Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 103 of 199
Found at i:29088414 original size:40 final size:40
Alignment explanation
Indices: 29088307--29088556 Score: 319
Period size: 40 Copynumber: 6.3 Consensus size: 40
29088297 TCTTCGGAAT
* * * *
29088307 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
29088346 TTA-ACCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
29088385 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
29088425 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
29088465 TTAACCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
29088505 TTAACCCGGATAAAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
29088545 TTAGCCCGGATA
1 TTAGCCCGGATA
29088557 TCATTCAAAT
Statistics
Matches: 190, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.01
39 31 0.16
40 153 0.81
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:29104903 original size:27 final size:27
Alignment explanation
Indices: 29104873--29105044 Score: 247
Period size: 27 Copynumber: 6.4 Consensus size: 27
29104863 GGTATAACAA
*
29104873 TCATTTTACCCTATGGGGATATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
**
29104900 TCATTTTACCCTATGGGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
29104927 TCATTTTACCCTATGGGGGTA-TTCAGG
1 TCATTTTACCCTATGGGGGTATTTC-GG
* * *
29104954 TTATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
29104981 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
29105008 TCATTTTACCCTATAGTGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
29105035 TCATTTTACC
1 TCATTTTACC
29105045 TATTTTAGGG
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 124 0.96
28 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:29106183 original size:24 final size:24
Alignment explanation
Indices: 29106158--29106204 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
29106148 CCCAAATCCC
29106158 AATATTCTCTCCTCAAATCTCTCCA
1 AATATTC-CTCCTCAAATCTCTCCA
*
29106183 AATATTCCTCCTCAATTCTCTC
1 AATATTCCTCCTCAAATCTCTC
29106205 TATGACCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATTCCTCCTCAAATCTCTCCA
Found at i:29110480 original size:45 final size:46
Alignment explanation
Indices: 29110395--29110482 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 46
29110385 GAATGAATAT
*
29110395 AAATAGAGAAATGGAAAACATTAAAAAATGATTATGGTTTTCTTTG
1 AAATAGAGAAATGGAAAACATTAAAAAATGAATATGGTTTTCTTTG
* *** *
29110441 AAATAGAGAAAT-GAAATCATTTGGAAATGAATGTGGTTTTCT
1 AAATAGAGAAATGGAAAACATTAAAAAATGAATATGGTTTTCT
29110483 CAAAATTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 24 0.67
46 12 0.33
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (46 bp):
AAATAGAGAAATGGAAAACATTAAAAAATGAATATGGTTTTCTTTG
Found at i:29116927 original size:30 final size:30
Alignment explanation
Indices: 29116891--29116958 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
29116881 GGTTTCATTT
29116891 CAGTCACTCAACT-TTA-AAAAAATAACAAAA
1 CAGTCACT-AA-TGTTACAAAAAATAACAAAA
* *
29116921 CAGTCACTAATGTTATCAAAAAATGACAAAT
1 CAGTCACTAATGTTA-CAAAAAATAACAAAA
29116952 CAGTCAC
1 CAGTCAC
29116959 CCACTAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 5 0.15
30 8 0.24
31 19 0.58
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.22
Consensus pattern (30 bp):
CAGTCACTAATGTTACAAAAAATAACAAAA
Found at i:29117092 original size:3 final size:3
Alignment explanation
Indices: 29117080--29117117 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
29117070 CCCTAATAAC
*
29117080 AGA A-A AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
29117118 GACTGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:29118079 original size:3 final size:3
Alignment explanation
Indices: 29118073--29118102 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
29118063 TCTTCTTCTT
*
29118073 CTC CTC CTC CTC CTC CCC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
29118103 TTCTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (3 bp):
CTC
Found at i:29118460 original size:17 final size:17
Alignment explanation
Indices: 29118428--29118461 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29118418 ATATATTTTA
* *
29118428 AAATATTTTAATTAATT
1 AAATATTTAAAATAATT
29118445 AAATATTTAAAATAATT
1 AAATATTTAAAATAATT
29118462 GAGATCAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATTTAAAATAATT
Found at i:29119837 original size:294 final size:294
Alignment explanation
Indices: 29119308--29119902 Score: 1136
Period size: 294 Copynumber: 2.0 Consensus size: 294
29119298 TTGATGGTAA
*
29119308 TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAATGCGAAGAAC
1 TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAACGCGAAGAAC
*
29119373 CATCGAATAAGATAACTGGAGATGATAAGTAGAATAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
66 CATCGAATAAGATAACTGGAGATGATAAGTAGAAGAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
29119438 TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACATTTAGTCTCTTATTCCTAAGTG
131 TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACATTTAGTCTCTTATTCCTAAGTG
29119503 CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
196 CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
*
29119568 AGGCTAGGTGATGCTATGATGTGCTTTGTGTCAC
261 AGGCTAGGTGATGCTATGATGTGCTTTGTCTCAC
29119602 TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAACGCGAAGAAC
1 TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAACGCGAAGAAC
*
29119667 CATCGAATAAGATAACTGGAGATGATAAGTAGAGGAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
66 CATCGAATAAGATAACTGGAGATGATAAGTAGAAGAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
* *
29119732 TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACCTTTAGTCTCTTATTCCTAGGTG
131 TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACATTTAGTCTCTTATTCCTAAGTG
29119797 CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
196 CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
29119862 AGGCTAGGTGATGCTATGATGTGCTTTGTCTCAC
261 AGGCTAGGTGATGCTATGATGTGCTTTGTCTCAC
29119896 TTTGGAT
1 TTTGGAT
29119903 GGGACATAAT
Statistics
Matches: 295, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
294 295 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (294 bp):
TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAACGCGAAGAAC
CATCGAATAAGATAACTGGAGATGATAAGTAGAAGAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACATTTAGTCTCTTATTCCTAAGTG
CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
AGGCTAGGTGATGCTATGATGTGCTTTGTCTCAC
Found at i:29128419 original size:21 final size:22
Alignment explanation
Indices: 29128377--29128419 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
29128367 TACTTCAAAC
*
29128377 CTTTCAAACATCTTAGAAAATT
1 CTTTCAAACATCTTACAAAATT
29128399 CTTT-AAACA-CTTACAATAATT
1 CTTTCAAACATCTTACAA-AATT
29128420 TTGCAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (22 bp):
CTTTCAAACATCTTACAAAATT
Found at i:29133030 original size:27 final size:26
Alignment explanation
Indices: 29132994--29133077 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 26
29132984 TTAATGTAAA
* *
29132994 TTAATAATAATAATAATTTAATCATATT
1 TTAAT-ATAATAATAATTAAAT-ATAAT
*
29133022 TTAATATAATAATTATTAAATATAAT
1 TTAATATAATAATAATTAAATATAAT
* *
29133048 TTAATA-AA-AATAATGATATATAAT
1 TTAATATAATAATAATTAAATATAAT
29133072 TTAATA
1 TTAATA
29133078 ATATTCTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 19 0.38
25 2 0.04
26 10 0.20
27 14 0.28
28 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (26 bp):
TTAATATAATAATAATTAAATATAAT
Found at i:29133082 original size:61 final size:60
Alignment explanation
Indices: 29132996--29133124 Score: 172
Period size: 61 Copynumber: 2.1 Consensus size: 60
29132986 AATGTAAATT
*
29132996 AATAATAATAATAATTTAATCATATT-TTAATATAATAATTATT-AAATATAATTTAATAAA
1 AATAATAATAATAATTTAATAATATTCTTAATAT-ATAATTATTAAAATATAA-TTAATAAA
* * *
29133056 AATAATGATATATAATTTAATAATATTCTTAATATATTATTATTAAAATATGATTAATAAA
1 AATAATAATA-ATAATTTAATAATATTCTTAATATATAATTATTAAAATATAATTAATAAA
*
29133117 AATTATAA
1 AATAATAA
29133125 CATAAATCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
60 9 0.15
61 37 0.62
62 14 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (60 bp):
AATAATAATAATAATTTAATAATATTCTTAATATATAATTATTAAAATATAATTAATAAA
Found at i:29133090 original size:24 final size:24
Alignment explanation
Indices: 29133027--29133114 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 24
29133017 ATATTTTAAT
29133027 ATAATAATTATTAA-ATATAATTTA
1 ATAAT-ATTATTAATATATAATTTA
* * * *
29133051 ATAAAAATAATGATATATAATTTA
1 ATAATATTATTAATATATAATTTA
* *
29133075 ATAATATTCTTAATATATTATTATTA
1 ATAATATTATTAATATA-TAAT-TTA
*
29133101 A-AATATGATTAATA
1 ATAATATTATTAATA
29133115 AAAATTATAA
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
23 5 0.10
24 26 0.53
25 14 0.29
26 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (24 bp):
ATAATATTATTAATATATAATTTA
Found at i:29134992 original size:20 final size:21
Alignment explanation
Indices: 29134948--29135002 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
29134938 ATAGCATAAA
29134948 GATTTAAAGCATCAAACAAGT
1 GATTTAAAGCATCAAACAAGT
*
29134969 GATTTAAA-CATCAAATAA-T
1 GATTTAAAGCATCAAACAAGT
*
29134988 CGATTCAAAGCATCA
1 -GATTTAAAGCATCA
29135003 TTCAATCAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (21 bp):
GATTTAAAGCATCAAACAAGT
Found at i:29137128 original size:40 final size:38
Alignment explanation
Indices: 29137084--29137343 Score: 251
Period size: 40 Copynumber: 6.7 Consensus size: 38
29137074 GCTCCTCGTT
* *
29137084 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAATTCGCA
* *
29137124 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGA-TTAGTAATTCGCA
* * *
29137164 CAAATGCCTTCGGGCTTAGCCAGAATTAGT-ATCTCGTA
1 CAAATGCCTTCGGGCTTAGCCCGGATTAGTAAT-TCGCA
*
29137202 CAAATGCCTTCGGGCTTAGCCCGGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGG--ATTAGTAATTCGCA
29137242 CAAATGCCTTCGGGC-TAGCCCGGATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTAGTAAT-TCGCA
** * * * *
29137279 CAAATGCCTTCAGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGAT-TAGT-AATTCGCA
29137320 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
29137344 CATCATTCAA
Statistics
Matches: 185, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
36 1 0.01
37 23 0.12
38 34 0.18
39 41 0.22
40 78 0.42
41 7 0.04
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTAGTAATTCGCA
Found at i:29137298 original size:78 final size:78
Alignment explanation
Indices: 29137084--29137343 Score: 284
Period size: 78 Copynumber: 3.3 Consensus size: 78
29137074 GCTCCTCGTT
* * *
29137084 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGT-ATCTCGCACAAATGCCTTC--GACTTAGCCCG
*
29137148 G-ATTTAGTAACTCGCA
62 GAAATTAGTAACTCGCA
* * * *
29137164 CAAATGCCTTCGGG-CTTAGCCAGAATTAGTATCTCGTACAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCACAAATGCCTTC-GACTTAGCCCGGAA
29137228 ATTAGTAACTCGCA
65 ATTAGTAACTCGCA
*
29137242 CAAATGCCTTCGGG-C-TAGCCCGGATTAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCACAAATGCCTTC-GA-CTTAGCCCGGA
* * *
29137305 TATT-GTCACTTAGCA
64 AATTAGTAAC-TCGCA
29137320 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29137344 CATCATTCAA
Statistics
Matches: 157, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
76 9 0.06
77 51 0.32
78 75 0.48
79 8 0.05
80 14 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCACAAATGCCTTCGACTTAGCCCGGAAA
TTAGTAACTCGCA
Found at i:29154916 original size:30 final size:30
Alignment explanation
Indices: 29154880--29154947 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
29154870 GGTTTCATTT
29154880 CAGTCACTCAACT-TTA-AAAAAATAACAAAA
1 CAGTCACT-AA-TGTTACAAAAAATAACAAAA
* *
29154910 CAGTCACTAATGTTATCAAAAAATGACAAAT
1 CAGTCACTAATGTTA-CAAAAAATAACAAAA
29154941 CAGTCAC
1 CAGTCAC
29154948 CCACTAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 5 0.15
30 8 0.24
31 19 0.58
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.22
Consensus pattern (30 bp):
CAGTCACTAATGTTACAAAAAATAACAAAA
Found at i:29155081 original size:3 final size:3
Alignment explanation
Indices: 29155069--29155104 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
29155059 CCCTAATAAC
29155069 AGA A-A AGA AGA AGA AGA AGA A-A A-A AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
29155105 GACTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.19
3 25 0.81
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:29156062 original size:3 final size:3
Alignment explanation
Indices: 29156056--29156085 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
29156046 TCTTCTTCTT
*
29156056 CTC CTC CTC CTC CTC CCC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
29156086 TTCTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (3 bp):
CTC
Found at i:29156445 original size:18 final size:18
Alignment explanation
Indices: 29156409--29156446 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
29156399 AATATATATT
* *
29156409 TTAAAATATTTTAATTAA
1 TTAAAATATTTAAAATAA
29156427 TTAAAATATTTAAAATAA
1 TTAAAATATTTAAAATAA
29156445 TT
1 TT
29156447 GAGATCAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAATATTTAAAATAA
Found at i:29157818 original size:294 final size:294
Alignment explanation
Indices: 29157289--29157883 Score: 1136
Period size: 294 Copynumber: 2.0 Consensus size: 294
29157279 TTGATGGTAA
*
29157289 TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAATGCGAAGAAC
1 TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAACGCGAAGAAC
*
29157354 CATCGAATAAGATAACTGGAGATGATAAGTAGAATAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
66 CATCGAATAAGATAACTGGAGATGATAAGTAGAAGAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
29157419 TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACATTTAGTCTCTTATTCCTAAGTG
131 TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACATTTAGTCTCTTATTCCTAAGTG
29157484 CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
196 CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
*
29157549 AGGCTAGGTGATGCTATGATGTGCTTTGTGTCAC
261 AGGCTAGGTGATGCTATGATGTGCTTTGTCTCAC
29157583 TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAACGCGAAGAAC
1 TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAACGCGAAGAAC
*
29157648 CATCGAATAAGATAACTGGAGATGATAAGTAGAGGAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
66 CATCGAATAAGATAACTGGAGATGATAAGTAGAAGAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
* *
29157713 TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACCTTTAGTCTCTTATTCCTAGGTG
131 TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACATTTAGTCTCTTATTCCTAAGTG
29157778 CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
196 CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
29157843 AGGCTAGGTGATGCTATGATGTGCTTTGTCTCAC
261 AGGCTAGGTGATGCTATGATGTGCTTTGTCTCAC
29157877 TTTGGAT
1 TTTGGAT
29157884 GGGACATAAT
Statistics
Matches: 295, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
294 295 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (294 bp):
TTTGGATAAGGTGGAGAAGCTAGTGGAGATATATGGTTTATCTTGTTTAGTACAACGCGAAGAAC
CATCGAATAAGATAACTGGAGATGATAAGTAGAAGAAAGTAAAGAGGGGTGAGAAAAAAGACTAA
TGGATCAATCCCATGCCGTCGTTTGTTCAGGGCCTTATATACATTTAGTCTCTTATTCCTAAGTG
CCATGTGTTAAGCTATCATTGATATATGAGAGCCAATTGACCAAATGATTTGATGGTATAAGTCA
AGGCTAGGTGATGCTATGATGTGCTTTGTCTCAC
Found at i:29161443 original size:29 final size:30
Alignment explanation
Indices: 29161397--29161453 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
29161387 AATCATTTGA
* *
29161397 TAAGGGGCGTAACTAAAAA-AATAAAAATG
1 TAAGGGGCGAAACAAAAAAGAATAAAAATG
* *
29161426 TAAGGGGTGAAACAAAAAAGGATAAAAA
1 TAAGGGGCGAAACAAAAAAGAATAAAAA
29161454 AAGAAAAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.58, C:0.05, G:0.23, T:0.14
Consensus pattern (30 bp):
TAAGGGGCGAAACAAAAAAGAATAAAAATG
Found at i:29166428 original size:21 final size:22
Alignment explanation
Indices: 29166386--29166428 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
29166376 TACTTCAAAC
*
29166386 CTTTCAAACATCTTAGAAAATT
1 CTTTCAAACATCTTACAAAATT
29166408 CTTT-AAACA-CTTACAATAATT
1 CTTTCAAACATCTTACAA-AATT
29166429 TTGCAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (22 bp):
CTTTCAAACATCTTACAAAATT
Found at i:29170455 original size:13 final size:13
Alignment explanation
Indices: 29170437--29170463 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29170427 AAGAGATAAG
29170437 TACCCTTGGATAC
1 TACCCTTGGATAC
29170450 TACCCTTGGATAC
1 TACCCTTGGATAC
29170463 T
1 T
29170464 CTTACTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (13 bp):
TACCCTTGGATAC
Found at i:29171069 original size:26 final size:27
Alignment explanation
Indices: 29171040--29171123 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 27
29171030 TGTAAATTAA
*
29171040 TAATAATAAATAAT-TT-AATCATATTT
1 TAATAATAAATAATATTAAAT-ATAATT
29171066 TAAT-AT-AATAATTATTAAATATAATT
1 TAATAATAAATAA-TATTAAATATAATT
29171092 TAATAA-AAATAATGA-T--ATATAATT
1 TAATAATAAATAAT-ATTAAATATAATT
29171116 TAATAATA
1 TAATAATA
29171124 TTCTTAATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
24 19 0.38
25 4 0.08
26 17 0.34
27 10 0.20
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (27 bp):
TAATAATAAATAATATTAAATATAATT
Found at i:29171097 original size:24 final size:24
Alignment explanation
Indices: 29171070--29171137 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
29171060 ATATTTTAAT
29171070 ATAATAATTATTAAATATAATTTA
1 ATAATAATTATTAAATATAATTTA
* * * *
29171094 ATAAAAATAATGATATATAATTTA
1 ATAATAATTATTAAATATAATTTA
*
29171118 ATAAT-ATTCTT-AATATAATT
1 ATAATAATTATTAAATATAATT
29171138 ATTATTAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 8 0.23
23 3 0.09
24 24 0.69
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (24 bp):
ATAATAATTATTAAATATAATTTA
Found at i:29173082 original size:20 final size:21
Alignment explanation
Indices: 29173038--29173092 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
29173028 ATAGCATAAA
29173038 GATTTAAAGCATCAAACAAGT
1 GATTTAAAGCATCAAACAAGT
*
29173059 GATTTAAA-CATCAAATAA-T
1 GATTTAAAGCATCAAACAAGT
*
29173078 CGATTCAAAGCATCA
1 -GATTTAAAGCATCA
29173093 TTCAATCAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (21 bp):
GATTTAAAGCATCAAACAAGT
Found at i:29175320 original size:39 final size:39
Alignment explanation
Indices: 29175198--29175405 Score: 303
Period size: 39 Copynumber: 5.3 Consensus size: 39
29175188 GCTCCTCGTT
* *
29175198 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
29175238 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
* *
29175278 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
29175317 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
29175356 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
29175395 CAAATGCCTTC
1 CAAATGCCTTC
29175406 AGATCTTAGT
Statistics
Matches: 156, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 108 0.69
40 46 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:29175443 original size:78 final size:78
Alignment explanation
Indices: 29175198--29175459 Score: 284
Period size: 78 Copynumber: 3.3 Consensus size: 78
29175188 GCTCCTCGTT
* * * *
29175198 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGAG-CTTAGCCC
* * *
29175261 GGATTTAGTAACTCGCA
62 GGAATTAGTATCTAGCA
* * *
29175278 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGTACAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGAGCTTAGCCCGGAA
*
29175343 TTAGTATCTCGCA
66 TTAGTATCTAGCA
* *
29175356 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GAGCTTAGCCCGGA
29175421 TATT-GTCA-CTTAGCA
65 -ATTAGT-ATC-TAGCA
29175436 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
29175460 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
78 81 0.50
79 57 0.35
80 24 0.15
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGAGCTTAGCCCGGAA
TTAGTATCTAGCA
Found at i:29176555 original size:13 final size:13
Alignment explanation
Indices: 29176537--29176561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29176527 AGGATGAGCA
29176537 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
29176550 TTTTTTTTCTTT
1 TTTTTTTTCTTT
29176562 CTAGTTTCGG
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:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:29187188 original size:28 final size:28
Alignment explanation
Indices: 29187157--29187237 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 28
29187147 TTTAATCTCT
29187157 TAGGGGGTATAAC-AGTCATTTTACCCTA
1 TAGGGGGTATAACTA-TCATTTTACCCTA
**
29187185 TA-GGGGTATTTCTATCATTTTACCCTA
1 TAGGGGGTATAACTATCATTTTACCCTA
* ** *
29187212 T-GGGGATATTTCGATCATTTTACCCT
1 TAGGGGGTATAACTATCATTTTACCCT
29187238 TGGGTGTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 44 0.94
28 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (28 bp):
TAGGGGGTATAACTATCATTTTACCCTA
Found at i:29187309 original size:80 final size:81
Alignment explanation
Indices: 29187172--29187356 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 81
29187162 GGTATAACAG
*
29187172 TCATTTTACCCTATAGGGGTATTTCTATCATTTTACCCTATGGGGATATTTCGATCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCTATCATTTTACCCTATGGGGATATTTCGATCATTTTACCC
*
29187237 T-T-GGGTGTATTTTGA
66 TATAGGG-GTATTTCGA
*
29187252 TCGA-TTTACCCTATGGGGGTATTTCGT-TCGA-TTTATCCTATGAGGG-TATTTCGATCATTTT
1 TC-ATTTTACCCTATGGGGGTATTTC-TATC-ATTTTACCCTATG-GGGATATTTCGATCATTTT
29187313 ACCCTATAGGGGTATTTCGA
62 ACCCTATAGGGGTATTTCGA
* *
29187333 TCATTTTATCGTATGGGGGTATTT
1 TCATTTTACCCTATGGGGGTATTT
29187357 TGGTCATTCT
Statistics
Matches: 93, Mismatches: 5, Indels: 13
0.84 0.05 0.12
Matches are distributed among these distances:
80 55 0.59
81 35 0.38
82 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCTATCATTTTACCCTATGGGGATATTTCGATCATTTTACCC
TATAGGGGTATTTCGA
Found at i:29187364 original size:27 final size:27
Alignment explanation
Indices: 29187172--29187356 Score: 232
Period size: 27 Copynumber: 6.9 Consensus size: 27
29187162 GGTATAACAG
* *
29187172 TCATTTTACCCTATAGGGGTATTTCTA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
29187199 TCATTTTACCCTATGGGGATATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
29187226 TCATTTTACCCT-TGGGTGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
29187252 TCGA-TTTACCCTATGGGGGTATTTCGT
1 TC-ATTTTACCCTATGGGGGTATTTCGA
* *
29187279 TCGA-TTTATCCTATGAGGGTATTTCGA
1 TC-ATTTTACCCTATGGGGGTATTTCGA
*
29187306 TCATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
29187333 TCATTTTATCGTATGGGGGTATTT
1 TCATTTTACCCTATGGGGGTATTT
29187357 TGGTCATTCT
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 22 0.16
27 115 0.84
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:29189648 original size:25 final size:25
Alignment explanation
Indices: 29189620--29189754 Score: 129
Period size: 25 Copynumber: 5.5 Consensus size: 25
29189610 TAGTACTTCA
29189620 CCACAAAGGCTTTTCACAAGATTAG
1 CCACAAAGGCTTTTCACAAGATTAG
* * **
29189645 CCACAAAGGCTTCTCAGATTA-TACG
1 CCACAAAGGCTTTTCACAAGATTA-G
*
29189670 CCAC--AGGCTTTTCACAACATTAG
1 CCACAAAGGCTTTTCACAAGATTAG
* *
29189693 CAACAAAGGC--TTC-CTAGATAATACG
1 CCACAAAGGCTTTTCACAAGAT--TA-G
29189718 CCACAAAGGCTTTTCACAAGATTAG
1 CCACAAAGGCTTTTCACAAGATTAG
29189743 CCACAAAGGCTT
1 CCACAAAGGCTT
29189755 CCTAGGTAAC
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
22 4 0.05
23 18 0.21
24 6 0.07
25 49 0.56
26 2 0.02
27 3 0.03
28 5 0.06
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (25 bp):
CCACAAAGGCTTTTCACAAGATTAG
Found at i:29189678 original size:48 final size:49
Alignment explanation
Indices: 29189620--29189759 Score: 212
Period size: 48 Copynumber: 2.8 Consensus size: 49
29189610 TAGTACTTCA
*
29189620 CCACAAAGGCTTTTCACAAGATTAGCCACAAAGGCTT-CTCAGATTATACG
1 CCAC-AAGGCTTTTCACAAGATTAGCCACAAAGGCTTCCT-AGATAATACG
* *
29189670 CCAC-AGGCTTTTCACAACATTAGCAACAAAGGCTTCCTAGATAATACG
1 CCACAAGGCTTTTCACAAGATTAGCCACAAAGGCTTCCTAGATAATACG
29189718 CCACAAAGGCTTTTCACAAGATTAGCCACAAAGGCTTCCTAG
1 CCAC-AAGGCTTTTCACAAGATTAGCCACAAAGGCTTCCTAG
29189760 GTAACCTGTC
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
48 42 0.51
49 2 0.02
50 38 0.46
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (49 bp):
CCACAAGGCTTTTCACAAGATTAGCCACAAAGGCTTCCTAGATAATACG
Found at i:29196520 original size:28 final size:28
Alignment explanation
Indices: 29196474--29196582 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 28
29196464 TTGGTAAAAA
* * **
29196474 TGGGCCCACACGTTTGTGTGTGCTTATG
1 TGGGCCCACACGCTCGTGTGTGCCCATG
29196502 TGGGCCCACACGCTCGTGTGTGCCCATG
1 TGGGCCCACACGCTCGTGTGTGCCCATG
* ** *
29196530 TGGGTCCGTACGC-CTGTGTGTGCCCGTG
1 TGGGCCCACACGCTC-GTGTGTGCCCATG
* * *
29196558 TGGGCCCGCACACCCGTGTG-GCCCA
1 TGGGCCCACACGCTCGTGTGTGCCCA
29196583 CTCGGCCCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 5 0.07
28 61 0.91
29 1 0.01
ACGTcount: A:0.09, C:0.32, G:0.34, T:0.25
Consensus pattern (28 bp):
TGGGCCCACACGCTCGTGTGTGCCCATG
Found at i:29201881 original size:66 final size:66
Alignment explanation
Indices: 29201775--29201907 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
29201765 AACTACTTGG
29201775 ATCCTTCAACTTAAGATACAACCTAATCTGCAAAAATAAGCTACATTTTATAGTTAGGGCTGCTT
1 ATCCTTCAACTTAAGATACAACCTAATCTGCAAAAATAAGCTACATTTTATAGTTAGGGCTGCTT
29201840 C
66 C
29201841 ATCCTTCAACTTAAGATACAACCTAATCTGCAAAAATAAGCTACATTTTATAGTTAGGGCTGCTT
1 ATCCTTCAACTTAAGATACAACCTAATCTGCAAAAATAAGCTACATTTTATAGTTAGGGCTGCTT
29201906 C
66 C
29201907 A
1 A
29201908 AATTACTTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (66 bp):
ATCCTTCAACTTAAGATACAACCTAATCTGCAAAAATAAGCTACATTTTATAGTTAGGGCTGCTT
C
Found at i:29213626 original size:21 final size:21
Alignment explanation
Indices: 29213600--29213648 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
29213590 CATTGTTTCT
** *
29213600 AATCTCACTGCTACAATATCC
1 AATCTCACCACTACAATAACC
*
29213621 AATCTCACCACTACAATAACT
1 AATCTCACCACTACAATAACC
29213642 AATCTCA
1 AATCTCA
29213649 TCGCCACTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.27
Consensus pattern (21 bp):
AATCTCACCACTACAATAACC
Found at i:29214657 original size:47 final size:47
Alignment explanation
Indices: 29214603--29214700 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
29214593 GAGAGAAAGA
29214603 GACATAAGGTGGTGAGTGGGAAAGGCTTACTAAGGGGGAGAATAGGG
1 GACATAAGGTGGTGAGTGGGAAAGGCTTACTAAGGGGGAGAATAGGG
*
29214650 GACATAAGGTGGTGAGTGGGGAAGGCTTACTAAGGGGGAGAATAGGG
1 GACATAAGGTGGTGAGTGGGAAAGGCTTACTAAGGGGGAGAATAGGG
29214697 GACA
1 GACA
29214701 ATATGATGTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.32, C:0.07, G:0.45, T:0.16
Consensus pattern (47 bp):
GACATAAGGTGGTGAGTGGGAAAGGCTTACTAAGGGGGAGAATAGGG
Found at i:29217905 original size:15 final size:17
Alignment explanation
Indices: 29217885--29217916 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
29217875 TATGGATTGA
29217885 GAATATT-TGT-TTTTG
1 GAATATTATGTGTTTTG
29217900 GAATATTATGTGTTTTG
1 GAATATTATGTGTTTTG
29217917 AAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (17 bp):
GAATATTATGTGTTTTG
Found at i:29219721 original size:78 final size:78
Alignment explanation
Indices: 29219583--29219728 Score: 213
Period size: 78 Copynumber: 1.9 Consensus size: 78
29219573 ATTCGCTATC
29219583 TGAGATCCAACATAAATTGCGGATTCTTGAAAACATGAGTGAGAAACATCAAATTCTTATTTAGC
1 TGAGATCCAACATAAATTGCGGATTCTTGAAAACATGAGTGAGAAACATCAAATTCTTATTTAGC
29219648 GATCCGTGGTGGT
66 GATCCGTGGTGGT
* * ** * * *
29219661 TGAGATCCAACATAAATTGTGGATTCTTGACAAGTTGAGTGAGTAGCATCGAA-TCATTATTTAG
1 TGAGATCCAACATAAATTGCGGATTCTTGAAAACATGAGTGAGAAACATCAAATTC-TTATTTAG
29219725 CGAT
65 CGAT
29219729 GGCTAAGATC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 2 0.03
78 58 0.97
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (78 bp):
TGAGATCCAACATAAATTGCGGATTCTTGAAAACATGAGTGAGAAACATCAAATTCTTATTTAGC
GATCCGTGGTGGT
Found at i:29231556 original size:67 final size:67
Alignment explanation
Indices: 29231482--29231627 Score: 175
Period size: 67 Copynumber: 2.2 Consensus size: 67
29231472 TTTTTTCTCA
* ** * *
29231482 GCAGACTATCTTTATTGTCATAGTCAAGCTATGGACTTACACAGCACACCCCATATTTAATGTCA
1 GCAGACTATATTTATTCCCATAGTCAAGCAATGGACTTACACAGCACACCACATATTTAATGTCA
29231547 TG
66 TG
* * * * * *
29231549 GCAGACTATATTTGTTCCCATAGTCGAGCAATGGACTTACATAGTACACCACATGTTTAATGTCC
1 GCAGACTATATTTATTCCCATAGTCAAGCAATGGACTTACACAGCACACCACATATTTAATGTCA
29231614 TG
66 TG
* *
29231616 GCGGACTCTATT
1 GCAGACTATATT
29231628 GGTTGGCATA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (67 bp):
GCAGACTATATTTATTCCCATAGTCAAGCAATGGACTTACACAGCACACCACATATTTAATGTCA
TG
Found at i:29231775 original size:27 final size:27
Alignment explanation
Indices: 29231689--29231782 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 27
29231679 GTCACGACGA
* * * *
29231689 ACTATCCCGTGTTTGCTGTCCCAACGG
1 ACTATCCCATGTTTACTATCCCAACAG
* * * * * *
29231716 ACTATCCTATGTTTATTCTCTCGACAA
1 ACTATCCCATGTTTACTATCCCAACAG
*
29231743 AGTATCCCATGTTTACTATCCCAACAG
1 ACTATCCCATGTTTACTATCCCAACAG
*
29231770 ACTATCTCATGTT
1 ACTATCCCATGTT
29231783 ATTGTTTCGA
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (27 bp):
ACTATCCCATGTTTACTATCCCAACAG
Found at i:29233145 original size:25 final size:25
Alignment explanation
Indices: 29233099--29233146 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
29233089 TACTTTGTTG
* *
29233099 GCTCACACATAACCACTTACATAGA
1 GCTCACACATAACAACTCACATAGA
* *
29233124 GCTCACATATCACAACTCACATA
1 GCTCACACATAACAACTCACATA
29233147 TTCCACAGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.33, G:0.06, T:0.21
Consensus pattern (25 bp):
GCTCACACATAACAACTCACATAGA
Found at i:29233357 original size:51 final size:51
Alignment explanation
Indices: 29233296--29233809 Score: 589
Period size: 51 Copynumber: 10.1 Consensus size: 51
29233286 TTTGCTTATA
* * * *
29233296 GAACTGAATATAATCAGCACGCACATACTTTTTTTAGATAGTTAACACATG
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* *
29233347 GAACTTAATATAATCAACACGCACATACTTGGTTTAGACAGTTCACACATG
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* * *
29233398 GAACTTAATATAATCAACACGCGCATACTTTTTTTAGATAGTTCACAAATG
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* * * * * * *
29233449 GAGCTTAATATAATTAGCACACACATACTTGGTTTAGACAGTTCACACATA
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* * * * * * *
29233500 GAACTTAATATAACCAGCATGCACATACCTGGTTTAGACAATTCACACATG
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* *
29233551 GAACTTAATATAATCAACACGCACATACTTTGTTTAAATAGTTCACAAATG
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* * ** * * * *
29233602 GAGCTTAATATAATTAACATACACATACTTAGTTTAGACAATTCACAAATG
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* ** *
29233653 AAACTTAATATAATCAGTACACACATACTTTGTTTAGATAGTTCACACATG
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* * *
29233704 GAACTTAATATAATCAATACACATATACTTTGTTTAGATAGTTCACACATG
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
* ** * * * * *
29233755 GAACTTAATATAATTAGTACGCATATACGTAGTTTAGACAGTTCACAAAT-
1 GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
29233805 GAACT
1 GAACT
29233810 CTTCCTTGTG
Statistics
Matches: 397, Mismatches: 66, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
50 5 0.01
51 392 0.99
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (51 bp):
GAACTTAATATAATCAACACGCACATACTTTGTTTAGATAGTTCACACATG
Found at i:29233580 original size:153 final size:152
Alignment explanation
Indices: 29233302--29233809 Score: 692
Period size: 153 Copynumber: 3.3 Consensus size: 152
29233292 TATAGAACTG
* * ** * * * *
29233302 AATATAATCAGCACGCACATACTTTTTTTAGATAGTTAACACATGGAACTTAATATAATCAACAC
1 AATATAATTAGCACACACATACTTAGTTTAGACAGTTCACAAAT-GAACTTAATATAATCAGCAC
* *
29233367 GCACATACTTGGTTTAGACAGTTCACACATGGAACTTAATATAATCAACACGCGCATACTTTTTT
65 GCACATACTTGGTTTAGACAGTTCACACATGGAACTTAATATAATCAACACGCACATACTTTGTT
29233432 TAGATAGTTCACAAATGGAGCTT
130 TAGATAGTTCACAAATGGAGCTT
* * * *
29233455 AATATAATTAGCACACACATACTTGGTTTAGACAGTTCACACATAGAACTTAATATAACCAGCAT
1 AATATAATTAGCACACACATACTTAGTTTAGACAGTTCACAAAT-GAACTTAATATAATCAGCAC
* *
29233520 GCACATACCTGGTTTAGACAATTCACACATGGAACTTAATATAATCAACACGCACATACTTTGTT
65 GCACATACTTGGTTTAGACAGTTCACACATGGAACTTAATATAATCAACACGCACATACTTTGTT
*
29233585 TAAATAGTTCACAAATGGAGCTT
130 TAGATAGTTCACAAATGGAGCTT
* * * *
29233608 AATATAATTAACATACACATACTTAGTTTAGACAATTCACAAATGAAACTTAATATAATCAGTAC
1 AATATAATTAGCACACACATACTTAGTTTAGACAGTTCACAAATG-AACTTAATATAATCAGCAC
* * * * * *
29233673 ACACATACTTTGTTTAGATAGTTCACACATGGAACTTAATATAATCAATACACATATACTTTGTT
65 GCACATACTTGGTTTAGACAGTTCACACATGGAACTTAATATAATCAACACGCACATACTTTGTT
* *
29233738 TAGATAGTTCACACATGGAACTT
130 TAGATAGTTCACAAATGGAGCTT
* * * *
29233761 AATATAATTAGTACGCATATACGTAGTTTAGACAGTTCACAAATGAACT
1 AATATAATTAGCACACACATACTTAGTTTAGACAGTTCACAAATGAACT
29233810 CTTCCTTGTG
Statistics
Matches: 313, Mismatches: 41, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
152 5 0.02
153 308 0.98
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (152 bp):
AATATAATTAGCACACACATACTTAGTTTAGACAGTTCACAAATGAACTTAATATAATCAGCACG
CACATACTTGGTTTAGACAGTTCACACATGGAACTTAATATAATCAACACGCACATACTTTGTTT
AGATAGTTCACAAATGGAGCTT
Found at i:29233699 original size:24 final size:24
Alignment explanation
Indices: 29233672--29233753 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
29233662 ATAATCAGTA
29233672 CACACATACTTTGTTTAGATAGTT
1 CACACATACTTTGTTTAGATAGTT
** * * *
29233696 CACACATGGAACTTAATATA-ATCAATA
1 CACACAT---ACTTTGTTTAGAT-AGTT
*
29233723 CACATATACTTTGTTTAGATAGTT
1 CACACATACTTTGTTTAGATAGTT
29233747 CACACAT
1 CACACAT
29233754 GGAACTTAAT
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 22 0.54
25 2 0.05
26 2 0.05
27 15 0.37
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (24 bp):
CACACATACTTTGTTTAGATAGTT
Found at i:29233772 original size:27 final size:27
Alignment explanation
Indices: 29233691--29233772 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
29233681 TTTGTTTAGA
29233691 TAGTTCACACATGGAACTTAATATAAT
1 TAGTTCACACATGGAACTTAATATAAT
* * ** *
29233718 CA-AT-ACACAT--ATACTTTGTTTAGA-
1 TAGTTCACACATGGA-ACTTAATATA-AT
29233742 TAGTTCACACATGGAACTTAATATAAT
1 TAGTTCACACATGGAACTTAATATAAT
29233769 TAGT
1 TAGT
29233773 ACGCATATAC
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
23 1 0.03
24 8 0.21
25 8 0.21
26 8 0.21
27 12 0.32
28 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (27 bp):
TAGTTCACACATGGAACTTAATATAAT
Found at i:29234399 original size:43 final size:43
Alignment explanation
Indices: 29234333--29234642 Score: 380
Period size: 43 Copynumber: 7.3 Consensus size: 43
29234323 GCGTCACTAA
* * *
29234333 CTTTTGCGGCGCGTTTC-CACAAACGCCGCTATAAATCAAGAC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
* **
29234375 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCGTGAC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
* * *
29234418 CTTTAGCGGCACTTTTATCACAAACGCCGCTATAGACCAAGAC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
* *
29234461 CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGATCTAA-AC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATC-AAGAC
* * * *
29234504 CTTTTGGGGCGC-TTTCCCACAAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
* * * *
29234546 CTTTAGCGGTGCTTTTC-GACAAACGCCGCTATAGATCAGGAT
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
* *
29234588 CTTTAGCGGCACTTTT-TCACAAACGCCGCTATAGAACAA-AC
1 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
29234629 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
29234643 CTCGTAAAAC
Statistics
Matches: 232, Mismatches: 31, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
41 15 0.06
42 107 0.46
43 108 0.47
44 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCAAGAC
Found at i:29234533 original size:42 final size:42
Alignment explanation
Indices: 29234333--29234642 Score: 340
Period size: 42 Copynumber: 7.3 Consensus size: 42
29234323 GCGTCACTAA
* * *
29234333 CTTTTGCGGCGCGTTT-CCACAAACGCCGCTATAAATCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAA-AC
* * **
29234375 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGACCGTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATC-AAAC
* ** *
29234418 CTTTAGCGGCACTTTTATCACAAACGCCGCTATAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAA-AC
*
29234461 CTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGATCTAAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATC-AAAC
* * *
29234504 CTTTTGGGGCGC-TTTCCCACAAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCA-AAC
* * * *
29234546 CTTTAGCGGTGCTTTT-CGACAAACGCCGCTATAGATCAGGAT
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCA-AAC
* * *
29234588 CTTTAGCGGCACTTTT-TCACAAACGCCGCTATAGAACAAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAAC
29234629 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
29234643 CTCGTAAAAC
Statistics
Matches: 229, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
41 15 0.07
42 107 0.47
43 105 0.46
44 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAAC
Found at i:29239295 original size:22 final size:23
Alignment explanation
Indices: 29239257--29239302 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
29239247 AAATTAAAGG
29239257 AGTCAATAAAAACAAGAGATGTT
1 AGTCAATAAAAACAAGAGATGTT
*
29239280 AGTCAATAAAAA-AAGATATGTT
1 AGTCAATAAAAACAAGAGATGTT
29239302 A
1 A
29239303 ATTAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (23 bp):
AGTCAATAAAAACAAGAGATGTT
Found at i:29239312 original size:23 final size:23
Alignment explanation
Indices: 29239259--29239304 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
29239249 ATTAAAGGAG
*
29239259 TCAATAAAAACAAGAGATGTTAG
1 TCAATAAAAACAAGAGATGTTAA
*
29239282 TCAATAAAAA-AAGATATGTTAA
1 TCAATAAAAACAAGAGATGTTAA
29239304 T
1 T
29239305 TAATTAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (23 bp):
TCAATAAAAACAAGAGATGTTAA
Found at i:29240183 original size:41 final size:41
Alignment explanation
Indices: 29240085--29240184 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
29240075 GCTTTTTCAA
* *
29240085 AGCATTAGTGGCGCTTTTTCAGAAACACCGCTAAAGACCCG
1 AGCATTAGTGGCGCTTTTCCAAAAACACCGCTAAAGACCCG
** *
29240126 AGCATTAGCAGCGCTTTTCCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGTGGCGCTTTTCCAAAAACACCGCTAAAGACCCG
*
29240167 AGCATTAGTGGTGCTTTT
1 AGCATTAGTGGCGCTTTT
29240185 TCAACTAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (41 bp):
AGCATTAGTGGCGCTTTTCCAAAAACACCGCTAAAGACCCG
Found at i:29240363 original size:40 final size:40
Alignment explanation
Indices: 29240256--29240366 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
29240246 TCCCAAAAAA
* * * *
29240256 CGCCGCTAATGCTC-ATTTTTCGCGGCGCTTTCCTTGAAG
1 CGCCGCTAATGCTCGATTTTTAGCGGCGTTTTCCGTAAAG
* * * *
29240295 TGCTGCTAATGATCGATCTTTAGCGGCGTTTTCCGTAAAG
1 CGCCGCTAATGCTCGATTTTTAGCGGCGTTTTCCGTAAAG
*
29240335 CGCCGGTAATGCTCGATTTTTAGCGGCGTTTT
1 CGCCGCTAATGCTCGATTTTTAGCGGCGTTTT
29240367 TTATCCAAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 11 0.19
40 47 0.81
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.35
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATTTTTAGCGGCGTTTTCCGTAAAG
Found at i:29241307 original size:10 final size:10
Alignment explanation
Indices: 29241288--29241320 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
29241278 AAAAATATCA
*
29241288 TATTAGTTTT
1 TATTAATTTT
29241298 TATTAA-TTT
1 TATTAATTTT
29241307 TATTAATTTT
1 TATTAATTTT
29241317 TATT
1 TATT
29241321 TTACTTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TATTAATTTT
Found at i:29244464 original size:9 final size:9
Alignment explanation
Indices: 29244450--29244491 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
29244440 GAGTTAAACG
29244450 AATCGAGTT
1 AATCGAGTT
29244459 AATCGAGTT
1 AATCGAGTT
* *
29244468 ATTCAAGTT
1 AATCGAGTT
29244477 AATCGAGTT
1 AATCGAGTT
*
29244486 ATTCGA
1 AATCGA
29244492 ATCAACTCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (9 bp):
AATCGAGTT
Found at i:29244478 original size:18 final size:18
Alignment explanation
Indices: 29244455--29244489 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29244445 AAACGAATCG
29244455 AGTTAATCGAGTTATTCA
1 AGTTAATCGAGTTATTCA
29244473 AGTTAATCGAGTTATTC
1 AGTTAATCGAGTTATTC
29244490 GAATCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
AGTTAATCGAGTTATTCA
Found at i:29247285 original size:25 final size:25
Alignment explanation
Indices: 29247182--29247296 Score: 108
Period size: 25 Copynumber: 4.6 Consensus size: 25
29247172 GTATATGTAT
* *
29247182 GCTCATACGAGCTGTA-AACAGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
29247206 GCTCCT-CTGAGCTGAATAATGGTAA
1 GCTCATAC-GAGCTGAATAACGGTAA
* * * * *
29247231 GCTCCTCCAAGCTAAATAATGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
29247256 GCTCATACGAGCTGAGTAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
29247281 GCTCATAAGAGCTGAA
1 GCTCATACGAGCTGAA
29247297 ATTGGTAACC
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
23 1 0.01
24 12 0.16
25 60 0.81
26 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:29247359 original size:74 final size:74
Alignment explanation
Indices: 29247278--29247425 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
29247268 TGAGTAACGG
29247278 TAAGCTCATAAGAGCTGAAATTGGTAACCATAATGACATGTCATTTGTATCCTACGAATTTCTAA
1 TAAGCTCATAAGAGCTGAAATTGGTAACCATAATGACATGTCATTTGTATCCTACGAATTTCTAA
29247343 GGTTCAAAC
66 GGTTCAAAC
*
29247352 TAAGCTCATAAGAGCTGAAATTGGTAACCCTAATGACATGTCATTTGTATCCTACGAATTTCTAA
1 TAAGCTCATAAGAGCTGAAATTGGTAACCATAATGACATGTCATTTGTATCCTACGAATTTCTAA
29247417 GGTTCAAAC
66 GGTTCAAAC
29247426 GGGGCTCGGT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (74 bp):
TAAGCTCATAAGAGCTGAAATTGGTAACCATAATGACATGTCATTTGTATCCTACGAATTTCTAA
GGTTCAAAC
Found at i:29254052 original size:50 final size:50
Alignment explanation
Indices: 29253941--29254187 Score: 250
Period size: 50 Copynumber: 4.8 Consensus size: 50
29253931 ATTTGGGTAA
29253941 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* *
29253997 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
29254047 AGAGGTCACC-CGTAAGACCATGTCTGGGACATGGCATAGGCACCAATATG
1 AGAGATC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
29254097 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGAATTGGCA--GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
29254146 AAACATCCCATGTAAGACCATGTCTGGGACATGTCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
29254188 TGTTATTATC
Statistics
Matches: 165, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
49 40 0.24
50 78 0.47
51 2 0.01
53 3 0.02
55 2 0.01
56 40 0.24
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:29256753 original size:25 final size:25
Alignment explanation
Indices: 29256713--29256770 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
29256703 GTTGTAAATG
* * *
29256713 GTAAGCTTCTCTGAGCTGAATAAC-
1 GTAAGCTCCTCCGAGCTAAATAACA
29256737 GATAAGCTCCTCCGAGCTAAATAACA
1 G-TAAGCTCCTCCGAGCTAAATAACA
29256763 GTAAGCTC
1 GTAAGCTC
29256771 ATAAGAGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (25 bp):
GTAAGCTCCTCCGAGCTAAATAACA
Found at i:29258220 original size:25 final size:25
Alignment explanation
Indices: 29258183--29258295 Score: 97
Period size: 25 Copynumber: 4.5 Consensus size: 25
29258173 AACACACCAT
*
29258183 AGCTCGTATGAGCTTCCCGATTTAC
1 AGCTCGTATGAGCTTACCGATTTAC
*
29258208 AGCTCGTGA-GAGCTTACCAATTCT-C
1 AGCTCGT-ATGAGCTTACCGATT-TAC
* *
29258233 AACTCGTATGAGCTTACCGATTCAC
1 AGCTCGTATGAGCTTACCGATTTAC
* * * *
29258258 AGCTCGTGA-GAGCATATCGATTCAT
1 AGCTCGT-ATGAGCTTACCGATTTAC
*
29258283 AGCTCATATGAGC
1 AGCTCGTATGAGC
29258296 ATATATGTAC
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
24 2 0.03
25 67 0.93
26 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTTAC
Found at i:29258293 original size:50 final size:50
Alignment explanation
Indices: 29258180--29258295 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
29258170 GCGAACACAC
* * *
29258180 CATAGCTCGTATGAGCTTCCCGATTTACAGCTCGTGAGAGCTTACCAATT
1 CATAGCTCGTATGAGCTTACCGATTCACAGCTCGTGAGAGCATACCAATT
* * *
29258230 C-TCAACTCGTATGAGCTTACCGATTCACAGCTCGTGAGAGCATATCGATT
1 CAT-AGCTCGTATGAGCTTACCGATTCACAGCTCGTGAGAGCATACCAATT
*
29258280 CATAGCTCATATGAGC
1 CATAGCTCGTATGAGC
29258296 ATATATGTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.02
50 54 0.96
51 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (50 bp):
CATAGCTCGTATGAGCTTACCGATTCACAGCTCGTGAGAGCATACCAATT
Found at i:29280726 original size:10 final size:10
Alignment explanation
Indices: 29280713--29280754 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
29280703 TTTTCAATCT
*
29280713 TTTTTCTTCA
1 TTTTTATTCA
29280723 TTTTTATT-A
1 TTTTTATTCA
*
29280732 TTTTTTTTCA
1 TTTTTATTCA
29280742 TTTTTATTC-
1 TTTTTATTCA
29280751 TTTT
1 TTTT
29280755 AAAATGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTCA
Found at i:29280735 original size:19 final size:19
Alignment explanation
Indices: 29280713--29280754 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
29280703 TTTTCAATCT
29280713 TTTTTCTTCATTTTTATTA
1 TTTTTCTTCATTTTTATTA
* *
29280732 TTTTTTTTCATTTTTATTC
1 TTTTTCTTCATTTTTATTA
29280751 TTTT
1 TTTT
29280755 AAAATGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTCATTTTTATTA
Found at i:29282192 original size:107 final size:107
Alignment explanation
Indices: 29281960--29282385 Score: 620
Period size: 108 Copynumber: 4.0 Consensus size: 107
29281950 TATTCAAATA
* * *
29281960 AAAATTTCAAAATAAGGTAATATTTTGTGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * *
29282025 ATTTCGCTTTTTTCGTTCGACCAAATAGGTAAAATATCCTTTT
66 GTTTCG-ATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
* *
29282068 AAAATTTCAAAATAAGGCAATATTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAACATGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
29282133 GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
66 GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
* * * * *
29282175 AGAATTTCAAAATAAGGCAATATTTTACGTTTTGGAAATTTGAAAAAACGTGCCCTAACGCGCTG
1 AAAATTTCAAAATAAGGCAATATTTTGCG-TTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
* *
29282240 GGTTTCGATTTTTCGCTCGACCAAATAGCTAAAATATCCTTTA
65 GGTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
** * *
29282283 AAAATTTCAAAATAAGATAATATTTTGCTTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* ** *
29282348 GTTTCGATTTCTCGTTAAACCAAATAGC-CAAATATCCT
66 GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCT
29282386 CTTATAGCTT
Statistics
Matches: 286, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
106 9 0.03
107 117 0.41
108 160 0.56
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (107 bp):
AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
Found at i:29282333 original size:215 final size:214
Alignment explanation
Indices: 29281962--29282385 Score: 627
Period size: 215 Copynumber: 2.0 Consensus size: 214
29281952 TTCAAATAAA
* * * *
29281962 AATTTCAAAATAAGGTAATATTTTGTGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGGAT
1 AATTTCAAAATAAGGCAATATTTTGTGTTTGGAAATTCGAAAAAACGTGCCCTAACGCGCTGGAT
* * * * *
29282027 TTCGCTTTTTTCGTTCGACCAAATAGGTAAAATATCCTTTTAAAATTTCAAAATAAGGCAATATT
66 TTCGCATTTTTCGCTCGACCAAATAGCTAAAATATCCTTTAAAAATTTCAAAATAAGACAATATT
* * **
29282092 TTGCGTTCGGAAATTCGAGAAAACGTGCCCTAACATGCTGGGTTTCGATTTTTCGTTCGACCAAA
131 TTGCGTTCGAAAATTCGAGAAAACGTGCCCTAACATGCTGGGTTTCGATTTCTCGTTAAACCAAA
29282157 TAGCTAAAATATCCTTTTAG
196 TAGC-AAAATATCCTTTTAG
*
29282177 AATTTCAAAATAAGGCAATATTTTACGT-TTTGGAAATTTGAAAAAACGTGCCCTAACGCGCTGG
1 AATTTCAAAATAAGGCAATATTTT--GTGTTTGGAAATTCGAAAAAACGTGCCCTAACGCGCTGG
* *
29282241 GTTTCG-ATTTTTCGCTCGACCAAATAGCTAAAATATCCTTTAAAAATTTCAAAATAAGATAATA
64 ATTTCGCATTTTTCGCTCGACCAAATAGCTAAAATATCCTTTAAAAATTTCAAAATAAGACAATA
* * *
29282305 TTTTGCTTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTAAACCA
129 TTTTGCGTTCGAAAATTCGAGAAAACGTGCCCTAACATGCTGGGTTTCGATTTCTCGTTAAACCA
*
29282370 AATAGCCAAATATCCT
194 AATAGCAAAATATCCT
29282386 CTTATAGCTT
Statistics
Matches: 187, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
214 9 0.05
215 139 0.74
216 37 0.20
217 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (214 bp):
AATTTCAAAATAAGGCAATATTTTGTGTTTGGAAATTCGAAAAAACGTGCCCTAACGCGCTGGAT
TTCGCATTTTTCGCTCGACCAAATAGCTAAAATATCCTTTAAAAATTTCAAAATAAGACAATATT
TTGCGTTCGAAAATTCGAGAAAACGTGCCCTAACATGCTGGGTTTCGATTTCTCGTTAAACCAAA
TAGCAAAATATCCTTTTAG
Found at i:29283827 original size:19 final size:19
Alignment explanation
Indices: 29283803--29283849 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
29283793 CTCTTTTTCT
*
29283803 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
29283822 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
29283841 TATGCATTA
1 TTTGCATTA
29283850 GAGTTTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:29288000 original size:9 final size:9
Alignment explanation
Indices: 29287986--29288189 Score: 108
Period size: 9 Copynumber: 23.7 Consensus size: 9
29287976 ATAATGTAAT
29287986 TAAGTTATG
1 TAAGTTATG
*
29287995 TAAGTTGTG
1 TAAGTTATG
29288004 T-A-TTAT-
1 TAAGTTATG
*
29288010 TAACGTTAAG
1 TAA-GTTATG
29288020 T--GTTATG
1 TAAGTTATG
*
29288027 TAAGTTATT
1 TAAGTTATG
29288036 TAAGTTATG
1 TAAGTTATG
**
29288045 TAAGTGGTG
1 TAAGTTATG
29288054 T-A-TTATG
1 TAAGTTATG
*
29288061 TAAGTTAAG
1 TAAGTTATG
29288070 TAAGTTATG
1 TAAGTTATG
* *
29288079 TAGGCTATG
1 TAAGTTATG
29288088 T-A-TTATG
1 TAAGTTATG
* *
29288095 CAAGTTATT
1 TAAGTTATG
* *
29288104 TATGTAAGTGG
1 TAAGTTA-T-G
**
29288115 TGTGTTATG
1 TAAGTTATG
*
29288124 TAAGTTATA
1 TAAGTTATG
29288133 TAAGTTATG
1 TAAGTTATG
* *
29288142 TAGGCTATG
1 TAAGTTATG
*
29288151 T-A-TTATC
1 TAAGTTATG
*
29288158 TAAGTT-TT
1 TAAGTTATG
*
29288166 TAAGTTATA
1 TAAGTTATG
29288175 TAAGTTATG
1 TAAGTTATG
*
29288184 CAAGTT
1 TAAGTT
29288190 TCTATATAAG
Statistics
Matches: 143, Mismatches: 37, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
6 1 0.01
7 22 0.15
8 12 0.08
9 100 0.70
10 3 0.02
11 5 0.03
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:29288017 original size:25 final size:24
Alignment explanation
Indices: 29287984--29288080 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
29287974 GTATAATGTA
* *
29287984 ATTAAGTTATGTAAGTTGTGTATT
1 ATTAAGTTAAGTAAGTTATGTATT
29288008 ATTAACGTTAAGT--GTTATGTAAGTT
1 ATTAA-GTTAAGTAAGTTATGT-A-TT
* **
29288033 ATTTAAGTTATGTAAGTGGTGTATT
1 A-TTAAGTTAAGTAAGTTATGTATT
29288058 ATGTAAGTTAAGTAAGTTATGTA
1 AT-TAAGTTAAGTAAGTTATGTA
29288081 GGCTATGTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 6 0.10
24 7 0.12
25 35 0.60
26 5 0.09
27 5 0.09
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (24 bp):
ATTAAGTTAAGTAAGTTATGTATT
Found at i:29288065 original size:34 final size:33
Alignment explanation
Indices: 29288022--29288179 Score: 139
Period size: 34 Copynumber: 4.8 Consensus size: 33
29288012 ACGTTAAGTG
*
29288022 TTATGTAAGTTATTTAAGTTATGTAAGTGGTGTA
1 TTATGTAAGTTATTTAAGTTATGTAAGT-ATGTA
** *
29288056 TTATGTAAGTTAAGTAAGTTATGTAGGCTATGTA
1 TTATGTAAGTTATTTAAGTTATGTAAG-TATGTA
* * *
29288090 TTATGCAAGTTA--T---TTATGTAAGTGGTGTG
1 TTATGTAAGTTATTTAAGTTATGTAAGT-ATGTA
* *
29288119 TTATGTAAGTTATATAAGTTATGTAGGCTATGTA
1 TTATGTAAGTTATTTAAGTTATGTAAG-TATGTA
* *
29288153 TTATCTAAGTT-TTTAAGTTATATAAGT
1 TTATGTAAGTTATTTAAGTTATGTAAGT
29288180 TATGCAAGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
28 1 0.01
29 22 0.22
31 1 0.01
32 2 0.02
33 12 0.12
34 60 0.60
35 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.46
Consensus pattern (33 bp):
TTATGTAAGTTATTTAAGTTATGTAAGTATGTA
Found at i:29288163 original size:63 final size:62
Alignment explanation
Indices: 29288040--29288167 Score: 206
Period size: 63 Copynumber: 2.0 Consensus size: 62
29288030 GTTATTTAAG
29288040 TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTTAT
1 TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTT-T
*
29288103 TTATGTAAGTGGTGTGTTATGTAAGTTATA-TAAGTTATGTAGGCTATGTATTAT-CTAAGTTT
1 TTATGTAAGTGGTGTATTATGTAAGTTA-AGTAAGTTATGTAGGCTATGTATTATGC-AAGTTT
29288165 TTA
1 TTA
29288168 AGTTATATAA
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
62 5 0.08
63 56 0.90
64 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (62 bp):
TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTTT
Found at i:29288201 original size:63 final size:63
Alignment explanation
Indices: 29288056--29288189 Score: 152
Period size: 63 Copynumber: 2.2 Consensus size: 63
29288046 AAGTGGTGTA
* * * **
29288056 TTATGTAAGTTA-AGTAAGTTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGGTGTG
1 TTATGCAAGTTATA-TAAGTTATGTAGGCTATGTATTATGCAAGTTATTTAAGTAAGTGATAAG
* *
29288119 TTATGTAAGTTATATAAGTTATGTAGGCTATGTATTAT-CTAAGTT-TTTAAGTTA-T-ATAAG
1 TTATGCAAGTTATATAAGTTATGTAGGCTATGTATTATGC-AAGTTATTTAAGTAAGTGATAAG
29288179 TTATGCAAGTT
1 TTATGCAAGTT
29288190 TCTATATAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
60 12 0.19
61 1 0.02
62 8 0.13
63 41 0.65
64 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.45
Consensus pattern (63 bp):
TTATGCAAGTTATATAAGTTATGTAGGCTATGTATTATGCAAGTTATTTAAGTAAGTGATAAG
Found at i:29288212 original size:12 final size:12
Alignment explanation
Indices: 29288180--29288213 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
29288170 TTATATAAGT
29288180 TATGCAAGTTTC
1 TATGCAAGTTTC
**
29288192 TATATAAGTTTC
1 TATGCAAGTTTC
29288204 TATGCAAGTT
1 TATGCAAGTT
29288214 ATGTAGGTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (12 bp):
TATGCAAGTTTC
Found at i:29288287 original size:16 final size:16
Alignment explanation
Indices: 29288263--29288425 Score: 72
Period size: 16 Copynumber: 10.0 Consensus size: 16
29288253 AATAAAAATT
*
29288263 TTATTTAAGTTATGTA
1 TTATGTAAGTTATGTA
29288279 TTATGTAAG---TGTA
1 TTATGTAAGTTATGTA
*
29288292 -TATATAAGTTATGATA
1 TTATGTAAGTTATG-TA
* *
29288308 TGATTGATAAATT-TG-A
1 TTA-TG-TAAGTTATGTA
29288324 GTTATGTAAGTTATGATA
1 -TTATGTAAGTTATG-TA
* *
29288342 TGATTTATAAGTTATGTA
1 T--TATGTAAGTTATGTA
* *
29288360 TAATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
29288377 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
29288393 TTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
29288410 TTATGCAAGTCATGTA
1 TTATGTAAGTTATGTA
29288426 GGCTATGTAT
Statistics
Matches: 109, Mismatches: 20, Indels: 36
0.66 0.12 0.22
Matches are distributed among these distances:
12 7 0.06
13 4 0.04
15 7 0.06
16 50 0.46
17 8 0.07
18 17 0.16
19 16 0.15
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:29288335 original size:9 final size:9
Alignment explanation
Indices: 29288323--29288476 Score: 76
Period size: 9 Copynumber: 17.7 Consensus size: 9
29288313 GATAAATTTG
29288323 AGTTATGTA
1 AGTTATGTA
29288332 AGTTATGATA
1 AGTTATG-TA
* *
29288342 TGATT-TATA
1 AG-TTATGTA
29288351 AGTTATGT-
1 AGTTATGTA
*
29288359 A-TAATGTA
1 AGTTATGTA
*
29288367 AGTTATGAA
1 AGTTATGTA
29288376 AGTTATGT-
1 AGTTATGTA
29288384 A-TTATGTA
1 AGTTATGTA
*
29288392 ATTTATGTA
1 AGTTATGTA
*
29288401 AGTTGTGT-
1 AGTTATGTA
*
29288409 A-TTATGCA
1 AGTTATGTA
*
29288417 AGTCATGTA
1 AGTTATGTA
* *
29288426 GGCTATGT-
1 AGTTATGTA
*
29288434 A-TTATGTC
1 AGTTATGTA
29288442 AGTTAT-TA
1 AGTTATGTA
*
29288450 TGTTATTATGTA
1 AG---TTATGTA
*
29288462 AGTTATGAA
1 AGTTATGTA
29288471 AGTTAT
1 AGTTAT
29288477 ATATAAGTTA
Statistics
Matches: 107, Mismatches: 23, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
7 20 0.19
8 11 0.10
9 63 0.59
10 4 0.04
11 6 0.06
12 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:29288339 original size:34 final size:35
Alignment explanation
Indices: 29288288--29288374 Score: 108
Period size: 34 Copynumber: 2.5 Consensus size: 35
29288278 ATTATGTAAG
*
29288288 TGTAT-ATATAAGTTATGATATGATTGATAAATT-
1 TGTATAATGTAAGTTATGATATGATTGATAAATTA
* * *
29288321 TG-AGTTATGTAAGTTATGATATGATTTATAAGTTA
1 TGTA-TAATGTAAGTTATGATATGATTGATAAATTA
29288356 TGTATAATGTAAGTTATGA
1 TGTATAATGTAAGTTATGA
29288375 AAGTTATGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 1 0.02
33 3 0.07
34 25 0.54
35 16 0.35
36 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (35 bp):
TGTATAATGTAAGTTATGATATGATTGATAAATTA
Found at i:29288390 original size:25 final size:25
Alignment explanation
Indices: 29288350--29288476 Score: 113
Period size: 25 Copynumber: 5.3 Consensus size: 25
29288340 TATGATTTAT
*
29288350 AAGTTATGTATAATGTAAGTTATGA
1 AAGTTATGTATTATGTAAGTTATGA
* *
29288375 AAGTTATGTATTATGTAATTTATGT
1 AAGTTATGTATTATGTAAGTTATGA
* * * *
29288400 AAGTTGTGTATTATGCAAGTCATGT
1 AAGTTATGTATTATGTAAGTTATGA
* * *
29288425 AGGCTATGTATTATGTCAG-T-T--
1 AAGTTATGTATTATGTAAGTTATGA
29288446 -A-TTATGTTATTATGTAAGTTATGA
1 AAGTTATG-TATTATGTAAGTTATGA
29288470 AAGTTAT
1 AAGTTAT
29288477 ATATAAGTTA
Statistics
Matches: 79, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.05
20 10 0.13
21 1 0.01
22 1 0.01
23 1 0.01
25 58 0.73
26 4 0.05
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (25 bp):
AAGTTATGTATTATGTAAGTTATGA
Found at i:29288458 original size:20 final size:19
Alignment explanation
Indices: 29288429--29288467 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
29288419 TCATGTAGGC
*
29288429 TATGTATTATGTCAGTTAT
1 TATGTATTATGTAAGTTAT
29288448 TATGTTATTATGTAAGTTAT
1 TATG-TATTATGTAAGTTAT
29288468 GAAAGTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (19 bp):
TATGTATTATGTAAGTTAT
Found at i:29288560 original size:23 final size:22
Alignment explanation
Indices: 29288532--29288576 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
29288522 ATGTATATAA
*
29288532 ATATTAATAAGTTATTAAGTTAT
1 ATATTAAAAAGTTA-TAAGTTAT
*
29288555 ATATTAAAAATTTATAAGTTAT
1 ATATTAAAAAGTTATAAGTTAT
29288577 GTAAATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
ATATTAAAAAGTTATAAGTTAT
Found at i:29288572 original size:30 final size:30
Alignment explanation
Indices: 29288525--29288585 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
29288515 ATTAAAAATG
* *
29288525 TATATAAATATTAATAAGTTAT-TAAGTTA
1 TATATAAAAATTAATAAGTTATGTAAATTA
*
29288554 TATATTAAAAATTTATAAGTTATGTAAATTA
1 TATA-TAAAAATTAATAAGTTATGTAAATTA
29288585 T
1 T
29288586 GCAAGTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 16 0.59
31 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (30 bp):
TATATAAAAATTAATAAGTTATGTAAATTA
Found at i:29290287 original size:22 final size:22
Alignment explanation
Indices: 29290262--29290311 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
29290252 AGTGCCTACA
29290262 CTAAAAAAGGTTCAAAGTTGCC
1 CTAAAAAAGGTTCAAAGTTGCC
*
29290284 CTAAAAAAGTTTCAAAGTTGCC
1 CTAAAAAAGGTTCAAAGTTGCC
29290306 CTAAAA
1 CTAAAA
29290312 TAAACTTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (22 bp):
CTAAAAAAGGTTCAAAGTTGCC
Found at i:29291294 original size:106 final size:104
Alignment explanation
Indices: 29291035--29291294 Score: 326
Period size: 106 Copynumber: 2.5 Consensus size: 104
29291025 CGCAAAATAT
*
29291035 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTATTTTGTTTTTTCAAA
1 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTATTTGGTTTTTTCAAA
* * *
29291100 TTGATTTACTTTTTGTGGCATTTTTATGGAAAACACCGC
66 TTGATTTACTTTTTGCGGCATTTTTACGAAAAACACCGC
* * * ** *
29291139 AACTTCAATTTGAACAAAATGATACCGTTTTGTTATGCACAAAATTTTTTATTTGGTTTTTAT-A
1 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAA-TTTTTATTTGGTTTTT-TCA
* *
29291203 AATTGATTTACTTTTTTGCGGCATTTTTACGAAAAACGCTGC
64 AATTGATTTAC-TTTTTGCGGCATTTTTACGAAAAACACCGC
* * *
29291245 TATTTCATTTTGAACAAAAACGGCGTCGTTTTGCTATGCA-AATAATTTTT
1 TATTTCATTTTGAAC-AAAATGACGCCGTTTTGCTATGCACAA-AATTTTT
29291295 TTTATAATTT
Statistics
Matches: 130, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
104 38 0.29
105 27 0.21
106 45 0.35
107 20 0.15
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (104 bp):
TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTATTTGGTTTTTTCAAA
TTGATTTACTTTTTGCGGCATTTTTACGAAAAACACCGC
Found at i:29291669 original size:248 final size:250
Alignment explanation
Indices: 29291142--29291673 Score: 827
Period size: 251 Copynumber: 2.1 Consensus size: 250
29291132 ACACCGCAAC
* ** * *
29291142 TTCAATTTGAACAAAATGATACCGTTTTGTTATGCACAAAATTTTTTATTTGGTTTTTATAAATT
1 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTGATTTTTATAAATT
* *
29291207 GATTTACTTTTTTGCGGCATTTTTACGAAAAACGCTGCTATTTCATTTTGAACAAAAACGGCGTC
66 GATTTACTTTTTTGCGGCATTTTTACGAAAAACGCCGCTATTTCATTTTGAACAAAAACGGCGCC
* *
29291272 GTTTTGCTATGCAAATAATTTTTTTTATAATTTATTTATTTTCTTTGGGGCGTTTTTATATAAAA
131 GTTTTGCTATGCAAATAA-TTTTTTTATAATTTATTTATTTTCTTTGCGGCATTTTTATATAAAA
29291337 CGCCGCTATTGCTTATCTTTTGCGGCGTTTTTGTGAAAAACGCCGCAAAATATTAT
195 CGCCGCTATTGCTTATCTTTTGCGGCGTTTTTGTGAAAAACGCCGCAAAATATTAT
* *
29291393 TTCATTTTGAACAAAATGACGTCGTTTTGCTATGCACAAAATTTTTT-TTTTATTTGTTATAAAT
1 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTGATTT-TTATAAAT
* ** ** * * *
29291457 TGATTTATTTTTTTGCGGTGTTTTTGTGAGAAACGCCGCTATTTCGTTTTGATCAAAAACGGCGC
65 TGATTTACTTTTTTGCGGCATTTTTACGAAAAACGCCGCTATTTCATTTTGAACAAAAACGGCGC
*
29291522 CGTTTTGCTATGTAAATAA-TTTTTTATAATTTATTTA-TTTCTTTGCGGCATTTTTATATAAAA
130 CGTTTTGCTATGCAAATAATTTTTTTATAATTTATTTATTTTCTTTGCGGCATTTTTATATAAAA
*
29291585 CGCCGCTATTGCTTATCTTTTGCGGCGTTTTTGTTAAAAACGCCGCAAAATATTAT
195 CGCCGCTATTGCTTATCTTTTGCGGCGTTTTTGTGAAAAACGCCGCAAAATATTAT
*
29291641 TTCATTTTCAACAAAATGACGCCGTTTTGCTAT
1 TTCATTTTGAACAAAATGACGCCGTTTTGCTAT
29291674 TTTGTTTTCT
Statistics
Matches: 257, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
248 110 0.43
249 18 0.07
250 6 0.02
251 123 0.48
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.45
Consensus pattern (250 bp):
TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAATTTTTTATTTGATTTTTATAAATT
GATTTACTTTTTTGCGGCATTTTTACGAAAAACGCCGCTATTTCATTTTGAACAAAAACGGCGCC
GTTTTGCTATGCAAATAATTTTTTTATAATTTATTTATTTTCTTTGCGGCATTTTTATATAAAAC
GCCGCTATTGCTTATCTTTTGCGGCGTTTTTGTGAAAAACGCCGCAAAATATTAT
Found at i:29291728 original size:137 final size:137
Alignment explanation
Indices: 29291541--29291810 Score: 411
Period size: 137 Copynumber: 2.0 Consensus size: 137
29291531 ATGTAAATAA
* * * *
29291541 TTTTTTATAATTTATTTATTTCTTTGCGGCATTTTTATATAAAACGCCGCTA-TTGCTTATCTTT
1 TTTTCTATAATTGATTTATTTCTTTGCGGCATTTTTATAGAAAACACCGCTATTTG-TTATCTTT
* *
29291605 TGCGGCGTTTTTG-TTAAAAACGCCGCAAAATATTATTTCATTTTCAACAAAATGACGCCGTTTT
65 TGCGGCG-TTTTGCATAAAAACGCCGCAAAATATTATTTCATTTTAAACAAAATGACGCCGTTTT
29291669 GCTATTTTG
129 GCTATTTTG
*
29291678 TTTTCTATAAATTGATTTATTT-TTTGTGGCATTTTTATAGAAAACACCGCTATTTGTTATCTTT
1 TTTTCTAT-AATTGATTTATTTCTTTGCGGCATTTTTATAGAAAACACCGCTATTTGTTATCTTT
* *
29291742 TGCGGCGTTTTGCATAAAAATGTCGCAAAATATTATTTCATTTTAAACAAAATGACGCCGTTTTG
65 TGCGGCGTTTTGCATAAAAACGCCGCAAAATATTATTTCATTTTAAACAAAATGACGCCGTTTTG
29291807 CTAT
130 CTAT
29291811 GCTAAATTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
136 5 0.04
137 101 0.83
138 15 0.12
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (137 bp):
TTTTCTATAATTGATTTATTTCTTTGCGGCATTTTTATAGAAAACACCGCTATTTGTTATCTTTT
GCGGCGTTTTGCATAAAAACGCCGCAAAATATTATTTCATTTTAAACAAAATGACGCCGTTTTGC
TATTTTG
Found at i:29291834 original size:137 final size:136
Alignment explanation
Indices: 29291519--29291834 Score: 356
Period size: 137 Copynumber: 2.3 Consensus size: 136
29291509 TCAAAAACGG
*
29291519 CGCCGTTTTGCTATGTAAATAATTTTTTATAAT-TTATTTATTTCTTTGCGGCATTTTTATATAA
1 CGCCGTTTTGCTATGTAAAT--TTTTTT-T--TGTT-TTTATTTCTTTGCGGCATTTTTATAGAA
* *
29291583 AACGCCGCTATTGCTTATCTTTTGCGGCGTTTTTGTTAAAAACGCCGCAAAATATTATTTCATTT
60 AACACCGCTATTGCTTATCTTTTGCGGCGTTTTTGATAAAAACGCCGCAAAATATTATTTCATTT
*
29291648 TCAACAAAATGA
125 TAAACAAAATGA
*** * * *
29291660 CGCCGTTTTGCTAT-TTTGTTTTCTATAAATTG-ATTTATTT-TTTGTGGCATTTTTATAGAAAA
1 CGCCGTTTTGCTATGTAAATTTT-T-T--TTTGTTTTTATTTCTTTGCGGCATTTTTATAGAAAA
* *
29291722 CACCGCTATTTG-TTATCTTTTGCGGCG-TTTTGCATAAAAATGTCGCAAAATATTATTTCATTT
62 CACCGCTA-TTGCTTATCTTTTGCGGCGTTTTTG-ATAAAAACGCCGCAAAATATTATTTCATTT
29291785 TAAACAAAATGA
125 TAAACAAAATGA
29291797 CGCCGTTTTGCTATGCTAAATTTTTTTTTGTCTTTTAT
1 CGCCGTTTTGCTATG-TAAATTTTTTTTTGT-TTTTAT
29291835 AAATTGATTT
Statistics
Matches: 147, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
135 3 0.02
136 5 0.03
137 100 0.68
138 14 0.10
139 7 0.05
140 3 0.02
141 15 0.10
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (136 bp):
CGCCGTTTTGCTATGTAAATTTTTTTTTGTTTTTATTTCTTTGCGGCATTTTTATAGAAAACACC
GCTATTGCTTATCTTTTGCGGCGTTTTTGATAAAAACGCCGCAAAATATTATTTCATTTTAAACA
AAATGA
Found at i:29292121 original size:14 final size:14
Alignment explanation
Indices: 29292102--29292217 Score: 76
Period size: 14 Copynumber: 8.1 Consensus size: 14
29292092 TCGACCCCTG
29292102 AATCCCTAAACCTT
1 AATCCCTAAACCTT
29292116 AATCCCT-AACTCTT
1 AATCCCTAAAC-CTT
* *
29292130 AACCCCT-AACGTCT
1 AATCCCTAAACCT-T
* *
29292144 AACCCCTAAATCCCT
1 AATCCCTAAA-CCTT
*
29292159 AA-CCCTTAAACCAT
1 AATCCC-TAAACCTT
* * *
29292173 AGTCCCTAATCCAT
1 AATCCCTAAACCTT
*
29292187 AATCCCTAAACCCAT
1 AATCCCTAAA-CCTT
*
29292202 ACTCCCTAAACCTT
1 AATCCCTAAACCTT
29292216 AA
1 AA
29292218 AATATGAACT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
13 4 0.05
14 53 0.64
15 25 0.30
16 1 0.01
ACGTcount: A:0.34, C:0.39, G:0.02, T:0.25
Consensus pattern (14 bp):
AATCCCTAAACCTT
Found at i:29292483 original size:14 final size:14
Alignment explanation
Indices: 29292466--29292492 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29292456 AACCCTTAAA
29292466 CCATAATCCCTAAT
1 CCATAATCCCTAAT
29292480 CCATAATCCCTAA
1 CCATAATCCCTAA
29292493 ACCCATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:29292802 original size:114 final size:114
Alignment explanation
Indices: 29292588--29293148 Score: 637
Period size: 115 Copynumber: 4.9 Consensus size: 114
29292578 ATGTTTTTTT
* * * * * *
29292588 GCGGCGCTTTCCTAAAAAACGCCGCTAAATCCCCCAAAAGCTCAAAAAACAGCGTCATTGGGCTT
1 GCGGCGCTTTCCT-AAAAACGCCACTAAAT-CCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT
* * * *
29292653 ATGTCT-TTTTCCGGCGCTTTCTCACAAACGCCGCTAAAGCCCTGAGCATTA
64 A-GTTTATTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTCAGCATTA
* *
29292704 GCGGCGC-TTCCTAAAACACGCCACTAAATCCGCAAAAGCTCAAAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCCTAAAA-ACGCCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* * *
29292768 GTTTATTTTGCGGCGCTTCCTCAAAAACGTCGCTAAAGCCCTCAACATTA
65 GTTTATTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTCAGCATTA
** ** * *
29292818 GCAACGCTTTATTAAGAAACGCCACTAAATCTGCGAAAGCTCAGAAAACGGCGTCATTGGGCTTA
1 GCGGCGCTTTCCTAA-AAACGCCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* * * * * *
29292883 GTTTATTTTGCGACGTTTTATCAAAAACGCCGCAAAAGCCCTGAGCACTA
65 GTTTATTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTCAGCATTA
* *
29292933 GCGGCGC-TTCCTAAAAATCGCCACTAAATCCGCGAATGCTCAGAAAACGGCATCGTTGGGCTTA
1 GCGGCGCTTTCCTAAAAA-CGCCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* *
29292997 GTTTATTTTGCGGTGC-TTCATCAAAAACGCCGCTAAAGCCCTCAGTATTA
65 GTTTATTTTGCGGCGCTTTC-TCAAAAACGCCGCTAAAGCCCTCAGCATTA
* * * * * * * *
29293047 GCGGCGCTTTCTTAAGAAACGCCGCTAAGTCCCCGAAAGCTCAGAAAATGGTGCCGTTGAGCTTA
1 GCGGCGCTTTCCTAA-AAACGCCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* *
29293112 -TGTATTTTTGCGGCGCTTTCTCAAAAACGCCACTAAA
65 GTTTA-TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
29293149 TCTGCGAAAG
Statistics
Matches: 378, Mismatches: 57, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
113 8 0.02
114 176 0.47
115 179 0.47
116 15 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (114 bp):
GCGGCGCTTTCCTAAAAACGCCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
TTTATTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTCAGCATTA
Found at i:29293025 original size:229 final size:229
Alignment explanation
Indices: 29292604--29293142 Score: 695
Period size: 229 Copynumber: 2.3 Consensus size: 229
29292594 CTTTCCTAAA
* * * *
29292604 AAACGCCGCTAAATCCCCCAAAAGCTCAAAAAACAGCGTCATTGGGCTTATGTCTTTTTCCGGCG
1 AAACGCCACTAAAT-CCCCGAAAGCTCAGAAAACAGCGTCATTGGGCTTATGTCTTTTTCCGACG
* * * *
29292669 CTTTCTCACAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAACACGCCACTAAATC
65 CTTTATCAAAAACGCCGCAAAAGCCCTGAGCACTAGCGGCGCTTCCTAAAACACGCCACTAAATC
* * *
29292734 CGCAAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGTTTATTTTGCGGCGCTTCCTCAAAAACGTC
130 CGCAAAAGCTCAAAAAACGGCATCGTTGGGCTTAGTTTATTTTGCGGCGCTTCATCAAAAACGCC
29292799 GCTAAAGCCCTCAACATTAGCAACGCTTTATTAAG
195 GCTAAAGCCCTCAACATTAGCAACGCTTTATTAAG
** * * *
29292834 AAACGCCACTAAATCTGCGAAAGCTCAGAAAACGGCGTCATTGGGCTTA-GTTTATTTTGCGACG
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCATTGGGCTTATGTCT-TTTTCCGACG
*
29292898 TTTTATCAAAAACGCCGCAAAAGCCCTGAGCACTAGCGGCGCTTCCTAAAA-ATCGCCACTAAAT
65 CTTTATCAAAAACGCCGCAAAAGCCCTGAGCACTAGCGGCGCTTCCTAAAACA-CGCCACTAAAT
* * * *
29292962 CCGCGAATGCTCAGAAAACGGCATCGTTGGGCTTAGTTTATTTTGCGGTGCTTCATCAAAAACGC
129 CCGCAAAAGCTCAAAAAACGGCATCGTTGGGCTTAGTTTATTTTGCGGCGCTTCATCAAAAACGC
** ** *
29293027 CGCTAAAGCCCTCAGTATTAGCGGCGCTTTCTTAAG
194 CGCTAAAGCCCTCAACATTAGCAACGCTTTATTAAG
* * ** * * * * * * *
29293063 AAACGCCGCTAAGTCCCCGAAAGCTCAGAAAATGGTGCCGTTGAGCTTATGTATTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCATTGGGCTTATGTCTTTTTCCGACGC
*
29293128 TTTCTCAAAAACGCC
66 TTTATCAAAAACGCC
29293143 ACTAAATCTG
Statistics
Matches: 267, Mismatches: 39, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
228 4 0.01
229 247 0.93
230 16 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (229 bp):
AAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCATTGGGCTTATGTCTTTTTCCGACGC
TTTATCAAAAACGCCGCAAAAGCCCTGAGCACTAGCGGCGCTTCCTAAAACACGCCACTAAATCC
GCAAAAGCTCAAAAAACGGCATCGTTGGGCTTAGTTTATTTTGCGGCGCTTCATCAAAAACGCCG
CTAAAGCCCTCAACATTAGCAACGCTTTATTAAG
Found at i:29293159 original size:73 final size:72
Alignment explanation
Indices: 29293047--29293219 Score: 211
Period size: 73 Copynumber: 2.4 Consensus size: 72
29293037 CTCAGTATTA
* * * *
29293047 GCGGCGCTTTCTTAAGAAACGCCGCTAAGTCCCCGAAAGCTCAGAAAATGGTGCCGTTGAGCTTA
1 GCGGCGCTTTCTCAA-AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGAGCTTA
*
29293112 TGTATTTTT
65 GGT-TTTTT
* ** * * *
29293121 GCGGCGCTTTCTCAAAAACGCCACTAAATCTGCGAAAGCTCAGAATACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGAGCTTAG
29293186 GTTTTTT
66 GTTTTTT
* *
29293193 GCGGCACTTTCTGAAAAACGCCGCTAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAA
29293220 TGCTTTTTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 29 0.34
73 42 0.49
74 14 0.16
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (72 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGAGCTTAG
GTTTTTT
Found at i:29299307 original size:21 final size:22
Alignment explanation
Indices: 29299281--29299335 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
29299271 AACAACGATG
**
29299281 GCGGTGAGATTAGG-TCCTGTA
1 GCGGTGAGATTAGGATAATGTA
29299302 GCGGTGAGATT-GGATAATGTA
1 GCGGTGAGATTAGGATAATGTA
*
29299323 GCAGTGAGATTAG
1 GCGGTGAGATTAG
29299336 AAACAGCGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATAATGTA
Found at i:29299545 original size:19 final size:18
Alignment explanation
Indices: 29299499--29299537 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
29299489 TTATTATTAA
29299499 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
29299517 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
29299534 ATAT
1 ATAT
29299538 TAAATTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:29299551 original size:19 final size:16
Alignment explanation
Indices: 29299499--29299552 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 16
29299489 TTATTATTAA
29299499 ATATAATTTAATAAAAAT
1 ATATAATTT-A-AAAAAT
29299517 ATATAATTTAATAAAAT
1 ATATAATTTAA-AAAAT
29299534 ATATTAAATTTACAAAAAT
1 ATA-T-AATTTA-AAAAAT
29299553 TCAATCACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 10 0.31
19 11 0.34
20 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATTTAAAAAAT
Found at i:29299881 original size:6 final size:6
Alignment explanation
Indices: 29299870--29299907 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
29299860 AGAGCAAACC
*
29299870 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
29299908 GAAGAAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:29299893 original size:18 final size:18
Alignment explanation
Indices: 29299870--29299905 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29299860 AGAGCAAACC
29299870 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
29299888 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
29299906 GAGAAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:29299914 original size:18 final size:18
Alignment explanation
Indices: 29299875--29299914 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29299865 AAACCAAGGG
**
29299875 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
29299893 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
29299911 GAAG
1 GAAG
29299915 AGTAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.57, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:29308918 original size:17 final size:19
Alignment explanation
Indices: 29308874--29308919 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 19
29308864 ATATAAATTT
29308874 AAAG-GTTAAAAAAGAAGA
1 AAAGAGTTAAAAAAGAAGA
29308892 AAA-A-TT-AAAAA-AA-A
1 AAAGAGTTAAAAAAGAAGA
29308906 AAAGAGTTAAAAAA
1 AAAGAGTTAAAAAA
29308920 TTGGAAAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
14 4 0.17
15 3 0.12
16 7 0.29
17 7 0.29
18 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAGAGTTAAAAAAGAAGA
Found at i:29314957 original size:21 final size:23
Alignment explanation
Indices: 29314914--29314958 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
29314904 TTTCCAGTAA
*
29314914 CTTGTTTTTTTTAATTATTCAATT
1 CTTGTTTTTTTTAATCA-TCAATT
29314938 CTTGTTTTTTTTAA-CA-CAATT
1 CTTGTTTTTTTTAATCATCAATT
29314959 ACAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
23 1 0.05
24 14 0.70
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.62
Consensus pattern (23 bp):
CTTGTTTTTTTTAATCATCAATT
Found at i:29315208 original size:14 final size:15
Alignment explanation
Indices: 29315186--29315262 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
29315176 CAATCAAACA
29315186 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
29315200 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
29315215 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
29315235 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
29315249 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
29315263 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:29315227 original size:20 final size:20
Alignment explanation
Indices: 29315202--29315241 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29315192 AATATTTTCC
*
29315202 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
29315222 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
29315242 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:29315247 original size:34 final size:35
Alignment explanation
Indices: 29315190--29315256 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
29315180 CAAACACCAG
*
29315190 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
29315225 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
29315257 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:29315263 original size:14 final size:14
Alignment explanation
Indices: 29315225--29315264 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
29315215 ACAGAAAAGT
*
29315225 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
29315239 AAATCATTTTACGG
1 AAAACATTTTACAG
29315253 AAAACATTTTAC
1 AAAACATTTTAC
29315265 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:29320073 original size:18 final size:20
Alignment explanation
Indices: 29320052--29320101 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
29320042 AAAAATTTTA
29320052 AAAATTATAAAATAT-AT-T
1 AAAATTATAAAATATGATAT
* * *
29320070 AAAAATATTAAATCTGATAT
1 AAAATTATAAAATATGATAT
*
29320090 AAATTTATAAAA
1 AAAATTATAAAA
29320102 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 12 0.50
19 2 0.08
20 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATTATAAAATATGATAT
Found at i:29320081 original size:19 final size:18
Alignment explanation
Indices: 29320038--29320081 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
29320028 ATCAGAATTC
*
29320038 TTTAAAAAATTTTAAAAA
1 TTTAAAAAATATTAAAAA
*
29320056 TTATAAAATATATTAAAAA
1 TT-TAAAAAATATTAAAAA
29320075 TATTAAA
1 T-TTAAA
29320082 TCTGATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 19 0.86
20 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTAAAAAATATTAAAAA
Found at i:29320717 original size:9 final size:9
Alignment explanation
Indices: 29320615--29320719 Score: 59
Period size: 9 Copynumber: 11.3 Consensus size: 9
29320605 TAAACTTCTA
29320615 TTTATAATT
1 TTTATAATT
*
29320624 TATTAGAATT
1 T-TTATAATT
*
29320634 TTTATATTT
1 TTTATAATT
*
29320643 TTTATAATA
1 TTTATAATT
* **
29320652 TTTAAAAAA
1 TTTATAATT
* *
29320661 TTTACATGTT
1 TTTATA-ATT
*
29320671 TTTATAATA
1 TTTATAATT
*
29320680 TTAATAACTT
1 TTTATAA-TT
* *
29320690 TATATAAAT
1 TTTATAATT
29320699 TTTA-ATATT
1 TTTATA-ATT
29320708 TTTATAATT
1 TTTATAATT
29320717 TTT
1 TTT
29320720 TTAAAAAATT
Statistics
Matches: 70, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
8 1 0.01
9 49 0.70
10 20 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTATAATT
Found at i:29337139 original size:19 final size:19
Alignment explanation
Indices: 29337103--29337142 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29337093 ATTCCAAATA
** *
29337103 TAATATTATTTTATATATT
1 TAATATTAAATTAAATATT
29337122 TAATATTAAATTAAATATT
1 TAATATTAAATTAAATATT
29337141 TA
1 TA
29337143 TCTTAATAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATTAAATTAAATATT
Found at i:29337236 original size:69 final size:69
Alignment explanation
Indices: 29337121--29337250 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 69
29337111 TTTTATATAT
*
29337121 TTAATATTAAATTAAATATTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTAATTATCGT
1 TTAATATTAAATTAAATATTTATCTTAATAGTATTATATTAATTTAATATTAAAGTAATTATCGT
29337186 AATA
66 AATA
* * * * *
29337190 TTAA-ATTTAATTTAATATTTATCTTGATAAGTATTATATTGATTTAATATTAAAGTGATTA
1 TTAATATTAAATTAAATATTTATCTTAAT-AGTATTATATTAATTTAATATTAAAGTAATTA
29337251 AGAATAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 21 0.39
69 33 0.61
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTAAATATTTATCTTAATAGTATTATATTAATTTAATATTAAAGTAATTATCGT
AATA
Found at i:29340293 original size:15 final size:15
Alignment explanation
Indices: 29340273--29340302 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29340263 TTCACTGTTA
*
29340273 TGTCTTTTATATTTT
1 TGTCTTTCATATTTT
29340288 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
29340303 CCATTAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (15 bp):
TGTCTTTCATATTTT
Found at i:29351448 original size:18 final size:17
Alignment explanation
Indices: 29351422--29351460 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
29351412 ATTTTCCTTC
29351422 CACATTCAA-TATTAATT
1 CACATTCAAGTA-TAATT
29351439 CACATATCAAGTATAATT
1 CACAT-TCAAGTATAATT
29351457 CACA
1 CACA
29351461 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 13 0.65
19 2 0.10
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (17 bp):
CACATTCAAGTATAATT
Found at i:29352769 original size:9 final size:9
Alignment explanation
Indices: 29352748--29352798 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
29352738 TTAATTTTTT
29352748 AAAATTT-A
1 AAAATTTAA
29352756 AAAATTTAA
1 AAAATTTAA
*
29352765 AAAATTCAAA
1 AAAATT-TAA
29352775 AAAATTTAA
1 AAAATTTAA
* *
29352784 AAAATATGA
1 AAAATTTAA
29352793 AAAATT
1 AAAATT
29352799 AATATTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 7 0.19
9 21 0.58
10 8 0.22
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATTTAA
Found at i:29353808 original size:16 final size:17
Alignment explanation
Indices: 29353775--29353808 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
29353765 GTAATTAATA
*
29353775 AAATATTGTAAAATTAT
1 AAATATTGTAAAACTAT
29353792 AAATATT-TAAAACTAT
1 AAATATTGTAAAACTAT
29353808 A
1 A
29353809 CAAATCTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATATTGTAAAACTAT
Found at i:29360497 original size:32 final size:31
Alignment explanation
Indices: 29360439--29360505 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
29360429 AGGTTTTAAT
*
29360439 GTAATTATGATAATTTTTAAAGGTTAACTAA
1 GTAATTATGATAATTGTTAAAGGTTAACTAA
* *
29360470 GTAATT-TGATAATTAAGTTAAATGTTAATTAA
1 GTAATTATGATAATT--GTTAAAGGTTAACTAA
29360502 GTAA
1 GTAA
29360506 AAGATGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 8 0.26
31 6 0.19
32 17 0.55
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.42
Consensus pattern (31 bp):
GTAATTATGATAATTGTTAAAGGTTAACTAA
Found at i:29361171 original size:40 final size:39
Alignment explanation
Indices: 29361127--29361262 Score: 200
Period size: 40 Copynumber: 3.4 Consensus size: 39
29361117 AATTATTGTA
29361127 TGATTGCACATATGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACATATGTGCCCTTGTTTGTACTTCGGTA-CCC
*
29361167 TGATTGCACATATGTGCCCTTGTTTGTACTTTGGCTACCC
1 TGATTGCACATATGTGCCCTTGTTTGTACTTCGG-TACCC
* *
29361207 TGATTGCACATATGTACCCTTGTTTGTACTTCTGTATCCC
1 TGATTGCACATATGTGCCCTTGTTTGTACTTCGGTA-CCC
* *
29361247 AGGTTGCACATATGTG
1 TGATTGCACATATGTG
29361263 TCTCTGATTG
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 83 0.95
41 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (39 bp):
TGATTGCACATATGTGCCCTTGTTTGTACTTCGGTACCC
Found at i:29361307 original size:80 final size:80
Alignment explanation
Indices: 29361131--29361294 Score: 206
Period size: 80 Copynumber: 2.1 Consensus size: 80
29361121 ATTGTATGAT
* * *
29361131 TGCACATATGTGCCCTTGTTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCTTGTTTGTAC
1 TGCACATATGTACCCTTGTTTGTACTTCGGTACCCCAGATTGCACATATGTGCCCTTGATTGTAC
* *
29361196 TTTGGCTACCCTGAT
66 TTCGGCTACCCTGAA
* * * * *
29361211 TGCACATATGTACCCTTGTTTGTACTTCTGTATCCCAGGTTGCACATATGTG-TCTCTGATTGTG
1 TGCACATATGTACCCTTGTTTGTACTTCGGTACCCCAGATTGCACATATGTGCCCT-TGATTGTA
*
29361275 CTTCGGC-ACCTTGAA
65 CTTCGGCTACCCTGAA
29361290 TGCAC
1 TGCAC
29361295 TTTAGTGCCC
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 13 0.18
80 59 0.82
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (80 bp):
TGCACATATGTACCCTTGTTTGTACTTCGGTACCCCAGATTGCACATATGTGCCCTTGATTGTAC
TTCGGCTACCCTGAA
Found at i:29374825 original size:4 final size:4
Alignment explanation
Indices: 29374816--29374858 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
29374806 TAAAAGCTGT
* *
29374816 TTTA TTTA -TTA TTTA ATAA TTTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTT
29374859 CATTCTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 28 0.85
5 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:29375055 original size:19 final size:17
Alignment explanation
Indices: 29375033--29375076 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
29375023 CATTATCTGT
*
29375033 TTTTTTTGTGTTCTTGTTA
1 TTTTTTTGT-TGCTT-TTA
*
29375052 TTTTATTGTTGCTTTTA
1 TTTTTTTGTTGCTTTTA
29375069 TTTTTTTG
1 TTTTTTTG
29375077 GCACTTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 8 0.36
ACGTcount: A:0.07, C:0.05, G:0.14, T:0.75
Consensus pattern (17 bp):
TTTTTTTGTTGCTTTTA
Found at i:29375187 original size:15 final size:16
Alignment explanation
Indices: 29375149--29375192 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
29375139 CCTTATTTAT
**
29375149 TTTATTATTCTTATAA
1 TTTATTATTAATATAA
29375165 TTTGATTATTAATA-AA
1 TTT-ATTATTAATATAA
29375181 TTTATTATTAAT
1 TTTATTATTAAT
29375193 TACATTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTATTATTAATATAA
Found at i:29406840 original size:63 final size:62
Alignment explanation
Indices: 29406771--29406918 Score: 158
Period size: 62 Copynumber: 2.4 Consensus size: 62
29406761 GGCCGTGTGG
* *
29406771 CAGGCCGTGTAACTCACTATTTTTGAAT-TTGAG-GCACACGGGCTAAGGACACAAGCGTGTGTC
1 CAGGCCGTGTAACTCACTGTTTTT-AATATTG-GTG-ACACGGACTAAGGACACAAGCGTGTGTC
* * * ** *
29406834 CAGGCCGTGTAAGC-CACTGTTTGTATTATTGGTGACACGGACTAGGGACACGGGTGTGTGTC
1 CAGGCCGTGTAA-CTCACTGTTTTTAATATTGGTGACACGGACTAAGGACACAAGCGTGTGTC
*
29406896 CAGGCCGTGCAACTCACTGTTTT
1 CAGGCCGTGTAACTCACTGTTTT
29406919 GGATTTAGGG
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
61 1 0.01
62 45 0.63
63 24 0.34
64 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (62 bp):
CAGGCCGTGTAACTCACTGTTTTTAATATTGGTGACACGGACTAAGGACACAAGCGTGTGTC
Found at i:29408142 original size:14 final size:14
Alignment explanation
Indices: 29408123--29408149 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29408113 TATTTTATAC
29408123 TATAAAATATTTAT
1 TATAAAATATTTAT
29408137 TATAAAATATTTA
1 TATAAAATATTTA
29408150 CAAATTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATAAAATATTTAT
Done.