 7.9 Consensus size: 12
27183134 AAGGCTGCAG
27183144 CGAGAGAAGCAA
1 CGAGAGAAGCAA
27183156 CGAGAGAAGC-A
1 CGAGAGAAGCAA
** *
27183167 -GAG-GCCGCAG
1 CGAGAGAAGCAA
27183177 CGAGAGAAGC-A
1 CGAGAGAAGCAA
* *
27183188 -GCGAG-AGCAG
1 CGAGAGAAGCAA
*
27183198 CGAGAGAAGCAG
1 CGAGAGAAGCAA
27183210 C-AGGAGAAGCAA
1 CGA-GAGAAGCAA
27183222 CGAGAGAAGCA
1 CGAGAGAAGCA
27183233 GCGATTGAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
9 6 0.10
10 7 0.12
11 9 0.15
12 36 0.61
13 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.39, T:0.00
Consensus pattern (12 bp):
CGAGAGAAGCAA
Found at i:27183244 original size:24 final size:22
Alignment explanation
Indices: 27183147--27183236 Score: 103
Period size: 21 Copynumber: 4.1 Consensus size: 22
27183137 GCTGCAGCGA
*
27183147 GAGAAGCAACGAGAGAAGCAGA
1 GAGAAGCAACGAGAGAAGCAGC
** *
27183169 G-GCCGCAGCGAGAGAAGCAGC
1 GAGAAGCAACGAGAGAAGCAGC
*
27183190 GAG-AGCAGCGAGAGAAGCAGC
1 GAGAAGCAACGAGAGAAGCAGC
27183211 AGGAGAAGCAACGAGAGAAGCAGC
1 --GAGAAGCAACGAGAGAAGCAGC
27183235 GA
1 GA
27183237 TTGAAGCAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
21 34 0.59
22 4 0.07
23 3 0.05
24 17 0.29
ACGTcount: A:0.41, C:0.19, G:0.40, T:0.00
Consensus pattern (22 bp):
GAGAAGCAACGAGAGAAGCAGC
Found at i:27183534 original size:15 final size:15
Alignment explanation
Indices: 27183514--27183547 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27183504 ATTTATTGTT
*
27183514 TTTGGTTAGTTTAGA
1 TTTGGTTACTTTAGA
*
27183529 TTTGGTTACTTTTGA
1 TTTGGTTACTTTAGA
27183544 TTTG
1 TTTG
27183548 CTGTTGCAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.24, T:0.59
Consensus pattern (15 bp):
TTTGGTTACTTTAGA
Found at i:27183724 original size:42 final size:43
Alignment explanation
Indices: 27183652--27183740 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 43
27183642 TCAAAACAGT
* *
27183652 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
* * *
27183695 GGCGTTT-TTAAACAAGCGCCGCTATAGAACATTACTTTTAGA
1 GGCGTTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
27183737 GGCG
1 GGCG
27183741 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 34 0.83
43 7 0.17
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:27183906 original size:42 final size:42
Alignment explanation
Indices: 27183847--27184030 Score: 259
Period size: 42 Copynumber: 4.3 Consensus size: 42
27183837 NNNNNNNNNN
27183847 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-TTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CT
*
27183889 AAGCGCCGCTAAAGAACATGATCTTTAAG-GGCGTTTCTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTT-AGCGGCGTTTTTTTCT
27183931 AAGCGCGCCGCTAAAG--CATGATCTTTAGCGGCGTTTTTTTCT
1 AA--GCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
*
27183973 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT-TCT
*
27184017 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
27184031 TTAGTGACGT
Statistics
Matches: 129, Mismatches: 4, Indels: 16
0.87 0.03 0.11
Matches are distributed among these distances:
40 12 0.09
41 2 0.02
42 74 0.57
43 14 0.11
44 27 0.21
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
Found at i:27184138 original size:22 final size:22
Alignment explanation
Indices: 27184102--27184144 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27184092 TAGTGGCGTT
*
27184102 AAAAAACGCCACTAAAGACCTA
1 AAAAAACGCCACTAAAAACCTA
* *
27184124 AAAAAACGTCGCTAAAAACCT
1 AAAAAACGCCACTAAAAACCT
27184145 GTTCTGCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.26, G:0.09, T:0.12
Consensus pattern (22 bp):
AAAAAACGCCACTAAAAACCTA
Found at i:27184663 original size:30 final size:28
Alignment explanation
Indices: 27184624--27184700 Score: 73
Period size: 33 Copynumber: 2.6 Consensus size: 28
27184614 GTTTTTCAAT
* *
27184624 TTTTGAGGGCCCAAAAAAACTTTTACCAAC
1 TTTTAAGGGCCCAAAAAAAATTTTA--AAC
*
27184654 TTTTAAGGGCCCCCCAAAAAAAATTTTAAGC
1 TTTTAAGGG---CCCAAAAAAAATTTTAAAC
*
27184685 TTTTAAAGGCCCAAAA
1 TTTTAAGGGCCCAAAA
27184701 TTCTTTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 7 0.17
30 8 0.20
31 10 0.25
33 15 0.38
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (28 bp):
TTTTAAGGGCCCAAAAAAAATTTTAAAC
Found at i:27184688 original size:31 final size:32
Alignment explanation
Indices: 27184633--27184696 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
27184623 TTTTTGAGGG
* *
27184633 CCCAAAAAAACTTTTACCAACTTTTAAGGGCCC
1 CCCAAAAAAAATTTTA-CAACTTTTAAAGGCCC
*
27184666 CCCAAAAAAAATTTTA-AGCTTTTAAAGGCCC
1 CCCAAAAAAAATTTTACAACTTTTAAAGGCCC
27184697 AAAATTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
33 15 0.54
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (32 bp):
CCCAAAAAAAATTTTACAACTTTTAAAGGCCC
Found at i:27188642 original size:32 final size:34
Alignment explanation
Indices: 27188606--27188671 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
27188596 TGCTTAGCAA
* *
27188606 ATGCATATACCTATTG-CATATATAT-TTAATAT
1 ATGCATATACCGAATGACATATATATATTAATAT
27188638 ATGCATATACCGAATGCACATATATATATTAATA
1 ATGCATATACCGAATG-ACATATATATATTAATA
27188672 ATTGCTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
34 9 0.31
35 6 0.21
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (34 bp):
ATGCATATACCGAATGACATATATATATTAATAT
Found at i:27188685 original size:35 final size:34
Alignment explanation
Indices: 27188622--27188687 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
27188612 ATACCTATTG
*
27188622 CATATATATTTAATATATGCATATACCGAATGCA
1 CATATATATTTAATATATGCATAGACCGAATGCA
*
27188656 CATATATATATTAATA-ATTGCTTAGACCGAAT
1 CATATATAT-TTAATATA-TGCATAGACCGAAT
27188688 ATATATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (34 bp):
CATATATATTTAATATATGCATAGACCGAATGCA
Found at i:27188985 original size:41 final size:41
Alignment explanation
Indices: 27188900--27189039 Score: 140
Period size: 41 Copynumber: 3.4 Consensus size: 41
27188890 TGATTCGGTA
* * * *
27188900 CACCGGCTTTTAGCCTGTTAGACTTATTGTCTG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAAT-T-T
27188941 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
* * * * *
27188982 CACCGACATCAAGCCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
* * *
27189023 CACTGGCAATAAACCTG
1 CACCGGCATTAAGCCTG
27189040 ATAGGCACTG
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 78 0.94
42 2 0.02
43 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
Found at i:27193999 original size:25 final size:25
Alignment explanation
Indices: 27193965--27194017 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
27193955 AAATTCTTAG
27193965 TAATTTCAAATGGAAAACATTATAC
1 TAATTTCAAATGGAAAACATTATAC
*
27193990 TAATTTCAAATGGAAAACATTGTAC
1 TAATTTCAAATGGAAAACATTATAC
27194015 TAA
1 TAA
27194018 CCTTGTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (25 bp):
TAATTTCAAATGGAAAACATTATAC
Found at i:27199391 original size:58 final size:59
Alignment explanation
Indices: 27199321--27199435 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 59
27199311 ACTTTACTCG
* * *
27199321 TTAAATCTAAAAATTTCATTAAAAATGTATTAAATAATTTAAT-AAAAATATTTATTCC
1 TTAAATCTAAAAATTCCACTAAAAATGTATTAAATAATCTAATAAAAAATATTTATTCC
* *
27199379 TTAAATCTAAAAATTCCACTAACAATGTATTAAATAATCTAATAAAAAATGTTTATT
1 TTAAATCTAAAAATTCCACTAAAAATGTATTAAATAATCTAATAAAAAATATTTATT
27199436 AGAAAAAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 39 0.76
59 12 0.24
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (59 bp):
TTAAATCTAAAAATTCCACTAAAAATGTATTAAATAATCTAATAAAAAATATTTATTCC
Found at i:27200743 original size:24 final size:25
Alignment explanation
Indices: 27200711--27200757 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
27200701 AAGAAAGTCA
*
27200711 AAAGCAAAACGA-AACAGAAAGAAAG
1 AAAGCAAAAAGAGAA-AGAAAGAAAG
27200736 AAAG-AAAAAGAGAAAGAAAGAA
1 AAAGCAAAAAGAGAAAGAAAGAA
27200758 GAACGCACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.72, C:0.06, G:0.21, T:0.00
Consensus pattern (25 bp):
AAAGCAAAAAGAGAAAGAAAGAAAG
Found at i:27200749 original size:12 final size:13
Alignment explanation
Indices: 27200726--27200759 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
27200716 AAAACGAAAC
27200726 AGAAAGAA-AGAA
1 AGAAAGAAGAGAA
27200738 AGAAA-AAGAGAA
1 AGAAAGAAGAGAA
27200750 AGAAAGAAGA
1 AGAAAGAAGA
27200760 ACGCACGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 14 0.70
13 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAGAA
Found at i:27201187 original size:19 final size:20
Alignment explanation
Indices: 27201163--27201203 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27201153 GAATTTAGGA
*
27201163 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
27201182 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
27201202 AA
1 AA
27201204 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:27208206 original size:17 final size:18
Alignment explanation
Indices: 27208180--27208213 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27208170 TAGCCGCCCA
27208180 GGGCCCAAAA-ATAAAAG
1 GGGCCCAAAAGATAAAAG
*
27208197 GGGCCTAAAAGATAAAA
1 GGGCCCAAAAGATAAAA
27208214 ATATCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.15, G:0.24, T:0.09
Consensus pattern (18 bp):
GGGCCCAAAAGATAAAAG
Found at i:27208265 original size:32 final size:33
Alignment explanation
Indices: 27208206--27208268 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
27208196 GGGGCCTAAA
*
27208206 AGATAAAAATATCTTTAAAATAATATTTATTTT
1 AGATAAAAAGATCTTTAAAATAATATTTATTTT
*
27208239 AGATAAAAAGAT-TCTT-AAATATTATTTATT
1 AGATAAAAAGATCT-TTAAAATAATATTTATT
27208269 GTTTGGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (33 bp):
AGATAAAAAGATCTTTAAAATAATATTTATTTT
Found at i:27210176 original size:19 final size:20
Alignment explanation
Indices: 27210154--27210206 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
27210144 TCTCTCACAA
27210154 CAAAAA-TTAAAATAATTT-T
1 CAAAAATTTAAAAT-ATTTAT
27210173 CAAAAATTTAAAATATTTAT
1 CAAAAATTTAAAATATTTAT
*
27210193 AAAAAATTTAAAAT
1 CAAAAATTTAAAAT
27210207 TTATATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAAAATTTAAAATATTTAT
Found at i:27210178 original size:20 final size:19
Alignment explanation
Indices: 27210155--27210221 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
27210145 CTCTCACAAC
27210155 AAAAATTAAAATAATTTTCA
1 AAAAATTAAAATAATTTT-A
*
27210175 AAAATTTAAAAT-ATTTATA
1 AAAAATTAAAATAATTT-TA
27210194 AAAAATTTAAAATTTATATTTTA
1 AAAAA-TTAAAA--TA-ATTTTA
27210217 AAAAA
1 AAAAA
27210222 ATTACCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.23
20 18 0.46
22 1 0.03
23 7 0.18
24 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTAAAATAATTTTA
Found at i:27210930 original size:24 final size:25
Alignment explanation
Indices: 27210898--27210944 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
27210888 AAGAAAGTCA
*
27210898 AAAGCAAAACGA-AACAGAAAGAAAG
1 AAAGCAAAAAGAGAA-AGAAAGAAAG
27210923 AAAG-AAAAAGAGAAAGAAAGAA
1 AAAGCAAAAAGAGAAAGAAAGAA
27210945 GAACGCACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.72, C:0.06, G:0.21, T:0.00
Consensus pattern (25 bp):
AAAGCAAAAAGAGAAAGAAAGAAAG
Found at i:27210936 original size:12 final size:13
Alignment explanation
Indices: 27210913--27210946 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
27210903 AAAACGAAAC
27210913 AGAAAGAA-AGAA
1 AGAAAGAAGAGAA
27210925 AGAAA-AAGAGAA
1 AGAAAGAAGAGAA
27210937 AGAAAGAAGA
1 AGAAAGAAGA
27210947 ACGCACGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 14 0.70
13 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAGAA
Found at i:27211374 original size:19 final size:20
Alignment explanation
Indices: 27211350--27211390 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27211340 GAATTTAGGA
*
27211350 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
27211369 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
27211389 AA
1 AA
27211391 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:27217774 original size:17 final size:18
Alignment explanation
Indices: 27217742--27217775 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27217732 AGTAAAACTC
27217742 AAGATGAATATATATAAT
1 AAGATGAATATATATAAT
*
27217760 AAGAT-AATGTATATAA
1 AAGATGAATATATATAA
27217776 AATAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AAGATGAATATATATAAT
Found at i:27227711 original size:2 final size:2
Alignment explanation
Indices: 27227704--27227744 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
27227694 ATTAAAAGTT
* * *
27227704 TA TA TA TA CA CA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27227745 GATAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:27228229 original size:7 final size:7
Alignment explanation
Indices: 27228193--27228217 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27228183 CGCCTACCAT
27228193 ATAAATA
1 ATAAATA
27228200 ATAAATA
1 ATAAATA
27228207 ATAAATA
1 ATAAATA
27228214 ATAA
1 ATAA
27228218 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:27232058 original size:31 final size:31
Alignment explanation
Indices: 27232023--27232090 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
27232013 TACAAAATGA
27232023 TCACTAAATTA-TCTGAAAGTTTTCATTTAAG
1 TCACTAAATTATTC-GAAAGTTTTCATTTAAG
** *
27232054 TCACTAAATTATTCGAATTTTTTTATTTAAG
1 TCACTAAATTATTCGAAAGTTTTCATTTAAG
27232085 TCACTA
1 TCACTA
27232091 GACTGTTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (31 bp):
TCACTAAATTATTCGAAAGTTTTCATTTAAG
Found at i:27232844 original size:23 final size:21
Alignment explanation
Indices: 27232818--27232873 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 21
27232808 TTAATTTAAT
27232818 TAAATATAAAAAAAATTCAAATG
1 TAAATATAAAAAAAA-T-AAATG
*
27232841 TAAAGTA-AAATAAAATAAATG
1 TAAA-TATAAAAAAAATAAATG
*
27232862 TAATAAATAAAA
1 TAA-ATATAAAA
27232874 GTGATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 9 0.33
22 5 0.19
23 11 0.41
24 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAATATAAAAAAAATAAATG
Found at i:27239597 original size:88 final size:87
Alignment explanation
Indices: 27239475--27239781 Score: 429
Period size: 88 Copynumber: 3.5 Consensus size: 87
27239465 TTAATGGTGT
* *
27239475 AAAAA-ACCCTCAAACTTTTTTCAGAAAAAGCAATTAAGCCCCTCCTTTTTTTCCACTCAATTGA
1 AAAAAGACCCTCAAAC-TTTTTC-GAAAAAGCAATTAAGCCCCTCCTTTTTTTTCACTCAATTGG
*
27239539 GCACTTGAACTTTCAAAATGCATC
64 GTACTTGAACTTTCAAAATGCATC
*
27239563 AAAAAGACCCTCAAACTTGTTCGAAAAGAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
1 AAAAAGACCCTCAAACTTTTTCGAAAA-AGCAATTAAGCCCCT-CCTTTTTTTTCACTCAATTGG
* *
27239628 GTACTTGAAATTTTAAAATGCATC
64 GTACTTGAACTTTCAAAATGCATC
* * * *
27239652 AAAAAGACCCTCAAGCTTCTTT-GACAAAAGCAATAAAGCCCCTACTTTTTTTTCACTTAATTGG
1 AAAAAGACCCTCAAACTT-TTTCGA-AAAAGCAATTAAGCCCCTCCTTTTTTTTCACTCAATTGG
27239716 GTACTTGAACTTTCAAAATGCATC
64 GTACTTGAACTTTCAAAATGCATC
* * *
27239740 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGTCCCT
1 AAAAAGACCCTCAAACTTTTTCGAAAAAGCAATTAAGCCCCT
27239782 GCTCTTATTA
Statistics
Matches: 195, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
87 24 0.12
88 83 0.43
89 83 0.43
90 5 0.03
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.30
Consensus pattern (87 bp):
AAAAAGACCCTCAAACTTTTTCGAAAAAGCAATTAAGCCCCTCCTTTTTTTTCACTCAATTGGGT
ACTTGAACTTTCAAAATGCATC
Found at i:27239625 original size:89 final size:88
Alignment explanation
Indices: 27239475--27239781 Score: 433
Period size: 89 Copynumber: 3.5 Consensus size: 88
27239465 TTAATGGTGT
*
27239475 AAAAA-ACCCTCAAACTTTTTTCAGAAAAAGCAATTAAGCCCCT-CCTTTTTTTCCACTCAATTG
1 AAAAAGACCCTCAAAC-TTTTTC-GAAAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTG
* *
27239538 AGCACTTGAACTTTCAAAATGCATC
64 GGTACTTGAACTTTCAAAATGCATC
*
27239563 AAAAAGACCCTCAAACTTGTTCGAAAAGAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
1 AAAAAGACCCTCAAACTTTTTCGAAAA-AGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGG
* *
27239628 GTACTTGAAATTTTAAAATGCATC
65 GTACTTGAACTTTCAAAATGCATC
* * *
27239652 AAAAAGACCCTCAAGCTTCTTT-GACAAAAGCAATAAAGCCCCTA-CTTTTTTTTCACTTAATTG
1 AAAAAGACCCTCAAACTT-TTTCGA-AAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTG
27239715 GGTACTTGAACTTTCAAAATGCATC
64 GGTACTTGAACTTTCAAAATGCATC
* * *
27239740 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGTCCCT
1 AAAAAGACCCTCAAACTTTTTCGAAAAAGCAATTAAGCCCCT
27239782 GCTCTTATTA
Statistics
Matches: 196, Mismatches: 17, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
87 24 0.12
88 83 0.42
89 84 0.43
90 5 0.03
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.30
Consensus pattern (88 bp):
AAAAAGACCCTCAAACTTTTTCGAAAAAGCAATTAAGCCCCTACCTTTTTTTTCACTCAATTGGG
TACTTGAACTTTCAAAATGCATC
Found at i:27239886 original size:47 final size:46
Alignment explanation
Indices: 27239784--27239903 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 46
27239774 AAGTCCCTGC
*
27239784 TCTTATTAAAAATTAGAAAAAAATAAATTTTAGAAAAATTATTAAATT
1 TCTTA-TAAAAATTA-AAAAAAATAAATTTTAGAAAAATTATGAAATT
* ** * *
27239832 T-TAATAAAAATATAAAAAATTTAAATTTTATTAAAAATTA-GAATTT
1 TCTTATAAAAAT-TAAAAAAAATAAATTTTA-GAAAAATTATGAAATT
*
27239878 TCTTATAAAAATCTTAAAAAAATAAA
1 TCTTATAAAAAT-TAAAAAAAATAAA
27239904 AATTGTAACT
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
46 26 0.45
47 31 0.53
48 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (46 bp):
TCTTATAAAAATTAAAAAAAATAAATTTTAGAAAAATTATGAAATT
Found at i:27240150 original size:39 final size:38
Alignment explanation
Indices: 27240065--27240151 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 38
27240055 TTTTGGTACG
* *
27240065 ATAATTTTTATAAATTTTTTTACGAAATTTATATTTTT
1 ATAATTTTTATAAATTTTCTTACGAAATTTATAATTTT
* *
27240103 TTACATTTTGTAT-AATTTTCTTACG-ACTTTATAAAATTTT
1 ATA-ATTTT-TATAAATTTTCTTACGAAATTTAT--AATTTT
27240143 ATAATTTTT
1 ATAATTTTT
27240152 TTACGATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
38 9 0.22
39 21 0.52
40 10 0.25
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (38 bp):
ATAATTTTTATAAATTTTCTTACGAAATTTATAATTTT
Found at i:27240166 original size:30 final size:29
Alignment explanation
Indices: 27240113--27240182 Score: 104
Period size: 30 Copynumber: 2.4 Consensus size: 29
27240103 TTACATTTTG
*
27240113 TATAATTTTCTTACGACTTTATAAAATTT
1 TATAATTTTTTTACGACTTTATAAAATTT
*
27240142 TATAATTTTTTTACGATTTTTATAAAATTT
1 TATAATTTTTTTACGA-CTTTATAAAATTT
*
27240172 TACAATTTTTT
1 TATAATTTTTT
27240183 AAATTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 15 0.41
30 22 0.59
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (29 bp):
TATAATTTTTTTACGACTTTATAAAATTT
Found at i:27240172 original size:19 final size:17
Alignment explanation
Indices: 27240150--27240189 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
27240140 TTTATAATTT
*
27240150 TTTTACGATTTTTATAAAA
1 TTTTACAATTTTT-T-AAA
27240169 TTTTACAATTTTTTAAA
1 TTTTACAATTTTTTAAA
27240186 TTTT
1 TTTT
27240190 TTTACAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 1 0.05
19 12 0.60
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTACAATTTTTTAAA
Found at i:27240181 original size:29 final size:29
Alignment explanation
Indices: 27240116--27240200 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
27240106 CATTTTGTAT
* *
27240116 AATTTTCTTACGA-CTTTATAAAATTTTAT
1 AATTTT-TTACGATTTTTATAAAATTTTAC
27240145 AATTTTTTTACGATTTTTATAAAATTTTAC
1 AA-TTTTTTACGATTTTTATAAAATTTTAC
* * *
27240175 AATTTTTTA-AATTTTTTTACAATTTT
1 AATTTTTTACGATTTTTATAAAATTTT
27240201 TTTCTAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 14 0.29
29 15 0.31
30 20 0.41
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (29 bp):
AATTTTTTACGATTTTTATAAAATTTTAC
Found at i:27240182 original size:10 final size:10
Alignment explanation
Indices: 27240099--27240202 Score: 56
Period size: 10 Copynumber: 10.6 Consensus size: 10
27240089 AAATTTATAT
27240099 TTTTTTAC-A
1 TTTTTTACAA
* *
27240108 TTTTGTATAA
1 TTTTTTACAA
*
27240118 TTTTCTTACGA
1 TTTT-TTACAA
* * *
27240129 CTTTATAAAA
1 TTTTTTACAA
* *
27240139 TTTTATA-AT
1 TTTTTTACAA
*
27240148 TTTTTTACGA
1 TTTTTTACAA
27240158 TTTTTATA-AA
1 TTTTT-TACAA
*
27240168 -ATTTTACAA
1 TTTTTTACAA
27240177 TTTTTTA-AA
1 TTTTTTACAA
27240186 TTTTTTTACAA
1 -TTTTTTACAA
27240197 TTTTTT
1 TTTTTT
27240203 TCTAATTTTA
Statistics
Matches: 70, Mismatches: 17, Indels: 15
0.69 0.17 0.15
Matches are distributed among these distances:
8 2 0.03
9 20 0.29
10 38 0.54
11 10 0.14
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:27240202 original size:20 final size:20
Alignment explanation
Indices: 27240139--27240202 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
27240129 CTTTATAAAA
*
27240139 TTTTATAATTTTTTTACGATT
1 TTTTA-AATTTTTTTACAATT
*
27240160 TTTATAAA--ATTTTACAATT
1 TTT-TAAATTTTTTTACAATT
27240179 TTTTAAATTTTTTTACAATT
1 TTTTAAATTTTTTTACAATT
27240199 TTTT
1 TTTT
27240203 TCTAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 14 0.38
21 5 0.14
22 2 0.05
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAAATTTTTTTACAATT
Found at i:27240210 original size:39 final size:40
Alignment explanation
Indices: 27240139--27240223 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 40
27240129 CTTTATAAAA
*
27240139 TTTTATAATTTTTTTACGATTTTTATAAAATTTTACA-ATT
1 TTTTATAATTTTTTTACAATTTTTATAAAATTTTA-ATATT
* **
27240179 TTTTA-AATTTTTTTACAATTTTTTTCTAATTTTAATATT
1 TTTTATAATTTTTTTACAATTTTTATAAAATTTTAATATT
27240218 TTTTAT
1 TTTTAT
27240224 TAAAATTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 1 0.03
39 33 0.85
40 5 0.13
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (40 bp):
TTTTATAATTTTTTTACAATTTTTATAAAATTTTAATATT
Found at i:27240211 original size:11 final size:11
Alignment explanation
Indices: 27240139--27240203 Score: 59
Period size: 11 Copynumber: 6.4 Consensus size: 11
27240129 CTTTATAAAA
*
27240139 TTTTATAATTT
1 TTTTACAATTT
*
27240150 TTTTACGATTT
1 TTTTACAATTT
* *
27240161 TTATA-AA--A
1 TTTTACAATTT
27240169 TTTTACAA-TT
1 TTTTACAATTT
27240179 TTTTA-AATTT
1 TTTTACAATTT
27240189 TTTTACAATTT
1 TTTTACAATTT
27240200 TTTT
1 TTTT
27240204 CTAATTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 4 0.09
9 4 0.09
10 13 0.30
11 22 0.51
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTACAATTT
Found at i:27241468 original size:20 final size:20
Alignment explanation
Indices: 27241445--27241517 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
27241435 AGCACATTCA
*
27241445 TGCTCATGTTAGCATTACAG
1 TGCTCATGTTAGCAATACAG
* * *
27241465 TGCTCCTGATAGCACATA-TG
1 TGCTCATGTTAGCA-ATACAG
** * *
27241485 TGCTTTTGTTAACACTACAG
1 TGCTCATGTTAGCAATACAG
27241505 TGCTCATGTTAGC
1 TGCTCATGTTAGC
27241518 TACACATTTG
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (20 bp):
TGCTCATGTTAGCAATACAG
Found at i:27242681 original size:12 final size:12
Alignment explanation
Indices: 27242666--27242695 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27242656 CCATAAAAAT
27242666 AACAATAATAAC
1 AACAATAATAAC
*
27242678 AACAATAATAAT
1 AACAATAATAAC
27242690 AACAAT
1 AACAAT
27242696 GAAAGTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (12 bp):
AACAATAATAAC
Found at i:27244463 original size:44 final size:44
Alignment explanation
Indices: 27244279--27244918 Score: 356
Period size: 44 Copynumber: 14.3 Consensus size: 44
27244269 CCAATGTAAT
* * * * * *
27244279 TTCAGGGAGAAAAGACTTGTAGATTCGATCTACTCCGCTGTAAC
1 TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* ** * * *
27244323 TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCTACTGCAAC
1 TTCAGGGAGATAAGAATT-GTAGCTTCGATCTGCTCCACTGCAAC
** * ** * *
27244368 TTCAGGGAGATAAGGTTTGGGTA-TTTTTATCCTGCTCTACTACAAC
1 TTCAGGGAGATAAGAATT--GTAGCTTCGAT-CTGCTCCACTGCAAC
* * * * *
27244414 TTCAGGGAGATAAGAATTGTGGCATCGATCTGCTCCAATGTAAT
1 TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* * * *
27244458 TTCAGGGAGA-AGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAGGGAGATA-AGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* ** * * *
27244502 ATCAATGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGAATT-GTAGCTTCGATCTGCTCCACTGCAAC
** * **
27244547 TTCAGGGAGATAAGGTTTGT-GTATTTTTATCCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGAATTGTAG--CTTCGAT-CTGCTCCACTGCAAC
* * * * * *
27244593 TTCAGGGAGATAAGAATTGTGGCTTCGATCTACTCTAATGTAAT
1 TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* * * * * *
27244637 TTCAGGGCGA-AGAGATTTGTAGCTTCGATCTACTTCGCTGGAAC
1 TTCAGGGAGATA-AGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* * * * *
27244681 TTCACGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAAC
1 TTCAGGGAGATAAGAATT-GTAGCTTCGATCTGCTCCACTGCAAC
** * ** *
27244726 TTCAGGGAGATAAGGTTTGT-GTATTTTTATCTTGCTCCATTGCAAC
1 TTCAGGGAGATAAGAATTGTAG--CTTCGATC-TGCTCCACTGCAAC
* * * * * * * *
27244772 TTCCGTGAGATAAGGATTGTGGCTTCGATCTGCTTCAATGTAAT
1 TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
** * * * *
27244816 TTCAATGAGA-AGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAGGGAGATA-AGAATTGTAGCTTCGATCTGCTCCACTGCAAC
* * * * * *
27244860 TTCAAGGAGATAAGAATTGGTAACTTCAACCTACTCCACTACAAC
1 TTCAGGGAGATAAGAATT-GTAGCTTCGATCTGCTCCACTGCAAC
27244905 TTCAGGGAGATAAG
1 TTCAGGGAGATAAG
27244919 GTTTGTGTAT
Statistics
Matches: 447, Mismatches: 128, Indels: 41
0.73 0.21 0.07
Matches are distributed among these distances:
43 3 0.01
44 188 0.42
45 158 0.35
46 96 0.21
47 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
TTCAGGGAGATAAGAATTGTAGCTTCGATCTGCTCCACTGCAAC
Found at i:27244573 original size:179 final size:179
Alignment explanation
Indices: 27244258--27244975 Score: 1139
Period size: 179 Copynumber: 4.0 Consensus size: 179
27244248 GAATTGGTGT
* * * * * *
27244258 TTCGATTTGTTCCAATGTAATTTCAGGGAGAAAAGACTTGTAGATTCGATCTACTCCGCTGTAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * * *
27244323 TTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGG
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
* *
27244388 GTATTTTTATCCTGCTCTACTACAACTTCAGGGAGATAAGAATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
*
27244437 ATCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * *
27244502 ATCAATGAGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
27244567 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
* * * *
27244616 TTCGATCTACTCTAATGTAATTTCAGGGCGAAGAGATTTGTAGCTTCGATCTACTTCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
27244681 TTCACGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
* * * * *
27244746 GTATTTTTATCTTGCTCCATTGCAACTTCCGTGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
* **
27244795 TTCGATCTGCTTCAATGTAATTTCAATGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
27244860 TTCAAGGAGATAAGAATTGGTAACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGT
66 TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
* * *
27244925 GTATTTTTATCCTACTCCACTGTAACTTCAGGGAGATAAGGATTGTGGC
131 GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
27244974 TT
1 TT
27244976 TACCGATATG
Statistics
Matches: 496, Mismatches: 43, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
179 496 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (179 bp):
TTCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
TTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGT
GTATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGC
Found at i:27248669 original size:9 final size:9
Alignment explanation
Indices: 27248658--27248706 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
27248648 TTTGGGTAAA
*
27248658 AATTAACCA
1 AATTAACCG
27248667 AATTAACCG
1 AATTAACCG
**
27248676 AATTAACTT
1 AATTAACCG
*
27248685 AATTACCCG
1 AATTAACCG
27248694 AATTAACCG
1 AATTAACCG
27248703 AATT
1 AATT
27248707 GAATCACTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:27248764 original size:20 final size:20
Alignment explanation
Indices: 27248741--27248834 Score: 57
Period size: 20 Copynumber: 4.3 Consensus size: 20
27248731 TACATAAGTT
27248741 TTAAATTTTATTTTTATTTA
1 TTAAATTTTATTTTTATTTA
*
27248761 TTAAATTATT-TGTTTATACTT-
1 TTAAATT-TTAT-TTT-TATTTA
* * *
27248782 TTAGACTTTAGTTTTAGTTTTA
1 TTAAATTTTATTTTTA--TTTA
27248804 GTTTTAGAATTTTATTTTTATTTA
1 ---TTA-AATTTTATTTTTATTTA
27248828 TTAAATT
1 TTAAATT
27248835 ATTTGTAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 22
0.65 0.09 0.26
Matches are distributed among these distances:
19 2 0.04
20 17 0.31
21 15 0.27
22 4 0.07
24 4 0.07
25 3 0.05
26 10 0.18
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (20 bp):
TTAAATTTTATTTTTATTTA
Found at i:27248874 original size:18 final size:18
Alignment explanation
Indices: 27248851--27248904 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
27248841 AATTTTTATG
27248851 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
* *
27248869 ATTGGGTTGGGCTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
27248887 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
27248905 TTAGGTGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.11, C:0.04, G:0.46, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:27258114 original size:36 final size:38
Alignment explanation
Indices: 27258040--27258115 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
27258030 AGTAATTAAT
*
27258040 TAATTTAAAAAATATATTTTTATTTTTTTAACAATTTA
1 TAATTTAAAAAATATATTTTTATATTTTTAACAATTTA
* * *
27258078 TAATTTTAAAAATATTTTTTTA-ATTTTTAA-ATTTTA
1 TAATTTAAAAAATATATTTTTATATTTTTAACAATTTA
27258114 TA
1 TA
27258116 TCCATATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 7 0.21
37 7 0.21
38 20 0.59
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (38 bp):
TAATTTAAAAAATATATTTTTATATTTTTAACAATTTA
Found at i:27259917 original size:89 final size:87
Alignment explanation
Indices: 27259810--27260074 Score: 406
Period size: 89 Copynumber: 3.0 Consensus size: 87
27259800 CTTTTCTTTT
* * *
27259810 CTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTT
1 CTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTT
27259875 CAAAAAAAGCAATTAAGCCCCTG
66 C-AAAAAAGCAATTAAGCCCCTG
*
27259898 CTTCTTTTTTCACTTAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCT
1 CTT-TTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTC-
* *
27259963 TTGAAAAAAGCAATTAAGCCCCTA
64 TTCAAAAAAGCAATTAAGCCCCTG
* * *
27259987 C-TTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTTTT
1 CTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTT
*
27260051 CAAAAAAGCAATTAAGCCCTTG
66 CAAAAAAGCAATTAAGCCCCTG
27260073 CT
1 CT
27260075 CTTATTAAAA
Statistics
Matches: 161, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
86 22 0.14
87 56 0.35
88 4 0.02
89 77 0.48
90 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (87 bp):
CTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTT
CAAAAAAGCAATTAAGCCCCTG
Found at i:27260125 original size:18 final size:19
Alignment explanation
Indices: 27260102--27260150 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
27260092 AAAAAATATA
27260102 AAAAATAATAAATTTTAGA-
1 AAAAATAATAAATTTTA-AC
* *
27260121 AAAATTATTAAATTTTAAC
1 AAAAATAATAAATTTTAAC
27260140 AAAAAT-ATAAA
1 AAAAATAATAAA
27260151 AATAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATAATAAATTTTAAC
Found at i:27260129 original size:49 final size:48
Alignment explanation
Indices: 27260076--27260194 Score: 136
Period size: 46 Copynumber: 2.5 Consensus size: 48
27260066 GCCCTTGCTC
*
27260076 TTATTAAAAATTAGAAAAAAAATATAAAAAATAATAAATTTTAGA-AAAA
1 TTATTAAAAATTATAAAAAAAATAT-AAAAATAATAAATTTTA-ATAAAA
* * *
27260125 TTATT--AAATTTTAACAAAAATATAAAAATAATAATTTTTAATAAAA
1 TTATTAAAAATTATAAAAAAAATATAAAAATAATAAATTTTAATAAAA
* *
27260171 TTTTATAAAAATCATAAAAAAAAT
1 TTAT-TAAAAATTATAAAAAAAAT
27260195 TTAATGACCC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
45 1 0.02
46 23 0.40
47 16 0.28
49 18 0.31
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (48 bp):
TTATTAAAAATTATAAAAAAAATATAAAAATAATAAATTTTAATAAAA
Found at i:27260178 original size:29 final size:29
Alignment explanation
Indices: 27260107--27260188 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
27260097 ATATAAAAAA
* *
27260107 TAAT-AAATTTTAGAAAAATTATTAAATTT
1 TAATAAAATTTTATAAAAA-TAATAAATTT
* * *
27260136 TAACAAAA--ATATAAAAATAATAATTTT
1 TAATAAAATTTTATAAAAATAATAAATTT
*
27260163 TAATAAAATTTTATAAAAATCATAAA
1 TAATAAAATTTTATAAAAATAATAAA
27260189 AAAAATTTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
27 15 0.37
28 7 0.17
29 16 0.39
30 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (29 bp):
TAATAAAATTTTATAAAAATAATAAATTT
Found at i:27261021 original size:9 final size:9
Alignment explanation
Indices: 27260986--27261053 Score: 68
Period size: 9 Copynumber: 7.6 Consensus size: 9
27260976 ACTATATAAA
27260986 ATTTTATAT
1 ATTTTATAT
*
27260995 ATTTCATAT
1 ATTTTATAT
27261004 ATTTCTATAT
1 ATTT-TATAT
27261014 ATTTTATA-
1 ATTTTATAT
* *
27261022 ATTTTTTAAG
1 ATTTTAT-AT
27261032 ATTTT-TAT
1 ATTTTATAT
*
27261040 ATTTTTTAT
1 ATTTTATAT
27261049 ATTTT
1 ATTTT
27261054 TTACGATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
8 12 0.24
9 26 0.51
10 13 0.25
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
ATTTTATAT
Found at i:27261045 original size:27 final size:27
Alignment explanation
Indices: 27261004--27261108 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
27260994 TATTTCATAT
*
27261004 ATTTCTATATATTTTATAATTTTTTAAG
1 ATTTTTATAT-TTTTATAATTTTTTAAG
*
27261032 ATTTTTATATTTTT-TATATTTTTTACG
1 ATTTTTATATTTTTATA-ATTTTTTAAG
* * *
27261059 ATTATTATATTTTTCTAATTTTTAATAAA
1 ATTTTTATATTTTTATAATTTTT--TAAG
27261088 ATTTTTATA-TTTTA-AATTTTT
1 ATTTTTATATTTTTATAATTTTT
27261109 ATTAAAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.03
27 39 0.59
28 15 0.23
29 10 0.15
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (27 bp):
ATTTTTATATTTTTATAATTTTTTAAG
Found at i:27261054 original size:9 final size:9
Alignment explanation
Indices: 27260987--27261100 Score: 63
Period size: 9 Copynumber: 12.2 Consensus size: 9
27260977 CTATATAAAA
*
27260987 TTTTATATA
1 TTTTATATT
*
27260996 TTTCATATAT
1 TTTTATAT-T
* *
27261006 TTCTATATA
1 TTTTATATT
27261015 TTTTATAATT
1 TTTTAT-ATT
*
27261025 TTTTA-AGAT
1 TTTTATA-TT
27261034 TTTTATATT
1 TTTTATATT
27261043 TTTTATATT
1 TTTTATATT
*
27261052 TTTTACGA-T
1 TTTTA-TATT
*
27261061 TATTATATT
1 TTTTATATT
27261070 TTTCTA-ATT
1 TTT-TATATT
* *
27261079 TTTAATAAAAT
1 TTT--TATATT
27261090 TTTTATATT
1 TTTTATATT
27261099 TT
1 TT
27261101 AAATTTTTAT
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
8 2 0.03
9 53 0.67
10 19 0.24
11 5 0.06
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATATT
Found at i:27261055 original size:19 final size:18
Alignment explanation
Indices: 27260987--27261056 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
27260977 CTATATAAAA
*
27260987 TTTTATATATTTCATATAT
1 TTTTATATATTTTATAT-T
*
27261006 TTCTATATATTTTATAATT
1 TTTTATATATTTTAT-ATT
*
27261025 TTTTA-AGATTTTTATATT
1 TTTTATATA-TTTTATATT
*
27261043 TTTTATATTTTTTA
1 TTTTATATATTTTA
27261057 CGATTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 15 0.36
19 25 0.60
20 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTATATATTTTATATT
Found at i:27261295 original size:87 final size:86
Alignment explanation
Indices: 27261187--27261402 Score: 283
Period size: 87 Copynumber: 2.5 Consensus size: 86
27261177 ATAAAAGCAA
* *
27261187 GGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGGTATTTTTGATGTC-CTTTGAAAGTTCAAGTA
1 GGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGTATTTTTGATG-CACTTTGAAAGTTCAAGTA
* *
27261251 CCCAATTGAGTGCAAAAAAAAAG
65 ACCAAATGAGTGC-AAAAAAAAG
* ** *
27261274 GGGCTTAATTACTTTTTTTG-AAAAGATTTGAGAGCCTTTTTGATGCATTTTGAAAGTTCAAGTA
1 GGGCTTAATTACTTTTTTTGAAAAAG-TTTGAGGGTATTTTTGATGCACTTTGAAAGTTCAAGTA
27261338 ACCAAATGAGTGCAAAAAAAAG
65 ACCAAATGAGTGCAAAAAAAAG
* * *
27261360 GGGTTTAATTACTTTTTTGTGAAAAAATTTGAGGGTTTTTTTG
1 GGGCTTAATTACTTTTTT-TGAAAAAGTTTGAGGGTATTTTTG
27261403 CACCCTTAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
86 32 0.29
87 76 0.68
88 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (86 bp):
GGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGTATTTTTGATGCACTTTGAAAGTTCAAGTAA
CCAAATGAGTGCAAAAAAAAG
Found at i:27263127 original size:2 final size:2
Alignment explanation
Indices: 27263120--27263146 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27263110 CAAATCAAAC
27263120 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
27263147 TACTAGAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27264141 original size:24 final size:24
Alignment explanation
Indices: 27264109--27264162 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
27264099 ATGAGATACT
*
27264109 GACCTTTTCGTTGATATCCTTTTC
1 GACCTTTTCATTGATATCCTTTTC
*
27264133 GACCTTTTCATTTATATCCTTTTC
1 GACCTTTTCATTGATATCCTTTTC
*
27264157 AACCTT
1 GACCTT
27264163 CTTTAATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.17, C:0.26, G:0.07, T:0.50
Consensus pattern (24 bp):
GACCTTTTCATTGATATCCTTTTC
Found at i:27284934 original size:22 final size:21
Alignment explanation
Indices: 27284909--27284975 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 21
27284899 AATAAATACC
*
27284909 AAAAATTTATTTTAAAATTAA
1 AAAAAATTATTTTAAAATTAA
*
27284930 AAAAAATTATTTTAAAAAAATTTA
1 AAAAAATTATTTT---AAAATTAA
27284954 AAAAAA--ATTTTAAAATTAA
1 AAAAAATTATTTTAAAATTAA
27284973 AAA
1 AAA
27284976 TATCCGGGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 10 0.25
21 12 0.30
22 5 0.12
24 13 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAAATTATTTTAAAATTAA
Found at i:27284952 original size:11 final size:11
Alignment explanation
Indices: 27284938--27284968 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
27284928 AAAAAAAATT
27284938 ATTTTAAAAAA
1 ATTTTAAAAAA
*
27284949 ATTTAAAAAAA
1 ATTTTAAAAAA
27284960 ATTTTAAAA
1 ATTTTAAAA
27284969 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:27284974 original size:25 final size:26
Alignment explanation
Indices: 27284920--27284974 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
27284910 AAAATTTATT
27284920 TTAAAATTAAAAAAAATTATTTTAAAA
1 TTAAAATTAAAAAAAATTA-TTTAAAA
*
27284947 --AAATTTAAAAAAAA-T-TTTAAAA
1 TTAAAATTAAAAAAAATTATTTAAAA
27284969 TTAAAA
1 TTAAAA
27284975 ATATCCGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
22 7 0.29
24 4 0.17
25 13 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
TTAAAATTAAAAAAAATTATTTAAAA
Found at i:27289877 original size:22 final size:21
Alignment explanation
Indices: 27289849--27289902 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
27289839 GTTCGTGTAA
27289849 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
27289871 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
27289890 TGTGAATTGTATA
1 T-TAAATTGTATA
27289903 ATTGCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:27291297 original size:16 final size:17
Alignment explanation
Indices: 27291276--27291310 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
27291266 AATTAAATTA
27291276 AATTAAATAA-TTTCTC
1 AATTAAATAATTTTCTC
27291292 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
27291309 AA
1 AA
27291311 CCCAATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:27314870 original size:28 final size:28
Alignment explanation
Indices: 27314831--27314887 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 28
27314821 AAATATTTTG
27314831 TAATAATCAATG-TT-ATATATAAACTTAA
1 TAATAATCAATGCTTAAT-TA-AAACTTAA
27314859 TAATAGAT-AATGCTTAATTAAAACTTAA
1 TAATA-ATCAATGCTTAATTAAAACTTAA
27314887 T
1 T
27314888 TAAATTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
28 18 0.69
29 6 0.23
30 2 0.08
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (28 bp):
TAATAATCAATGCTTAATTAAAACTTAA
Found at i:27319158 original size:3 final size:3
Alignment explanation
Indices: 27319150--27319190 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
27319140 GGATAAACTA
27319150 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27319191 CCATCTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:27324536 original size:30 final size:28
Alignment explanation
Indices: 27324500--27324565 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 28
27324490 AATTATAAAC
* *
27324500 AAATTATACAAAATATATAAATTTATTTCA
1 AAATTATAAAAAATAT-TAAATTTA-TTAA
27324530 AAATTATTAAAAAATATTAAATTTATTAA
1 AAATTA-TAAAAAATATTAAATTTATTAA
27324559 AAATTAT
1 AAATTAT
27324566 TATTATTACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 1 0.03
29 9 0.27
30 14 0.42
31 9 0.27
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATTATAAAAAATATTAAATTTATTAA
Found at i:27324565 original size:10 final size:10
Alignment explanation
Indices: 27324529--27324567 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
27324519 AATTTATTTC
27324529 AAAATTATTA
1 AAAATTATTA
*
27324539 AAAAATATT-
1 AAAATTATTA
*
27324548 AAATTTATTA
1 AAAATTATTA
27324558 AAAATTATTA
1 AAAATTATTA
27324568 TTATTACCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTATTA
Found at i:27324571 original size:16 final size:17
Alignment explanation
Indices: 27324531--27324573 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
27324521 TTTATTTCAA
27324531 AATTATTAAAAAATATT
1 AATTATTAAAAAATATT
*
27324548 AAATTTATTAAAAATTATT
1 -AA-TTATTAAAAAATATT
27324567 -ATTATTA
1 AATTATTA
27324574 CCATTTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
18 2 0.09
19 14 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTATTAAAAAATATT
Found at i:27327448 original size:25 final size:24
Alignment explanation
Indices: 27327412--27327468 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
27327402 GTAACCAATT
*
27327412 TCAGCTCTTATGAGCTTACCGTTAC
1 TCAGCT-TTATGAGCTTACCATTAC
*
27327437 TCAGCTTGTATGAGCTTACCATTAT
1 TCAGCTT-TATGAGCTTACCATTAC
27327462 TCAGCTT
1 TCAGCTT
27327469 AGAGGAGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (24 bp):
TCAGCTTTATGAGCTTACCATTAC
Found at i:27327476 original size:25 final size:25
Alignment explanation
Indices: 27327423--27327480 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
27327413 CAGCTCTTAT
* *
27327423 GAGCTTACCGTTACTCAGCTTGTAT
1 GAGCTTACCATTACTCAGCTTGTAG
*
27327448 GAGCTTACCATTATTCAGCTTAG-AG
1 GAGCTTACCATTACTCAGCTT-GTAG
27327473 GAGCTTAC
1 GAGCTTAC
27327481 TGTTTATCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCTTACCATTACTCAGCTTGTAG
Found at i:27329544 original size:69 final size:68
Alignment explanation
Indices: 27329433--27329570 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 68
27329423 TTAACACTTG
* *
27329433 TTATGGAAAACTTTTAATATTCTAAGTTTTTCTTTGTAATTTAGTTTTTAGTTTTTAGTTTTTTT
1 TTATGGAAAACTTTTAATATTCTAAGTTTTTCTTTGTAATTTAATTTTTAGTTTTT-GTTTCTTT
*
27329498 TTCT
65 CTCT
* * *
27329502 TTATGGACAGCTTTTGATATTCTAAGTTTTTCTTTGTAATTTAATTTTTAGTTTTTGTTTCTTTC
1 TTATGGAAAACTTTTAATATTCTAAGTTTTTCTTTGTAATTTAATTTTTAGTTTTTGTTTCTTTC
27329567 TCT
66 TCT
27329570 T
1 T
27329571 AAGGTTTAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 11 0.17
69 52 0.83
ACGTcount: A:0.20, C:0.08, G:0.11, T:0.62
Consensus pattern (68 bp):
TTATGGAAAACTTTTAATATTCTAAGTTTTTCTTTGTAATTTAATTTTTAGTTTTTGTTTCTTTC
TCT
Found at i:27349784 original size:28 final size:29
Alignment explanation
Indices: 27349753--27349808 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
27349743 TGGTACCGCA
*
27349753 TAACTGTG-ATGAAAAAC-TAAAAATGGGT
1 TAACT-TGAATGAAAAACGAAAAAATGGGT
*
27349781 TAACTTGAATTAAAAACGAAAAAATGGG
1 TAACTTGAATGAAAAACGAAAAAATGGG
27349809 GCGAATTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.08
28 13 0.54
29 9 0.38
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (29 bp):
TAACTTGAATGAAAAACGAAAAAATGGGT
Found at i:27368701 original size:27 final size:27
Alignment explanation
Indices: 27368649--27368701 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
27368639 AAAATATGAA
* *
27368649 AAATTATACAAATGATATACTTTAATC
1 AAATTATACAAATGATATAATATAATC
*
27368676 AAATTATACAATTGAT-TAAATATAAT
1 AAATTATACAAATGATAT-AATATAAT
27368702 ACACTATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.38
Consensus pattern (27 bp):
AAATTATACAAATGATATAATATAATC
Found at i:27368826 original size:47 final size:46
Alignment explanation
Indices: 27368773--27368962 Score: 208
Period size: 47 Copynumber: 4.1 Consensus size: 46
27368763 AATTTAATAT
*
27368773 GAAAAAACGTAAATTAAAATAGAAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAA-TTAAATTAAAAT-GAAAGAAAGATAATTTAAATGAAATGA
* * * *
27368821 GAAAAAATTCAATGT-AAATGGAA-AAA-ATGATTTAAATAAAATGA
1 GAAAAAATTAAAT-TAAAATGAAAGAAAGATAATTTAAATGAAATGA
* * *
27368865 GAAAAAAATTAAATTAAAATGGGAAGATAGATAATTTAAATGAAATCA
1 G-AAAAAATTAAATTAAAAT-GAAAGAAAGATAATTTAAATGAAATGA
* *
27368913 GAAAAAATTAAATTTAAATGAAAAAAAAGATAATTTAAATGAAATG-
1 GAAAAAATTAAATTAAAATG-AAAGAAAGATAATTTAAATGAAATGA
27368959 GAAA
1 GAAA
27368963 TGAAAATTGA
Statistics
Matches: 120, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
44 18 0.15
45 18 0.15
46 12 0.10
47 48 0.40
48 24 0.20
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.24
Consensus pattern (46 bp):
GAAAAAATTAAATTAAAATGAAAGAAAGATAATTTAAATGAAATGA
Found at i:27368829 original size:21 final size:21
Alignment explanation
Indices: 27368805--27368940 Score: 80
Period size: 21 Copynumber: 6.1 Consensus size: 21
27368795 AAAGAAAGAT
27368805 AATTTAAATGAAATGAGAAAA
1 AATTTAAATGAAATGAGAAAA
*
27368826 AA-TTCAATGTAAATG-GAAAAA
1 AATTTAAATG-AAATGAG-AAAA
*
27368847 ATGATTTAAATAAAATGAGAAAA
1 A--ATTTAAATGAAATGAGAAAA
* * *
27368870 AAATTAAATTAAAATGGGAAGATAGAT
1 AATTTAAA-TGAAAT--G-AGA-A-AA
*
27368897 AATTTAAATGAAATCAGAAAA
1 AATTTAAATGAAATGAGAAAA
* *
27368918 AA-TTAAATTTAAATGAAAAAA
1 AATTTAAA-TGAAATGAGAAAA
27368939 AA
1 AA
27368941 GATAATTTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 26
0.70 0.09 0.20
Matches are distributed among these distances:
20 12 0.13
21 33 0.37
22 7 0.08
23 14 0.16
24 7 0.08
25 3 0.03
26 6 0.07
27 8 0.09
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.25
Consensus pattern (21 bp):
AATTTAAATGAAATGAGAAAA
Found at i:27368834 original size:20 final size:20
Alignment explanation
Indices: 27368811--27368848 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27368801 AGATAATTTA
27368811 AATG-AAATGAGAAAAAATTC
1 AATGTAAATG-GAAAAAATTC
27368831 AATGTAAATGGAAAAAAT
1 AATGTAAATGGAAAAAAT
27368849 GATTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.16, T:0.21
Consensus pattern (20 bp):
AATGTAAATGGAAAAAATTC
Found at i:27368910 original size:26 final size:24
Alignment explanation
Indices: 27368801--27369007 Score: 99
Period size: 23 Copynumber: 9.0 Consensus size: 24
27368791 ATAGAAAGAA
27368801 AGATAATTTAAATGAAAT-GAGAA-
1 AGATAATTTAAATGAAATGGA-AAT
*
27368824 A-A-AA-TTCAATGTAAATGGAAA-
1 AGATAATTTAAATG-AAATGGAAAT
* * *
27368845 AAATGATTTAAATAAAATGAGAAA-
1 AGATAATTTAAATGAAATG-GAAAT
*
27368869 A-A-AA-TTAAATTAAAATGGGAAGAT
1 AGATAATTTAAA-TGAAAT-GGAA-AT
*
27368893 AGATAATTTAAATGAAATCAGAAA-
1 AGATAATTTAAATGAAAT-GGAAAT
* *
27368917 AAATTAAATTTAAATGAAA---AAAA
1 AGA-T-AATTTAAATGAAATGGAAAT
27368940 AGATAATTTAAATGAAATGGAAAT
1 AGATAATTTAAATGAAATGGAAAT
* *
27368964 -GAAAATTGAAATGAAATGGAAAT
1 AGATAATTTAAATGAAATGGAAAT
* *
27368987 ACA-AA-TGAAATGAAAT-GAAAT
1 AGATAATTTAAATGAAATGGAAAT
27369008 GGAAGAAATG
Statistics
Matches: 150, Mismatches: 14, Indels: 42
0.73 0.07 0.20
Matches are distributed among these distances:
20 6 0.04
21 32 0.21
22 29 0.19
23 35 0.23
24 17 0.11
25 3 0.02
26 23 0.15
27 5 0.03
ACGTcount: A:0.59, C:0.01, G:0.14, T:0.25
Consensus pattern (24 bp):
AGATAATTTAAATGAAATGGAAAT
Found at i:27368967 original size:5 final size:5
Alignment explanation
Indices: 27368949--27369030 Score: 94
Period size: 5 Copynumber: 15.6 Consensus size: 5
27368939 AAGATAATTT
*
27368949 AAATG AAATGG AAATG AAAATTG AAATG AAATGG AAATAC AAATG AAATG
1 AAATG AAAT-G AAATG -AAA-TG AAATG AAAT-G AAAT-G AAATG AAATG
*
27368999 AAATG AAATG GAA-G AAATG AAATG AAATG AAA
1 AAATG AAATG AAATG AAATG AAATG AAATG AAA
27369031 AAAAAGGTGA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
4 3 0.04
5 42 0.63
6 20 0.30
7 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.21, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:27368986 original size:29 final size:26
Alignment explanation
Indices: 27368949--27369030 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 26
27368939 AAGATAATTT
*
27368949 AAATGAAATGGAAATG-AA--AATTG
1 AAATGAAATGGAAATGAAATGAAATG
*
27368972 AAATGAAATGGAAATACAAATGAAATG
1 AAATGAAATGGAAAT-GAAATGAAATG
27368999 AAATGAAATGG-AA-GAAATGAAATG
1 AAATGAAATGGAAATGAAATGAAATG
27369023 AAATGAAA
1 AAATGAAA
27369031 AAAAAGGTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
23 15 0.29
24 18 0.35
25 2 0.04
26 2 0.04
27 15 0.29
ACGTcount: A:0.60, C:0.01, G:0.21, T:0.18
Consensus pattern (26 bp):
AAATGAAATGGAAATGAAATGAAATG
Found at i:27368999 original size:92 final size:92
Alignment explanation
Indices: 27368773--27369034 Score: 221
Period size: 92 Copynumber: 2.8 Consensus size: 92
27368763 AATTTAATAT
** * * * * * * *
27368773 GAAAAAACGTAAATTAAAATAGAAAGAAAGATAATTTAAATGAAATGAGAAAAAATTCAATGTAA
1 GAAAAAAATTAAATTAAAATGGGAAGATACATAATTGAAATGAAATCAGAAAAAATTAAATGTAA
* *
27368838 ATGGAAAAAATGATTTAAATAAAATGA
66 ATGAAAAAAATAATTTAAATAAAATGA
* * *
27368865 GAAAAAAATTAAATTAAAATGGGAAGATAGATAATTTAAATGAAATCAGAAAAAATTAAATTTAA
1 GAAAAAAATTAAATTAAAATGGGAAGATACATAATTGAAATGAAATCAGAAAAAATTAAATGTAA
*
27368930 ATGAAAAAAAAGATAATTTAAATGAAATG-
66 ATG--AAAAAA-ATAATTTAAATAAAATGA
* * * * *
27368959 GAAATGAAAATTGAAA-TGAAAT-GGAA-ATACAAATGAAATGAAATGAAAT-GGAAGAAATGAA
1 GAAA--AAAATT-AAATTAAAATGGGAAGATAC--AT-AATTGAAATGAAATCAGAAAAAATTAA
27369020 ATG-AAATGAAAAAAA
60 ATGTAAATGAAAAAAA
27369035 AGGTGAAATG
Statistics
Matches: 142, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
92 61 0.43
93 6 0.04
94 12 0.08
95 24 0.17
96 24 0.17
97 15 0.11
ACGTcount: A:0.61, C:0.02, G:0.15, T:0.22
Consensus pattern (92 bp):
GAAAAAAATTAAATTAAAATGGGAAGATACATAATTGAAATGAAATCAGAAAAAATTAAATGTAA
ATGAAAAAAATAATTTAAATAAAATGA
Found at i:27369340 original size:22 final size:25
Alignment explanation
Indices: 27369297--27369345 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
27369287 GACTACTTCT
27369297 AATTGATATAAAAAAATATGAAATG
1 AATTGATATAAAAAAATATGAAATG
*
27369322 AATTGA-A-AAAAAAAT-TGAATTG
1 AATTGATATAAAAAAATATGAAATG
27369344 AA
1 AA
27369346 AAAAGATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 1 0.04
25 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (25 bp):
AATTGATATAAAAAAATATGAAATG
Found at i:27369439 original size:17 final size:19
Alignment explanation
Indices: 27369404--27369443 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
27369394 TGTATATTAG
*
27369404 GAAAAAAATAAATTTAAAT
1 GAAAAAAATAAATTGAAAT
27369423 GAAAAAAAT-AA-TGAAAT
1 GAAAAAAATAAATTGAAAT
27369440 GAAA
1 GAAA
27369444 TGTTAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (19 bp):
GAAAAAAATAAATTGAAAT
Found at i:27369442 original size:5 final size:5
Alignment explanation
Indices: 27369432--27369710 Score: 61
Period size: 5 Copynumber: 51.4 Consensus size: 5
27369422 TGAAAAAAAT
* * *
27369432 AATGA AATGA AATGTTA AATGAA ATATGA ATATAA AATGA AATGTA ATTTGT
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG-A A-ATGA
*
27369484 AATGA ATATGA AATGTTA AATGA ATATGA AATGA AATGA AACG- -ATGA
1 AATGA A-ATGA AATG--A AATGA A-ATGA AATGA AATGA AATGA AATGA
* * * * *
27369531 TTATGA AATGG AATGA AAGTTTA AATGAA AAT-A AATTATA AATTTA AATGA
1 -AATGA AATGA AATGA AA--TGA AATG-A AATGA AA-T-GA AA-TGA AATGA
** * **
27369582 AAACA AA--A ACTGA AATGAA AAAAA AATTGA AATGAGA AAT-A AAT-A
1 AATGA AATGA AATGA AATG-A AATGA AA-TGA AAT--GA AATGA AATGA
* ** *
27369627 AATTTA AATGGA AAAAA AAT-A AATTA AATGA AATGGA AATGTA AATGA
1 AA-TGA AAT-GA AATGA AATGA AATGA AATGA AAT-GA AATG-A AATGA
*
27369675 AATGGA AATGGA AATGGA AATGGA AATGA AACGA AA
1 AAT-GA AAT-GA AAT-GA AAT-GA AATGA AATGA AA
27369711 AAAATAAAAA
Statistics
Matches: 214, Mismatches: 29, Indels: 62
0.70 0.10 0.20
Matches are distributed among these distances:
3 4 0.02
4 14 0.07
5 88 0.41
6 79 0.37
7 29 0.14
ACGTcount: A:0.57, C:0.01, G:0.16, T:0.25
Consensus pattern (5 bp):
AATGA
Found at i:27369471 original size:35 final size:35
Alignment explanation
Indices: 27369432--27369583 Score: 109
Period size: 35 Copynumber: 4.3 Consensus size: 35
27369422 TGAAAAAAAT
27369432 AATGAAATGAAATGTTAAATGAAATATGAATATAA
1 AATGAAATGAAATGTTAAATGAAATATGAATATAA
* * * *
27369467 AATGAAATGTAAT-TTGTAATG-AATATGAAATGTTA
1 AATGAAATGAAATGTT-AAATGAAATATG-AATATAA
* * *
27369502 AATGAATATGAAATG--AAATGAAACGATGATTATGA
1 AATGAA-ATGAAATGTTAAATGAAA-TATGAATATAA
* *
27369537 AATGGAATGAAA-GTTTAAATGAAA-ATAAATTATAA
1 AATGAAATGAAATG-TTAAATGAAATATGAA-TATAA
* *
27369572 ATTTAAATGAAA
1 AATGAAATGAAA
27369584 ACAAAAACTG
Statistics
Matches: 90, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
33 1 0.01
34 21 0.23
35 51 0.57
36 17 0.19
ACGTcount: A:0.53, C:0.01, G:0.16, T:0.30
Consensus pattern (35 bp):
AATGAAATGAAATGTTAAATGAAATATGAATATAA
Found at i:27369507 original size:18 final size:18
Alignment explanation
Indices: 27369432--27369516 Score: 88
Period size: 18 Copynumber: 4.8 Consensus size: 18
27369422 TGAAAAAAAT
27369432 AATGAA-ATGAAATGTTA
1 AATGAATATGAAATGTTA
* *
27369449 AATGAAATATG-AATATAA
1 AATG-AATATGAAATGTTA
* *
27369467 AATGAA-ATGTAAT-TTGT
1 AATGAATATGAAATGTT-A
27369484 AATGAATATGAAATGTTA
1 AATGAATATGAAATGTTA
27369502 AATGAATATGAAATG
1 AATGAATATGAAATG
27369517 AAATGAAACG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.07
17 15 0.27
18 32 0.57
19 5 0.09
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (18 bp):
AATGAATATGAAATGTTA
Found at i:27369530 original size:24 final size:24
Alignment explanation
Indices: 27369503--27369548 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
27369493 GAAATGTTAA
27369503 ATGAATATGAAATGAAATGAAACG
1 ATGAATATGAAATGAAATGAAACG
* *
27369527 ATGATTATGAAATGGAATGAAA
1 ATGAATATGAAATGAAATGAAA
27369549 GTTTAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.24
Consensus pattern (24 bp):
ATGAATATGAAATGAAATGAAACG
Found at i:27369555 original size:52 final size:51
Alignment explanation
Indices: 27369432--27369559 Score: 152
Period size: 52 Copynumber: 2.5 Consensus size: 51
27369422 TGAAAAAAAT
* *
27369432 AATGAAATGAAATGTTAAATGAAATATGAATATAAAATGAAATGTAATTTGT
1 AATGAAATGAAATGTTAAATG-AATATGAATATAAAATGAAACGTAATTTGA
* *
27369484 AATGAATATGAAATGTTAAATGAATATGAA-ATGAAATGAAACGATGATTATGA
1 AATGAA-ATGAAATGTTAAATGAATATGAATATAAAATGAAACG-TAATT-TGA
*
27369537 AATGGAATGAAA-GTTTAAATGAA
1 AATGAAATGAAATG-TTAAATGAA
27369560 AATAAATTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
51 12 0.18
52 33 0.49
53 22 0.33
ACGTcount: A:0.52, C:0.01, G:0.18, T:0.30
Consensus pattern (51 bp):
AATGAAATGAAATGTTAAATGAATATGAATATAAAATGAAACGTAATTTGA
Found at i:27369599 original size:18 final size:17
Alignment explanation
Indices: 27369576--27369616 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
27369566 TTATAAATTT
27369576 AAATGAAAACAAAAACTG
1 AAATGAAAA-AAAAACTG
*
27369594 AAATGAAAAAAAAATTG
1 AAATGAAAAAAAAACTG
27369611 AAATGA
1 AAATGA
27369617 GAAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (17 bp):
AAATGAAAAAAAAACTG
Found at i:27369612 original size:17 final size:17
Alignment explanation
Indices: 27369570--27369646 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 17
27369560 AATAAATTAT
*
27369570 AAATTTAAATGAAAACAA
1 AAATTGAAATGAAAA-AA
*
27369588 AAACTGAAATGAAAAAA
1 AAATTGAAATGAAAAAA
27369605 AAATTGAAATGAGAAATAAA
1 AAATTGAAAT--GAAA-AAA
* *
27369625 TAAATTTAAATGGAAAAA
1 -AAATTGAAATGAAAAAA
27369643 AAAT
1 AAAT
27369647 AAATTAAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
17 15 0.30
18 16 0.32
19 7 0.14
20 3 0.06
21 9 0.18
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (17 bp):
AAATTGAAATGAAAAAA
Found at i:27369650 original size:25 final size:25
Alignment explanation
Indices: 27369618--27369665 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
27369608 TTGAAATGAG
*
27369618 AAATAAA-TAAATTTAAATGGAAAAA
1 AAATAAATTAAA-TGAAATGGAAAAA
27369643 AAATAAATTAAATGAAATGGAAA
1 AAATAAATTAAATGAAATGGAAA
27369666 TGTAAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (25 bp):
AAATAAATTAAATGAAATGGAAAAA
Found at i:27369653 original size:20 final size:21
Alignment explanation
Indices: 27369599--27369656 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
27369589 AACTGAAATG
27369599 AAAAAA-AAATTGAAAT-GAGA
1 AAAAAATAAATT-AAATGGAGA
*
27369619 AATAAATAAATTTAAATGGA-A
1 AAAAAATAAA-TTAAATGGAGA
27369640 AAAAAATAAATTAAATG
1 AAAAAATAAATTAAATG
27369657 AAATGGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 12 0.36
21 17 0.52
22 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.22
Consensus pattern (21 bp):
AAAAAATAAATTAAATGGAGA
Found at i:27369667 original size:6 final size:6
Alignment explanation
Indices: 27369652--27369702 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
27369642 AAAATAAATT
*
27369652 AAAT-G AAATGG AAATGT AAAT-G AAATGG AAATGG AAATGG AAATGG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
27369698 AAATG
1 AAATG
27369703 AAACGAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
5 8 0.19
6 34 0.81
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (6 bp):
AAATGG
Found at i:27369673 original size:17 final size:17
Alignment explanation
Indices: 27369647--27369702 Score: 87
Period size: 17 Copynumber: 3.3 Consensus size: 17
27369637 GAAAAAAAAT
27369647 AAAT-TAAATGAAATGG
1 AAATGTAAATGAAATGG
27369663 AAATGTAAATGAAATGG
1 AAATGTAAATGAAATGG
*
27369680 AAATGGAAATGGAAATGG
1 AAATGTAAAT-GAAATGG
27369698 AAATG
1 AAATG
27369703 AAACGAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
16 4 0.11
17 21 0.57
18 12 0.32
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (17 bp):
AAATGTAAATGAAATGG
Found at i:27371410 original size:20 final size:20
Alignment explanation
Indices: 27371381--27371421 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27371371 ATAAGCTGTT
27371381 ACACAACCCTCAATAAACAA
1 ACACAACCCTCAATAAACAA
*
27371401 ACACAGCCCTCAATAAACAA
1 ACACAACCCTCAATAAACAA
27371421 A
1 A
27371422 ATTTAATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.54, C:0.34, G:0.02, T:0.10
Consensus pattern (20 bp):
ACACAACCCTCAATAAACAA
Found at i:27374978 original size:89 final size:91
Alignment explanation
Indices: 27374879--27375069 Score: 221
Period size: 90 Copynumber: 2.1 Consensus size: 91
27374869 CAAATGGGTA
* * * * * *
27374879 AAATTAATACAAGAAAATTTTAAATTCAAA-C-TACAT-TTAATACAGATTAAATTAAATTTACA
1 AAATTAATACAAGAAAATATAAAAATCAAACCTTAAATCCTAA-ACA-ACTAAATTAAATTTACA
**
27374941 GATACAAAAAGGTACAAACATTCT-AAG
64 GATACAAAAAAATACAAACATTCTAAAG
* * *
27374968 AAATTAATACACGAAAATATAAAAATGAAACCTTAAATCCTAAACAACTACATTAAATTTACAGA
1 AAATTAATACAAGAAAATATAAAAATCAAACCTTAAATCCTAAACAACTAAATTAAATTTACAGA
*
27375033 TATAAAAAAATACAAACATTCTAAAG
66 TACAAAAAAATACAAACATTCTAAAG
27375059 AAA-TAATACAA
1 AAATTAATACAA
27375070 TTATTTTGAA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
89 25 0.29
90 44 0.52
91 13 0.15
92 3 0.04
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (91 bp):
AAATTAATACAAGAAAATATAAAAATCAAACCTTAAATCCTAAACAACTAAATTAAATTTACAGA
TACAAAAAAATACAAACATTCTAAAG
Found at i:27380869 original size:13 final size:13
Alignment explanation
Indices: 27380851--27380885 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
27380841 ATTAATTTAA
27380851 AAAAATAACTATG
1 AAAAATAACTATG
27380864 AAAAATAACTATG
1 AAAAATAACTATG
27380877 AAAAATAAC
1 AAAAATAAC
27380886 CCTACTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.20
Consensus pattern (13 bp):
AAAAATAACTATG
Found at i:27381454 original size:31 final size:31
Alignment explanation
Indices: 27381408--27381493 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
27381398 TTAACAACTC
* * *
27381408 AATAACTAAATTAAAATTTTTTGAATAGTTTA
1 AATAATTAAATTAAAATTTTTTAAATA-ATTA
*
27381440 AA-AATTTAAA-TAAAAATTTTTAAATAATTA
1 AATAA-TTAAATTAAAATTTTTTAAATAATTA
*
27381470 AATAATTAAATTATAATTTTTTAA
1 AATAATTAAATTAAAATTTTTTAA
27381494 TTAAGTAACC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
30 10 0.22
31 29 0.64
32 6 0.13
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (31 bp):
AATAATTAAATTAAAATTTTTTAAATAATTA
Done.