Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 178 of 199
Found at i:51327331 original size:90 final size:90
Alignment explanation
Indices: 51327195--51327453 Score: 344
Period size: 90 Copynumber: 2.9 Consensus size: 90
51327185 GGAGAGTTCA
* * * * * *
51327195 AGTCCTGTTCGGTATCAT-ACTGAAGAGAAATGGAATAAGCCTTCTAGACCCGTTCAGTATGACG
1 AGTCCTGTTCGGTATCGTGTC-GAAGAGAAATGGAATAAGCCTTCTAGTCCTGTTCGGTATGATG
51327259 TCGAAGAGAAATGGAATAAGCCATCG
65 TCGAAGAGAAATGGAATAAGCCATCG
*
51327285 AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAAGCCCTCTAGTCCTGTTCGGTATCG-TG
1 AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAAGCCTTCTAGTCCTGTTCGGTAT-GATG
*
51327349 TCGAAGAGAAATGGAATAAGCCATCT
65 TCGAAGAGAAATGGAATAAGCCATCG
* * * * **
51327375 AGTCCTGTT-GGTTATGGTGTCGAAGAGAAATGGAGTAGGCCTTCGAGTCCTGTTCGGTACCATG
1 AGTCCTGTTCGG-TATCGTGTCGAAGAGAAATGGAATAAGCCTTCTAGTCCTGTTCGGTATGATG
51327439 TCGAAGAGAAATGGA
65 TCGAAGAGAAATGGA
51327454 CGAACCGGCC
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
89 2 0.01
90 146 0.97
91 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (90 bp):
AGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAAGCCTTCTAGTCCTGTTCGGTATGATGT
CGAAGAGAAATGGAATAAGCCATCG
Found at i:51327421 original size:135 final size:135
Alignment explanation
Indices: 51327195--51327453 Score: 369
Period size: 135 Copynumber: 1.9 Consensus size: 135
51327185 GGAGAGTTCA
*
51327195 AGTCCTGTTCGGTATCATACTGAAGAGAAATGGAATAAGCCTTCTAGACCCGTTCAGTATGACGT
1 AGTCCTGTTCGGTATCATACTGAAGAGAAATGGAATAAGCCATCTAGACCCGTTCAGTATGACGT
* *
51327260 CGAAGAGAAATGGAATAAGCCATCGAGTCCTGTTCGGTATCGTGTCGAAGAGAAATGGAATAAGC
66 CGAAGAGAAATGGAATAAGCCATCGAGTCCTGTTCGGTACCATGTCGAAGAGAAATGGAATAAGC
51327325 CCTCT
131 CCTCT
* * * * * **
51327330 AGTCCTGTTCGGTATCGT-GTCGAAGAGAAATGGAATAAGCCATCTAGTCCTGTT-GGTTATGGT
1 AGTCCTGTTCGGTATCATACT-GAAGAGAAATGGAATAAGCCATCTAGACCCGTTCAG-TATGAC
* * *
51327393 GTCGAAGAGAAATGGAGTAGGCCTTCGAGTCCTGTTCGGTACCATGTCGAAGAGAAATGGA
64 GTCGAAGAGAAATGGAATAAGCCATCGAGTCCTGTTCGGTACCATGTCGAAGAGAAATGGA
51327454 CGAACCGGCC
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
134 2 0.02
135 107 0.98
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (135 bp):
AGTCCTGTTCGGTATCATACTGAAGAGAAATGGAATAAGCCATCTAGACCCGTTCAGTATGACGT
CGAAGAGAAATGGAATAAGCCATCGAGTCCTGTTCGGTACCATGTCGAAGAGAAATGGAATAAGC
CCTCT
Found at i:51330309 original size:21 final size:21
Alignment explanation
Indices: 51330283--51330322 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
51330273 TTCGAGTGGA
*
51330283 TCAACTCTTTTGAGCTTCTGT
1 TCAACTCTTTCGAGCTTCTGT
51330304 TCAACTCTTTCGAGCTTCT
1 TCAACTCTTTCGAGCTTCT
51330323 ATTTGTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.28, G:0.12, T:0.45
Consensus pattern (21 bp):
TCAACTCTTTCGAGCTTCTGT
Found at i:51336055 original size:11 final size:12
Alignment explanation
Indices: 51336039--51336071 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
51336029 TCCCTGATTG
51336039 TTTCTATTGT-A
1 TTTCTATTGTCA
51336050 TTTCTATTGTCA
1 TTTCTATTGTCA
51336062 TTTCTCATTG
1 TTTCT-ATTG
51336072 CATGTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 6 0.30
13 4 0.20
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (12 bp):
TTTCTATTGTCA
Found at i:51338401 original size:36 final size:36
Alignment explanation
Indices: 51338349--51338472 Score: 101
Period size: 36 Copynumber: 3.5 Consensus size: 36
51338339 GTTTAATATC
* *
51338349 GTCGGTTTATCCGACTAGCGCTGGGTGCAATTATTT
1 GTCGATTTATTCGACTAGCGCTGGGTGCAATTATTT
* * * ** *
51338385 GTCGATTTATTCGACTAGTGCAGTGCACAACTA-TT
1 GTCGATTTATTCGACTAGCGCTGGGTGCAATTATTT
* * *
51338420 GTCG-GTTA-TCTGACTAGCGCTAGATGCAATTATTT
1 GTCGATTTATTC-GACTAGCGCTGGGTGCAATTATTT
* *
51338455 GTCAATTTATTCAACTAG
1 GTCGATTTATTCGACTAG
51338473 TGTTGGGCGC
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
33 2 0.03
34 16 0.25
35 11 0.17
36 33 0.52
37 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (36 bp):
GTCGATTTATTCGACTAGCGCTGGGTGCAATTATTT
Found at i:51343950 original size:143 final size:141
Alignment explanation
Indices: 51343686--51343980 Score: 412
Period size: 143 Copynumber: 2.1 Consensus size: 141
51343676 TAGAATTAAA
* * * * *
51343686 CAAGTGCATTGTTTATTCCTCTCTAAGGTTGGGTCTTTTTCGGGTTTAGTATTGTTGTTCCAACT
1 CAAGTACATGGTTTATTCCTATCTAAGGTTGGGTCTTTTTCAGGTTTAGTATTGTTGTTCCAACG
* *
51343751 CTTCATTTTTCTCGAAGTCACCATGTCTGAGGCATACTGGGATATATGTATGTCATATTACACTC
66 CTTCATTTTTCTCGAAGTCACCATGTCTGAGGCATACCGGGATATATGTATGTCATATGACACTC
**
51343816 CATGAATATTC
131 CACAAATATTC
*
51343827 CAAGTACATGGTTTATTCCTATCTAAGGTTGGGTCTTTTTCAGGTTTAGTATT-TTGATTCTCCG
1 CAAGTACATGGTTTATTCCTATCTAAGGTTGGGTCTTTTTCAGGTTTAGTATTGTTG--T-TCCA
* ** * *
51343891 AGGCTTCATTTTTCTCGAAGTCACTGTGTTTGATGCATACCGGGATATATGTATGTCATATGACA
63 ACGCTTCATTTTTCTCGAAGTCACCATGTCTGAGGCATACCGGGATATATGTATGTCATATGACA
51343956 CTCCACAAATATTC
128 CTCCACAAATATTC
*
51343970 CAAATACATGG
1 CAAGTACATGG
51343981 AAAAACTTAG
Statistics
Matches: 135, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
140 3 0.02
141 49 0.36
142 1 0.01
143 82 0.61
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (141 bp):
CAAGTACATGGTTTATTCCTATCTAAGGTTGGGTCTTTTTCAGGTTTAGTATTGTTGTTCCAACG
CTTCATTTTTCTCGAAGTCACCATGTCTGAGGCATACCGGGATATATGTATGTCATATGACACTC
CACAAATATTC
Found at i:51350056 original size:12 final size:12
Alignment explanation
Indices: 51350039--51350069 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51350029 AATTGAAGCT
51350039 AAGAAAGAGAAG
1 AAGAAAGAGAAG
*
51350051 AAGAAAAAGAAG
1 AAGAAAGAGAAG
51350063 AAGAAAG
1 AAGAAAG
51350070 CTGACAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAGAAAGAGAAG
Found at i:51351079 original size:31 final size:31
Alignment explanation
Indices: 51351017--51351079 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
51351007 ATTTGTATAA
* * * *
51351017 AAATTAATCTAAATCTAAAATAATTCGATCC
1 AAATTAAACTAAATATAAAATAACTCAATCC
51351048 AAATTAAAC-AAATATAAAATCAACTCAATCC
1 AAATTAAACTAAATATAAAAT-AACTCAATCC
51351079 A
1 A
51351080 CTTAAATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (31 bp):
AAATTAAACTAAATATAAAATAACTCAATCC
Found at i:51361082 original size:22 final size:22
Alignment explanation
Indices: 51361057--51361103 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
51361047 GAGCCGTGGA
*
51361057 GGACCGGAGGTGGATCGGTTCC
1 GGACCGGAGGTGGATCGGTGCC
*
51361079 GGACCGGAGGTGGATTGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
51361101 GGA
1 GGA
51361104 GGTGAAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.19, G:0.49, T:0.17
Consensus pattern (22 bp):
GGACCGGAGGTGGATCGGTGCC
Found at i:51362326 original size:19 final size:19
Alignment explanation
Indices: 51362298--51362361 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
51362288 AATTTTCGAG
*
51362298 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51362317 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51362336 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
51362357 GATAT
1 GATAT
51362362 ATACAATCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:51362380 original size:19 final size:21
Alignment explanation
Indices: 51362299--51362374 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
51362289 ATTTTCGAGG
51362299 ATATACAATCTTAGATATG--
1 ATATACAATCTTAGATATGAT
*
51362318 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
51362339 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
51362360 ATATACAATCTTAGA
1 ATATACAATCTTAGA
51362375 AGATATGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:51363415 original size:25 final size:25
Alignment explanation
Indices: 51363356--51363422 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
51363346 GTATATATGT
51363356 AATTATTATTATATATATATATGTA
1 AATTATTATTATATATATATATGTA
*
51363381 CAGATTTATTA-TATATATGTATATGTA
1 -A-A-TTATTATTATATATATATATGTA
*
51363408 AATATATTGTTATAT
1 AAT-TATTATTATAT
51363423 TTTTTAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 1 0.03
25 5 0.14
26 7 0.20
27 16 0.46
28 6 0.17
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (25 bp):
AATTATTATTATATATATATATGTA
Found at i:51365560 original size:23 final size:24
Alignment explanation
Indices: 51365534--51365579 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
51365524 ATTTAGCCTA
51365534 ATTTTCTT-AAATCTTTTTTATAT
1 ATTTTCTTAAAATCTTTTTTATAT
51365557 ATTTTCTTGAAAATCTTTTTTAT
1 ATTTTCTT-AAAATCTTTTTTAT
51365580 TTTTGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (24 bp):
ATTTTCTTAAAATCTTTTTTATAT
Found at i:51366890 original size:21 final size:21
Alignment explanation
Indices: 51366866--51366916 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
51366856 GTATGTGGAG
51366866 TAGCCACACAGGCGTATAGGA
1 TAGCCACACAGGCGTATAGGA
* * * *
51366887 TAGCCATACGGGCGTGTGGGA
1 TAGCCACACAGGCGTATAGGA
51366908 TAGCCACAC
1 TAGCCACAC
51366917 GACCATGTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.16
Consensus pattern (21 bp):
TAGCCACACAGGCGTATAGGA
Found at i:51379714 original size:18 final size:19
Alignment explanation
Indices: 51379677--51379715 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
51379667 CTTAATATGT
*
51379677 AAATATATATATATAACAA
1 AAATATATAAATATAACAA
*
51379696 AAATA-ATAAATATATCAA
1 AAATATATAAATATAACAA
51379714 AA
1 AA
51379716 TCTAATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATATATAAATATAACAA
Found at i:51381276 original size:19 final size:18
Alignment explanation
Indices: 51381254--51381289 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
51381244 ATAATAATTT
*
51381254 ATATTATTATTAATATTAA
1 ATATTAATATTAA-ATTAA
51381273 ATATTAATATTAAATTA
1 ATATTAATATTAAATTA
51381290 TTTTTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTAATATTAAATTAA
Found at i:51381279 original size:13 final size:13
Alignment explanation
Indices: 51381261--51381312 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
51381251 TTTATATTAT
51381261 TATTAATATTAAA
1 TATTAATATTAAA
51381274 TATTAATATTAAA
1 TATTAATATTAAA
*
51381287 TTATT--TTTTGAAA
1 -TATTAATATT-AAA
51381300 TA-TAATATTAAA
1 TATTAATATTAAA
51381312 T
1 T
51381313 TATTTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.03
12 9 0.27
13 19 0.58
14 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
TATTAATATTAAA
Found at i:51381321 original size:26 final size:26
Alignment explanation
Indices: 51381271--51381320 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
51381261 TATTAATATT
51381271 AAATATTAATATTAAATTATTTTTTG
1 AAATATTAATATTAAATTATTTTTTG
51381297 AAATA-TAATATTAAATTATTTTTT
1 AAATATTAATATTAAATTATTTTTT
51381321 TCATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
AAATATTAATATTAAATTATTTTTTG
Found at i:51385862 original size:33 final size:30
Alignment explanation
Indices: 51385825--51385890 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
51385815 ACTTAACAAG
*
51385825 CAAATGTCTCTAAAATAATAGTAACAAAATTAA
1 CAAATGGCTCTAAAAT-A-A-TAACAAAATTAA
*
51385858 CAAATGGCTTTAAAATAATAACAAAATTAA
1 CAAATGGCTCTAAAATAATAACAAAATTAA
51385888 CAA
1 CAA
51385891 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 15 0.48
31 1 0.03
32 1 0.03
33 14 0.45
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (30 bp):
CAAATGGCTCTAAAATAATAACAAAATTAA
Found at i:51386784 original size:18 final size:18
Alignment explanation
Indices: 51386740--51386786 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
51386730 ATTTAATATA
*
51386740 AATATAA-ACATATAATT
1 AATATAATATATATAATT
*
51386757 ATTATTTAATATATATAATT
1 A--ATATAATATATATAATT
51386777 AATATAATAT
1 AATATAATAT
51386787 TTTTATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 1 0.04
18 8 0.33
19 5 0.21
20 10 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AATATAATATATATAATT
Found at i:51388918 original size:13 final size:14
Alignment explanation
Indices: 51388902--51388932 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
51388892 TTATTTTTTA
51388902 TTTAAATTTAT-TT
1 TTTAAATTTATATT
51388915 TTTAAATTTATATT
1 TTTAAATTTATATT
51388929 TTTA
1 TTTA
51388933 CTCAAACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTAAATTTATATT
Found at i:51393720 original size:2 final size:2
Alignment explanation
Indices: 51393713--51393745 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
51393703 AAATTTTGAT
*
51393713 AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
51393746 TAATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:51394963 original size:25 final size:25
Alignment explanation
Indices: 51394912--51394965 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
51394902 AATTTTAAAA
*
51394912 TATTTTTAAAATAATTTTTTATTTT
1 TATTTTTAAAATAATTTTTTATGTT
*
51394937 TATTTTTAAAAT-ATTTTTTGGTGTT
1 TATTTTTAAAATAATTTTTT-ATGTT
51394962 TATT
1 TATT
51394966 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (25 bp):
TATTTTTAAAATAATTTTTTATGTT
Found at i:51399254 original size:21 final size:21
Alignment explanation
Indices: 51399088--51399246 Score: 194
Period size: 21 Copynumber: 7.6 Consensus size: 21
51399078 TGAATATGTC
* *
51399088 AACAGAAGCTCATAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTG
* * *
51399109 AACAGAAAG-TCATAAGAGTTA
1 AACAG-AAGCTCGTAAGAGCTG
51399130 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * *
51399151 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
* *
51399172 AATAGAAGCTCGTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
*
51399193 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
51399214 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
51399235 AACAGAAGCTCG
1 AACAGAAGCTCG
51399247 AAAAAGCTAA
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
20 3 0.02
21 115 0.95
22 3 0.02
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:51399261 original size:21 final size:21
Alignment explanation
Indices: 51399130--51399262 Score: 99
Period size: 21 Copynumber: 6.3 Consensus size: 21
51399120 ATAAGAGTTA
* *
51399130 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGAAAAAGCTG
* * *
51399151 AACAGAAACTC-ATAAGAGTTG
1 AACAGAAGCTCGA-AAAAGCTG
* * * *
51399172 AATAGAAGCTCGTAAGAGTTG
1 AACAGAAGCTCGAAAAAGCTG
* * *
51399193 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGAAAAAGCTG
* * *
51399214 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGAAAAAGCTG
51399235 AACAGAAGCTCGAAAAAGCT-
1 AACAGAAGCTCGAAAAAGCTG
51399255 AAGCAGAA
1 AA-CAGAA
51399263 AATAAAACAC
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
20 2 0.02
21 95 0.98
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGAAAAAGCTG
Found at i:51399999 original size:21 final size:22
Alignment explanation
Indices: 51399962--51400056 Score: 81
Period size: 21 Copynumber: 4.5 Consensus size: 22
51399952 TTTACTTTTT
**
51399962 GTTTAGCTCTTTTGAGCTT-TA
1 GTTTAGCTCTTACGAGCTTCTA
51399983 GTTTAGCTCTTACGAGCTTCTA
1 GTTTAGCTCTTACGAGCTTCTA
* * * * *
51400005 -TTCAACTCTTATGAG-TTTTT
1 GTTTAGCTCTTACGAGCTTCTA
*
51400025 GTTCAGCTCTTACGAGCTTCT-
1 GTTTAGCTCTTACGAGCTTCTA
*
51400046 GTTTAACTCTT
1 GTTTAGCTCTT
51400057 GTAAGTTTCT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
20 3 0.05
21 51 0.86
22 5 0.08
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (22 bp):
GTTTAGCTCTTACGAGCTTCTA
Found at i:51400034 original size:42 final size:42
Alignment explanation
Indices: 51399968--51400087 Score: 141
Period size: 42 Copynumber: 2.9 Consensus size: 42
51399958 TTTTGTTTAG
* * * *
51399968 CTCTTTTGAGCTTTAGTTTAGCTCTTACGAGCTTCTATTCAA
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
* *
51400010 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
* * * * *
51400052 CTCTTGTAAGTTTCTGTTCAGCTCTTATGAACTTCT
1 CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCT
51400088 GTTGGAATAT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (42 bp):
CTCTTATGAGTTTTTGTTCAGCTCTTACGAGCTTCTATTCAA
Found at i:51400076 original size:21 final size:21
Alignment explanation
Indices: 51399989--51400090 Score: 87
Period size: 21 Copynumber: 4.9 Consensus size: 21
51399979 TTTAGTTTAG
* * *
51399989 CTCTTACGAGCTTCTATTCAA
1 CTCTTATGAGTTTCTGTTCAA
* *
51400010 CTCTTATGAGTTTTTGTTCAG
1 CTCTTATGAGTTTCTGTTCAA
* * *
51400031 CTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGTTTCTGTTCAA
* * *
51400052 CTCTTGTAAGTTTCTGTTCAG
1 CTCTTATGAGTTTCTGTTCAA
**
51400073 CTCTTATGAACTTCTGTT
1 CTCTTATGAGTTTCTGTT
51400091 GGAATATTCA
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.46
Consensus pattern (21 bp):
CTCTTATGAGTTTCTGTTCAA
Found at i:51400088 original size:42 final size:42
Alignment explanation
Indices: 51399987--51400090 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
51399977 GCTTTAGTTT
* * *
51399987 AGCTCTTACGAGCTTCTATTCAACTCTTATGAGTTTTTGTTC
1 AGCTCTTACGAGCTTCTGTTCAACTCTTATAAGTTTCTGTTC
* *
51400029 AGCTCTTACGAGCTTCTGTTTAACTCTTGTAAGTTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTCAACTCTTATAAGTTTCTGTTC
* *
51400071 AGCTCTTATGAACTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
51400091 GGAATATTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (42 bp):
AGCTCTTACGAGCTTCTGTTCAACTCTTATAAGTTTCTGTTC
Found at i:51404635 original size:23 final size:22
Alignment explanation
Indices: 51404587--51404663 Score: 56
Period size: 23 Copynumber: 3.6 Consensus size: 22
51404577 AATTAAAAAT
51404587 TATAATAAATATTAATTATTAAA
1 TATAATAAATATTAATTATT-AA
*
51404610 TATAATAATTATCTAAATTATT-A
1 TATAATAAATAT-T-AATTATTAA
* * *
51404633 TAT--T-TATATTTATTATTTA
1 TATAATAAATATTAATTATTAA
51404652 -ATAATAAATATT
1 TATAATAAATATT
51404664 TTTATAAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
18 8 0.19
19 2 0.05
20 4 0.09
21 6 0.14
23 15 0.35
24 1 0.02
25 7 0.16
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATAAATATTAATTATTAA
Found at i:51406507 original size:28 final size:27
Alignment explanation
Indices: 51406477--51406565 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 27
51406467 TAAATTAGAA
*
51406477 AAAATTATAAAAATTGTAAAAAATTAT
1 AAAATTATAAAAATAGTAAAAAATTAT
*
51406504 AAAATATATAGAAATATAGAAAAAAATTAT
1 AAAAT-TATA-AAA-ATAGTAAAAAATTAT
* * * *
51406534 AAAATTTTATAAGTCGTAAAAAAATTAT
1 AAAATTATAAAAATAGT-AAAAAATTAT
51406562 AAAA
1 AAAA
51406566 AATGTAAAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.14
28 20 0.39
29 6 0.12
30 18 0.35
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTATAAAAATAGTAAAAAATTAT
Found at i:51406537 original size:10 final size:10
Alignment explanation
Indices: 51406468--51406608 Score: 57
Period size: 10 Copynumber: 14.7 Consensus size: 10
51406458 AAAAATATTT
*
51406468 AAATTAGAAA
1 AAATTATAAA
51406478 AAATTAT-AA
1 AAATTATAAA
*
51406487 AAATTGTAAA
1 AAATTATAAA
51406497 AAATTATAAA
1 AAATTATAAA
* *
51406507 ATA-TAT-AG
1 AAATTATAAA
*
51406515 AAATATAGAAAA
1 AAAT-TA-TAAA
51406527 AAATTATAAA
1 AAATTATAAA
**
51406537 ATTTTAT-AA
1 AAATTATAAA
****
51406546 GTCGTA-AAA
1 AAATTATAAA
51406555 AAATTATAAA
1 AAATTATAAA
*
51406565 AAATGTA-AAG
1 AAAT-TATAAA
51406575 AAA-TAT-AA
1 AAATTATAAA
* *
51406583 AATTTGTAAA
1 AAATTATAAA
*
51406593 AAAATAT-AA
1 AAATTATAAA
51406602 AAATTAT
1 AAATTAT
51406609 CGTACCAAAA
Statistics
Matches: 94, Mismatches: 26, Indels: 23
0.66 0.18 0.16
Matches are distributed among these distances:
8 8 0.09
9 30 0.32
10 47 0.50
11 4 0.04
12 5 0.05
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (10 bp):
AAATTATAAA
Found at i:51406583 original size:19 final size:19
Alignment explanation
Indices: 51406449--51406604 Score: 77
Period size: 19 Copynumber: 8.3 Consensus size: 19
51406439 TAATTTTAAC
* *
51406449 AAAAAATGTAAAAATATTT
1 AAAAAATGTAAAAAAATAT
** *
51406468 AAATTA-G-AAAAAATTAT
1 AAAAAATGTAAAAAAATAT
* *
51406485 AAAAATTGTAAAAAATTAT
1 AAAAAATGTAAAAAAATAT
* * * * *
51406504 AAAATATATAGAAATATAGA
1 AAAAAATGTAAAAAAATA-T
* *
51406524 AAAAAAT-T-ATAAAATTT
1 AAAAAATGTAAAAAAATAT
* * *
51406541 TATAAGTCGTAAAAAAATTAT
1 AAAAAAT-GTAAAAAAA-TAT
*
51406562 AAAAAATGTAAAGAAATAT
1 AAAAAATGTAAAAAAATAT
**
51406581 AAAATTTGTAAAAAAATAT
1 AAAAAATGTAAAAAAATAT
51406600 AAAAA
1 AAAAA
51406605 TTATCGTACC
Statistics
Matches: 96, Mismatches: 34, Indels: 14
0.67 0.24 0.10
Matches are distributed among these distances:
17 14 0.15
18 6 0.06
19 51 0.53
20 19 0.20
21 6 0.06
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAAAATGTAAAAAAATAT
Found at i:51406812 original size:9 final size:9
Alignment explanation
Indices: 51406790--51406864 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
51406780 TTTTGGTGTA
51406790 TTTTATAATTT
1 TTTTATAA--T
*
51406801 TTTTATGAT
1 TTTTATAAT
51406810 TTTTATAATT
1 TTTTATAA-T
*
51406820 TTTTATTAAAA
1 TTTTA-T-AAT
*
51406831 TTTAATAAT
1 TTTTATAAT
*
51406840 TTTTATAAC
1 TTTTATAAT
*
51406849 TTTTATTTAT
1 TTTTA-TAAT
51406859 TTTTAT
1 TTTTAT
51406865 TTATTATATT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
9 23 0.45
10 14 0.27
11 12 0.24
12 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:51409263 original size:2 final size:2
Alignment explanation
Indices: 51409256--51409282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51409246 GAAAACCATG
51409256 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
51409283 TTAGTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51415208 original size:3 final size:3
Alignment explanation
Indices: 51415200--51415240 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
51415190 AAACTGGTGT
51415200 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
51415241 TATGAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:51418155 original size:84 final size:84
Alignment explanation
Indices: 51418014--51418182 Score: 311
Period size: 84 Copynumber: 2.0 Consensus size: 84
51418004 AGTTTTAGTA
* *
51418014 TTAGTAATCCAAAGCGCTTTTTCACTCGTTTGCACTCTCTCCCCATTCTTTACTTCCTAAGAAGC
1 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
51418079 TCATTATTCAGTGTTGGCT
66 TCATTATTCAGTGTTGGCT
*
51418098 TTAGTAATCCAAAGCGCTCTTTCACTTGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
1 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
51418163 TCATTATTCAGTGTTGGCT
66 TCATTATTCAGTGTTGGCT
51418182 T
1 T
51418183 AAGCTAGATC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (84 bp):
TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCTTTACTTCCTAAGAAGC
TCATTATTCAGTGTTGGCT
Found at i:51418734 original size:2 final size:2
Alignment explanation
Indices: 51418727--51418754 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51418717 ACCATTTTTA
51418727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51418755 TAAGATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51420372 original size:19 final size:22
Alignment explanation
Indices: 51420350--51420397 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
51420340 AAATTTATAA
51420350 TTATTAATA-T-TA-TAAAAAC
1 TTATTAATATTGTACTAAAAAC
*
51420369 TTATTTATATTGTACTAAAAAC
1 TTATTAATATTGTACTAAAAAC
51420391 TT-TTAAT
1 TTATTAAT
51420398 TGAATTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 1 0.04
21 6 0.25
22 9 0.38
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (22 bp):
TTATTAATATTGTACTAAAAAC
Found at i:51424579 original size:22 final size:22
Alignment explanation
Indices: 51424551--51424602 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
51424541 AATTTTAATA
51424551 CTCTCATGGCTAACGTACTAAG
1 CTCTCATGGCTAACGTACTAAG
** *
51424573 CTCTCATGTTTCACGTACTAAG
1 CTCTCATGGCTAACGTACTAAG
51424595 CTCTCATG
1 CTCTCATG
51424603 TTTGAACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (22 bp):
CTCTCATGGCTAACGTACTAAG
Found at i:51424603 original size:22 final size:22
Alignment explanation
Indices: 51424563--51424605 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
51424553 CTCATGGCTA
51424563 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
51424585 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
51424606 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:51427732 original size:2 final size:2
Alignment explanation
Indices: 51427725--51427774 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
51427715 TTTCCCTGGA
51427725 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51427767 AT AT AT AT
1 AT AT AT AT
51427775 GCGAATATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51435595 original size:19 final size:19
Alignment explanation
Indices: 51435565--51435628 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
51435555 GTAATTTTAA
51435565 ATAATATAATTTTAATTATT
1 ATAAT-TAATTTTAATTATT
*
51435585 ATAATTAATTTTAATTTTT
1 ATAATTAATTTTAATTATT
* *
51435604 ATTA-TAATTTTAATAATT
1 ATAATTAATTTTAATTATT
51435622 ATAATTA
1 ATAATTA
51435629 TTCTTAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
18 15 0.39
19 18 0.47
20 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATAATTAATTTTAATTATT
Found at i:51435624 original size:15 final size:14
Alignment explanation
Indices: 51435556--51435627 Score: 66
Period size: 15 Copynumber: 5.4 Consensus size: 14
51435546 AATTTTAAAG
*
51435556 TAATTTTAAATAATA
1 TAATTTT-AATATTA
51435571 TAATTTTAATTATTA
1 TAATTTTAA-TATTA
51435586 TAA--TTAAT-TT-
1 TAATTTTAATATTA
51435596 TAATTTT--TATTA
1 TAATTTTAATATTA
51435608 TAATTTTAATAATTA
1 TAATTTTAAT-ATTA
51435623 TAATT
1 TAATT
51435628 ATTCTTAAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
10 4 0.08
11 4 0.08
12 10 0.21
13 4 0.08
14 3 0.06
15 23 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTTTAATATTA
Found at i:51447113 original size:15 final size:15
Alignment explanation
Indices: 51447066--51447115 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
51447056 GTCATAATTT
51447066 AAAATGAAAT-TTA-A
1 AAAAT-AAATGTTATA
* * *
51447080 AAAAAAAATGTTGTG
1 AAAATAAATGTTATA
51447095 AAAATAAATGTTATA
1 AAAATAAATGTTATA
51447110 AAAATA
1 AAAATA
51447116 TTGATTTTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 18 0.64
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (15 bp):
AAAATAAATGTTATA
Found at i:51447797 original size:11 final size:12
Alignment explanation
Indices: 51447771--51447796 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51447761 TCAATCAAAT
51447771 AAATTATTTAAA
1 AAATTATTTAAA
51447783 AAATTATTTAAA
1 AAATTATTTAAA
51447795 AA
1 AA
51447797 TAAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATTATTTAAA
Found at i:51460446 original size:22 final size:22
Alignment explanation
Indices: 51460412--51460488 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
51460402 AAACTAATCC
51460412 TCTCTCAAATTTCTTCTCAATT
1 TCTCTCAAATTTCTTCTCAATT
*
51460434 TC-CTCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCTTCTCAATT
* *
51460456 TGCTCTCAAATTCCTTCTAAATT
1 T-CTCTCAAATTTCTTCTCAATT
51460479 TCTCTCAAAT
1 TCTCTCAAAT
51460489 CCATATTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.06
22 27 0.56
23 15 0.31
24 3 0.06
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (22 bp):
TCTCTCAAATTTCTTCTCAATT
Found at i:51460463 original size:33 final size:33
Alignment explanation
Indices: 51460412--51460486 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 33
51460402 AAACTAATCC
*
51460412 TCTCTCAAATTTCTTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCTTCTCAAATTCCTTCTAAATT
51460445 TCCTCTCAATTTGC-TCTCAAATTCCTTCTAAATT
1 T-CTCTCAATTT-CTTCTCAAATTCCTTCTAAATT
51460479 TCTCTCAA
1 TCTCTCAA
51460487 ATCCATATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
33 23 0.61
34 15 0.39
ACGTcount: A:0.24, C:0.29, G:0.01, T:0.45
Consensus pattern (33 bp):
TCTCTCAATTTCTTCTCAAATTCCTTCTAAATT
Found at i:51460488 original size:11 final size:11
Alignment explanation
Indices: 51460412--51460488 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
51460402 AAACTAATCC
51460412 TCTCTCAAATT
1 TCTCTCAAATT
51460423 TCTTCTC-AATT
1 TC-TCTCAAATT
51460434 TC-CTCTAAATT
1 TCTCTC-AAATT
51460445 TCCTCTC-AATT
1 T-CTCTCAAATT
51460456 TGCTCTCAAATT
1 T-CTCTCAAATT
*
51460468 CCT-TCTAAATT
1 TCTCTC-AAATT
51460479 TCTCTCAAAT
1 TCTCTCAAAT
51460489 CCATATTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 36 0.65
12 11 0.20
13 3 0.05
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:51460506 original size:51 final size:51
Alignment explanation
Indices: 51460448--51460547 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
51460438 CTAAATTTCC
*
51460448 TCTCAATTTGCTCTCAAATTCCT-TCTAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-TAAATTTATCTCAAATCCATATTTAA
* * *
51460499 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTATCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTTAAATTTATCTCAAATCCATATTT
51460548 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTTAAATTTATCTCAAATCCATATTTAA
Found at i:51461700 original size:7 final size:7
Alignment explanation
Indices: 51461688--51461712 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51461678 TAGTCGATTG
51461688 GTATTTA
1 GTATTTA
51461695 GTATTTA
1 GTATTTA
51461702 GTATTTA
1 GTATTTA
51461709 GTAT
1 GTAT
51461713 ATAACTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:51462384 original size:18 final size:18
Alignment explanation
Indices: 51462357--51462391 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51462347 CAGGTGCGTT
* *
51462357 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
51462375 TCCTAACCCTTATATGT
1 TCCTAACCCTTATATGT
51462392 TTCTTTTTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.43
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:51462970 original size:27 final size:28
Alignment explanation
Indices: 51462940--51463003 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 28
51462930 TTAATTGACA
51462940 AACCTTAAACCCTTAACCTAAAAA-TCT
1 AACCTTAAACCCTTAACCTAAAAACTCT
* * *
51462967 AACCCT-AACCCTTAACTTAAAAACTGT
1 AACCTTAAACCCTTAACCTAAAAACTCT
51462994 AACCCTTAAA
1 AA-CCTTAAA
51463004 TTAAAAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 16 0.53
27 9 0.30
28 3 0.10
29 2 0.07
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.25
Consensus pattern (28 bp):
AACCTTAAACCCTTAACCTAAAAACTCT
Found at i:51462977 original size:26 final size:27
Alignment explanation
Indices: 51462947--51462999 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
51462937 ACAAACCTTA
51462947 AACCCTTAACCTAAAAA-TCTAACCCT
1 AACCCTTAACCTAAAAACTCTAACCCT
* *
51462973 AACCCTTAACTTAAAAACTGTAACCCT
1 AACCCTTAACCTAAAAACTCTAACCCT
51463000 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.25
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACTCTAACCCT
Found at i:51462998 original size:21 final size:21
Alignment explanation
Indices: 51462967--51463093 Score: 155
Period size: 21 Copynumber: 6.0 Consensus size: 21
51462957 CTAAAAATCT
51462967 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
** *
51462988 AACTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
51463009 AACCATAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
51463031 AACCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
* *
51463052 AACACTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
51463073 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
51463094 TATAATTTGA
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
21 69 0.79
22 18 0.21
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:51463066 original size:42 final size:41
Alignment explanation
Indices: 51462970--51463087 Score: 164
Period size: 43 Copynumber: 2.8 Consensus size: 41
51462960 AAAATCTAAC
* *
51462970 CCTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAA
1 CCTAACCCTTAACTTAAAAACCGTAACCCTTAAATAAAAAA
*
51463011 CCATAAACCCTTAACTTTAAAACCGTAACCCTTAAATAAAAAA
1 CC-T-AACCCTTAACTTAAAAACCGTAACCCTTAAATAAAAAA
* *
51463054 CACTAACACTTAACTTAAAAACCCTAACCCTTAA
1 C-CTAACCCTTAACTTAAAAACCGTAACCCTTAA
51463088 CTTAAATATA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.03
42 28 0.41
43 37 0.54
44 1 0.01
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.25
Consensus pattern (41 bp):
CCTAACCCTTAACTTAAAAACCGTAACCCTTAAATAAAAAA
Found at i:51463066 original size:64 final size:63
Alignment explanation
Indices: 51462967--51463090 Score: 167
Period size: 64 Copynumber: 2.0 Consensus size: 63
51462957 CTAAAAATCT
* * ** *
51462967 AACCCTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAACCATAAACCCTTAACTTTAA
1 AACCCTAACCCTTAAATAAAAAACACTAACACTTAAATTAAAAACCAT-AACCCTTAACTTTAA
* * *
51463031 AACCGTAACCCTTAAATAAAAAACACTAACACTTAACTTAAAAACCCTAACCCTTAACTT
1 AACCCTAACCCTTAAATAAAAAACACTAACACTTAAATTAAAAACCATAACCCTTAACTT
51463091 AAATATAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 12 0.23
64 40 0.77
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.25
Consensus pattern (63 bp):
AACCCTAACCCTTAAATAAAAAACACTAACACTTAAATTAAAAACCATAACCCTTAACTTTAA
Found at i:51466608 original size:126 final size:125
Alignment explanation
Indices: 51466266--51466657 Score: 619
Period size: 125 Copynumber: 3.1 Consensus size: 125
51466256 GCCAAACATG
* * *
51466266 CTACTGTAGCAAAAGCGCATCCATGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
51466331 TAGAAGCG-TTTTTATTCTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
51466390 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * **
51466455 TTGAAGTGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAATAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * * *
51466516 CTACTATAGCAAAAGCGCGTCCACGA-GACGCGATTTCACAATTTCTTCT-AATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAA-ATAGCATCCTG
51466579 CTTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCG-TTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
51466641 CTACTGTAGCAAAAGCG
1 CTACTGTAGCAAAAGCG
51466658 GGTATACGTG
Statistics
Matches: 246, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
124 70 0.28
125 102 0.41
126 74 0.30
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:51466690 original size:126 final size:123
Alignment explanation
Indices: 51466266--51466707 Score: 575
Period size: 125 Copynumber: 3.5 Consensus size: 123
51466256 GCCAAACATG
* * *
51466266 CTACTGTAGCAAAAGCGCATCCATGAGGGCGCAATTTCACAAATTCTTCTCAA-ATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCG--ATTTCACAAATTCTTCT-AATAAAGCATCCTG
* *
51466330 CTAGAAGCG-TTTTTATTCTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
63 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
51466390 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAA-ATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGA-GG-GCGATTTCACAAATTCTTCT-AATAAAGCATCCTG
* * **
51466454 CTTGAAGTGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAATAC
63 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * *
51466516 CTACTATAGCAAAAGCGCGTCCACGAGACGCGATTTCACAATTTCTTCTAATAAAGCATCCTGCT
1 CTACTGTAGCAAAAGCGCGTCCACGAG-GGCGATTTCACAAATTCTTCTAATAAAGCATCCTGCT
51466581 TGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 TGAAGCG-TTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* ** * * * * *
51466641 CTACTGTAGCAAAAGCGGGTATACGTGGGCAAGACTTCAGAAATCCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGC--GATTTCACAAATTCTTCTAATAAAGCATCCTGC
51466706 TT
64 TT
51466708 TGATTTTATC
Statistics
Matches: 282, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
124 66 0.23
125 109 0.39
126 107 0.38
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGATTTCACAAATTCTTCTAATAAAGCATCCTGCTT
GAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:51466849 original size:16 final size:16
Alignment explanation
Indices: 51466824--51466865 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
51466814 TTTTTCTCTA
51466824 AAACCCTAAAAATCCT
1 AAACCCTAAAAATCCT
* *
51466840 AAATCCTAAAAATCTT
1 AAACCCTAAAAATCCT
51466856 AAACCCTAAA
1 AAACCCTAAA
51466866 CCCTAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACCCTAAAAATCCT
Found at i:51466882 original size:23 final size:23
Alignment explanation
Indices: 51466821--51466883 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
51466811 ACTTTTTTCT
* * *
51466821 CTAAAACCCTAAAAATCCTAAATC
1 CTAAAATCC-AAAAACCCTAAACC
**
51466845 CTAAAAAT-CTTAAACCCTAAACC
1 CT-AAAATCCAAAAACCCTAAACC
51466868 CTAAAATCCAAAAACC
1 CTAAAATCCAAAAACC
51466884 TAACGTGGGA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
22 5 0.17
23 18 0.60
24 3 0.10
25 4 0.13
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (23 bp):
CTAAAATCCAAAAACCCTAAACC
Found at i:51469593 original size:31 final size:31
Alignment explanation
Indices: 51469547--51469608 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
51469537 AATAATTGGA
*
51469547 TTTAACTTAATTGAGAA-AAAGATAATAAATT
1 TTTAACTTAAATGAGAACAAA-ATAATAAATT
*
51469578 TTTATCTTAAATGAGAACAAAATAATAAATT
1 TTTAACTTAAATGAGAACAAAATAATAAATT
51469609 CTATCTGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (31 bp):
TTTAACTTAAATGAGAACAAAATAATAAATT
Found at i:51471541 original size:40 final size:41
Alignment explanation
Indices: 51471445--51471558 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 41
51471435 CAATGTTTCA
* * *
51471445 CACACTAATTGCCAATCATATAGCCGAAGCTATTATAATTCCG
1 CACACTAAGTGCC-AT-ATATAGCCGAAGCTATTACAAATCCG
*
51471488 CACACTAAGTGCCATATATAGCCGAAGCTATTCCAAAT-CG
1 CACACTAAGTGCCATATATAGCCGAAGCTATTACAAATCCG
*
51471528 CACACTAAGTGCCAT-TAATAACCGAAGCTAT
1 CACACTAAGTGCCATAT-ATAGCCGAAGCTAT
51471559 CTCGATTTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 30 0.46
41 20 0.31
42 2 0.03
43 12 0.18
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATTACAAATCCG
Found at i:51472506 original size:53 final size:53
Alignment explanation
Indices: 51472449--51472554 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
51472439 CCATTAATGT
*
51472449 CCATTAACACTACCAATGGTCTATTATCATTATAAGGACTTTTAATTTAATTA
1 CCATTAACACTACCAATGGTCTATTATCATTATAAGGACATTTAATTTAATTA
*
51472502 CCATTAACACTACCAATGGTCTATTATCATTGTAAGGACATTTAATTTAATTA
1 CCATTAACACTACCAATGGTCTATTATCATTATAAGGACATTTAATTTAATTA
51472555 ATCATAGCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (53 bp):
CCATTAACACTACCAATGGTCTATTATCATTATAAGGACATTTAATTTAATTA
Found at i:51472532 original size:26 final size:26
Alignment explanation
Indices: 51472450--51472532 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
51472440 CATTAATGTC
51472450 CATTAACACTACCAATGGTCTATTAT
1 CATTAACACTACCAATGGTCTATTAT
* *** *
51472476 CATTATAAGGACTTTTAAT--T-TAATTAC
1 CA-T-TAA-CACTACCAATGGTCT-ATTAT
51472503 CATTAACACTACCAATGGTCTATTAT
1 CATTAACACTACCAATGGTCTATTAT
51472529 CATT
1 CATT
51472533 GTAAGGACAT
Statistics
Matches: 40, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
24 6 0.15
25 3 0.08
26 13 0.32
27 9 0.22
28 3 0.08
29 6 0.15
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (26 bp):
CATTAACACTACCAATGGTCTATTAT
Found at i:51485662 original size:10 final size:10
Alignment explanation
Indices: 51485615--51485671 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
51485605 AATGATTTTT
*
51485615 AATTTTTAAA
1 AATTTTTTAA
*
51485625 AATAATTTTTAT
1 AAT--TTTTTAA
*
51485637 ATTTTGTTTAA
1 AATTT-TTTAA
*
51485648 TATTTTTTAA
1 AATTTTTTAA
51485658 AATTTTTTAA
1 AATTTTTTAA
51485668 AATT
1 AATT
51485672 AATAAAATGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 23 0.62
11 7 0.19
12 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:51487769 original size:15 final size:15
Alignment explanation
Indices: 51487736--51487783 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
51487726 GCTTTGTTTG
51487736 TTTTGCTAGTAAAAT-A
1 TTTT-CTAG-AAAATGA
51487752 TTTTCTAGAAAATGA
1 TTTTCTAGAAAATGA
*
51487767 -TTTCTGGAAAATGA
1 TTTTCTAGAAAATGA
51487781 TTT
1 TTT
51487784 ACTTTTCTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 18 0.62
15 7 0.24
16 4 0.14
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (15 bp):
TTTTCTAGAAAATGA
Found at i:51487799 original size:19 final size:20
Alignment explanation
Indices: 51487767--51487812 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
51487757 TAGAAAATGA
51487767 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
51487787 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
51487806 TTTCTGG
1 TTTCTGG
51487813 TGTTTGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:51487914 original size:18 final size:18
Alignment explanation
Indices: 51487888--51487930 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
51487878 AAAAGTTGCT
*
51487888 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
51487906 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
51487924 TTTATAT
1 TTTATAT
51487931 TTTTAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:51495777 original size:18 final size:19
Alignment explanation
Indices: 51495745--51495783 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
51495735 AGAAGATGGA
51495745 GAATGGAAGAAGGAA-AAG
1 GAATGGAAGAAGGAAGAAG
51495763 GAAT-GAAGAACGGAAGAAG
1 GAATGGAAGAA-GGAAGAAG
51495782 GA
1 GA
51495784 GAAGGAGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 8 0.42
19 5 0.26
ACGTcount: A:0.54, C:0.03, G:0.38, T:0.05
Consensus pattern (19 bp):
GAATGGAAGAAGGAAGAAG
Found at i:51498534 original size:34 final size:34
Alignment explanation
Indices: 51498495--51498562 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
51498485 GTTGAAGAAA
*
51498495 GTTCACCTTGTGTCCTTTATTGAGCCAACTATGT
1 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
51498529 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
1 GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
51498563 ATAAAACCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.40
Consensus pattern (34 bp):
GTTCACCTTGCGTCCTTTATTGAGCCAACTATGT
Found at i:51500390 original size:40 final size:40
Alignment explanation
Indices: 51500333--51500413 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
51500323 AAAATGGATG
* *
51500333 AACATCTTTTCATCTTTTGTTAACTAATTTATTGTTTTTT
1 AACATATTTTCACCTTTTGTTAACTAATTTATTGTTTTTT
51500373 AACATATTTTCACCTTTTGTTAACTAATTTATTGTTTTTT
1 AACATATTTTCACCTTTTGTTAACTAATTTATTGTTTTTT
51500413 A
1 A
51500414 CTTTAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.58
Consensus pattern (40 bp):
AACATATTTTCACCTTTTGTTAACTAATTTATTGTTTTTT
Found at i:51500402 original size:21 final size:20
Alignment explanation
Indices: 51500339--51500402 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
51500329 GATGAACATC
51500339 TTTTCATCTTTTGTTAACTAA
1 TTTTCA-CTTTTGTTAACTAA
* *
51500360 -TTT-ATTGTTTTTTAAC-ATA
1 TTTTCACT-TTTGTTAACTA-A
51500379 TTTTCACCTTTTGTTAACTAA
1 TTTTCA-CTTTTGTTAACTAA
51500400 TTT
1 TTT
51500403 ATTGTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
18 2 0.06
19 10 0.30
20 6 0.18
21 13 0.39
22 2 0.06
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTCACTTTTGTTAACTAA
Found at i:51500411 original size:21 final size:20
Alignment explanation
Indices: 51500347--51500410 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
51500337 TCTTTTCATC
51500347 TTTTGTTAACTAATTTATTG
1 TTTTGTTAACTAATTTATTG
* **
51500367 TTTT-TTAACATATTTTCA-CC
1 TTTTGTTAAC-TAATTT-ATTG
51500387 TTTTGTTAACTAATTTATTG
1 TTTTGTTAACTAATTTATTG
51500407 TTTT
1 TTTT
51500411 TTACTTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 6 0.18
20 22 0.65
21 6 0.18
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.61
Consensus pattern (20 bp):
TTTTGTTAACTAATTTATTG
Found at i:51510419 original size:22 final size:22
Alignment explanation
Indices: 51510394--51510436 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
51510384 TATCCAAGTA
51510394 ATAACAACAAAAT-AGTAGCAAC
1 ATAACAACAAAATGA-TAGCAAC
* *
51510416 ATAATAGCAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
51510437 AACAGTAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAC
Found at i:51520161 original size:15 final size:16
Alignment explanation
Indices: 51520138--51520175 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
51520128 AATTTTTTAA
51520138 AGATAATTT-TTAAAAT
1 AGAT-ATTTGTTAAAAT
*
51520154 TGATATTTGTTAAAAT
1 AGATATTTGTTAAAAT
51520170 AGATAT
1 AGATAT
51520176 ATGAACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (16 bp):
AGATATTTGTTAAAAT
Found at i:51534410 original size:24 final size:27
Alignment explanation
Indices: 51534342--51534410 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 27
51534332 ACATATATTC
* **
51534342 TCAATTCAATCACAATTTCTCACTCTT
1 TCAATTCAATAATTATTTCTCACTCTT
* *
51534369 TCAATTGAATCATT-TTTC-CAC-CTT
1 TCAATTCAATAATTATTTCTCACTCTT
51534393 TCAA-TCAATAATTATTTC
1 TCAATTCAATAATTATTTC
51534411 ACAAATTCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 7 0.19
24 11 0.31
25 3 0.08
26 4 0.11
27 11 0.31
ACGTcount: A:0.30, C:0.25, G:0.01, T:0.43
Consensus pattern (27 bp):
TCAATTCAATAATTATTTCTCACTCTT
Found at i:51534562 original size:3 final size:3
Alignment explanation
Indices: 51534554--51534622 Score: 102
Period size: 3 Copynumber: 23.0 Consensus size: 3
51534544 ATTCCCACTC
*
51534554 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
51534602 ATA TTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA
51534623 CTTACCTCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:51534900 original size:15 final size:15
Alignment explanation
Indices: 51534882--51534910 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51534872 TTCTAGCTAT
51534882 TTTGTTTCTTTCTTC
1 TTTGTTTCTTTCTTC
51534897 TTTGTTTCTTTCTT
1 TTTGTTTCTTTCTT
51534911 TTACTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTGTTTCTTTCTTC
Found at i:51534945 original size:3 final size:3
Alignment explanation
Indices: 51534937--51534983 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
51534927 ATTCATTAGT
*
51534937 TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
51534984 TATTTTAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:51535137 original size:14 final size:14
Alignment explanation
Indices: 51535118--51535163 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
51535108 NNNNTAAAAT
51535118 ATAATAATAATTTA
1 ATAATAATAATTTA
*
51535132 ATAATACTAATTTA
1 ATAATAATAATTTA
51535146 ATAATAATAATTTA
1 ATAATAATAATTTA
51535160 ATAA
1 ATAA
51535164 CATTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:51540138 original size:2 final size:2
Alignment explanation
Indices: 51540131--51540214 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
51540121 AACCATTATT
51540131 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51540173 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51540215 CTTTATATTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51543975 original size:2 final size:2
Alignment explanation
Indices: 51543968--51544007 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
51543958 AATTAAAAGG
*
51543968 TA TA TA TA TG T- TA GTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
51544008 ATGAAGTCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51546834 original size:11 final size:11
Alignment explanation
Indices: 51546818--51546851 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
51546808 TTTTGTCTCA
51546818 CGCTACAGTAT
1 CGCTACAGTAT
51546829 CGCTACAGTAT
1 CGCTACAGTAT
51546840 CGCTACAGTAT
1 CGCTACAGTAT
51546851 C
1 C
51546852 TAATCTCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (11 bp):
CGCTACAGTAT
Found at i:51551987 original size:12 final size:12
Alignment explanation
Indices: 51551970--51551994 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51551960 ACTTTGGTAG
51551970 TGTTTTGGTGAT
1 TGTTTTGGTGAT
51551982 TGTTTTGGTGAT
1 TGTTTTGGTGAT
51551994 T
1 T
51551995 CTCTTTCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.60
Consensus pattern (12 bp):
TGTTTTGGTGAT
Found at i:51558878 original size:3 final size:3
Alignment explanation
Indices: 51558870--51558895 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51558860 GAGTTCTACT
51558870 CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CT
51558896 GCGCCCAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CTC
Found at i:51568149 original size:192 final size:192
Alignment explanation
Indices: 51567822--51568208 Score: 774
Period size: 192 Copynumber: 2.0 Consensus size: 192
51567812 TTATCTTTAA
51567822 TAGTTGTCTATGAAACCCAAATTTCTTTTGACTGTTTGATCTTAAATCTTCCATACTAAGCTAAA
1 TAGTTGTCTATGAAACCCAAATTTCTTTTGACTGTTTGATCTTAAATCTTCCATACTAAGCTAAA
51567887 AGTATTAAAAAAATCATTCTAATTAATTTAATTAATTAATTTTATCTACTATGCCAAACAAAACT
66 AGTATTAAAAAAATCATTCTAATTAATTTAATTAATTAATTTTATCTACTATGCCAAACAAAACT
51567952 CATAAAATTTTTCATCACTTATTTACCCAAACGAAGAAGAAGCAAATATTTTCCTTTACTTT
131 CATAAAATTTTTCATCACTTATTTACCCAAACGAAGAAGAAGCAAATATTTTCCTTTACTTT
51568014 TAGTTGTCTATGAAACCCAAATTTCTTTTGACTGTTTGATCTTAAATCTTCCATACTAAGCTAAA
1 TAGTTGTCTATGAAACCCAAATTTCTTTTGACTGTTTGATCTTAAATCTTCCATACTAAGCTAAA
51568079 AGTATTAAAAAAATCATTCTAATTAATTTAATTAATTAATTTTATCTACTATGCCAAACAAAACT
66 AGTATTAAAAAAATCATTCTAATTAATTTAATTAATTAATTTTATCTACTATGCCAAACAAAACT
51568144 CATAAAATTTTTCATCACTTATTTACCCAAACGAAGAAGAAGCAAATATTTTCCTTTACTTT
131 CATAAAATTTTTCATCACTTATTTACCCAAACGAAGAAGAAGCAAATATTTTCCTTTACTTT
51568206 TAG
1 TAG
51568209 CATGGATTCG
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 195 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.39
Consensus pattern (192 bp):
TAGTTGTCTATGAAACCCAAATTTCTTTTGACTGTTTGATCTTAAATCTTCCATACTAAGCTAAA
AGTATTAAAAAAATCATTCTAATTAATTTAATTAATTAATTTTATCTACTATGCCAAACAAAACT
CATAAAATTTTTCATCACTTATTTACCCAAACGAAGAAGAAGCAAATATTTTCCTTTACTTT
Found at i:51576678 original size:12 final size:12
Alignment explanation
Indices: 51576661--51576722 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
51576651 CTTGTAAGAA
*
51576661 ATTATTAATAAT
1 ATTAATAATAAT
*
51576673 ATT-AT-TTAA-
1 ATTAATAATAAT
51576682 ATT-ATAAT-AT
1 ATTAATAATAAT
*
51576692 ATTAATATTAAT
1 ATTAATAATAAT
*
51576704 ATTAATATTAAT
1 ATTAATAATAAT
51576716 ATTAATA
1 ATTAATA
51576723 TTCAAACCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 6 0.14
10 7 0.17
11 5 0.12
12 24 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTAATAATAAT
Found at i:51576701 original size:6 final size:6
Alignment explanation
Indices: 51576690--51576724 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
51576680 AAATTATAAT
51576690 ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
51576725 CAAACCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:51584146 original size:9 final size:9
Alignment explanation
Indices: 51584117--51584153 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
51584107 TGAGTTTTCG
51584117 AATTCGAAT
1 AATTCGAAT
*
51584126 AACTCGAAT
1 AATTCGAAT
51584135 AATTCGAAT
1 AATTCGAAT
*
51584144 AATTCAAAT
1 AATTCGAAT
51584153 A
1 A
51584154 TTAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:51591505 original size:42 final size:42
Alignment explanation
Indices: 51591409--51591508 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
51591399 CTATATGAAC
* *
51591409 GGCACTAAGTGTACGAAATTAAAATGATGATGTTGAATAATA
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
*
51591451 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
51591493 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
51591509 TATCGATAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
Found at i:51593655 original size:40 final size:40
Alignment explanation
Indices: 51593589--51593818 Score: 253
Period size: 40 Copynumber: 5.8 Consensus size: 40
51593579 GAATTTTTTT
* **
51593589 GCGGCGTTTTTCAAAAAGCTTCGCTAATGCTCGATCTATA
1 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * ** * *
51593629 GCGTCATTTTCCAAGAAGCGTTGCTAATGCTTGACCTATA
1 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * * *
51593669 ACGGCGTTTTTCAAAAAGCGTCGCTAATGGTCGACCTATA
1 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATA
*
51593709 GCGGCGTTTTCCAAAAAGAGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * *
51593749 ACGGCGTTTTTCAAAGAGCACCGCTAATGCTCGATCTATA
1 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATA
* **
51593789 GCGGCGTTTTTCAAAAATTGCCGCTAATGC
1 GCGGCGTTTTCCAAAAAGCGCCGCTAATGC
51593819 CACTAAAGCT
Statistics
Matches: 158, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 158 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:51593735 original size:80 final size:80
Alignment explanation
Indices: 51593590--51593818 Score: 305
Period size: 80 Copynumber: 2.9 Consensus size: 80
51593580 AATTTTTTTG
* * * * * **
51593590 CGGCGTTTTTCAAAAAGCTTCGCTAATGCTCGATCTATAGCGTCATTTTCCAAGAAGCGTTGCTA
1 CGGCGTTTTTCAAAAAGCATCGCTAATGCTCGATCTATAGCGGCGTTTTCCAAAAAGAGCCGCTA
*
51593655 ATGCTTGACCTATAA
66 ATGCTCGACCTATAA
* * *
51593670 CGGCGTTTTTCAAAAAGCGTCGCTAATGGTCGACCTATAGCGGCGTTTTCCAAAAAGAGCCGCTA
1 CGGCGTTTTTCAAAAAGCATCGCTAATGCTCGATCTATAGCGGCGTTTTCCAAAAAGAGCCGCTA
*
51593735 ATGCTCGATCTATAA
66 ATGCTCGACCTATAA
* * * **
51593750 CGGCGTTTTTCAAAGAGCACCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAATTGCCGCTA
1 CGGCGTTTTTCAAAAAGCATCGCTAATGCTCGATCTATAGCGGCGTTTTCCAAAAAGAGCCGCTA
51593815 ATGC
66 ATGC
51593819 CACTAAAGCT
Statistics
Matches: 130, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 130 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (80 bp):
CGGCGTTTTTCAAAAAGCATCGCTAATGCTCGATCTATAGCGGCGTTTTCCAAAAAGAGCCGCTA
ATGCTCGACCTATAA
Found at i:51593735 original size:120 final size:120
Alignment explanation
Indices: 51593589--51593805 Score: 292
Period size: 120 Copynumber: 1.8 Consensus size: 120
51593579 GAATTTTTTT
* *** * * ***
51593589 GCGGCGTTTTTCAAAAAGCTTCGCTAATGCTCGATCTATAGCGTCATTTTCC-AAGAAGCGTTGC
1 GCGGCGTTTTCCAAAAAGAGCCGCTAATGCTCGATCTATAACGGCATTTTCCAAAG-AGCACCGC
*
51593653 TAATGCTTGACCTATAACGGCGTTTTTCAAAAAGCGTCGCTAATGGTCGACCTATA
65 TAATGCTCGACCTATAACGGCGTTTTTCAAAAAGCGTCGCTAATGGTCGACCTATA
* *
51593709 GCGGCGTTTTCCAAAAAGAGCCGCTAATGCTCGATCTATAACGGCGTTTTTCAAAGAGCACCGCT
1 GCGGCGTTTTCCAAAAAGAGCCGCTAATGCTCGATCTATAACGGCATTTTCCAAAGAGCACCGCT
* *
51593774 AATGCTCGATCTATAGCGGCGTTTTTCAAAAA
66 AATGCTCGACCTATAACGGCGTTTTTCAAAAA
51593806 TTGCCGCTAA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
120 79 0.96
121 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (120 bp):
GCGGCGTTTTCCAAAAAGAGCCGCTAATGCTCGATCTATAACGGCATTTTCCAAAGAGCACCGCT
AATGCTCGACCTATAACGGCGTTTTTCAAAAAGCGTCGCTAATGGTCGACCTATA
Found at i:51601345 original size:28 final size:31
Alignment explanation
Indices: 51601314--51601382 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
51601304 ATTTTTCAAG
*
51601314 TTTTTAAAATT-TTAATTAAA-T-TTATTAA
1 TTTTTAAAATTATAAATTAAATTATTATTAA
* * *
51601342 TTTTTTATATTATAAATTAAATTATTGTTAA
1 TTTTTAAAATTATAAATTAAATTATTATTAA
*
51601373 TTATTAAAAT
1 TTTTTAAAAT
51601383 AAAATATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 9 0.29
29 8 0.26
30 1 0.03
31 13 0.42
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (31 bp):
TTTTTAAAATTATAAATTAAATTATTATTAA
Found at i:51617427 original size:15 final size:15
Alignment explanation
Indices: 51617409--51617458 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
51617399 ACACATGTAT
51617409 TTTTGTAACATCCAA
1 TTTTGTAACATCCAA
* ** *
51617424 TTTTTTACACATGTAT
1 TTTTGTA-ACATCCAA
51617440 TTTTGTAACATCCAA
1 TTTTGTAACATCCAA
51617455 TTTT
1 TTTT
51617459 TTCTAGTACA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTTGTAACATCCAA
Found at i:51617428 original size:16 final size:16
Alignment explanation
Indices: 51617407--51617459 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
51617397 ATACACATGT
51617407 ATTTTTGTAACATCCA
1 ATTTTTGTAACATCCA
**
51617423 ATTTTT-TACACAT-GT
1 ATTTTTGTA-ACATCCA
51617438 ATTTTTGTAACATCCA
1 ATTTTTGTAACATCCA
51617454 ATTTTT
1 ATTTTT
51617460 TCTAGTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (16 bp):
ATTTTTGTAACATCCA
Found at i:51617433 original size:31 final size:31
Alignment explanation
Indices: 51617398--51617460 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
51617388 TAACATGCAA
51617398 TACACATGTATTTTTGTAACATCCAATTTTT
1 TACACATGTATTTTTGTAACATCCAATTTTT
51617429 TACACATGTATTTTTGTAACATCCAATTTTT
1 TACACATGTATTTTTGTAACATCCAATTTTT
51617460 T
1 T
51617461 CTAGTACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (31 bp):
TACACATGTATTTTTGTAACATCCAATTTTT
Found at i:51642597 original size:26 final size:26
Alignment explanation
Indices: 51642568--51642617 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
51642558 GATTTTCATT
*
51642568 AATATA-AAGAAACTACATATATATCC
1 AATATACAA-AAAATACATATATATCC
*
51642594 AATATACAAAAAATATATATATAT
1 AATATACAAAAAATACATATATAT
51642618 ATATAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (26 bp):
AATATACAAAAAATACATATATATCC
Found at i:51666550 original size:93 final size:92
Alignment explanation
Indices: 51666391--51666564 Score: 235
Period size: 93 Copynumber: 1.9 Consensus size: 92
51666381 GCTATTTTTA
* * * * * * *
51666391 TAAAATGTCTAATGTGGTATTTGTATTTTGAAAATGTTCAATGTGGTGCTTGAGTTATAAATATG
1 TAAAATGTCCAATATGATATATGTATTTTGAAAATGTCCAATGTGGTACTTGACTTATAAATATG
51666456 TGTTTTTATTATGGTACCTATACTTTCC
66 TG-TTTTATTATGGTACCTATACTTTCC
*
51666484 TAAAATGTCCAATATGATATATGTATTTT-ACAAATGTCCAATGTGGTACTTGAACTT-TCAATA
1 TAAAATGTCCAATATGATATATGTATTTTGA-AAATGTCCAATGTGGTACTTG-ACTTATAAATA
51666547 TGTGTTTTATTATGGTAC
64 TGTGTTTTATTATGGTAC
51666565 ATGGTGCTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
92 15 0.21
93 53 0.75
94 3 0.04
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (92 bp):
TAAAATGTCCAATATGATATATGTATTTTGAAAATGTCCAATGTGGTACTTGACTTATAAATATG
TGTTTTATTATGGTACCTATACTTTCC
Found at i:51666707 original size:29 final size:27
Alignment explanation
Indices: 51666669--51666723 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
51666659 ACATTATATG
51666669 AAAAACTAAACATATTAAACTTATATAAA
1 AAAAACT-AA-ATATTAAACTTATATAAA
*
51666698 AAAAAGTAAATATTAAACTTATATAA
1 AAAAACTAAATATTAAACTTATATAA
51666724 GCAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.68
28 2 0.08
29 6 0.24
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAACTAAATATTAAACTTATATAAA
Found at i:51667820 original size:40 final size:36
Alignment explanation
Indices: 51667752--51667838 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 36
51667742 TTTTACATTA
* *
51667752 TATTATTGTTAGTTATTATTTTTAGT-AAAACCTTAAT
1 TATTATTGTTAGTTATTATTTTGAGTAAAAAAC-T-AT
51667789 TATTATTGTTAGTTAATATTATTTTGAGTAAAAAACTAT
1 TATTATTGTTAG-T--TATTATTTTGAGTAAAAAACTAT
51667828 TATTATTGTTA
1 TATTATTGTTA
51667839 TTGTGTTAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
37 12 0.27
38 1 0.02
39 13 0.30
40 13 0.30
41 5 0.11
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (36 bp):
TATTATTGTTAGTTATTATTTTGAGTAAAAAACTAT
Found at i:51667832 original size:76 final size:77
Alignment explanation
Indices: 51667626--51667838 Score: 200
Period size: 76 Copynumber: 2.7 Consensus size: 77
51667616 GGTTTAGTTA
* *
51667626 TTAATAATTATTGTTACTTAGTATTATTATTAGTAAAAAACTAATATTATTATTATGGTTAGTTA
1 TTAATTATTATTGTTAGTTAGTATTATTATTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTA
51667691 TTAGGATTAGTAAAAACC
60 TTAGGATTAGTAAAAACC
* * * *** * * **
51667709 CTAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATT
1 TTAATTATTATTGTTAGTTAGTATTATTATTAG-TAAAAAACTATTATTATTGTTAGTTATTAGG
*
51667772 TTTAGT-AAAACC
65 ATTAGTAAAAACC
*
51667784 TTAATTATTATTGTTAGTTAATATTATT-TTGAGTAAAAAACTATTATTATTGTTA
1 TTAATTATTATTGTTAGTTAGTATTATTATT-AGTAAAAAACTATTATTATTGTTA
51667839 TTGTGTTAGT
Statistics
Matches: 105, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
75 24 0.23
76 42 0.40
77 1 0.01
78 1 0.01
79 5 0.05
80 2 0.02
82 17 0.16
83 13 0.12
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.50
Consensus pattern (77 bp):
TTAATTATTATTGTTAGTTAGTATTATTATTAGTAAAAAACTATTATTATTGTTAGTTATTAGGA
TTAGTAAAAACC
Found at i:51669059 original size:21 final size:21
Alignment explanation
Indices: 51669035--51669094 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
51669025 GAAAAAAAAT
51669035 TCGAATTTCGAGTTAAACAAA
1 TCGAATTTCGAGTTAAACAAA
* *
51669056 TCGAATTTAGAGTTAAACGAA
1 TCGAATTTCGAGTTAAACAAA
51669077 TCGAATTATTCGAGTTAA
1 TCGAA-T-TTCGAGTTAA
51669095 TCGAGTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 24 0.71
22 1 0.03
23 9 0.26
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.32
Consensus pattern (21 bp):
TCGAATTTCGAGTTAAACAAA
Found at i:51674626 original size:155 final size:153
Alignment explanation
Indices: 51674371--51675083 Score: 746
Period size: 151 Copynumber: 4.7 Consensus size: 153
51674361 CAAAAAAAAA
* *
51674371 TTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTCCCCAGATTTTATTACTTTA-AA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGA-ATTTTATTACTTTATAA
*
51674434 AAATA-A-TATTTTCTAATTTCATTATTTTACATTATTTTAGTACATTATGTTTGAAAT-TCATT
65 AAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT-ATT
51674496 AATTTAGTGTGTGTTTTAAATAAAT
129 AATTTAGTGTGTGTTTTAAATAAAT
* * *
51674521 TTAGAAAAATAACCCTTATTTCGGCCATTTGCTCGCA-TTTTTCCCGAATTTTATTACTTTCAAT
1 TTAGTAAAA-AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTT--AT
51674585 AAAAATATATTATTTTC-ATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
63 AAAAATATATTATTTTCTA-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
* * * * ***
51674649 TTAATTAATTCTGCTTTTTTTTTTAAAAT
127 TTAATTTAGTGTG-TGTTTTAAAT-AAAT
* * ** *
51674678 TTAGTAAAAAATCTTTATTTCGG-TTTTTGTTCGTATTTTTTCTCTG-ATTTTATTAC-TT-TAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTC-CCGAATTTTATTACTTTATAA
* * *
51674739 AAA-ATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACGTTGTGTTTGGAATGTATTA
65 AAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTA
* * *** *
51674803 A-TTAAT-TCTGTTTTTTTTTAAT
130 ATTTAGTGTGTGTTTTAAATAAAT
* * *
51674825 TTAGTAAAAAACCCTTACTTCGGTCATTTGTTCGTATTTTTTCTCCGGATTTTATTACTTTA-AA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTC-CCGAATTTTATTACTTTATAA
* * * *
51674889 AAATAT-TCTATTTTCTAATTTTCTAATTTTACATTATTTTAGTACATTATGTTTAAAATTTATT
65 AAATATAT-TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
* *
51674953 AATTTAGTGTATTTTTTAAATAAAT
129 AATTTAGTGTGTGTTTTAAATAAAT
** * *
51674978 TTCAAAAAAATAACCCTTATTTCGGCCCTTTATTCGTATTTTTTTCCCGAATTTTATTACTTTAA
1 TT-AGTAAAA-AACCCTTATTTCGGCCATTTGTTCGTA-TTTTTTCCCGAATTTTATTACTTT--
* * *
51675043 ATAAAGAA-ATATT-TTTT-T-ATTTTTTTATCTTACATTTTTTT
61 ATAAA-AATATATTATTTTCTAATTTTATTATTTTACATTATTTT
51675084 TAGATTTTAT
Statistics
Matches: 474, Mismatches: 60, Indels: 53
0.81 0.10 0.09
Matches are distributed among these distances:
147 23 0.05
148 29 0.06
149 11 0.02
150 32 0.07
151 143 0.30
152 12 0.03
153 19 0.04
154 7 0.01
155 127 0.27
156 43 0.09
157 19 0.04
158 6 0.01
159 3 0.01
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (153 bp):
TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCGAATTTTATTACTTTATAAA
AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAA
TTTAGTGTGTGTTTTAAATAAAT
Found at i:51675421 original size:4 final size:4
Alignment explanation
Indices: 51675405--51675509 Score: 82
Period size: 4 Copynumber: 26.2 Consensus size: 4
51675395 TTACCTTTAC
51675405 TTCT TT-T TT-T TTCT TTC- TT-T TTCT TTCT TCTCAT TTCCTT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T-TC-T TT-C-T TTCT
51675449 TTCT TTC- TT-T TTCT TTCT TCTCCT TTCCTT TTCT TTCT TTC- TT-T
1 TTCT TTCT TTCT TTCT TTCT T-T-CT TT-C-T TTCT TTCT TTCT TTCT
51675493 TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT TTCT T
51675510 CTCCTTTCCT
Statistics
Matches: 87, Mismatches: 1, Indels: 26
0.76 0.01 0.23
Matches are distributed among these distances:
3 18 0.21
4 48 0.55
5 9 0.10
6 12 0.14
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:51675457 original size:34 final size:34
Alignment explanation
Indices: 51675409--51675501 Score: 168
Period size: 34 Copynumber: 2.7 Consensus size: 34
51675399 CTTTACTTCT
*
51675409 TTTTTTTTCTTTCTTTTTCTTTCTTCTCATTTCC
1 TTTTCTTTCTTTCTTTTTCTTTCTTCTCATTTCC
*
51675443 TTTTCTTTCTTTCTTTTTCTTTCTTCTCCTTTCC
1 TTTTCTTTCTTTCTTTTTCTTTCTTCTCATTTCC
51675477 TTTTCTTTCTTTCTTTTTCTTTCTT
1 TTTTCTTTCTTTCTTTTTCTTTCTT
51675502 TCTTTCTTCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (34 bp):
TTTTCTTTCTTTCTTTTTCTTTCTTCTCATTTCC
Found at i:51675503 original size:14 final size:14
Alignment explanation
Indices: 51675405--51675511 Score: 99
Period size: 14 Copynumber: 7.0 Consensus size: 14
51675395 TTACCTTTAC
*
51675405 TTCTTTTTTTTTCT
1 TTCTTTCTTTTTCT
51675419 TTCTTT-TTCTTTCT
1 TTCTTTCTT-TTTCT
*
51675433 TCTCATTTCCTTTTCT
1 T-TC-TTTCTTTTTCT
51675449 TTCTTTCTTTTTCT
1 TTCTTTCTTTTTCT
51675463 TTCTTCTCCTTTCCTTTTCT
1 TTCTT-T-C--T--TTTTCT
51675483 TTCTTTCTTTTTCT
1 TTCTTTCTTTTTCT
51675497 TTCTTTCTTTCTTCT
1 TTCTTTCTTT-TTCT
51675512 CCTTTCCTTC
Statistics
Matches: 80, Mismatches: 2, Indels: 21
0.78 0.02 0.20
Matches are distributed among these distances:
13 2 0.03
14 43 0.54
15 9 0.11
16 11 0.14
17 1 0.01
18 2 0.03
19 1 0.01
20 11 0.14
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTTTCTTTTTCT
Found at i:51675516 original size:14 final size:13
Alignment explanation
Indices: 51675414--51675522 Score: 78
Period size: 14 Copynumber: 7.7 Consensus size: 13
51675404 CTTCTTTTTT
*
51675414 TTTCTTTCTTTTTC
1 TTTCTTTC-TTTCC
51675428 TTTCTTCTCATTTCC
1 TTTCTT-TC-TTTCC
*
51675443 TTTTCTTTCTTTCTT
1 -TTTCTTTCTTTC-C
51675458 TTTCTTTCTTCTCC
1 TTTCTTTCTT-TCC
51675472 TTTCCTTTTCTTT-C
1 TTT-C-TTTCTTTCC
51675486 TTTCTTTTTCTTT-C
1 TTTC--TTTCTTTCC
51675500 TTTCTTTCTTCTCC
1 TTTCTTTCTT-TCC
*
51675514 TTTCCTTCT
1 TTTCTTTCT
51675523 CTACCCCACC
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
12 6 0.07
13 2 0.02
14 49 0.60
15 12 0.15
16 12 0.15
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTTTCTTTCC
Found at i:51677805 original size:2 final size:2
Alignment explanation
Indices: 51677798--51677830 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
51677788 GACCTTGCCT
51677798 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51677831 CAACGAATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51678211 original size:19 final size:20
Alignment explanation
Indices: 51678183--51678221 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
51678173 TACTAGTGAT
*
51678183 TACATGTGTAAAT-TTAATA
1 TACATATGTAAATATTAATA
*
51678202 TACATATGTATATATTAATA
1 TACATATGTAAATATTAATA
51678222 AAATAGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (20 bp):
TACATATGTAAATATTAATA
Found at i:51685140 original size:219 final size:219
Alignment explanation
Indices: 51684761--51685166 Score: 704
Period size: 219 Copynumber: 1.9 Consensus size: 219
51684751 ATCGTCTTCA
*
51684761 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCTCATTGTGGACT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* * *
51684826 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATGTCGGCTGTGAGTTTGGACACTC
66 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTCGGACACTC
*
51684891 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCATCGTCTTCA
131 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGAACCCGTTGCAGCAGCAGCCATCGTCTTCA
51684956 TCGACTTAAACGTTCGACGGCTGG
196 TCGACTTAAACGTTCGACGGCTGG
*
51684980 TCGCTGTTCTATATCGAAACCTAGTCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* * * *
51685045 TTCCCTTTGTCCAGTTCCATGTCTATCCTTTTGCTTCTGTATGTCCGCCGTGAGTTCGGCCACTC
66 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTCGGACACTC
* *
51685110 ATTGACTCTGGGTTTCGCCTTTTCTCCATTTTCAGAACCTGTTGCAGCAGCAGCCAT
131 ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGAACCCGTTGCAGCAGCAGCCAT
51685167 TGGTTGAACC
Statistics
Matches: 175, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
219 175 1.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (219 bp):
TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATGTCCGCCGTGAGTTCGGACACTC
ATTGACTCTGGGTTCCGCCTTTTCTCCATTTTCAGAACCCGTTGCAGCAGCAGCCATCGTCTTCA
TCGACTTAAACGTTCGACGGCTGG
Found at i:51685887 original size:11 final size:12
Alignment explanation
Indices: 51685873--51685901 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
51685863 TTAAATAATA
51685873 ATTTAATA-TTT
1 ATTTAATATTTT
51685884 ATTTAATATTTT
1 ATTTAATATTTT
51685896 ATTTAA
1 ATTTAA
51685902 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTAATATTTT
Found at i:51686605 original size:54 final size:55
Alignment explanation
Indices: 51686538--51686724 Score: 171
Period size: 55 Copynumber: 3.4 Consensus size: 55
51686528 TAATTATTTT
* *
51686538 TATGTTTAGATCGATTGTTAGGTTGGAATGCTGCTTATTTTG-ATAGATTGTTTA
1 TATGTTTAAATCGATTGTTAGGTTGGAATGCTGCTTATTTTGAATTGATTGTTTA
* * *
51686592 TATGTTTAAATCGATTGTTACGG-TGGAATACTGCTTCTTCTTTTGAATTGATTGTGTA
1 TATGTTTAAATCGATTGTTA-GGTTGG-A-A-TGCTGCTTATTTTGAATTGATTGTTTA
* * ** ** ** * * **
51686650 TATGTTTAGATGGATCATTATATTGGAATATTGGTTGTTTTGAATTGATAATTTA
1 TATGTTTAAATCGATTGTTAGGTTGGAATGCTGCTTATTTTGAATTGATTGTTTA
51686705 TATGTTTAAATCGATTGTTA
1 TATGTTTAAATCGATTGTTA
51686725 CGTAGCACGC
Statistics
Matches: 104, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
54 22 0.21
55 38 0.37
56 2 0.02
57 13 0.12
58 29 0.28
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (55 bp):
TATGTTTAAATCGATTGTTAGGTTGGAATGCTGCTTATTTTGAATTGATTGTTTA
Found at i:51689380 original size:37 final size:37
Alignment explanation
Indices: 51689339--51689414 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
51689329 TTATTTAATG
* *
51689339 CAATGAGACATTAACCTTACTTGATAAAGATGCTCTC
1 CAATGAGACACTAACCTTACTTGATAAAGACGCTCTC
* * *
51689376 CAATGAGACACTAACCTTATTTGTTGAAGACGCTCTC
1 CAATGAGACACTAACCTTACTTGATAAAGACGCTCTC
51689413 CA
1 CA
51689415 GTGAAATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (37 bp):
CAATGAGACACTAACCTTACTTGATAAAGACGCTCTC
Found at i:51704753 original size:34 final size:35
Alignment explanation
Indices: 51704656--51704769 Score: 99
Period size: 36 Copynumber: 3.2 Consensus size: 35
51704646 ATGCATTTAT
* * * * *
51704656 ATATATAATTATTCAATTACATATGCCAAAAGCA-T
1 ATATATACTTA-TCAATCACATATGCCGAATGCAGC
* *
51704691 ATATTTATACTTATCAATTACATGTGCCGAATGCA-C
1 ATA--TATACTTATCAATCACATATGCCGAATGCAGC
51704727 ATATATACTTAT-AATCCACATATGCCGAATGCATGC
1 ATATATACTTATCAAT-CACATATGCCGAATGCA-GC
51704763 ATATATA
1 ATATATA
51704770 TATATCCAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
33 3 0.04
34 24 0.36
35 3 0.04
36 30 0.45
37 7 0.10
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (35 bp):
ATATATACTTATCAATCACATATGCCGAATGCAGC
Found at i:51706000 original size:78 final size:78
Alignment explanation
Indices: 51705891--51706166 Score: 484
Period size: 78 Copynumber: 3.5 Consensus size: 78
51705881 ATTCAACATG
51705891 AACTAAATTCAA-AACTTATTCATGTATATACACT-TATATCCGAACTTTATATATATAAATATA
1 AACTAAATTCAAGAACTTATTCATGTATATACA-TATATATCCGAACTTTATATATATAAATATA
51705954 ACATACATACTTTT
65 ACATACATACTTTT
* *
51705968 AACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTTTATATATAAATATAA
1 AACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATATAA
51706033 CATACATACTTTT
66 CATACATACTTTT
*
51706046 AACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATATAA
1 AACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATATAA
51706111 CATACATACTTTT
66 CATACATACTTTT
*
51706124 AACTAAATTCAAGAACTTATACATGTATATACATATATTATCC
1 AACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
51706167 ACTATTAGTT
Statistics
Matches: 191, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
77 13 0.07
78 173 0.91
79 5 0.03
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (78 bp):
AACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATATAA
CATACATACTTTT
Found at i:51706110 original size:156 final size:153
Alignment explanation
Indices: 51705788--51706166 Score: 487
Period size: 156 Copynumber: 2.5 Consensus size: 153
51705778 TATATTACAC
* * * *
51705788 ATATATATATGTAACATCCATACTTTTAA-TAAAATCCAAGAATTTATACTCA--TATATACATA
1 ATATATAAATATAACATACATACTTTTAACT-AAATTCAAGAATTTAT--TCATGTATATACATA
** * * * *
51705850 CCTATTCGAACCTCTTGTAAACATATATAACATTCAACATGAACTAAATTCAAAACTTATTCATG
63 TATATCCGAACCTCTTATAAACAAATATAACATACAACATGAACTAAATTCAAAACTTATTCATG
51705915 TATATACACTTATATCCGAACTTTAT
128 TATATACACTTATATCCGAACTTTAT
51705941 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
* * * * * * *
51706006 ATCCGAACTTTTTATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATG
66 ATCCGAACCTCTTATAAACAAATATAACATACA-AC-ATGAACTAAATTCAA-AACTTATTCATG
51706071 TATATACA-TATATATCCGAACTTTAT
128 TATATACACT-TATATCCGAACTTTAT
* *
51706097 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACATATAT
1 ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATA-
51706162 TATCC
65 TATCC
51706167 ACTATTAGTT
Statistics
Matches: 199, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
151 3 0.02
153 77 0.39
154 3 0.02
155 14 0.07
156 97 0.49
157 5 0.03
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (153 bp):
ATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
ATCCGAACCTCTTATAAACAAATATAACATACAACATGAACTAAATTCAAAACTTATTCATGTAT
ATACACTTATATCCGAACTTTAT
Found at i:51711539 original size:2 final size:2
Alignment explanation
Indices: 51711532--51711562 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
51711522 CCAAACATAC
51711532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51711563 AGGATTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51719503 original size:38 final size:38
Alignment explanation
Indices: 51719452--51719532 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
51719442 CTACTACTAC
51719452 TACTACATTAATGAAGTAGAGGAGCAAGTCATCTTGCA
1 TACTACATTAATGAAGTAGAGGAGCAAGTCATCTTGCA
51719490 TACTACATTAATGAAGTAGAGGAGCAAGTCATCTTGCA
1 TACTACATTAATGAAGTAGAGGAGCAAGTCATCTTGCA
51719528 TACTA
1 TACTA
51719533 ACTTAAATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (38 bp):
TACTACATTAATGAAGTAGAGGAGCAAGTCATCTTGCA
Done.