Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 74 of 352
Found at i:23209810 original size:24 final size:23
Alignment explanation
Indices: 23209773--23209862 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 23
23209763 AACTCTATTG
* *
23209773 AGCTGAAACAGTAAGCTCTAACG
1 AGCTAAAACAGTAAGCTCTAACA
* * *
23209796 AGCTAAAAACAGTAAGCTTTTATA
1 AGCT-AAAACAGTAAGCTCTAACA
* * *
23209820 AGCTGAAATAGTAAGCTCCAACA
1 AGCTAAAACAGTAAGCTCTAACA
*
23209843 AGTTGAAAACAGTAAGCTCT
1 AGCT-AAAACAGTAAGCTCT
23209863 TACGAGCTGG
Statistics
Matches: 50, Mismatches: 15, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
23 20 0.40
24 30 0.60
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (23 bp):
AGCTAAAACAGTAAGCTCTAACA
Found at i:23209871 original size:47 final size:47
Alignment explanation
Indices: 23209772--23209871 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
23209762 AAACTCTATT
* * * *
23209772 GAGCTGAAACAGTAAGCTCTAACGAGCTAAAAACAGTAAGCTTTTAT
1 GAGCTGAAACAGTAAGCTCCAACAAGCTAAAAACAGTAAGCTCTTAC
* * * *
23209819 AAGCTGAAATAGTAAGCTCCAACAAGTTGAAAACAGTAAGCTCTTAC
1 GAGCTGAAACAGTAAGCTCCAACAAGCTAAAAACAGTAAGCTCTTAC
23209866 GAGCTG
1 GAGCTG
23209872 GTATATCGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (47 bp):
GAGCTGAAACAGTAAGCTCCAACAAGCTAAAAACAGTAAGCTCTTAC
Found at i:23212386 original size:12 final size:12
Alignment explanation
Indices: 23212367--23212395 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23212357 TCATTAAAAA
23212367 AATT-AAAAATT
1 AATTAAAAAATT
23212378 AATTAAAAAATT
1 AATTAAAAAATT
23212390 AATTAA
1 AATTAA
23212396 TAGATGACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATTAAAAAATT
Found at i:23212389 original size:19 final size:19
Alignment explanation
Indices: 23212339--23212391 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
23212329 ATTTAAAATT
*
23212339 TTAATAAAAATATAAAAATCA
1 TTAA-AAAAAT-TAAAAATAA
23212360 TTAAAAAAATTAAAAATTAA
1 TTAAAAAAATTAAAAA-TAA
23212380 TT-AAAAAATTAA
1 TTAAAAAAATTAA
23212392 TTAATAGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 16 0.53
20 10 0.33
21 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TTAAAAAAATTAAAAATAA
Found at i:23219130 original size:17 final size:18
Alignment explanation
Indices: 23219107--23219148 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23219097 GAAATTAGGC
*
23219107 CGTGTGGG-CCACATGGG
1 CGTGTGGGCCCACAAGGG
*
23219124 TGTGTGGGCCCACAAGGG
1 CGTGTGGGCCCACAAGGG
23219142 CGTGTGG
1 CGTGTGG
23219149 AATTCTGGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.19
Consensus pattern (18 bp):
CGTGTGGGCCCACAAGGG
Found at i:23220752 original size:16 final size:16
Alignment explanation
Indices: 23220723--23220756 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23220713 AGCATAATAT
* *
23220723 ATTATTAATTAATAAA
1 ATTATAAATCAATAAA
23220739 ATTATAAATCAATAAA
1 ATTATAAATCAATAAA
23220755 AT
1 AT
23220757 CATTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTATAAATCAATAAA
Found at i:23221595 original size:23 final size:23
Alignment explanation
Indices: 23221559--23221609 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
23221549 TAATTAAAAT
* *
23221559 AAATATTTTTTTTAA-AAATTATA
1 AAATATATTATTTAATAAATTA-A
23221582 AAATATATTATTTAATAAATTAA
1 AAATATATTATTTAATAAATTAA
23221605 AAATA
1 AAATA
23221610 AACATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATATATTATTTAATAAATTAA
Found at i:23221920 original size:28 final size:28
Alignment explanation
Indices: 23221867--23221922 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
23221857 AATATATTAT
* *
23221867 TAATTAATAAAATTATAAATCTATAAAA
1 TAATTAATAAAATTAAAAATCAATAAAA
*
23221895 TAATTGAATAAATTTAAAAAT-AATAAAA
1 TAATT-AATAAAATTAAAAATCAATAAAA
23221923 ATCCAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (28 bp):
TAATTAATAAAATTAAAAATCAATAAAA
Found at i:23225229 original size:25 final size:25
Alignment explanation
Indices: 23225164--23225230 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
23225154 AAATAAAGAG
23225164 TCTGCTGAATAACACGTTTTCTCTA
1 TCTGCTGAATAACACGTTTTCTCTA
* *
23225189 TCTGCTGAACAACACGTTTTCTCTG
1 TCTGCTGAATAACACGTTTTCTCTA
* * *
23225214 TTTGTTGAATAGCACGT
1 TCTGCTGAATAACACGT
23225231 AGTATCGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (25 bp):
TCTGCTGAATAACACGTTTTCTCTA
Found at i:23226171 original size:12 final size:13
Alignment explanation
Indices: 23226149--23226244 Score: 52
Period size: 14 Copynumber: 7.0 Consensus size: 13
23226139 TTTTGATATA
23226149 AAATATATATTAT
1 AAATATATATTAT
23226162 AAAT-TATATTAACT
1 AAATATATATT-A-T
* * *
23226176 TAATATTTAAGTAT
1 AAATATAT-ATTAT
* *
23226190 TAATATATAATAT
1 AAATATATATTAT
23226203 -AATATATTATTAT
1 AAATATA-TATTAT
* *
23226216 ATTATATATAATAT
1 A-AATATATATTAT
23226230 AATATATTATATTAT
1 AA-ATA-TATATTAT
23226245 TATATTATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
12 12 0.19
13 14 0.22
14 21 0.33
15 15 0.23
16 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (13 bp):
AAATATATATTAT
Found at i:23226194 original size:14 final size:13
Alignment explanation
Indices: 23226175--23226254 Score: 67
Period size: 12 Copynumber: 6.1 Consensus size: 13
23226165 TTATATTAAC
*
23226175 TTAATATTTAAGTA
1 TTAATATATAA-TA
23226189 TTAATATATAATA
1 TTAATATATAATA
23226202 -TAATATATTATTATA
1 TTAATATA-TA--ATA
23226217 TT-ATATATAATA
1 TTAATATATAATA
*
23226229 -TAATATATTATA
1 TTAATATATAATA
* *
23226241 TTATTATATTATA
1 TTAATATATAATA
23226254 T
1 T
23226255 ATAAAACATA
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
11 1 0.02
12 19 0.33
13 16 0.28
14 12 0.21
15 8 0.14
16 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (13 bp):
TTAATATATAATA
Found at i:23226204 original size:5 final size:5
Alignment explanation
Indices: 23226194--23226255 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
23226184 AAGTATTAAT
* * * * *
23226194 ATATA ATATA ATATA TTATT ATATTA TATATA ATATA ATATA TTATA TTATT
1 ATATA ATATA ATATA ATATA ATA-TA -ATATA ATATA ATATA ATATA ATATA
*
23226246 ATATT ATATA
1 ATATA ATATA
23226256 TAAAACATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
5 41 0.87
6 3 0.06
7 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (5 bp):
ATATA
Found at i:23226222 original size:27 final size:27
Alignment explanation
Indices: 23226144--23226258 Score: 111
Period size: 27 Copynumber: 4.4 Consensus size: 27
23226134 GATATTTTTG
* *
23226144 ATATAAAAT-ATATATTATA-AATTAT
1 ATATAATATAATATATTATAGTATTAT
23226169 AT-TAACT-TAATAT-TTA-AGTATTAAT
1 ATATAA-TATAATATATTATAGTATT-AT
23226194 ATATAATATAATATATTATTA-TATTAT
1 ATATAATATAATATATTA-TAGTATTAT
*
23226221 ATATAATATAATATATTATATTATTAT
1 ATATAATATAATATATTATAGTATTAT
23226248 AT-TATATATAA
1 ATATA-ATATAA
23226259 AACATAAAGT
Statistics
Matches: 77, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
23 1 0.01
24 10 0.13
25 11 0.14
26 13 0.17
27 37 0.48
28 4 0.05
29 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
ATATAATATAATATATTATAGTATTAT
Found at i:23226235 original size:32 final size:32
Alignment explanation
Indices: 23226194--23226258 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
23226184 AAGTATTAAT
23226194 ATATAATATAATATATTATTATATTATATATA
1 ATATAATATAATATATTATTATATTATATATA
*
23226226 ATATAATATATTATATTATTATATTATATATA
1 ATATAATATAATATATTATTATATTATATATA
23226258 A
1 A
23226259 AACATAAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
ATATAATATAATATATTATTATATTATATATA
Found at i:23227385 original size:29 final size:30
Alignment explanation
Indices: 23227352--23227408 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
23227342 GCGCTCTCTG
*
23227352 ATTATTAGCACATT-AGTGCTCTCTGTTCT
1 ATTATTAGCACATTAAATGCTCTCTGTTCT
*
23227381 ATTATTAGCACGTTAAATGCTCTCTGTT
1 ATTATTAGCACATTAAATGCTCTCTGTT
23227409 TAGCACATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (30 bp):
ATTATTAGCACATTAAATGCTCTCTGTTCT
Found at i:23227449 original size:24 final size:22
Alignment explanation
Indices: 23227398--23227452 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
23227388 GCACGTTAAA
23227398 TGCTCTCTGTTTAGCACATCTG
1 TGCTCTCTGTTTAGCACATCTG
*
23227420 TGCTCTCTGTTTAGCAC-TTTAG
1 TGCTCTCTGTTTAGCACATCT-G
23227442 TGCTCTCTGTT
1 TGCTCTCTGTT
23227453 CGTTTTTGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.45
Consensus pattern (22 bp):
TGCTCTCTGTTTAGCACATCTG
Found at i:23233132 original size:48 final size:48
Alignment explanation
Indices: 23233027--23233316 Score: 463
Period size: 48 Copynumber: 6.0 Consensus size: 48
23233017 TGATATCCCA
* * * * *
23233027 TGTAAGACCATGTCTGGGACATGACATCGGCATATGATATGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGT-TGATATGTGTGCCAG
*
23233076 TGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAG
*
23233124 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAG
* * *
23233172 TGTAAAACTATGTCTGGGACATGACATCGGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAG
*
23233220 TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAG
*
23233268 TGTAAAACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAG
23233316 T
1 T
23233317 CTTCATCGGT
Statistics
Matches: 223, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
48 193 0.87
49 30 0.13
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCAG
Found at i:23238415 original size:21 final size:21
Alignment explanation
Indices: 23238389--23238441 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
23238379 CAACAACTTT
23238389 TAATTTT-ATACCATAAATTTC
1 TAATTTTCA-ACCATAAATTTC
*
23238410 TAATTTTCAGCCATAAATTTC
1 TAATTTTCAACCATAAATTTC
23238431 TAATTTTCAAC
1 TAATTTTCAAC
23238442 ATATACATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATTTTCAACCATAAATTTC
Found at i:23239326 original size:132 final size:132
Alignment explanation
Indices: 23239089--23239353 Score: 521
Period size: 132 Copynumber: 2.0 Consensus size: 132
23239079 AACTACACGA
23239089 AGTACACTAGACATACCTTTATCAAGCTGTGATCAAGATGACCATTTGGTTTAGAGGGGCAAAAA
1 AGTACACTAGACATACCTTTATCAAGCTGTGATCAAGATGACCATTTGGTTTAGAGGGGCAAAAA
23239154 TTTCAAAATCTACCCGATCAAAAGCTGGTACAGATGGCTTGAAGTAGCAGATACAACCACCAGTG
66 TTTCAAAATCTACCCGATCAAAAGCTGGTACAGATGGCTTGAAGTAGCAGATACAACCACCAGTG
23239219 CT
131 CT
23239221 AGTACACTAGACATACCTTTATCAAGCTGTGATCAAGATGACCATTTGGTTTAGAGGGGCAAAAA
1 AGTACACTAGACATACCTTTATCAAGCTGTGATCAAGATGACCATTTGGTTTAGAGGGGCAAAAA
*
23239286 TTTCAAAATCTACTCGATCAAAAGCTGGTACAGATGGCTTGAAGTAGCAGATACAACCACCAGTG
66 TTTCAAAATCTACCCGATCAAAAGCTGGTACAGATGGCTTGAAGTAGCAGATACAACCACCAGTG
23239351 CT
131 CT
23239353 A
1 A
23239354 ATCTAAATGA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (132 bp):
AGTACACTAGACATACCTTTATCAAGCTGTGATCAAGATGACCATTTGGTTTAGAGGGGCAAAAA
TTTCAAAATCTACCCGATCAAAAGCTGGTACAGATGGCTTGAAGTAGCAGATACAACCACCAGTG
CT
Found at i:23240817 original size:24 final size:24
Alignment explanation
Indices: 23240782--23240832 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
23240772 ATTAGCAAAT
*
23240782 ATATATTTTTTAA-AAATTATAAAA
1 ATATATTATTTAATAAATT-TAAAA
23240806 ATATATTATTTAATAAATTTAAAA
1 ATATATTATTTAATAAATTTAAAA
23240830 ATA
1 ATA
23240833 AACATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATATTATTTAATAAATTTAAAA
Found at i:23241376 original size:5 final size:5
Alignment explanation
Indices: 23241354--23241389 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
23241344 TAAAATGTAC
23241354 ATATA TATATA TATATA ATATA ATATA ATATA ATAT
1 ATATA -ATATA -ATATA ATATA ATATA ATATA ATAT
23241390 TTAAAAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.63
6 11 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATA
Found at i:23246962 original size:18 final size:19
Alignment explanation
Indices: 23246932--23246971 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
23246922 TTTATTTCGT
23246932 TTTATTCTATTTAATTTTA
1 TTTATTCTATTTAATTTTA
23246951 TTTATT-TATTTAATTTTA
1 TTTATTCTATTTAATTTTA
23246969 TTT
1 TTT
23246972 GTTTTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTCTATTTAATTTTA
Found at i:23246966 original size:23 final size:23
Alignment explanation
Indices: 23246932--23246993 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
23246922 TTTATTTCGT
23246932 TTTATTCT-ATTTAATTT-TATTTA
1 TTTATT-TAATTTAATTTGT-TTTA
*
23246955 TTTATTTAATTTTATTTGTTTTA
1 TTTATTTAATTTAATTTGTTTTA
*
23246978 TATTA-ATAATTTAATT
1 T-TTATTTAATTTAATT
23246994 CTAATTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 1 0.03
23 28 0.85
24 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTATTTAATTTAATTTGTTTTA
Found at i:23247319 original size:25 final size:26
Alignment explanation
Indices: 23247282--23247331 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
23247272 AATTTAATAA
*
23247282 TTTAATTAATATTTAA-TAAATATAT
1 TTTAATTAATATTTAAGGAAATATAT
* *
23247307 TTTACTTATTATTTAAGGAAATATA
1 TTTAATTAATATTTAAGGAAATATA
23247332 CATATACATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
TTTAATTAATATTTAAGGAAATATAT
Found at i:23251464 original size:3 final size:3
Alignment explanation
Indices: 23251456--23251484 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23251446 AATAACCTTA
23251456 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
23251485 AAGGGGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:23252942 original size:13 final size:13
Alignment explanation
Indices: 23252924--23252948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23252914 AGAGCTGCAG
23252924 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
23252937 TTTTTTTTTTGT
1 TTTTTTTTTTGT
23252949 ATATGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:23268605 original size:43 final size:43
Alignment explanation
Indices: 23268557--23268694 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
23268547 AAATTTTGCT
*
23268557 TATAGAAAATGACCTTTAACAGCGCTTCT-CCTGCAAACACCGA-
1 TATAGAACATGACCTTTAACAGCGCTTCTACCT-CAAACACC-AC
* * * * *
23268600 TATAGATCATGACCTTTAGCGGCGCTTTTACCTCAAACGCCAC
1 TATAGAACATGACCTTTAACAGCGCTTCTACCTCAAACACCAC
* * * * * * *
23268643 TATAGAACATGACATTTAGCTGTGCTTCTACCGCAAACGCCGC
1 TATAGAACATGACCTTTAACAGCGCTTCTACCTCAAACACCAC
*
23268686 TAAAGAACA
1 TATAGAACA
23268695 AAACTTTTAG
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 75 0.95
44 3 0.04
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
TATAGAACATGACCTTTAACAGCGCTTCTACCTCAAACACCAC
Found at i:23268704 original size:43 final size:43
Alignment explanation
Indices: 23268614--23268714 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
23268604 GATCATGACC
* * * * **
23268614 TTTAGCGGCGCTTTTACCTCAAACGCCACTATAGAACATGACA
1 TTTAGCGGTGCTTCTACCGCAAACGCCACTAAAGAACAAAACA
* * *
23268657 TTTAGCTGTGCTTCTACCGCAAACGCCGCTAAAGAACAAAACT
1 TTTAGCGGTGCTTCTACCGCAAACGCCACTAAAGAACAAAACA
23268700 TTTAGCGGTGCTTCT
1 TTTAGCGGTGCTTCT
23268715 CCCACATATG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
TTTAGCGGTGCTTCTACCGCAAACGCCACTAAAGAACAAAACA
Found at i:23270031 original size:56 final size:55
Alignment explanation
Indices: 23269934--23270053 Score: 147
Period size: 56 Copynumber: 2.2 Consensus size: 55
23269924 GCATTATTTA
* ** * *
23269934 TATTTTATT-AAAATATAAAAATATTAAAAATATTACCTTATTTAAAAGAACTTT
1 TATTTTATTAAAAATATAAAAATAGTAAAAATATTAAATTATTAAAAACAACTTT
23269988 TATTTTATTAAAAATATAAAAA-AGTAAATTACA-ATTAAATTATTAAAAACAACTTT
1 TATTTTATTAAAAATATAAAAATAGTAAA--A-ATATTAAATTATTAAAAACAACTTT
23270044 TATTTTATTA
1 TATTTTATTA
23270054 GATGAAACAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
54 14 0.25
55 12 0.21
56 30 0.53
57 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (55 bp):
TATTTTATTAAAAATATAAAAATAGTAAAAATATTAAATTATTAAAAACAACTTT
Found at i:23270100 original size:8 final size:9
Alignment explanation
Indices: 23270081--23270115 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
23270071 AAGTTTGTAC
23270081 AAAAATATT
1 AAAAATATT
23270090 AAAAATA-T
1 AAAAATATT
23270098 AAAAATATT
1 AAAAATATT
23270107 AAAAATATT
1 AAAAATATT
23270116 GCCTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:23270103 original size:17 final size:17
Alignment explanation
Indices: 23270081--23270114 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23270071 AAGTTTGTAC
23270081 AAAAATATTAAAAATAT
1 AAAAATATTAAAAATAT
23270098 AAAAATATTAAAAATAT
1 AAAAATATTAAAAATAT
23270115 TGCCTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATATTAAAAATAT
Found at i:23270537 original size:18 final size:18
Alignment explanation
Indices: 23270514--23270550 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23270504 GAAAAATGAA
*
23270514 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
23270532 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
23270550 A
1 A
23270551 TGCACGTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:23272713 original size:31 final size:31
Alignment explanation
Indices: 23272678--23272738 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
23272668 GAAATTGATA
23272678 TTTGGACTACATCAAATGTAATCAATTATTG
1 TTTGGACTACATCAAATGTAATCAATTATTG
23272709 TTTGGACTACATCAAATGTAATCAATTATT
1 TTTGGACTACATCAAATGTAATCAATTATT
23272739 TAACAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (31 bp):
TTTGGACTACATCAAATGTAATCAATTATTG
Found at i:23281715 original size:13 final size:11
Alignment explanation
Indices: 23281679--23281709 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
23281669 CAGCCCGTAT
23281679 TAATTTTTATA
1 TAATTTTTATA
*
23281690 TTATTTTTATA
1 TAATTTTTATA
23281701 TAATTTTTA
1 TAATTTTTA
23281710 AATATATATA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:23281894 original size:22 final size:22
Alignment explanation
Indices: 23281869--23281911 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23281859 CCAAATAATA
23281869 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
23281891 ATAATAGTAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
23281912 AATATGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:23287950 original size:12 final size:12
Alignment explanation
Indices: 23287933--23287964 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
23287923 CGGCCCGTCC
23287933 ATATTAATTTTT
1 ATATTAATTTTT
23287945 ATATT-ATTTTT
1 ATATTAATTTTT
23287956 ATA-TAATTT
1 ATATTAATTT
23287965 AAAATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:23288140 original size:30 final size:31
Alignment explanation
Indices: 23288088--23288147 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
23288078 ACTTAACAAT
23288088 CAAATGTCTCCAAAATTAATAACAAAATTAG
1 CAAATGTCTCCAAAATTAATAACAAAATTAG
**
23288119 CAAATGTCTTTAAAA-TAATAACAAAATTA
1 CAAATGTCTCCAAAATTAATAACAAAATTA
23288148 ACAATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.28
Consensus pattern (31 bp):
CAAATGTCTCCAAAATTAATAACAAAATTAG
Found at i:23289812 original size:38 final size:38
Alignment explanation
Indices: 23289761--23289835 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
23289751 AAATACTAAA
23289761 GGCAGATAATATAAAGCGACAAAAGATTGATCAATAAT
1 GGCAGATAATATAAAGCGACAAAAGATTGATCAATAAT
23289799 GGCAGATAATATAAAGCGACAAAAGATTGATCAATAA
1 GGCAGATAATATAAAGCGACAAAAGATTGATCAATAA
23289836 AATCAAGTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.20
Consensus pattern (38 bp):
GGCAGATAATATAAAGCGACAAAAGATTGATCAATAAT
Found at i:23291068 original size:12 final size:12
Alignment explanation
Indices: 23291053--23291087 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23291043 CATGGTTATA
*
23291053 GTAGAGGTAGAG
1 GTAGAGGCAGAG
23291065 GTAGAGGCAGAG
1 GTAGAGGCAGAG
*
23291077 GCAGAGGCAGA
1 GTAGAGGCAGA
23291088 AGAAGGAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.49, T:0.09
Consensus pattern (12 bp):
GTAGAGGCAGAG
Found at i:23297955 original size:22 final size:22
Alignment explanation
Indices: 23297905--23297946 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23297895 CCCAATTTTA
23297905 TTAT-TTATTTATTTTTAATTG
1 TTATATTATTTATTTTTAATTG
23297926 TTATATTATTTATTTTTAATT
1 TTATATTATTTATTTTTAATT
23297947 TACTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TTATATTATTTATTTTTAATTG
Found at i:23298004 original size:16 final size:17
Alignment explanation
Indices: 23297977--23298020 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
23297967 ATTCTTATAC
*
23297977 TTATATTTTTAATTTTT
1 TTATACTTTTAATTTTT
23297994 TTATA-TTTTAATTTTT
1 TTATACTTTTAATTTTT
*
23298010 ATATACTTTTA
1 TTATACTTTTA
23298021 TTATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATACTTTTAATTTTT
Found at i:23306372 original size:12 final size:12
Alignment explanation
Indices: 23306339--23306379 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
23306329 CTAGGGAAAT
*
23306339 AAAAATGATATA
1 AAAAATGATTTA
23306351 AAAAAT-ATTTA
1 AAAAATGATTTA
23306362 AAAAATGATTTTA
1 AAAAATGA-TTTA
23306375 AAAAA
1 AAAAA
23306380 ATAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 10 0.38
12 7 0.27
13 9 0.35
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (12 bp):
AAAAATGATTTA
Found at i:23318103 original size:29 final size:32
Alignment explanation
Indices: 23318047--23318116 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
23318037 AATAATTCTA
23318047 AAAAAAATCTTTAAAATATATATAAATTATGT
1 AAAAAAATCTTTAAAATATATATAAATTATGT
* * *
23318079 AAAAATATTTTTAAAA-ATA-A-AAATTATGA
1 AAAAAAATCTTTAAAATATATATAAATTATGT
23318108 ATAAAAAAT
1 A-AAAAAAT
23318117 TTCTAGAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.27
30 7 0.21
31 3 0.09
32 14 0.42
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (32 bp):
AAAAAAATCTTTAAAATATATATAAATTATGT
Found at i:23319250 original size:26 final size:26
Alignment explanation
Indices: 23319210--23319259 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
23319200 AAGTTTTGGC
23319210 TTTAATAAAACTTGG-TTTGATTTAT
1 TTTAATAAAACTTGGCTTTGATTTAT
*
23319235 TTTAATGAAAATTTGGCTTTGATTT
1 TTTAAT-AAAACTTGGCTTTGATTT
23319260 CTTAAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 8 0.36
27 8 0.36
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (26 bp):
TTTAATAAAACTTGGCTTTGATTTAT
Found at i:23319755 original size:23 final size:23
Alignment explanation
Indices: 23319725--23319768 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
23319715 TTAAAGTATA
23319725 AATATG-AAATATTTGAAGGGCT
1 AATATGAAAATATTTGAAGGGCT
23319747 AATAGTGAAAATATTTGAAGGG
1 AATA-TGAAAATATTTGAAGGG
23319769 TAGAAGGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 2 0.10
24 14 0.70
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (23 bp):
AATATGAAAATATTTGAAGGGCT
Found at i:23320250 original size:19 final size:19
Alignment explanation
Indices: 23320226--23320263 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23320216 AATATCAAGT
23320226 TAGATTCATGAAAATAGAA
1 TAGATTCATGAAAATAGAA
23320245 TAGATTCATGAAAATAGAA
1 TAGATTCATGAAAATAGAA
23320264 GTTGGAGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (19 bp):
TAGATTCATGAAAATAGAA
Found at i:23325579 original size:45 final size:45
Alignment explanation
Indices: 23325512--23325617 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 45
23325502 AACCCTAGAC
* *
23325512 TTGGATCCTCATTCATAGACCCTCGAAATTACTTAAGGTGTTGAT
1 TTGGATCCTCATTCATAAACCCTCAAAATTACTTAAGGTGTTGAT
* * ** *
23325557 TTGGATCCTCACTCATAAACCCTTAAAATTGTTTAATGTGTTGAT
1 TTGGATCCTCATTCATAAACCCTCAAAATTACTTAAGGTGTTGAT
23325602 TTGGATCCTCATTCAT
1 TTGGATCCTCATTCAT
23325618 CTGGATCATT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TTGGATCCTCATTCATAAACCCTCAAAATTACTTAAGGTGTTGAT
Found at i:23326851 original size:21 final size:22
Alignment explanation
Indices: 23326827--23326867 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23326817 AAAACTTAAA
23326827 TAACAT-GAAACCAAAAGCATT
1 TAACATAGAAACCAAAAGCATT
* *
23326848 TAACATAGAAATCTAAAGCA
1 TAACATAGAAACCAAAAGCA
23326868 AGAAACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.20
Consensus pattern (22 bp):
TAACATAGAAACCAAAAGCATT
Found at i:23330624 original size:25 final size:25
Alignment explanation
Indices: 23330574--23330625 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
23330564 GATTTTTTTA
* *
23330574 AAAAATATATTTAACATTTTATATT
1 AAAAATATATTTAACATTATAAATT
*
23330599 AAAAATATATTT-TCATTATACAATT
1 AAAAATATATTTAACATTATA-AATT
23330624 AA
1 AA
23330626 TTATTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAAATATATTTAACATTATAAATT
Found at i:23332485 original size:25 final size:24
Alignment explanation
Indices: 23332448--23332495 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
23332438 TTGGTCATTT
*
23332448 TTAAGTCATATTTTTTTTAATTTTA
1 TTAAGTCATATTTTTATT-ATTTTA
23332473 TTAAGTTCA-ATTTTTATTATTTT
1 TTAAG-TCATATTTTTATTATTTT
23332496 CAAAATCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 13 0.62
26 3 0.14
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TTAAGTCATATTTTTATTATTTTA
Found at i:23341240 original size:24 final size:24
Alignment explanation
Indices: 23341208--23341262 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
23341198 AATGTTTCTA
23341208 AGCTTCAACAGCAGTGAAAGTAGT
1 AGCTTCAACAGCAGTGAAAGTAGT
23341232 AGCTTCAACAGCAGTGAAAGTAGT
1 AGCTTCAACAGCAGTGAAAGTAGT
*
23341256 AACTTCA
1 AGCTTCA
23341263 TCTACCTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (24 bp):
AGCTTCAACAGCAGTGAAAGTAGT
Found at i:23342200 original size:66 final size:66
Alignment explanation
Indices: 23342069--23342193 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
23342059 CAAAAATGCC
* * *
23342069 GCTATAGATCGAGAATTAATGGCGCTTTTTAAAAATCGCCGCTATAGATCGAGCATTAGAAACGC
1 GCTATAGATCGAGAATTAATGACGCTTTTGAAAAATCGCCGCTATAGATCGACCATTAGAAACGC
23342134 T
66 T
* * * *
23342135 GCTATAGATTGAGCATTAGTGACGCTTTTCGAAAAAT-GCCGCTATAGGTCGACCATTAG
1 GCTATAGATCGAGAATTAATGACGCTTTT-GAAAAATCGCCGCTATAGATCGACCATTAG
23342194 CGACGCTTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 45 0.88
67 6 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (66 bp):
GCTATAGATCGAGAATTAATGACGCTTTTGAAAAATCGCCGCTATAGATCGACCATTAGAAACGC
T
Found at i:23342380 original size:40 final size:39
Alignment explanation
Indices: 23342261--23342404 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 39
23342251 AGCTTTACTG
* *
23342261 GCATTAGCGGCGCATTCCTAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCGC-TTCTTAAAAACGCCGCTATAGATCGA
* *
23342301 GCATTAGC-G-GC--ATT-AAAACGCTGCTATAGATCGA
1 GCATTAGCGGCGCTTCTTAAAAACGCCGCTATAGATCGA
*
23342335 GCATTAGCGGCGCTTCTTGAAAAACGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTCTT-AAAAACGCCGCTATAGATCGA
* *
23342375 CCATTAGCGGCGCTTTCTGAAAAACGCCGC
1 GCATTAGCGGCGC-TTCTTAAAAACGCCGC
23342405 AAATAAATTA
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
34 26 0.30
35 2 0.02
36 2 0.02
38 4 0.05
39 1 0.01
40 49 0.56
41 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (39 bp):
GCATTAGCGGCGCTTCTTAAAAACGCCGCTATAGATCGA
Found at i:23342499 original size:189 final size:189
Alignment explanation
Indices: 23342121--23342500 Score: 584
Period size: 189 Copynumber: 2.0 Consensus size: 189
23342111 TATAGATCGA
* * *
23342121 GCATTAGAAACGCTGCTATAGATTGAGCATTAGTGACGCTTTTCGAAAAATGCCGCTATAGGTCG
1 GCATTAGAAACGCTGCTATAGATCGAGCATTAGCGACGCTTTTCGAAAAACGCCGCTATAGGTCG
*
23342186 ACCATTAGCGACGCTTTCTGAAAAACGCTGAAAAAAATTAAGCACAACGTCGTCGTTTTATGTTG
66 ACCATTAGCGACGCTTTCTGAAAAACGCCGAAAAAAATTAAGCACAACGTCGTCGTTTTATGTTG
* * *
23342251 AGCTTTACTGGCATTAGCGGCGCATTCCTAAAAATGCCGCTATAGATCGAGCATTAGCG
131 AGCTTTAATGGCATTAGCAGCGCATTCCTAAAAATGCCGCCATAGATCGAGCATTAGCG
*
23342310 GCATTA-AAACGCTGCTATAGATCGAGCATTAGCGGCGCTTCTT-GAAAAACGCCGCTATAGGTC
1 GCATTAGAAACGCTGCTATAGATCGAGCATTAGCGACGCTT-TTCGAAAAACGCCGCTATAGGTC
* * *
23342373 GACCATTAGCGGCGCTTTCTGAAAAACGCCGCAAATAAATTAAGCACAATGTCGTCGTTTTATGT
65 GACCATTAGCGACGCTTTCTGAAAAACGCCG-AAAAAAATTAAGCACAACGTCGTCGTTTTATGT
* ** * *
23342438 TGAGCTTTAATGGCATTAGCAGCGCTTTTTTAAAATTGCTGCCATAGATCGAGCATTAGCG
129 TGAGCTTTAATGGCATTAGCAGCGCATTCCTAAAAATGCCGCCATAGATCGAGCATTAGCG
23342499 GC
1 GC
23342501 GCTTTTCGAA
Statistics
Matches: 173, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
188 79 0.46
189 94 0.54
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (189 bp):
GCATTAGAAACGCTGCTATAGATCGAGCATTAGCGACGCTTTTCGAAAAACGCCGCTATAGGTCG
ACCATTAGCGACGCTTTCTGAAAAACGCCGAAAAAAATTAAGCACAACGTCGTCGTTTTATGTTG
AGCTTTAATGGCATTAGCAGCGCATTCCTAAAAATGCCGCCATAGATCGAGCATTAGCG
Found at i:23342597 original size:21 final size:21
Alignment explanation
Indices: 23342568--23342676 Score: 89
Period size: 21 Copynumber: 5.2 Consensus size: 21
23342558 ATTAGTGTCA
* *
23342568 TTAGAGTTTATGGGTTATGGT
1 TTAGGGTTTATGGTTTATGGT
**
23342589 TTAGGGTTTATGGTTTATAAT
1 TTAGGGTTTATGGTTTATGGT
*
23342610 TTAGGGCTTA-GAGTTTATGGT
1 TTAGGGTTTATG-GTTTATGGT
* *
23342631 TTGGGGTTTATGGTTTGA-GAT
1 TTAGGGTTTATGGTTT-ATGGT
* *
23342652 TTAAGGTTTAAGGTTTA-GGAT
1 TTAGGGTTTATGGTTTATGG-T
23342673 TTAG
1 TTAG
23342677 TGGTAAATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.04
21 64 0.93
22 2 0.03
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTATGGT
Found at i:23342599 original size:14 final size:14
Alignment explanation
Indices: 23342573--23342668 Score: 70
Period size: 14 Copynumber: 6.9 Consensus size: 14
23342563 TGTCATTAGA
23342573 GTTTATGGG-TTATG
1 GTTTA-GGGTTTATG
23342587 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
*** *
23342601 GTTTATAATTTAGG
1 GTTTAGGGTTTATG
* *
23342615 GCTTAGAGTTTATG
1 GTTTAGGGTTTATG
*
23342629 GTTTGGGGTTTATG
1 GTTTAGGGTTTATG
* *
23342643 GTTT-GAGATTTAAG
1 GTTTAG-GGTTTATG
*
23342657 GTTTAAGGTTTA
1 GTTTAGGGTTTA
23342669 GGATTTAGTG
Statistics
Matches: 64, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
13 4 0.06
14 60 0.94
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:23342645 original size:7 final size:7
Alignment explanation
Indices: 23342573--23342668 Score: 61
Period size: 7 Copynumber: 13.7 Consensus size: 7
23342563 TGTCATTAGA
23342573 GTTTATG
1 GTTTATG
*
23342580 GGTTATG
1 GTTTATG
*
23342587 GTTTAGG
1 GTTTATG
23342594 GTTTATG
1 GTTTATG
*
23342601 GTTTATA
1 GTTTATG
* *
23342608 ATTTAGG
1 GTTTATG
*
23342615 GCTTA-G
1 GTTTATG
23342621 AGTTTATG
1 -GTTTATG
**
23342629 GTTTGGG
1 GTTTATG
23342636 GTTTATG
1 GTTTATG
23342643 GTTTGA-G
1 GTTT-ATG
* *
23342650 ATTTAAG
1 GTTTATG
*
23342657 GTTTAAG
1 GTTTATG
23342664 GTTTA
1 GTTTA
23342669 GGATTTAGTG
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
6 2 0.03
7 64 0.94
8 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:23343136 original size:7 final size:7
Alignment explanation
Indices: 23343115--23343210 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
23343105 TTAATTATCA
*
23343115 TTATAGT
1 TTATGGT
*
23343122 TTAAGGT
1 TTATGGT
23343129 TTATGGT
1 TTATGGT
*
23343136 TTAGGGT
1 TTATGGT
**
23343143 TTAAAGT
1 TTATGGT
23343150 TTATGAGT
1 TTATG-GT
23343158 TACTAT--T
1 T--TATGGT
*
23343165 TTAAGGT
1 TTATGGT
*
23343172 TTATGGA
1 TTATGGT
23343179 TTATGAGT
1 TTATG-GT
* *
23343187 TTAGGGA
1 TTATGGT
23343194 TTATGGT
1 TTATGGT
23343201 TTATGGT
1 TTATGGT
23343208 TTA
1 TTA
23343211 AGGGTTGGGG
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
5 2 0.03
7 54 0.81
8 8 0.12
10 3 0.04
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:23343137 original size:14 final size:14
Alignment explanation
Indices: 23343115--23343237 Score: 61
Period size: 14 Copynumber: 8.6 Consensus size: 14
23343105 TTAATTATCA
*
23343115 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
23343129 TTATGGTTTAGGGT
1 TTATGGTTTAAGGT
** *
23343143 TTAAAGTTTATGAGT
1 TTATGGTTTAAG-GT
23343158 TACTAT--TTTAAGGT
1 T--TATGGTTTAAGGT
* *
23343172 TTATGGATTATGAGT
1 TTATGGTTTAAG-GT
* * *
23343187 TTAGGGATTATGGT
1 TTATGGTTTAAGGT
*
23343201 TTATGGTTTAAGGG
1 TTATGGTTTAAGGT
**
23343215 TTGGGGTTTAAGGCT
1 TTATGGTTTAAGG-T
*
23343230 TAATGGTT
1 TTATGGTT
23343238 AGGGGTTAAG
Statistics
Matches: 82, Mismatches: 20, Indels: 13
0.71 0.17 0.11
Matches are distributed among these distances:
12 3 0.04
14 51 0.62
15 26 0.32
17 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:23343189 original size:22 final size:22
Alignment explanation
Indices: 23343114--23343213 Score: 84
Period size: 22 Copynumber: 4.7 Consensus size: 22
23343104 ATTAATTATC
23343114 ATTAT-AGTTTAAGGTTTATGG
1 ATTATGAGTTTAAGGTTTATGG
* * *
23343135 TTTA-GGGTTTAAAGTTTAT-G
1 ATTATGAGTTTAAGGTTTATGG
*
23343155 AGTTACT-ATTTTAAGGTTTATGG
1 A-TTA-TGAGTTTAAGGTTTATGG
* *
23343178 ATTATGAGTTTAGGGATTATGG
1 ATTATGAGTTTAAGGTTTATGG
*
23343200 TTTATG-GTTTAAGG
1 ATTATGAGTTTAAGG
23343214 GTTGGGGTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 26 0.43
22 32 0.52
23 2 0.03
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (22 bp):
ATTATGAGTTTAAGGTTTATGG
Found at i:23343194 original size:15 final size:14
Alignment explanation
Indices: 23343169--23343203 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
23343159 ACTATTTTAA
*
23343169 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
23343183 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
23343198 GGTTTA
1 GGTTTA
23343204 TGGTTTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:23343247 original size:21 final size:21
Alignment explanation
Indices: 23343198--23343244 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23343188 TAGGGATTAT
* *
23343198 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
23343219 GGTTTAAGGCTTAATGGTTAGG
1 GGTTTAAGGCTTAAGGGTT-GG
23343241 GGTT
1 GGTT
23343245 AAGTGTTAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:23343325 original size:36 final size:36
Alignment explanation
Indices: 23343218--23343325 Score: 98
Period size: 36 Copynumber: 3.0 Consensus size: 36
23343208 TTAAGGGTTG
* *
23343218 GGGTTTAAGGCTTAATGGTTAGGGG-TTAA-GTGTTA
1 GGGTTTAAGGGTTAATGATTAGGGGTTTAATGT-TTA
* * * *
23343253 GGGTTTTAGGGTTTAAAGATTA--TGTTTTATGATTTA
1 GGGTTTAAGGG-TTAATGATTAGGGGTTTAATG-TTTA
*
23343289 GGGTTTAAGGGATAATGATTAGGGGTTTAATGTTTA
1 GGGTTTAAGGGTTAATGATTAGGGGTTTAATGTTTA
23343325 G
1 G
23343326 ATTAATTAGT
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
34 1 0.02
35 20 0.36
36 27 0.48
37 8 0.14
ACGTcount: A:0.25, C:0.01, G:0.32, T:0.42
Consensus pattern (36 bp):
GGGTTTAAGGGTTAATGATTAGGGGTTTAATGTTTA
Found at i:23344040 original size:114 final size:114
Alignment explanation
Indices: 23343799--23344144 Score: 491
Period size: 114 Copynumber: 3.1 Consensus size: 114
23343789 GGCATTTTTA
* **
23343799 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGTATAAACGCCACAAAAGGTTATTCTG
1 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAACGCCATTAAAGGTTATTCTG
* * * * *
23343864 -TTACA-CCAAACGAAGTCATTTTGTTGGATTTTTAGTGGCGTTTTAAG
66 TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAGTGGCGTTTTAGG
* * * * *
23343911 GTAAAACACAGCAATAGGCTGGATTTAGCGGCGCTAGGGGATAAACGCCATTAACGGTTATTTTG
1 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAACGCCATTAAAGGTTATTCTG
* * *
23343976 TTTATATCAAAACGACGTTGTTTTGTTGGATTTTTAATGGCATTTTAGG
66 TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAGTGGCGTTTTAGG
* *
23344025 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAATGCCATTAAAAGTTATTCTG
1 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAACGCCATTAAAGGTTATTCTG
* *
23344090 TTTATATCAAAACGACATCGTTTTGTTGGATTTTT-GTGGTGTTTTAGG
66 TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAGTGGCGTTTTAGG
23344138 GTAAAAC
1 GTAAAAC
23344145 ACCTTTAGCC
Statistics
Matches: 204, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
112 57 0.28
113 21 0.10
114 126 0.62
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (114 bp):
GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAACGCCATTAAAGGTTATTCTG
TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAGTGGCGTTTTAGG
Found at i:23346916 original size:9 final size:9
Alignment explanation
Indices: 23346859--23347028 Score: 114
Period size: 9 Copynumber: 18.9 Consensus size: 9
23346849 GTGTTAAAAT
*
23346859 TTACATAAG
1 TTACATAAC
23346868 TTACATAAC
1 TTACATAAC
*
23346877 GTACATAA-
1 TTACATAAC
* * *
23346885 ATATATATC
1 TTACATAAC
*
23346894 ATACCATAAC
1 TTA-CATAAC
*
23346904 TTACATAAT
1 TTACATAAC
23346913 TTACATAAC
1 TTACATAAC
*
23346922 ATACATAA-
1 TTACATAAC
* * *
23346930 ATATATATC
1 TTACATAAC
*
23346939 ATATCATAAC
1 TTA-CATAAC
23346949 TTACATAAC
1 TTACATAAC
23346958 TTACATAAC
1 TTACATAAC
* *
23346967 TTACATTAT
1 TTACATAAC
23346976 TTACATAAC
1 TTACATAAC
*
23346985 GTACATAA-
1 TTACATAAC
* * *
23346993 ATATAT-AT
1 TTACATAAC
23347001 TATATCATAAC
1 T-TA-CATAAC
23347012 TTACATAAC
1 TTACATAAC
23347021 TTACATAA
1 TTACATAA
23347029 GTAACTGTAA
Statistics
Matches: 127, Mismatches: 26, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
7 1 0.01
8 15 0.12
9 93 0.73
10 16 0.13
11 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAC
Found at i:23346927 original size:45 final size:45
Alignment explanation
Indices: 23346859--23346972 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
23346849 GTGTTAAAAT
* *
23346859 TTACATAAGTTACATAACGTACATAAATATATATCATACCATAAC
1 TTACATAACTTACATAACATACATAAATATATATCATACCATAAC
* *
23346904 TTACATAATTTACATAACATACATAAATATATATCATATCATAAC
1 TTACATAACTTACATAACATACATAAATATATATCATACCATAAC
*
23346949 TTACATAACTTACATAACTTACAT
1 TTACATAACTTACATAACATACAT
23346973 TATTTACATA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (45 bp):
TTACATAACTTACATAACATACATAAATATATATCATACCATAAC
Found at i:23346965 original size:63 final size:63
Alignment explanation
Indices: 23346898--23347028 Score: 235
Period size: 63 Copynumber: 2.1 Consensus size: 63
23346888 TATATCATAC
23346898 CATAACTTACATAATTTACATAACATACATAAATATATATCATATCATAACTTACATAACTTA
1 CATAACTTACATAATTTACATAACATACATAAATATATATCATATCATAACTTACATAACTTA
* * *
23346961 CATAACTTACATTATTTACATAACGTACATAAATATATATTATATCATAACTTACATAACTTA
1 CATAACTTACATAATTTACATAACATACATAAATATATATCATATCATAACTTACATAACTTA
23347024 CATAA
1 CATAA
23347029 GTAACTGTAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.36
Consensus pattern (63 bp):
CATAACTTACATAATTTACATAACATACATAAATATATATCATATCATAACTTACATAACTTA
Found at i:23352781 original size:44 final size:44
Alignment explanation
Indices: 23352740--23352827 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
23352730 GAAAAAAGTG
23352740 CCGCTAAAGAATG-GCACTTTTAGCGACGTTTGTGACAAAAAGCA
1 CCGCTAAAGAATGTGCAC-TTTAGCGACGTTTGTGACAAAAAGCA
* ** *
23352784 CCGCTAAAGATTGTGTTCTTTAGCGACGTTTGTGGC-AAAAGCA
1 CCGCTAAAGAATGTGCACTTTAGCGACGTTTGTGACAAAAAGCA
23352827 C
1 C
23352828 TAAAGGTCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
43 8 0.21
44 29 0.74
45 2 0.05
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
CCGCTAAAGAATGTGCACTTTAGCGACGTTTGTGACAAAAAGCA
Found at i:23352846 original size:40 final size:41
Alignment explanation
Indices: 23352757--23352865 Score: 132
Period size: 40 Copynumber: 2.6 Consensus size: 41
23352747 AGAATGGCAC
* *
23352757 TTTTAGCGACGTTTGTGACAAAAAGCACCGCTAAAGATTGTGTT
1 TTTTAGCGACGTTTGTGGC-AAAAGCA-C-CTAAAGATCGTGTT
* *
23352801 CTTTAGCGACGTTTGTGGCAAAAGCA-CTAAAGGTCGTGTT
1 TTTTAGCGACGTTTGTGGCAAAAGCACCTAAAGATCGTGTT
23352841 TTTTAGC-AGCGTTTGTGGCAAAAGC
1 TTTTAGCGA-CGTTTGTGGCAAAAGC
23352866 GCCGCTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
39 1 0.02
40 34 0.58
43 7 0.12
44 17 0.29
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (41 bp):
TTTTAGCGACGTTTGTGGCAAAAGCACCTAAAGATCGTGTT
Found at i:23352897 original size:43 final size:43
Alignment explanation
Indices: 23352849--23353004 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
23352839 TTTTTTAGCA
*
23352849 GCGTTTGTGGCAAAAGCGCCGCTAAAAAACATGACCTTTGGCG
1 GCGTTTGTGGCAAAAACGCCGCTAAAAAACATGACCTTTGGCG
* * *
23352892 GCGTTTGTGTCAAAAACGCCGCTAAAGAACATGACCTTTGGTG
1 GCGTTTGTGGCAAAAACGCCGCTAAAAAACATGACCTTTGGCG
** * * * * *
23352935 GCGCTTT-TATCAAAAATGTCGTTAAAGAACATGACCTTTAGCG
1 GCG-TTTGTGGCAAAAACGCCGCTAAAAAACATGACCTTTGGCG
* *
23352978 GCATTTGTGGCAAAAGCGCCGCTAAAA
1 GCGTTTGTGGCAAAAACGCCGCTAAAA
23353005 GTCATGTTAT
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 3 0.03
43 87 0.94
44 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (43 bp):
GCGTTTGTGGCAAAAACGCCGCTAAAAAACATGACCTTTGGCG
Found at i:23353529 original size:86 final size:84
Alignment explanation
Indices: 23353162--23353600 Score: 467
Period size: 87 Copynumber: 5.1 Consensus size: 84
23353152 TGTTAAATGG
* * * *
23353162 CGGGATTAAAT-CTCGAAACAGA--TTATTCAA-TTAAATTCTAATTTGGAAACAACATCAAAAT
1 CGGGAATAAATCCT-GAAACAGATTTTATTTAATTTTAATTCT-ATTTGGAAACAAAATCAAAAT
* * *
23353223 TGAATAAAATCTGTTAAACGA
64 GGAATAAAATCTATTGAACGA
*
23353244 AGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTTCTTATTT-GACAACAAAATCAAGA
1 CGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAA-TTC-TATTTGGA-AACAAAATCAA-A
*
23353308 ATGGAATAAAATCTATTGAACAA
62 ATGGAATAAAATCTATTGAACGA
*
23353331 CGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATACTCT-TTTGGAAACAAAAATAAAGA
1 CGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAAT--TCTATTTGGAAAC-AAAATCAA-A
*
23353395 ATGGAATAAAATCTGTTGAACGA
62 ATGGAATAAAATCTATTGAACGA
* * * *
23353418 CGAGAATAAATCCCGAAATAGATTTTATTTAATTTTAATTCTAATTTTGGAAATAAAATCAAAAT
1 CGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTCT-A-TTTGGAAACAAAATCAAAAT
* * *
23353483 AGAATAAAATTTATTGAACGG
64 GGAATAAAATCTATTGAACGA
* * * * * *
23353504 TGGGAATAAATCCTGAAACAAATTTTATTTAACTTTAATTCTCGTTTGGAAATAAAATAAAAAAT
1 CGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTCT-ATTTGGAAACAAAAT-CAAAAT
* * *
23353569 GAAATAAAATCTGTTGAACAA
64 GGAATAAAATCTATTGAACGA
23353590 CGGGAATAAAT
1 CGGGAATAAAT
23353601 AATAAATCCC
Statistics
Matches: 303, Mismatches: 38, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
82 17 0.06
83 2 0.01
84 7 0.02
85 23 0.08
86 110 0.36
87 134 0.44
88 10 0.03
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (84 bp):
CGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTCTATTTGGAAACAAAATCAAAATGG
AATAAAATCTATTGAACGA
Found at i:23353554 original size:173 final size:171
Alignment explanation
Indices: 23353203--23353654 Score: 539
Period size: 173 Copynumber: 2.6 Consensus size: 171
23353193 TAAATTCTAA
* * * * * * * *
23353203 TTTGGAAACAACATCAAAATTGAATAAAATCTGTTAAACGAAGGGAATAAATCCTGAAACAGATT
1 TTTGGAAACAAAATAAAAATGGAATAAAATCTGTTGAACGACGAGAATAAATCCCGAAATAGATT
* *
23353268 TTATTTAATTTTAATTTCTTA-TTTGACAACAAAATCAAGAATGGAATAAAATCTATTGAACAAC
66 TTATTTAATTTTAA-TTCTTATTTTGA-AATAAAATCAAGAATAGAATAAAATCTATTGAACAAC
* * *
23353332 GGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATACTCT
129 GGGAATAAATCCTGAAACAAATTTTATTTAACTTTAATACTCG
23353375 TTTGGAAACAAAAATAAAGAATGGAATAAAATCTGTTGAACGACGAGAATAAATCCCGAAATAGA
1 TTTGGAAAC-AAAATAAA-AATGGAATAAAATCTGTTGAACGACGAGAATAAATCCCGAAATAGA
* * **
23353440 TTTTATTTAATTTTAATTCTAATTTTGGAAATAAAATCAA-AATAGAATAAAATTTATTGAACGG
64 TTTTATTTAATTTTAATTCTTATTTT-GAAATAAAATCAAGAATAGAATAAAATCTATTGAACAA
* *
23353504 TGGGAATAAATCCTGAAACAAATTTTATTTAACTTTAATTCTCG
128 CGGGAATAAATCCTGAAACAAATTTTATTTAACTTTAATACTCG
* * * *
23353548 TTTGGAAATAAAATAAAAAATGAAATAAAATCTGTTGAACAACGGGAATAAATAATAAATCCCGA
1 TTTGGAAACAAAAT-AAAAATGGAATAAAATCTGTTGAACGAC--G-----AGAATAAATCCCGA
* * *
23353613 AATAGATTTTATTTAACTTTAATTTTTATTTTCAAATAAAAT
58 AATAGATTTTATTTAATTTTAATTCTTATTTTGAAATAAAAT
23353655 ATTTTTTTTC
Statistics
Matches: 241, Mismatches: 27, Indels: 18
0.84 0.09 0.06
Matches are distributed among these distances:
172 37 0.15
173 81 0.34
174 70 0.29
175 2 0.01
178 9 0.04
179 42 0.17
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (171 bp):
TTTGGAAACAAAATAAAAATGGAATAAAATCTGTTGAACGACGAGAATAAATCCCGAAATAGATT
TTATTTAATTTTAATTCTTATTTTGAAATAAAATCAAGAATAGAATAAAATCTATTGAACAACGG
GAATAAATCCTGAAACAAATTTTATTTAACTTTAATACTCG
Found at i:23353805 original size:22 final size:22
Alignment explanation
Indices: 23353758--23353799 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23353748 TAGCGAACAA
23353758 AAATATATAAATATAAATAAAC
1 AAATATATAAATATAAATAAAC
* *
23353780 AAATATTTATATA-AAATAAA
1 AAATATATAAATATAAATAAA
23353800 ATAAATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATATAAATATAAATAAAC
Found at i:23354286 original size:20 final size:20
Alignment explanation
Indices: 23354245--23354293 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
23354235 AGGGGTAATT
* *
23354245 AAATCAATTTGATTAAAGTC
1 AAATCAAATTGACTAAAGTC
23354265 AAATCAAATTGACTAGAA-TC
1 AAATCAAATTGACTA-AAGTC
*
23354285 AAATAAAAT
1 AAATCAAAT
23354294 CAAGATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (20 bp):
AAATCAAATTGACTAAAGTC
Found at i:23356039 original size:40 final size:40
Alignment explanation
Indices: 23355956--23356104 Score: 185
Period size: 40 Copynumber: 3.7 Consensus size: 40
23355946 TTTTGAGCCT
** *
23355956 TCGAGGCATTAGCGATGCTTTTTCAAGAAATGCCGCTATAGA
1 TCGA-GCATTAGCGGCGCTTTTTGAA-AAATGCCGCTATAGA
*
23355998 TCGAG-ATTTAGCGGCGCTTTTTGAAAAACGCCGCTATAGA
1 TCGAGCA-TTAGCGGCGCTTTTTGAAAAATGCCGCTATAGA
* *
23356038 TCGAGCATTAGCGACGCTTTTTGAAAAATGCCGCTATAGG
1 TCGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGA
* *
23356078 TCGAGCATTAGTGGCG-TTTTTAAAAAA
1 TCGAGCATTAGCGGCGCTTTTTGAAAAA
23356105 AATCCGTAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
39 10 0.11
40 64 0.67
41 17 0.18
42 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (40 bp):
TCGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGA
Found at i:23356105 original size:80 final size:82
Alignment explanation
Indices: 23355956--23356104 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 82
23355946 TTTTGAGCCT
* *
23355956 TCGAGGCATTAGCGATGCTTTTTCAAGAAATGCCGCTATAGATCGAGATTTAGCGGCGCTTTTTG
1 TCGAGGCATTAGCGACGCTTTTTCAAGAAATGCCGCTATAGATCGAGATTTAGCGGCGCTTTTTA
23356021 AAAAACGCCGCTATAGA
66 AAAAACGCCGCTATAGA
* * *
23356038 TCGA-GCATTAGCGACGCTTTTTGAA-AAATGCCGCTATAGGTCGAGCA-TTAGTGGCG-TTTTT
1 TCGAGGCATTAGCGACGCTTTTTCAAGAAATGCCGCTATAGATCGAG-ATTTAGCGGCGCTTTTT
23356099 AAAAAA
65 AAAAAA
23356105 AATCCGTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
79 10 0.16
80 27 0.44
81 20 0.33
82 4 0.07
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (82 bp):
TCGAGGCATTAGCGACGCTTTTTCAAGAAATGCCGCTATAGATCGAGATTTAGCGGCGCTTTTTA
AAAAACGCCGCTATAGA
Found at i:23356574 original size:15 final size:15
Alignment explanation
Indices: 23356554--23356590 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23356544 AATATTTTAA
23356554 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
23356569 GGTTTAGGGATTATG
1 GGTTTATGGATTATG
*
23356584 AGTTTAT
1 GGTTTAT
23356591 AGTTTAAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:23356609 original size:37 final size:37
Alignment explanation
Indices: 23356568--23356640 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
23356558 TATGGATTAT
*
23356568 GGGTTTAGGGATTATGAGTTTATAGTTTAAGGTTTAG
1 GGGTTTAGGGATTATGAGTTAATAGTTTAAGGTTTAG
* * *
23356605 GGGTTTATGGTTTATGAGTTAATATTTTAAGGTTTA
1 GGGTTTAGGGATTATGAGTTAATAGTTTAAGGTTTA
23356641 TGGATTTGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.47
Consensus pattern (37 bp):
GGGTTTAGGGATTATGAGTTAATAGTTTAAGGTTTAG
Found at i:23356724 original size:8 final size:7
Alignment explanation
Indices: 23356549--23356725 Score: 59
Period size: 7 Copynumber: 24.3 Consensus size: 7
23356539 GAGTTAATAT
*
23356549 TTTAAGG
1 TTTATGG
23356556 TTTATGG
1 TTTATGG
*
23356563 ATTATGGG
1 TTTAT-GG
*
23356571 TTTAGGG
1 TTTATGG
*
23356578 ATTATGAG
1 TTTATG-G
*
23356586 TTTATAG
1 TTTATGG
*
23356593 TTTAAGG
1 TTTATGG
*
23356600 TTTAGGGG
1 TTTA-TGG
23356608 TTTATGG
1 TTTATGG
23356615 TTTATGAG
1 TTTATG-G
* **
23356623 TTAATAT
1 TTTATGG
*
23356630 TTTAAGG
1 TTTATGG
23356637 TTTATGG
1 TTTATGG
*
23356644 ATT-TGG
1 TTTATGG
*
23356650 ATTATGG
1 TTTATGG
* *
23356657 ATTCAGGG
1 -TTTATGG
*
23356665 ATTATGG
1 TTTATGG
* *
23356672 TATATTG
1 TTTATGG
* *
23356679 TTCAAGG
1 TTTATGG
* *
23356686 GTTAAGG
1 TTTATGG
*
23356693 TTTAGGG
1 TTTATGG
*
23356700 TTTTAAAGG
1 -TTT-ATGG
23356709 TTTATGG
1 TTTATGG
23356716 TTTAGTGG
1 TTTA-TGG
23356724 TT
1 TT
23356726 AGGAGTTAAG
Statistics
Matches: 121, Mismatches: 40, Indels: 17
0.68 0.22 0.10
Matches are distributed among these distances:
6 6 0.05
7 76 0.63
8 36 0.30
9 3 0.02
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (7 bp):
TTTATGG
Found at i:23356880 original size:50 final size:50
Alignment explanation
Indices: 23356820--23356918 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
23356810 AAGGGACATG
* *
23356820 GGCTAGGGGTTTAGGGTTTA-GAGTTTAAGATTTAAGGATTAAGAGTTAAT
1 GGCTAAGGGTTTAGGG-GTAGGAGTTTAAGATTTAAGGATTAAGAGTTAAT
* * * *
23356870 GGCTAAGGGTTTAGGGGTAGGGGTTTAGGATTTAAGGTTTAGGAGTTAA
1 GGCTAAGGGTTTAGGGGTAGGAGTTTAAGATTTAAGGATTAAGAGTTAA
23356919 AGGTTTAGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.05
50 40 0.95
ACGTcount: A:0.27, C:0.02, G:0.36, T:0.34
Consensus pattern (50 bp):
GGCTAAGGGTTTAGGGGTAGGAGTTTAAGATTTAAGGATTAAGAGTTAAT
Found at i:23356923 original size:15 final size:15
Alignment explanation
Indices: 23356891--23356932 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
23356881 TAGGGGTAGG
*
23356891 GGTTTAGGA-TTTAA
1 GGTTTAGGAGTTAAA
23356905 GGTTTAGGAGTTAAA
1 GGTTTAGGAGTTAAA
23356920 GGTTTAGGAGTTA
1 GGTTTAGGAGTTA
23356933 TATGTTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (15 bp):
GGTTTAGGAGTTAAA
Found at i:23357007 original size:22 final size:22
Alignment explanation
Indices: 23356966--23357008 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23356956 TGGGGCTTGG
**
23356966 GTTAGAGGTTAAGGGTTTAAGA
1 GTTAGAGGTTAAGGCATTAAGA
*
23356988 GTTAGGGGTTAAGGCATTAAG
1 GTTAGAGGTTAAGGCATTAAG
23357009 GTGACAGGGG
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:0.30, C:0.02, G:0.37, T:0.30
Consensus pattern (22 bp):
GTTAGAGGTTAAGGCATTAAGA
Found at i:23357199 original size:16 final size:16
Alignment explanation
Indices: 23357146--23357199 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
23357136 ATATTAAATA
*
23357146 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTCAAG
23357162 ATTTCAAATTTTC-A-
1 ATTTCAAATTTTCAAG
23357176 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
23357188 ATTTCAAATTTT
1 ATTTCAAATTTT
23357200 ATCTAATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
15 1 0.03
16 18 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:23359786 original size:13 final size:14
Alignment explanation
Indices: 23359770--23359798 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23359760 TTATAAATAT
23359770 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
23359783 TTATAATGGTTTAA
1 TTATAATGGTTTAA
23359797 TT
1 TT
23359799 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:23360535 original size:31 final size:31
Alignment explanation
Indices: 23360493--23360552 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
23360483 TGTATTTTTT
23360493 ATGCTACATTTGCTGTATTTGGTTGGATTCA
1 ATGCTACATTTGCTGTATTTGGTTGGATTCA
* *
23360524 ATGCTATATTTGCTGTTTTTGGTTGGATT
1 ATGCTACATTTGCTGTATTTGGTTGGATT
23360553 TAATACAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.17, C:0.10, G:0.23, T:0.50
Consensus pattern (31 bp):
ATGCTACATTTGCTGTATTTGGTTGGATTCA
Found at i:23362645 original size:3 final size:3
Alignment explanation
Indices: 23362637--23362669 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
23362627 AAGGAATACC
23362637 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23362670 ATAAGGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:23362798 original size:29 final size:30
Alignment explanation
Indices: 23362756--23362822 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
23362746 ATAATAAAAG
*
23362756 AAATAATAAAATAACGAGAA-AAGAAATAA
1 AAATAATAAAATAACGACAATAAGAAATAA
*
23362785 AAATAA-AATAATAACGACAATAATAAATAA
1 AAATAATAA-AATAACGACAATAAGAAATAA
*
23362815 TAATAATA
1 AAATAATA
23362823 CACAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 16 0.50
30 13 0.41
31 1 0.03
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.19
Consensus pattern (30 bp):
AAATAATAAAATAACGACAATAAGAAATAA
Found at i:23375553 original size:21 final size:22
Alignment explanation
Indices: 23375522--23375568 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
23375512 ATATTCAGAT
* *
23375522 GAGTGATACTCCACAGCAGGTG
1 GAGTGATACTCCAAAACAGGTG
23375544 GAGTG-TACTCCAAAACAGGTG
1 GAGTGATACTCCAAAACAGGTG
23375565 GAGT
1 GAGT
23375569 TTAAGCAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (22 bp):
GAGTGATACTCCAAAACAGGTG
Found at i:23378942 original size:15 final size:16
Alignment explanation
Indices: 23378922--23378961 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
23378912 AAAATAACTT
23378922 AATATTCTATATT-AA
1 AATATTCTATATTAAA
23378937 AATATTCT-T-TTAAA
1 AATATTCTATATTAAA
*
23378951 AATATTATATA
1 AATATTCTATA
23378962 ATAGTTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
13 2 0.10
14 10 0.48
15 9 0.43
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTCTATATTAAA
Found at i:23379893 original size:23 final size:23
Alignment explanation
Indices: 23379851--23379914 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
23379841 AAAAAATTTA
*
23379851 TAATATTATTAATTAGTTTTGATAGT
1 TAATATTATTAATTA-TTTTCA-A-T
23379877 TAATATTATTAA-T-TTTTCAAT
1 TAATATTATTAATTATTTTCAAT
23379898 TAA-ATTATTAAATTATT
1 TAATATTATT-AATTATT
23379915 ACATAGTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 6 0.18
21 6 0.18
22 2 0.06
23 7 0.21
25 1 0.03
26 12 0.35
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TAATATTATTAATTATTTTCAAT
Found at i:23383070 original size:13 final size:13
Alignment explanation
Indices: 23383052--23383077 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23383042 CACACAAATC
23383052 TCATATCATAATA
1 TCATATCATAATA
23383065 TCATATCATAATA
1 TCATATCATAATA
23383078 ATCAATCCAC
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TCATATCATAATA
Found at i:23386486 original size:17 final size:16
Alignment explanation
Indices: 23386441--23386492 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
23386431 AATCACTTTT
* *
23386441 ATATTAAATTAATATA
1 ATATTATATTAAAATA
*
23386457 ATATT-TATCAAAATAA
1 ATATTATATTAAAAT-A
23386473 ATATTATATTAAAATTA
1 ATATTATATTAAAA-TA
23386490 ATA
1 ATA
23386493 ATAAATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.21
16 11 0.38
17 11 0.38
18 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTATATTAAAATA
Found at i:23386492 original size:21 final size:22
Alignment explanation
Indices: 23386467--23386514 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
23386457 ATATTTATCA
23386467 AAATAAATATTATATTAAAATTAAT
1 AAATAAATA-T-TATTAAAA-TAAT
23386492 -AATAAATATTATTAAAATAAT
1 AAATAAATATTATTAAAATAAT
23386513 AA
1 AA
23386515 TAAGATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 1 0.05
24 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATAAATATTATTAAAATAAT
Found at i:23386515 original size:21 final size:24
Alignment explanation
Indices: 23386468--23386517 Score: 79
Period size: 21 Copynumber: 2.2 Consensus size: 24
23386458 TATTTATCAA
23386468 AATAAATATTATATTAAAATTAAT
1 AATAAATATTATATTAAAATTAAT
23386492 AATAAATA-T-TATTAAAA-TAAT
1 AATAAATATTATATTAAAATTAAT
23386513 AATAA
1 AATAA
23386518 GATAAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 1 0.04
24 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AATAAATATTATATTAAAATTAAT
Found at i:23388630 original size:752 final size:752
Alignment explanation
Indices: 23387186--23388696 Score: 2905
Period size: 752 Copynumber: 2.0 Consensus size: 752
23387176 ATATCCAGAA
23387186 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
1 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
*
23387251 AAACTCCTTATTTTATACTCTTTACGAAAGTAATTCACCCAACTGCTTTGTTCAATGACCTCGTC
66 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCACCCAACTGCTTTGTTCAATGACCTCGTC
23387316 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAATTAAATCCATTTACTCAATACAA
131 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAATTAAATCCATTTACTCAATACAA
23387381 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
196 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
23387446 ATAAATTACTCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
261 ATAAATTACTCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
23387511 CCAATGAGAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
326 CCAATGAGAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
23387576 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
391 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
*
23387641 ACACTCATATTAAAGTACATGAGTTGCATATGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
456 ACACTCATATTAAAGTACATGAGTTGCATACGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
23387706 TTACACTATGAACGTCACAAGTAAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
521 TTACACTATGAACGTCACAAGTAAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
23387771 GTAACAGTCGATTTTTTGGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
586 GTAACAGTCGATTTTTTGGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
*
23387836 TTCATAAAATTTATTAGTTAAATATTTATGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
651 TTCATAAAATTTATTAGTTAAATATTTACGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
23387901 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
716 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
23387938 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
1 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
*
23388003 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCATCCAACTGCTTTGTTCAATGACCTCGTC
66 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCACCCAACTGCTTTGTTCAATGACCTCGTC
* *
23388068 ATGTGTGTGTTACCCTCATATAATATCCTTGATTCCTTTGAGTTAAATCCATTTACTCAATACAA
131 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAATTAAATCCATTTACTCAATACAA
23388133 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
196 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
*
23388198 ATAAATTGCTCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
261 ATAAATTACTCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
23388263 CCAATGAGAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
326 CCAATGAGAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
23388328 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
391 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
*
23388393 ACACTCATATTAAAGTACATGAGTTGCATACGCATGGTCAGTGACTAACACAATATTTAGGTAAA
456 ACACTCATATTAAAGTACATGAGTTGCATACGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
*
23388458 TTACACTATGAACGTCACAAGTGAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
521 TTACACTATGAACGTCACAAGTAAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
* * *
23388523 GTAACAGTCGATTTTTTTGTGGTGTTAGGAATAGTAGTTTCAGGATAAAAAATCTGACGTGTCAA
586 GTAACAGTCGATTTTTTGGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
23388588 TTCATAAAATTTATTAGTTAAATATTTACGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
651 TTCATAAAATTTATTAGTTAAATATTTACGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
23388653 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
716 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
*
23388690 GAATCGT
1 GCATCGT
23388697 AAAAGCTATA
Statistics
Matches: 746, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
752 746 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (752 bp):
GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCACCCAACTGCTTTGTTCAATGACCTCGTC
ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAATTAAATCCATTTACTCAATACAA
TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
ATAAATTACTCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
CCAATGAGAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
ACACTCATATTAAAGTACATGAGTTGCATACGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
TTACACTATGAACGTCACAAGTAAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
GTAACAGTCGATTTTTTGGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
TTCATAAAATTTATTAGTTAAATATTTACGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
Found at i:23391628 original size:39 final size:39
Alignment explanation
Indices: 23391574--23391652 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
23391564 GATGATCCGC
*
23391574 AACAAATGCTAAATCATCAAATGACATGATATAACTCTA
1 AACAAATACTAAATCATCAAATGACATGATATAACTCTA
23391613 AACAAATACTAAATCATCAAATGACATGATATAACTCTA
1 AACAAATACTAAATCATCAAATGACATGATATAACTCTA
23391652 A
1 A
23391653 CTCTGTAACG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.25
Consensus pattern (39 bp):
AACAAATACTAAATCATCAAATGACATGATATAACTCTA
Found at i:23392906 original size:53 final size:53
Alignment explanation
Indices: 23392825--23392975 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
23392815 CTTACACGGT
* *
23392825 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
23392880 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
23392933 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
23392976 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:23400382 original size:53 final size:54
Alignment explanation
Indices: 23400301--23400466 Score: 209
Period size: 53 Copynumber: 3.1 Consensus size: 54
23400291 CTTACACGGT
* *
23400301 TCACATATCATACCGAAGCCATATCCCAGGC-ATGGTCTTATACGGAA-TCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCA-GCTATGGTCTTATACGGAAGTCACATTA
23400356 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GAAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGTCACATTA
** *
23400409 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG--G-CACACTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGTCACA-TTA
23400461 TCACAT
1 TCACAT
23400467 ATTTTTCGTC
Statistics
Matches: 102, Mismatches: 5, Indels: 11
0.86 0.04 0.09
Matches are distributed among these distances:
51 4 0.04
52 15 0.15
53 75 0.74
54 2 0.02
55 6 0.06
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGTCACATTA
Found at i:23403876 original size:78 final size:77
Alignment explanation
Indices: 23403790--23403953 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 77
23403780 GAATTTAAAC
* ** * *
23403790 CCGGTATAATACCAGC-TCGAAGCCTGCGGGA-CTTTAGCCCGGACATCTTTTCAGCACGTAGCC
1 CCGGTATAATACCAGCAT-GAAGCCTGC-GGACCTTAAGCCCGGACATAATTCCAGCACATAGCC
23403853 TGCAGACCTTAAGT
64 TGCAGACCTTAAGT
* * * *
23403867 CCGGTTATAATTCCAGCATGTAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGG-TATAATACCAGCATGAAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCT
*
23403932 GCGGACCTTAAGT
65 GCAGACCTTAAGT
23403945 CCGGATATA
1 CCGG-TATA
23403954 CTTCATCACT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 7 0.10
78 65 0.89
79 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (77 bp):
CCGGTATAATACCAGCATGAAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTG
CAGACCTTAAGT
Found at i:23403884 original size:39 final size:39
Alignment explanation
Indices: 23403841--23403953 Score: 190
Period size: 39 Copynumber: 2.9 Consensus size: 39
23403831 GACATCTTTT
* *
23403841 CAGCACGTAGCCTGCAGACCTTAAGTCCGGTTATAATTC
1 CAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAATTC
*
23403880 CAGCATGTAGCCTGCGGACCTTAAGTCCGGATATAATTC
1 CAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAATTC
*
23403919 CAGCACATAGCCTGCGGACCTTAAGTCCGGATATA
1 CAGCACGTAGCCTGCGGACCTTAAGTCCGGATATA
23403954 CTTCATCACT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAATTC
Found at i:23412684 original size:18 final size:18
Alignment explanation
Indices: 23412638--23412684 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
23412628 ATTATTCTAA
*
23412638 TATTTGATTTA-TTATTT
1 TATTTTATTTATTTATTT
*
23412655 TATTTTAGTTATTTATTT
1 TATTTTATTTATTTATTT
23412673 TAATTTT-TTTAT
1 T-ATTTTATTTAT
23412685 CTTACTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTATTTATTTATTT
Found at i:23415127 original size:7 final size:7
Alignment explanation
Indices: 23415115--23415149 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
23415105 TTTACTTTTG
23415115 GTTGCGA
1 GTTGCGA
23415122 GTTGCGA
1 GTTGCGA
23415129 GTTGCGA
1 GTTGCGA
*
23415136 GTTGTGA
1 GTTGCGA
23415143 GTTGCGA
1 GTTGCGA
23415150 CTGAGTCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.14, C:0.11, G:0.43, T:0.31
Consensus pattern (7 bp):
GTTGCGA
Found at i:23415384 original size:17 final size:17
Alignment explanation
Indices: 23415362--23415395 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23415352 GAATTTAAAC
23415362 TTGAGATGCTACTTGAG
1 TTGAGATGCTACTTGAG
*
23415379 TTGAGATGCTATTTGAG
1 TTGAGATGCTACTTGAG
23415396 AAAGAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (17 bp):
TTGAGATGCTACTTGAG
Found at i:23415505 original size:15 final size:16
Alignment explanation
Indices: 23415481--23415513 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23415471 TGTTGCGGTT
23415481 AAAAAGTATTTTT-AA
1 AAAAAGTATTTTTGAA
*
23415496 AAAAATTATTTTTGAA
1 AAAAAGTATTTTTGAA
23415512 AA
1 AA
23415514 GTATGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AAAAAGTATTTTTGAA
Found at i:23415537 original size:26 final size:27
Alignment explanation
Indices: 23415493--23415544 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
23415483 AAAGTATTTT
* *
23415493 TAAAAAAATTATTTTTGAAAAGTATGA
1 TAAAAAAATTATTTATGAAAAATATGA
23415520 TAAAAAAATTA-TTATGAAAAATATG
1 TAAAAAAATTATTTATGAAAAATATG
23415545 GACAGTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.35
Consensus pattern (27 bp):
TAAAAAAATTATTTATGAAAAATATGA
Found at i:23415540 original size:27 final size:26
Alignment explanation
Indices: 23415493--23415544 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
23415483 AAAGTATTTT
*
23415493 TAAAAAAATTATTTTTGAAAAGTATGA
1 TAAAAAAATTATTTATGAAAA-TATGA
23415520 TAAAAAAATTA-TTATGAAAAATATG
1 TAAAAAAATTATTTATG-AAAATATG
23415545 GACAGTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.35
Consensus pattern (26 bp):
TAAAAAAATTATTTATGAAAATATGA
Found at i:23423990 original size:20 final size:20
Alignment explanation
Indices: 23423965--23424006 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
23423955 TTGTTAACTT
23423965 AATTATAAAAATTACAAAAA
1 AATTATAAAAATTACAAAAA
*
23423985 AATTATTAAAATTACAAAAA
1 AATTATAAAAATTACAAAAA
23424005 AA
1 AA
23424007 AATTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AATTATAAAAATTACAAAAA
Found at i:23424008 original size:22 final size:20
Alignment explanation
Indices: 23423965--23424018 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 20
23423955 TTGTTAACTT
*
23423965 AATTATAAAAATTACAAAAA
1 AATTATTAAAATTACAAAAA
23423985 AATTATTAAAATTACAAAAAAA
1 AATTATTAAAATTAC--AAAAA
23424007 AATTATTAAAAT
1 AATTATTAAAAT
23424019 AGGTTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 14 0.45
22 17 0.55
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
AATTATTAAAATTACAAAAA
Found at i:23428482 original size:46 final size:46
Alignment explanation
Indices: 23428415--23428508 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
23428405 AGTTTTCCTT
23428415 AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
1 AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
23428461 AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
1 AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
23428507 AA
1 AA
23428509 CCAGGTAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.36
Consensus pattern (46 bp):
AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
Found at i:23428779 original size:17 final size:17
Alignment explanation
Indices: 23428765--23428798 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23428755 AAATATACAC
23428765 AGTATGACCATATACCT
1 AGTATGACCATATACCT
23428782 AGTATGACCATATACCT
1 AGTATGACCATATACCT
23428799 GCAGCTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (17 bp):
AGTATGACCATATACCT
Found at i:23434567 original size:20 final size:20
Alignment explanation
Indices: 23434525--23434568 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
23434515 AATTTAAATC
*
23434525 ATTTTTTAATTTTTATTTGT
1 ATTTTTTAATTTATATTTGT
23434545 ATTTTTTAATTTAATATTT-T
1 ATTTTTTAATTT-ATATTTGT
23434565 ATTT
1 ATTT
23434569 GATAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
ATTTTTTAATTTATATTTGT
Found at i:23442397 original size:14 final size:13
Alignment explanation
Indices: 23442376--23442409 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
23442366 TTAAAAAAAA
*
23442376 TTATATTATTAAT
1 TTATATTAATAAT
23442389 TTAATATTAATAAT
1 TT-ATATTAATAAT
23442403 TTATATT
1 TTATATT
23442410 TTTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATATTAATAAT
Found at i:23446479 original size:26 final size:27
Alignment explanation
Indices: 23446428--23446479 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
23446418 TTTATCAAAA
* * *
23446428 AATTATTTTTATTTTATAATTGAAAGT
1 AATTATTTTAATTTTATAAATAAAAGT
23446455 AATTA-TTTAATTTTATAAATAAAAG
1 AATTATTTTAATTTTATAAATAAAAG
23446480 AGTTATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (27 bp):
AATTATTTTAATTTTATAAATAAAAGT
Found at i:23447706 original size:29 final size:29
Alignment explanation
Indices: 23447673--23447729 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
23447663 TATTTTATTA
*
23447673 TTAATTTTGTTTTTATTTTAAAGGCATTG
1 TTAATTTTGTTATTATTTTAAAGGCATTG
*
23447702 TTAATTTTGTTATTATTTTAGAGGCATT
1 TTAATTTTGTTATTATTTTAAAGGCATT
23447730 TGCTTGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.04, G:0.14, T:0.58
Consensus pattern (29 bp):
TTAATTTTGTTATTATTTTAAAGGCATTG
Found at i:23448403 original size:22 final size:21
Alignment explanation
Indices: 23448368--23448412 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
23448358 TTAGGTTTAA
23448368 ATAAATTTATTAATATTTATTT
1 ATAAATTTATTAAT-TTTATTT
*
23448390 ATAAATTT-TCTAATTTTTTTT
1 ATAAATTTAT-TAATTTTATTT
23448411 AT
1 AT
23448413 TTTGTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATAAATTTATTAATTTTATTT
Found at i:23449302 original size:21 final size:23
Alignment explanation
Indices: 23449261--23449307 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
23449251 TTGTTATTTG
23449261 AATTATAAAATAAAAATAAATTC
1 AATTATAAAATAAAAATAAATTC
*
23449284 AATT-TAAAGTAAAAA-AAATTC
1 AATTATAAAATAAAAATAAATTC
23449305 AAT
1 AAT
23449308 ATCTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.39
22 10 0.43
23 4 0.17
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
AATTATAAAATAAAAATAAATTC
Found at i:23465102 original size:17 final size:18
Alignment explanation
Indices: 23465069--23465103 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23465059 TCATAGTAAA
23465069 AATATTTTATCTATTATG
1 AATATTTTATCTATTATG
23465087 AATATTTTAT-TATTATG
1 AATATTTTATCTATTATG
23465104 TGGATGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
AATATTTTATCTATTATG
Found at i:23468755 original size:6 final size:6
Alignment explanation
Indices: 23468746--23468784 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
23468736 GAAAGATACC
* *
23468746 GTAACA GTAACA TTAACA GTAATA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
23468785 TCGGTACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (6 bp):
GTAACA
Found at i:23470995 original size:3 final size:3
Alignment explanation
Indices: 23470989--23471018 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23470979 TGATGAGATT
23470989 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
23471019 CGGGGAGCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23471614 original size:30 final size:30
Alignment explanation
Indices: 23471580--23471637 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
23471570 CTTAACAAGT
23471580 AAATGTCCCTAAAATAATAACAAAATTAAC
1 AAATGTCCCTAAAATAATAACAAAATTAAC
**
23471610 AAATGTCTTTAAAATAATAACAAAATTA
1 AAATGTCCCTAAAATAATAACAAAATTA
23471638 GCAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (30 bp):
AAATGTCCCTAAAATAATAACAAAATTAAC
Done.