Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 115 of 284
Found at i:37981205 original size:40 final size:42
Alignment explanation
Indices: 37981160--37981256 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 42
37981150 ATGGTATTTA
*
37981160 GCACTAAGTGTGCGAT-TCAAAATAGCTTCGGCT-ATATGA-G
1 GCACTAAGTGTGCGATACCAAAATAGCTTCGGCTAAT-TGAGG
* * *
37981200 GCACTAAGTGTGCGATACCGAGATAGCTTCGGTTAATTGAGTG
1 GCACTAAGTGTGCGATACCAAAATAGCTTCGGCTAATTGAG-G
37981243 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37981257 GAATCATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 16 0.33
41 16 0.33
42 2 0.04
43 15 0.31
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (42 bp):
GCACTAAGTGTGCGATACCAAAATAGCTTCGGCTAATTGAGG
Found at i:37981269 original size:43 final size:39
Alignment explanation
Indices: 37981160--37981273 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 39
37981150 ATGGTATTTA
*
37981160 GCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATATGAG
1 GCACTAAGTGTGCGAATC-AAATAGCTTCGGCTATATGAG
* * *
37981200 GCACTAAGTGTGCGATACCGAGATAGCTTCGGTTA-ATTGAGTG
1 GCACTAAGTGTGCGA-ATC-AAATAGCTTCGGCTATA-TGA--G
*
37981243 GCACTAAGTGTGCGGAATCATTATAGCTTCG
1 GCACTAAGTGTGC-GAATCA-AATAGCTTCG
37981274 ACTAATCTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
40 16 0.26
41 17 0.28
42 1 0.02
43 25 0.41
44 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (39 bp):
GCACTAAGTGTGCGAATCAAATAGCTTCGGCTATATGAG
Found at i:37984137 original size:30 final size:30
Alignment explanation
Indices: 37984103--37984163 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37984093 TCATTATCTC
37984103 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
37984133 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
37984163 A
1 A
37984164 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:37991530 original size:260 final size:260
Alignment explanation
Indices: 37991069--37991588 Score: 1040
Period size: 260 Copynumber: 2.0 Consensus size: 260
37991059 CCACCAGATT
37991069 ACAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGTTATATGTGGCGAGGCCACCAGA
1 ACAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGTTATATGTGGCGAGGCCACCAGA
37991134 TTGCAGCGAGGCTGCCAGAACGCTTCCCACATCAATATAAACCCATGTCCCATGCAACAGAAATA
66 TTGCAGCGAGGCTGCCAGAACGCTTCCCACATCAATATAAACCCATGTCCCATGCAACAGAAATA
37991199 TACGTCATGGCATACGTATACAGAAACAGAACATCATGCTTTTCAGAAAAAAATAACCCTAGGGG
131 TACGTCATGGCATACGTATACAGAAACAGAACATCATGCTTTTCAGAAAAAAATAACCCTAGGGG
37991264 TAAAATCGTAATTTTGCATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGATTTCATG
196 TAAAATCGTAATTTTGCATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGATTTCATG
37991329 ACAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGTTATATGTGGCGAGGCCACCAGA
1 ACAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGTTATATGTGGCGAGGCCACCAGA
37991394 TTGCAGCGAGGCTGCCAGAACGCTTCCCACATCAATATAAACCCATGTCCCATGCAACAGAAATA
66 TTGCAGCGAGGCTGCCAGAACGCTTCCCACATCAATATAAACCCATGTCCCATGCAACAGAAATA
37991459 TACGTCATGGCATACGTATACAGAAACAGAACATCATGCTTTTCAGAAAAAAATAACCCTAGGGG
131 TACGTCATGGCATACGTATACAGAAACAGAACATCATGCTTTTCAGAAAAAAATAACCCTAGGGG
37991524 TAAAATCGTAATTTTGCATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGATTTCATG
196 TAAAATCGTAATTTTGCATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGATTTCATG
37991589 CTCATTCTAA
Statistics
Matches: 260, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
260 260 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (260 bp):
ACAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGTTATATGTGGCGAGGCCACCAGA
TTGCAGCGAGGCTGCCAGAACGCTTCCCACATCAATATAAACCCATGTCCCATGCAACAGAAATA
TACGTCATGGCATACGTATACAGAAACAGAACATCATGCTTTTCAGAAAAAAATAACCCTAGGGG
TAAAATCGTAATTTTGCATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGATTTCATG
Found at i:37992158 original size:318 final size:318
Alignment explanation
Indices: 37991581--37992216 Score: 1272
Period size: 318 Copynumber: 2.0 Consensus size: 318
37991571 TATTGCTAAG
37991581 ATTTCATGCTCATTCTAATGTTTACCGAGTAATTAGAAGTACTTACCTCATCTTGTTACCAAAGT
1 ATTTCATGCTCATTCTAATGTTTACCGAGTAATTAGAAGTACTTACCTCATCTTGTTACCAAAGT
37991646 GGGCCCGTTGGCCCATTTTTAGCCCATCAAGCCCAAAAATACCGTTGTGTACAAAAATGCACACT
66 GGGCCCGTTGGCCCATTTTTAGCCCATCAAGCCCAAAAATACCGTTGTGTACAAAAATGCACACT
37991711 CTGCACTCTAATCATCCAAATGCACCATATTCATTAACAACTGTCTCACGAGTGCTCGCACGCTC
131 CTGCACTCTAATCATCCAAATGCACCATATTCATTAACAACTGTCTCACGAGTGCTCGCACGCTC
37991776 GCGAGTTCACAAAATACCAACATTTCGGTATTTCAGATTTTACCGATTCAGTCTAAAGGAGGGTG
196 GCGAGTTCACAAAATACCAACATTTCGGTATTTCAGATTTTACCGATTCAGTCTAAAGGAGGGTG
37991841 TCGTTTACATACCTGGTTGATGACGATTGCTGATGATATCTCCCACGCGATAATCCTA
261 TCGTTTACATACCTGGTTGATGACGATTGCTGATGATATCTCCCACGCGATAATCCTA
37991899 ATTTCATGCTCATTCTAATGTTTACCGAGTAATTAGAAGTACTTACCTCATCTTGTTACCAAAGT
1 ATTTCATGCTCATTCTAATGTTTACCGAGTAATTAGAAGTACTTACCTCATCTTGTTACCAAAGT
37991964 GGGCCCGTTGGCCCATTTTTAGCCCATCAAGCCCAAAAATACCGTTGTGTACAAAAATGCACACT
66 GGGCCCGTTGGCCCATTTTTAGCCCATCAAGCCCAAAAATACCGTTGTGTACAAAAATGCACACT
37992029 CTGCACTCTAATCATCCAAATGCACCATATTCATTAACAACTGTCTCACGAGTGCTCGCACGCTC
131 CTGCACTCTAATCATCCAAATGCACCATATTCATTAACAACTGTCTCACGAGTGCTCGCACGCTC
37992094 GCGAGTTCACAAAATACCAACATTTCGGTATTTCAGATTTTACCGATTCAGTCTAAAGGAGGGTG
196 GCGAGTTCACAAAATACCAACATTTCGGTATTTCAGATTTTACCGATTCAGTCTAAAGGAGGGTG
37992159 TCGTTTACATACCTGGTTGATGACGATTGCTGATGATATCTCCCACGCGATAATCCTA
261 TCGTTTACATACCTGGTTGATGACGATTGCTGATGATATCTCCCACGCGATAATCCTA
37992217 CAATTGACCA
Statistics
Matches: 318, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
318 318 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (318 bp):
ATTTCATGCTCATTCTAATGTTTACCGAGTAATTAGAAGTACTTACCTCATCTTGTTACCAAAGT
GGGCCCGTTGGCCCATTTTTAGCCCATCAAGCCCAAAAATACCGTTGTGTACAAAAATGCACACT
CTGCACTCTAATCATCCAAATGCACCATATTCATTAACAACTGTCTCACGAGTGCTCGCACGCTC
GCGAGTTCACAAAATACCAACATTTCGGTATTTCAGATTTTACCGATTCAGTCTAAAGGAGGGTG
TCGTTTACATACCTGGTTGATGACGATTGCTGATGATATCTCCCACGCGATAATCCTA
Found at i:37992384 original size:27 final size:27
Alignment explanation
Indices: 37992354--37992526 Score: 204
Period size: 27 Copynumber: 6.4 Consensus size: 27
37992344 GGGGTAAAAT
* * *
37992354 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37992381 GGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
37992408 TATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37992435 GGCAATTCTATCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
37992462 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
37992489 AATAATTCTACCCTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
37992516 GGTAATTCTAC
1 GGTAATTCTAC
37992527 AACTTATCCA
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
26 2 0.02
27 117 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:37992467 original size:81 final size:81
Alignment explanation
Indices: 37992373--37992525 Score: 236
Period size: 81 Copynumber: 1.9 Consensus size: 81
37992363 ACCCCACAAG
* *
37992373 GGTATCTCGGTAATTCTACCCTACAGGGGTATTT-ATATATTTCTACCCTACAAGGGTATTTCGG
1 GGTATCTCGGTAATTCTACCCTACAAGGGTATTTCA-ATAATTCTACCCTACAAGGGTATTTCGG
37992437 CAATTCTATCCTACAGA
65 CAATTCTATCCTACAGA
* * * *
37992454 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTAGAGGGGTATTTCGGT
1 GGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGC
37992519 AATTCTA
66 AATTCTA
37992526 CAACTTATCC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 64 0.98
82 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
GGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGC
AATTCTATCCTACAGA
Found at i:37992523 original size:54 final size:54
Alignment explanation
Indices: 37992354--37992526 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
37992344 GGGGTAAAAT
* * * *
37992354 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * * * *
37992408 TATATTTCTACCCTACAAGGGTATTTCGGCAATTCTATCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** *
37992462 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
37992516 GGTAATTCTAC
1 GGTAATTCTAC
37992527 AACTTATCCA
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:38003891 original size:15 final size:15
Alignment explanation
Indices: 38003871--38003910 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
38003861 ACCTAGAACT
38003871 TCCTAGGGTTATCAA
1 TCCTAGGGTTATCAA
38003886 TCCTAGGGTTATCAA
1 TCCTAGGGTTATCAA
38003901 TCCTAGGGTT
1 TCCTAGGGTT
38003911 TAAACACACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (15 bp):
TCCTAGGGTTATCAA
Found at i:38008927 original size:43 final size:42
Alignment explanation
Indices: 38008879--38008974 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 42
38008869 TGTAATACCG
* *
38008879 TGTCTGGGACACAGGCCTCG-ATTGAGATTTACCTATAAGACCA
1 TGTCTGGGACACAGGCATCGAATTGA-A-TTACATATAAGACCA
* *
38008922 TGTCTGGGACAGAGGCATCGATATTGAATTACATGTAAGACCA
1 TGTCTGGGACACAGGCATCGA-ATTGAATTACATATAAGACCA
*
38008965 TGCCTGGGAC
1 TGTCTGGGAC
38008975 GTCGGCATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 40 0.87
44 1 0.02
45 5 0.11
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (42 bp):
TGTCTGGGACACAGGCATCGAATTGAATTACATATAAGACCA
Found at i:38018416 original size:25 final size:25
Alignment explanation
Indices: 38018382--38018433 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
38018372 GTGTCTGTTG
38018382 GCCGTGGGAATAAGTCAGTATATAA
1 GCCGTGGGAATAAGTCAGTATATAA
38018407 GCCGTGGGAATAAGTCAGTATATAA
1 GCCGTGGGAATAAGTCAGTATATAA
38018432 GC
1 GC
38018434 TATGTTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (25 bp):
GCCGTGGGAATAAGTCAGTATATAA
Found at i:38028050 original size:21 final size:22
Alignment explanation
Indices: 38028021--38028061 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38028011 ATATCTACTC
* *
38028021 AGGGCAATTATAATCCACAATA
1 AGGGCAATTACAATCAACAATA
38028043 AGGG-AATTACAATCAACAA
1 AGGGCAATTACAATCAACAA
38028062 AAGAACTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.20
Consensus pattern (22 bp):
AGGGCAATTACAATCAACAATA
Found at i:38030492 original size:36 final size:36
Alignment explanation
Indices: 38030450--38030520 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
38030440 TCCGAGAATC
*
38030450 GACTAAACCTGCTCTGATACCACTAAATGTTACACT
1 GACTAAACCTGCTCTGATACCACTAAATGTAACACT
*
38030486 GACTAAATCTGCTCTGATACCACTAAATGTAACAC
1 GACTAAACCTGCTCTGATACCACTAAATGTAACAC
38030521 CCCTTACCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (36 bp):
GACTAAACCTGCTCTGATACCACTAAATGTAACACT
Found at i:38030513 original size:20 final size:20
Alignment explanation
Indices: 38030451--38030513 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
38030441 CCGAGAATCG
*
38030451 ACTAAACCTGCTCTGATACC
1 ACTAAATCTGCTCTGATACC
* *
38030471 ACTAAA--TG-T-T-ACACTG
1 ACTAAATCTGCTCTGATAC-C
38030487 ACTAAATCTGCTCTGATACC
1 ACTAAATCTGCTCTGATACC
38030507 ACTAAAT
1 ACTAAAT
38030514 GTAACACCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
15 3 0.09
16 7 0.21
17 1 0.03
18 4 0.12
19 1 0.03
20 14 0.42
21 3 0.09
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.29
Consensus pattern (20 bp):
ACTAAATCTGCTCTGATACC
Found at i:38030668 original size:42 final size:42
Alignment explanation
Indices: 38030609--38031369 Score: 1522
Period size: 42 Copynumber: 18.1 Consensus size: 42
38030599 CCATAAAATT
38030609 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030651 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030693 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030735 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030777 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030819 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030861 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030903 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030945 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38030987 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031029 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031071 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031113 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031155 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031197 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031239 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031281 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031323 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
1 TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
38031365 TTATT
1 TTATT
38031370 TGAGTCTACG
Statistics
Matches: 719, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 719 1.00
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (42 bp):
TTATTCATATTTCAAAGCGTTCATTCTCTTACACATAGTCCC
Found at i:38033047 original size:40 final size:40
Alignment explanation
Indices: 38032965--38033145 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
38032955 ACCCAAGTAT
* ** * * *
38032965 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * *
38033003 CTTCGGGTCTTAGCCCAGATATGGTCGCTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
38033043 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * *
38033083 CTTC-GGATCTTAGTCCGGATATAATCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAATGC
38033124 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
38033146 CATTCGAATA
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 11 0.09
39 16 0.13
40 61 0.51
41 28 0.24
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:38033135 original size:81 final size:79
Alignment explanation
Indices: 38032965--38033145 Score: 211
Period size: 81 Copynumber: 2.3 Consensus size: 79
38032955 ACCCAAGTAT
* * * **
38032965 CTTCGGGATTTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCAGATATGGTC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGATCTTAGCCCAGATATAATC
* * *
38033029 GCTAGCATAAATGC
66 ACTAGCACAAAAGC
** * * * *
38033043 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGTCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCAC-AAGGCCTTCGGATCTTAGCCCAGATATAAT
38033108 CACTTAGCACAAAAGC
65 CAC-TAGCACAAAAGC
38033124 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
38033146 CATTCGAATA
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 12 0.14
79 16 0.19
80 26 0.30
81 32 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGATCTTAGCCCAGATATAATC
ACTAGCACAAAAGC
Found at i:38037784 original size:56 final size:56
Alignment explanation
Indices: 38037722--38037832 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
38037712 GCTTTGGTCA
38037722 ACCTTAATCTCTTACACACTTATACAAAATCAAAAGCATATAACATGGTATTCATC
1 ACCTTAATCTCTTACACACTTATACAAAATCAAAAGCATATAACATGGTATTCATC
*
38037778 ACCTTAATCTCTTACACACTTATACAAAATCAAAAGCATATAACATGGTTTTCAT
1 ACCTTAATCTCTTACACACTTATACAAAATCAAAAGCATATAACATGGTATTCAT
38037833 TTAATGATTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (56 bp):
ACCTTAATCTCTTACACACTTATACAAAATCAAAAGCATATAACATGGTATTCATC
Found at i:38038738 original size:106 final size:106
Alignment explanation
Indices: 38038553--38038764 Score: 406
Period size: 106 Copynumber: 2.0 Consensus size: 106
38038543 AATTATCTCA
38038553 CAGTACAGAACTCGGATAATGTTCTTGTTAATATATCTTGAAAATAGACTCATTATGGATTTTAA
1 CAGTACAGAACTCGGATAATGTTCTTGTTAATATATCTTGAAAATAGACTCATTATGGATTTTAA
*
38038618 AAATATTATTTTGAGCCTCTAATTATTTTTATCCAAATTTT
66 AAATATAATTTTGAGCCTCTAATTATTTTTATCCAAATTTT
*
38038659 CAGTACAGAACTCGGATAATGTTCTTGTTAATTTATCTTGAAAATAGACTCATTATGGATTTTAA
1 CAGTACAGAACTCGGATAATGTTCTTGTTAATATATCTTGAAAATAGACTCATTATGGATTTTAA
38038724 AAATATAATTTTGAGCCTCTAATTATTTTTATCCAAATTTT
66 AAATATAATTTTGAGCCTCTAATTATTTTTATCCAAATTTT
38038765 TGTGATTTTC
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (106 bp):
CAGTACAGAACTCGGATAATGTTCTTGTTAATATATCTTGAAAATAGACTCATTATGGATTTTAA
AAATATAATTTTGAGCCTCTAATTATTTTTATCCAAATTTT
Found at i:38038913 original size:23 final size:25
Alignment explanation
Indices: 38038882--38038927 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
38038872 TTATATGAAA
*
38038882 ATATACTCATTAAG-ATTTAATTTT
1 ATATACTCATTAAGTATCTAATTTT
38038906 ATAT-CTCATTAAGTATCTAATT
1 ATATACTCATTAAGTATCTAATT
38038928 CAATTAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (25 bp):
ATATACTCATTAAGTATCTAATTTT
Found at i:38040270 original size:30 final size:30
Alignment explanation
Indices: 38040236--38040296 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38040226 TCCTTAACTC
38040236 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
38040266 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
38040296 A
1 A
38040297 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:38050084 original size:17 final size:17
Alignment explanation
Indices: 38050059--38050093 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38050049 CTTGGTTAAA
38050059 TGTTATCTTATTAAATC
1 TGTTATCTTATTAAATC
* *
38050076 TGTTTTCTTATTTAATC
1 TGTTATCTTATTAAATC
38050093 T
1 T
38050094 TGGAGGTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (17 bp):
TGTTATCTTATTAAATC
Found at i:38051777 original size:39 final size:39
Alignment explanation
Indices: 38051734--38051813 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
38051724 AGCCTCTACG
38051734 TAGGCCACTCGATATTAAAAAGAAAATACAAAACTCTCT
1 TAGGCCACTCGATATTAAAAAGAAAATACAAAACTCTCT
*
38051773 TAGGCTACTCGATATTAAAAAGAAAATACAAAACTCTCT
1 TAGGCCACTCGATATTAAAAAGAAAATACAAAACTCTCT
38051812 TA
1 TA
38051814 CAACTATTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (39 bp):
TAGGCCACTCGATATTAAAAAGAAAATACAAAACTCTCT
Found at i:38051832 original size:39 final size:39
Alignment explanation
Indices: 38051740--38051832 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 39
38051730 TACGTAGGCC
* * **
38051740 ACTCGATATTAAAAAGAAAATACAAAACTCTCTTAGGCT
1 ACTCGAGATGAAAAAGAAAATACAAAACTCTCTTAAACT
* *
38051779 ACTCGATATTAAAAAGAAAATACAAAACTCTCTTACAACT
1 ACTCGAGATGAAAAAGAAAATACAAAACTCTCTTA-AACT
* *
38051819 ATTCTAGA-GAAAAA
1 ACTCGAGATGAAAAA
38051833 TCTTCCAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 40 0.85
40 7 0.15
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (39 bp):
ACTCGAGATGAAAAAGAAAATACAAAACTCTCTTAAACT
Found at i:38054916 original size:35 final size:35
Alignment explanation
Indices: 38054817--38054978 Score: 121
Period size: 35 Copynumber: 4.6 Consensus size: 35
38054807 AATGGTTATC
* *
38054817 TACAAGCTCTTAGGAGCGACACTGTGTAAATGGTC
1 TACAAGCTCTTCGGAGCGACACTGTGTAAATGGTT
* * * * * * *
38054852 CATAGGCTCTTCGAAGTGAAACTGTGTAAATAGTT
1 TACAAGCTCTTCGGAGCGACACTGTGTAAATGGTT
* ** *
38054887 TACAGGCTCTTCGGAGCGACACTAAGTAAATGGCT
1 TACAAGCTCTTCGGAGCGACACTGTGTAAATGGTT
* * *
38054922 TACAAGCTCTTTGGA-CTGACA-TCGTGTAAATGATC
1 TACAAGCTCTTCGGAGC-GACACT-GTGTAAATGGTT
* * *
38054957 TACAGGCTCTACGGAGCTACAC
1 TACAAGCTCTTCGGAGCGACAC
38054979 CTCGAATGTA
Statistics
Matches: 94, Mismatches: 29, Indels: 7
0.72 0.22 0.05
Matches are distributed among these distances:
34 2 0.02
35 91 0.97
36 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (35 bp):
TACAAGCTCTTCGGAGCGACACTGTGTAAATGGTT
Found at i:38057324 original size:28 final size:28
Alignment explanation
Indices: 38057292--38057348 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
38057282 ATTTTTAGTG
*
38057292 AGTAAGGGTCAGAACTATTGGACAGCGT
1 AGTAAGGGTCAGAACTATTGGACAACGT
38057320 AGTAAGGGTCAGAACTATTGGACAACGT
1 AGTAAGGGTCAGAACTATTGGACAACGT
38057348 A
1 A
38057349 AAAGGGGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (28 bp):
AGTAAGGGTCAGAACTATTGGACAACGT
Found at i:38066591 original size:48 final size:48
Alignment explanation
Indices: 38066520--38066692 Score: 159
Period size: 48 Copynumber: 3.6 Consensus size: 48
38066510 GTGTGGTAGT
**
38066520 GTAAGACCATGTCTGGGACATGGCATCGGCCACCTTATGAGAGCCAAA
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACCACATGAGAGCCAAA
* * * *** * **
38066568 GTAAGACCGTGTTTGGGACATGGCATTGGCCTTGACATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACCACATGAGAGCCAAA
* * * * **
38066616 GTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-ATTGTGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACCACA-TGAGAGCCAAA
* *
38066664 GTAAAACCATGTTTGGGACATGGCATCGG
1 GTAAGACCATGTCTGGGACATGGCATCGG
38066693 TAAATTCACC
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 105 0.99
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCACCACATGAGAGCCAAA
Found at i:38066680 original size:96 final size:96
Alignment explanation
Indices: 38066516--38066689 Score: 251
Period size: 96 Copynumber: 1.8 Consensus size: 96
38066506 ATATGTGTGG
** * *
38066516 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCTTATGAGAGCCAAAGTAAGACCGTGTT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAAAGTAAAACCATGTT
38066581 TGGGACATGGCATTGGCCTTGACATGAGAGC
66 TGGGACATGGCATTGGCCTTGACATGAGAGC
* * * **
38066612 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAT-TGTGAGCTAGTGTAAAACCATGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-AATATGAGAGCCAAAGTAAAACCATGT
38066676 TTGGGACATGGCAT
65 TTGGGACATGGCAT
38066690 CGGTAAATTC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
96 67 0.99
97 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (96 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAAAGTAAAACCATGTT
TGGGACATGGCATTGGCCTTGACATGAGAGC
Found at i:38072277 original size:23 final size:23
Alignment explanation
Indices: 38072245--38072291 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
38072235 TCATGACATT
*
38072245 AGCATTGTAATGGCATGGGAATG
1 AGCATAGTAATGGCATGGGAATG
*
38072268 AGCATAGTAATGGCATGGGTATG
1 AGCATAGTAATGGCATGGGAATG
38072291 A
1 A
38072292 CAAAAGAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.34, T:0.26
Consensus pattern (23 bp):
AGCATAGTAATGGCATGGGAATG
Found at i:38073380 original size:17 final size:17
Alignment explanation
Indices: 38073347--38073380 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38073337 TTCTAGCGTA
38073347 GTTCTGGTTTATCGTGT
1 GTTCTGGTTTATCGTGT
38073364 GTTCTCGGTTTAT-GTGT
1 GTTCT-GGTTTATCGTGT
38073381 CCGCCATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.12, G:0.29, T:0.53
Consensus pattern (17 bp):
GTTCTGGTTTATCGTGT
Found at i:38077301 original size:21 final size:20
Alignment explanation
Indices: 38077277--38077316 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
38077267 GTTAATAAAA
*
38077277 CACACAGGCTTGTTGCCCTTC
1 CACACAGGCGTG-TGCCCTTC
*
38077298 CACACGGGCGTGTGCCCTT
1 CACACAGGCGTGTGCCCTT
38077317 GTCAGCTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.12, C:0.38, G:0.25, T:0.25
Consensus pattern (20 bp):
CACACAGGCGTGTGCCCTTC
Found at i:38085935 original size:48 final size:48
Alignment explanation
Indices: 38085848--38085973 Score: 125
Period size: 48 Copynumber: 2.6 Consensus size: 48
38085838 TGTACTACTG
* *
38085848 TAAGACCATGTCTAGGACATGGCATCGGCCACCCTATGAGAG-TCAGTA
1 TAAGACCATGTCTAGGACATAGCATCGGCCACACTATGAGAGCT-AGTA
* ** *
38085896 TAAGACCGTGTCTAGGACATAGCATCGGCCTTGAC-ATGAGAGCTAGTG
1 TAAGACCATGTCTAGGACATAGCATCGGCC-ACACTATGAGAGCTAGTA
*
38085944 TAAGACCAT-T-TATGGTACATGGCATCGGCC
1 TAAGACCATGTCTA-GG-ACATAGCATCGGCC
38085974 TCGACTTGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
46 2 0.03
47 3 0.05
48 59 0.89
49 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATAGCATCGGCCACACTATGAGAGCTAGTA
Found at i:38086845 original size:19 final size:19
Alignment explanation
Indices: 38086821--38086858 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
38086811 AATGATGCAT
38086821 TGCTAGATACCACTCATTG
1 TGCTAGATACCACTCATTG
*
38086840 TGCTAGATGCCACTCATTG
1 TGCTAGATACCACTCATTG
38086859 CTTGTAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (19 bp):
TGCTAGATACCACTCATTG
Found at i:38099899 original size:46 final size:46
Alignment explanation
Indices: 38099847--38100077 Score: 311
Period size: 46 Copynumber: 5.0 Consensus size: 46
38099837 GTGTGCTCTC
** *
38099847 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
38099893 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCAT-GCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
38099938 TGACAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
38099984 TGATATGAAATGAATAAGACCATGCTTGAAAGATACCATGACAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** * * * * *
38100030 TGATAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
38100076 TG
1 TG
38100078 TCAAAGATAA
Statistics
Matches: 162, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 42 0.26
46 120 0.74
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:38099980 original size:91 final size:92
Alignment explanation
Indices: 38099861--38100072 Score: 336
Period size: 91 Copynumber: 2.3 Consensus size: 92
38099851 ATGAAATGTG
*
38099861 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGCTTGAAAGA
**
38099926 TACCATG-CAACATGACAGGAAATGAA
66 TACCATGACAACATGACAAAAAATGAA
*
38099952 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGATATGAAATGAATAAGACCATGCTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGCTTGAAAGA
* *
38100017 TACCATGACAACATGATAAAAAATGAG
66 TACCATGACAACATGACAAAAAATGAA
* * *
38100044 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
38100073 TCATGTCAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 70 0.63
92 41 0.37
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGCTTGAAAGA
TACCATGACAACATGACAAAAAATGAA
Found at i:38100093 original size:137 final size:136
Alignment explanation
Indices: 38099847--38100094 Score: 336
Period size: 137 Copynumber: 1.8 Consensus size: 136
38099837 GTGTGCTCTC
** * * * **
38099847 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGCTTGAAAGATACCATGACAACATGATAAAAAATGAATAAGA
* * *
38099912 CCATGGTTGAAAGATACCATGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCAT
66 CCATAGTTGAAAGACACCATGCAACATGACA-GAAATAAATAAGACCATGGTTGAAAGATACCAT
38099977 GGCAGCG
130 GGCAGCG
*
38099984 TGATATGAAATGAATAAGACCATGCTTGAAAGATACCATGACAACATGATAAAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGCTTGAAAGATACCATGACAACATGATAAAAAATGAATAAGA
* * *
38100049 CCATAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAATAAGAC
66 CCATAGTTGAAAGACACCAT-GCAACATGACAGAA-ATAAATAAGAC
38100095 TGTGGATAGG
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
136 2 0.02
137 84 0.88
138 9 0.09
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (136 bp):
TGATATGAAATGAATAAGACCATGCTTGAAAGATACCATGACAACATGATAAAAAATGAATAAGA
CCATAGTTGAAAGACACCATGCAACATGACAGAAATAAATAAGACCATGGTTGAAAGATACCATG
GCAGCG
Found at i:38100378 original size:16 final size:17
Alignment explanation
Indices: 38100357--38100389 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38100347 ATGATGGAGC
38100357 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
38100373 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
38100390 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:38101028 original size:14 final size:14
Alignment explanation
Indices: 38101009--38101037 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38100999 ACTCTGGCCC
38101009 TATTTCACAAAAAT
1 TATTTCACAAAAAT
38101023 TATTTCACAAAAAT
1 TATTTCACAAAAAT
38101037 T
1 T
38101038 CAAATATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTTCACAAAAAT
Found at i:38107958 original size:33 final size:33
Alignment explanation
Indices: 38107916--38107980 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
38107906 GCCCCTTCAG
38107916 CCGGAGCTGGTGCATTACTCTCTACATCATCAA
1 CCGGAGCTGGTGCATTACTCTCTACATCATCAA
38107949 CCGGAGCTGGTGCATTACTCTCTACATCATCA
1 CCGGAGCTGGTGCATTACTCTCTACATCATCA
38107981 GCCGCAACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (33 bp):
CCGGAGCTGGTGCATTACTCTCTACATCATCAA
Found at i:38112184 original size:46 final size:46
Alignment explanation
Indices: 38112117--38112205 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
38112107 GTTACAGGGG
*
38112117 TCGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCGGA
1 TCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCGGA
38112163 TCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCC
1 TCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCC
38112206 TGCACAGAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.28
Consensus pattern (46 bp):
TCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCGGA
Found at i:38113402 original size:41 final size:41
Alignment explanation
Indices: 38113354--38113436 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
38113344 AATTATATTC
38113354 GGCCTTAGCACACAACTTGCTAGCCGATTCTTCCCCATCTA
1 GGCCTTAGCACACAACTTGCTAGCCGATTCTTCCCCATCTA
*
38113395 GGCCTTAGCACACAACTTGCTAGTCGATTCTTCCCCATCTA
1 GGCCTTAGCACACAACTTGCTAGCCGATTCTTCCCCATCTA
38113436 G
1 G
38113437 CAACCAATGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.28
Consensus pattern (41 bp):
GGCCTTAGCACACAACTTGCTAGCCGATTCTTCCCCATCTA
Found at i:38118984 original size:40 final size:40
Alignment explanation
Indices: 38118929--38119005 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
38118919 AGCCACCGGT
*
38118929 GGATCCTCAGTCGTCAAGCAACCATGCGATCCTCAATCGG
1 GGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATCGG
* *
38118969 GGATCCACTGTCGTCAAGCAACCATGCGATCTTCAAT
1 GGATCCACAGTCGTCAAGCAACCATGCGATCCTCAAT
38119006 TTCTTCCTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
GGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATCGG
Found at i:38119295 original size:27 final size:26
Alignment explanation
Indices: 38119263--38119630 Score: 222
Period size: 27 Copynumber: 13.7 Consensus size: 26
38119253 TTGGTAAATC
*
38119263 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCG-TAATTT
* * * *
38119290 TGCAAACCAATGGTATTTCTGCAATTTT
1 TACAAATCAAGGGTATTTC-GTAA-TTT
*
38119318 TA-AAGTCAAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTC-GTAATTT
** * * *
38119344 TGTAAATTAGGGGTATTTCTGT--TTAC
1 TACAAATCAAGGGTATTTC-GTAATT-T
* *
38119370 CACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCG-TAATTT
* * * *
38119397 TGCAAACCAATGGTATTTCTGCAATTTT
1 TACAAATCAAGGGTATTTC-GTAA-TTT
*
38119425 TA-AAGTCAAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTC-GTAATTT
** * *
38119451 TGTAAATTAGGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTC-GTAATTT
* *
38119478 TCCAAATCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTA-TTTCGTAATTT
* * **
38119505 TTCAAATCGAGGGTATTTTTTAATTT
1 TACAAATCAAGGGTATTTCGTAATTT
* *
38119531 TACAAATCTAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTA-TTTCGTAATTT
** *
38119558 TACAGGTCGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTC-GTAATTT
* * *
38119585 TACAAACCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTA-TTTCGTAATTT
* * *
38119612 TTCTAATCTAGGGTATTTC
1 TACAAATCAAGGGTATTTC
38119631 AATAATACTA
Statistics
Matches: 265, Mismatches: 62, Indels: 29
0.74 0.17 0.08
Matches are distributed among these distances:
25 3 0.01
26 50 0.19
27 194 0.73
28 18 0.07
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (26 bp):
TACAAATCAAGGGTATTTCGTAATTT
Found at i:38119388 original size:80 final size:80
Alignment explanation
Indices: 38119292--38119445 Score: 188
Period size: 80 Copynumber: 1.9 Consensus size: 80
38119282 GATAATTTTG
* * * * * *
38119292 CAAACCAATGGTATTTCTG-CAATTTT-TAAAGTCAAGGGTATTTCTGTAATTTTGTAAA-TTAG
1 CAAACCAAGGGTATTTC-GACAATTTTGCAAA-CCAAGGGTATTTCTGCAATTTT-TAAAGTCAA
38119354 GGGTATTTCTGTTTACCA
63 GGGTATTTCTGTTTACCA
* *
38119372 CAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGCAATTTTTAAAGTCAAGGG
1 CAAACCAAGGGTATTTCGACAATTTTGCAAACCAAGGGTATTTCTGCAATTTTTAAAGTCAAGGG
38119437 TATTTCTGT
66 TATTTCTGT
38119446 AATTTTGTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 5 0.08
80 55 0.87
81 3 0.05
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (80 bp):
CAAACCAAGGGTATTTCGACAATTTTGCAAACCAAGGGTATTTCTGCAATTTTTAAAGTCAAGGG
TATTTCTGTTTACCA
Found at i:38119450 original size:107 final size:107
Alignment explanation
Indices: 38119264--38119472 Score: 418
Period size: 107 Copynumber: 2.0 Consensus size: 107
38119254 TGGTAAATCT
38119264 ACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGCAATTTTTAAAGTCAAGG
1 ACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGCAATTTTTAAAGTCAAGG
38119329 GTATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGTTTACC
66 GTATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGTTTACC
38119371 ACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGCAATTTTTAAAGTCAAGG
1 ACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGCAATTTTTAAAGTCAAGG
38119436 GTATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGT
66 GTATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGT
38119473 AATTTTCCAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (107 bp):
ACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGCAATTTTTAAAGTCAAGG
GTATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGTTTACC
Found at i:38119549 original size:53 final size:54
Alignment explanation
Indices: 38119263--38119630 Score: 281
Period size: 54 Copynumber: 6.9 Consensus size: 54
38119253 TTGGTAAATC
* * * * * * * *
38119263 TACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGCAATTTT
1 TACAAATCAAGGGTATTTTGGTAATTTTTCAAATCGAGGGTATTTCTGTAA-TTT
* * *
38119318 TA-AAGTCAAGGGTATTTCT-GTAATTTTGT-AAAT-TAGGGGTATTTCTGT--TTAC
1 TACAAATCAAGGGTATTT-TGGTAATTTT-TCAAATCGA-GGGTATTTCTGTAATT-T
* * * * * * * * *
38119370 CACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGCAATTTT
1 TACAAATCAAGGGTATTTTGGTAATTTTTCAAATCGAGGGTATTTCTGTAA-TTT
* *
38119425 TA-AAGTCAAGGGTATTTCT-GTAATTTTGT-AAAT-TAGGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTT-TGGTAATTTT-TCAAATCGA-GGGTATTTCTGTAATTT
* *
38119478 TCCAAATCAAGGGTATTTTGGTAATTTTTCAAATCGAGGGTATTT-TTTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTTCAAATCGAGGGTATTTCTGTAATTT
* * ** *
38119531 TACAAATCTAGGGTATTTTGGTAATTTTACAGGTCGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTTCAAATCGAGGGTATTTCTGTAATTT
* * * *
38119585 TACAAACCAGGGGTATTTTGGTAATTTTTCTAATCTAGGGTATTTC
1 TACAAATCAAGGGTATTTTGGTAATTTTTCAAATCGAGGGTATTTC
38119631 AATAATACTA
Statistics
Matches: 244, Mismatches: 50, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
51 2 0.01
52 1 0.00
53 88 0.36
54 147 0.60
55 4 0.02
56 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTTGGTAATTTTTCAAATCGAGGGTATTTCTGTAATTT
Found at i:38139360 original size:28 final size:28
Alignment explanation
Indices: 38139212--38139372 Score: 168
Period size: 28 Copynumber: 5.7 Consensus size: 28
38139202 TAATGTGTTA
* *
38139212 TGGGCCGAATGGGCCATATAAATGAGAT
1 TGGGCCTAGTGGGCCATATAAATGAGAT
** *
38139240 TGGGCCTAACGGGCCATATGAATTTGA-AT
1 TGGGCCTAGTGGGCCATAT-AA-ATGAGAT
* *
38139269 TGGGCCT-GATGGGCCGTATGAACGTGA-AT
1 TGGGCCTAG-TGGGCCATAT-AA-ATGAGAT
*
38139298 TGGG-CTGGATGGGCCATATAAATGAGAT
1 TGGGCCTAG-TGGGCCATATAAATGAGAT
38139326 TGGGCCTAGTGGGCCATATAAATGAGAT
1 TGGGCCTAGTGGGCCATATAAATGAGAT
38139354 TGGGCCTAGTGGGCCATAT
1 TGGGCCTAGTGGGCCATAT
38139373 GCATGTATGT
Statistics
Matches: 116, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 65 0.56
29 45 0.39
30 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.25
Consensus pattern (28 bp):
TGGGCCTAGTGGGCCATATAAATGAGAT
Found at i:38143780 original size:45 final size:45
Alignment explanation
Indices: 38143713--38143803 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
38143703 CACTTAGGCT
38143713 ATTTTCCAAGCATTGGTCAACCATAATCCCTCACACATTCATACA
1 ATTTTCCAAGCATTGGTCAACCATAATCCCTCACACATTCATACA
* *
38143758 ATTTTCCAAGCATTGGTTAACCATAATCCCTCACACATTTATACA
1 ATTTTCCAAGCATTGGTCAACCATAATCCCTCACACATTCATACA
38143803 A
1 A
38143804 CATCAAGGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.31
Consensus pattern (45 bp):
ATTTTCCAAGCATTGGTCAACCATAATCCCTCACACATTCATACA
Found at i:38145725 original size:48 final size:48
Alignment explanation
Indices: 38145650--38145871 Score: 252
Period size: 48 Copynumber: 4.6 Consensus size: 48
38145640 ATATCGGTGC
* * * *
38145650 CAATGCCATGTCCC-GAACATGGGCTTACACTAGCATACATACCATTG-
1 CAATGCCATGTCCCAG-ACATGGTCTTACACTAGCACACATATCAATGT
* * *
38145697 CTAATGCCATGTCCTAGACATGATCTTACACTGGCACACATATCAATGT
1 C-AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT
* * *
38145746 CAATGCCATGTCCCAAATATGGTCTTACACTGGCACACATATCAATGT
1 CAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT
* ** *
38145794 CGATGCCATGTCCCAGACATGGTCTTACACTAGCATGCATATCAAT-C
1 CAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT
* *
38145841 CTGATGCCATGTCCTAGACATGGTCTTACAC
1 C-AATGCCATGTCCCAGACATGGTCTTACAC
38145872 GAGATCTCAT
Statistics
Matches: 152, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.01
48 148 0.97
49 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (48 bp):
CAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT
Found at i:38146307 original size:3 final size:3
Alignment explanation
Indices: 38146299--38146357 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
38146289 CTGACATTGC
* *
38146299 ATT ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38146347 ATT ATT ATT AT
1 ATT ATT ATT AT
38146358 CACACGAACT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:38152492 original size:24 final size:25
Alignment explanation
Indices: 38152458--38152536 Score: 99
Period size: 24 Copynumber: 3.1 Consensus size: 25
38152448 TATGGCATTG
38152458 TGCTAAGTGAAATAAGACCATGGCA
1 TGCTAAGTGAAATAAGACCATGGCA
*
38152483 T-CTAAGTGAAATAAGTCCATGGCAA
1 TGCTAAGTGAAATAAGACCATGGC-A
38152508 TGTGCTAAGTGAAATAA-ATCCATGGCA
1 --TGCTAAGTGAAATAAGA-CCATGGCA
38152535 TG
1 TG
38152537 GTGCTAAGTG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 21 0.45
25 4 0.09
27 2 0.04
28 20 0.43
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (25 bp):
TGCTAAGTGAAATAAGACCATGGCA
Found at i:38152524 original size:28 final size:27
Alignment explanation
Indices: 38152449--38152547 Score: 132
Period size: 28 Copynumber: 3.7 Consensus size: 27
38152439 TATCTAGGAT
*
38152449 ATGGCATTGTGCTAAGTGAAATAAGACC
1 ATGGCA-TGTGCTAAGTGAAATAAGTCC
38152477 ATGGCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
*
38152501 ATGGCAATGTGCTAAGTGAAATAAATCC
1 ATGGC-ATGTGCTAAGTGAAATAAGTCC
38152529 ATGGCATGGTGCTAAGTGA
1 ATGGCAT-GTGCTAAGTGA
38152548 GAAATTTCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
24 21 0.33
25 2 0.03
27 3 0.05
28 38 0.59
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (27 bp):
ATGGCATGTGCTAAGTGAAATAAGTCC
Found at i:38152697 original size:52 final size:51
Alignment explanation
Indices: 38152571--38152711 Score: 219
Period size: 51 Copynumber: 2.7 Consensus size: 51
38152561 TGAACCTTAG
* *
38152571 GAATAAAATAGCTTTGGACACAAGTGTGGCACTACGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
38152622 GAATATAATACCTTTGGAAACAAGTGTGGTACTATGTGAAGGCCATTTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA-CTTTGT
38152674 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTG
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTG
38152712 TGAATAAAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
51 40 0.50
52 40 0.50
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:38152725 original size:39 final size:39
Alignment explanation
Indices: 38152671--38152750 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
38152661 AGGCCATTTT
* *
38152671 TGTGAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATG
1 TGTGAATAAAATAGCTTTGG-CTACAAGGGAGGTACTATG
38152710 TGTGAATAAAATAGCTTTGGCTACAAGGGAGGTACTATG
1 TGTGAATAAAATAGCTTTGGCTACAAGGGAGGTACTATG
38152749 TG
1 TG
38152751 AAGGCCACCG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (39 bp):
TGTGAATAAAATAGCTTTGGCTACAAGGGAGGTACTATG
Found at i:38154570 original size:33 final size:33
Alignment explanation
Indices: 38154517--38154591 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
38154507 GGCCCTGCTG
*
38154517 TGGTCTT-TCATTCACATGCCATAACCCAGTTA
1 TGGTCTTATTATTCACATGCCATAACCCAGTTA
* *
38154549 TGGTCTTATTATTCA-ATTGCCATAGCCCGGTTA
1 TGGTCTTATTATTCACA-TGCCATAACCCAGTTA
38154582 TGGTCTTATT
1 TGGTCTTATT
38154592 CGGCAACTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.21
33 30 0.79
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (33 bp):
TGGTCTTATTATTCACATGCCATAACCCAGTTA
Found at i:38162141 original size:110 final size:110
Alignment explanation
Indices: 38161948--38162165 Score: 382
Period size: 110 Copynumber: 2.0 Consensus size: 110
38161938 CATTTGAAAT
* * *
38161948 CATTTAAAATCCACAAGATTCTAGATCTGGACATTTTGGTTTTTAATTGACAAGATTAATCAAGA
1 CATTTAAAATCCACAAGACTATAGATCTGGACATTTTGGTTTTTAATTAACAAGATTAATCAAGA
38162013 AATTTAAGAGAAAAGAGATCTCACCCAAGCTAGTTCAGAGAAAAC
66 AATTTAAGAGAAAAGAGATCTCACCCAAGCTAGTTCAGAGAAAAC
*
38162058 CATTTAAAATCCACAAGACTATAGATTTGGACATTTTGGTTTTTAATTAACAAGATTAATCAAGA
1 CATTTAAAATCCACAAGACTATAGATCTGGACATTTTGGTTTTTAATTAACAAGATTAATCAAGA
* *
38162123 AATTTAAGAGAAAAGAGATCTTACCCAAGCTAGTTTAGAGAAA
66 AATTTAAGAGAAAAGAGATCTCACCCAAGCTAGTTCAGAGAAA
38162166 CTACAATGGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (110 bp):
CATTTAAAATCCACAAGACTATAGATCTGGACATTTTGGTTTTTAATTAACAAGATTAATCAAGA
AATTTAAGAGAAAAGAGATCTCACCCAAGCTAGTTCAGAGAAAAC
Found at i:38166810 original size:40 final size:40
Alignment explanation
Indices: 38166755--38166896 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
38166745 TATTCGAATG
*
38166755 ATATCCGGGCTAAGTCCGGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
38166795 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38166835 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
38166875 ATATCC-AGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
38166897 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.14
40 80 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:38178666 original size:39 final size:40
Alignment explanation
Indices: 38178571--38178832 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
38178561 TTGAATGATG
*
38178571 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
38178609 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
38178650 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
38178689 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38178728 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
38178767 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
38178806 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38178833 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38188081 original size:46 final size:46
Alignment explanation
Indices: 38188031--38188206 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
38188021 TGGTTGAGCA
38188031 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38188077 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
38188122 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38188170 -CCTAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38188207 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 58 0.53
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38188187 original size:93 final size:93
Alignment explanation
Indices: 38188028--38188199 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
38188018 GGATGGTTGA
* *
38188028 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAACTCGTTGAGT
38188093 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38188121 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG-CCTAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAA-CTCGTTGAG
38188185 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
38188200 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38195653 original size:46 final size:46
Alignment explanation
Indices: 38195597--38195772 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
38195587 TGGTTGAGCA
38195597 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38195643 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
38195688 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGGTGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38195736 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38195773 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 29 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38195753 original size:93 final size:93
Alignment explanation
Indices: 38195594--38195765 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
38195584 GGATGGTTGA
* * * *
38195594 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCGAACTCATTGAGT
38195659 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
38195687 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGGTGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCGAACTCATTGAGT
38195752 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38195766 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38198867 original size:40 final size:40
Alignment explanation
Indices: 38198812--38198993 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
38198802 TATTCGAATG
*
38198812 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38198852 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
38198892 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
38198932 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
38198972 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
38198994 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.11
40 115 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:38201606 original size:6 final size:6
Alignment explanation
Indices: 38201595--38201705 Score: 77
Period size: 6 Copynumber: 17.8 Consensus size: 6
38201585 TATCAAAACT
* *
38201595 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
38201644 AGTATC AGGTAAT- AGAATC AAAATC AGAATC A-ATATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGA-ATC A-G-AATC AGAATC
*
38201694 AAAACTC AGAAT
1 AGAA-TC AGAAT
38201706 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
5 7 0.08
6 60 0.72
7 11 0.13
8 4 0.05
9 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:38201630 original size:31 final size:31
Alignment explanation
Indices: 38201595--38201705 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
38201585 TATCAAAACT
* * *
38201595 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* * *
38201626 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
38201657 AGAATCAAAATCAGAATCA-ATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGA-ATCAGGTAAC
38201688 AGAATCAAAACTCAGAAT
1 AGAATCAAAA-TCAGAAT
38201706 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
31 64 0.90
32 7 0.10
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:38201879 original size:27 final size:25
Alignment explanation
Indices: 38201837--38201938 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 25
38201827 GCTCAGTTAT
*
38201837 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTG-CAGAGCCACCAGA-A
38201864 CAGATATTGTAGCAGAGCCACCAGAA
1 CAGATATTGT-GCAGAGCCACCAGAA
*
38201890 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGT-GCAGAGCCACCAG-AA
* *
38201918 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGT-GCAGAGCCAC
38201939 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 7 0.10
27 51 0.76
28 9 0.13
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (25 bp):
CAGATATTGTGCAGAGCCACCAGAA
Found at i:38201921 original size:54 final size:53
Alignment explanation
Indices: 38201837--38201938 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
38201827 GCTCAGTTAT
* * * *
38201837 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTAGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACCAGAA
* * *
38201890 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCAC
38201939 TTAACAGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 6 0.15
54 35 0.85
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACCAGAA
Found at i:38202125 original size:22 final size:22
Alignment explanation
Indices: 38202097--38202161 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
38202087 GCAAATACGT
*
38202097 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
38202119 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
38202141 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
38202162 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:38202669 original size:53 final size:54
Alignment explanation
Indices: 38202606--38202754 Score: 203
Period size: 54 Copynumber: 2.8 Consensus size: 54
38202596 TACCCCACAA
* * *
38202606 GGTATCTCAGTAATTCCACCCTACAGGGGT-TTTTAGTAATTCTACCCTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAAAGG
* * *
38202659 GGTATTTCAGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAAAGG
* *
38202713 GGTATTT-ATGTATTTCTACCCTACAAGGGTATTTCAGTAATT
1 GGTATTTCA-GTAATTCTACCCTACAGGGGTATTTCAGTAATT
38202755 TTGTAAATCG
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 28 0.33
54 56 0.67
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAAAGG
Found at i:38202678 original size:27 final size:27
Alignment explanation
Indices: 38202589--38202756 Score: 159
Period size: 27 Copynumber: 6.3 Consensus size: 27
38202579 GGGCAAAATG
* *
38202589 GTAATTTTACCCCACAA--GGTATCTCA
1 GTAATTTTACCCTA-AAGGGGTATTTCA
** * *
38202615 GTAATTCCACCCTACAGGGGT-TTTTA
1 GTAATTTTACCCTAAAGGGGTATTTCA
*
38202641 GTAATTCTACCCTAAAGGGGTATTTCA
1 GTAATTTTACCCTAAAGGGGTATTTCA
* *
38202668 GTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTTTACCCTAAAGGGGTATTTCA
* *
38202695 GTAATTCTACCCTACAGGGGTATTT-A
1 GTAATTTTACCCTAAAGGGGTATTTCA
38202721 TGT-ATTTCTACCCTACAA-GGGTATTTCA
1 -GTAATTT-TACCCTA-AAGGGGTATTTCA
38202749 GTAATTTT
1 GTAATTTT
38202757 GTAAATCGAG
Statistics
Matches: 118, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.01
26 36 0.31
27 75 0.64
28 6 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTTTACCCTAAAGGGGTATTTCA
Found at i:38202717 original size:54 final size:54
Alignment explanation
Indices: 38202589--38202754 Score: 196
Period size: 54 Copynumber: 3.1 Consensus size: 54
38202579 GGGCAAAATG
* * * * ** *
38202589 GTAATTTTACCCCACA-AGGTATCTCAGTAATTCCACCCTACAGGGGT-TTTTA
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCA
* *
38202641 GTAATTCTACCCTAAAGGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCA
*
38202695 GTAATTCTACCCTACAGGGGTATTT-ATGT-ATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA-GTAATTT-TACCCTACAGGGGTATTTCA
38202749 GTAATT
1 GTAATT
38202755 TTGTAAATCG
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
52 13 0.13
53 32 0.33
54 53 0.54
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCA
Found at i:38202770 original size:81 final size:80
Alignment explanation
Indices: 38202606--38202756 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 80
38202596 TACCCCACAA
*
38202606 GGTATCTCAGTAATTCCACCCTACAGGGGTTTTTAGTAATTCTACCCTAAAGGGGTATTTCAGTA
1 GGTATCTCAGTAATTCCACCCTACAGGGGTATTTAGTAATTCTACCCTAAAGGGGTATTTCAGTA
**
38202671 ATTTTACCCTACAGG
66 ATTTTACAATACAGG
* * * *
38202686 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTATGTATTTCTACCCTACAA-GGGTATTTCAG
1 GGTATCTCAGTAATTCCACCCTACAGGGGTATTTA-GTAATTCTACCCTA-AAGGGGTATTTCAG
38202750 TAATTTT
64 TAATTTT
38202757 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 31 0.48
81 31 0.48
82 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (80 bp):
GGTATCTCAGTAATTCCACCCTACAGGGGTATTTAGTAATTCTACCCTAAAGGGGTATTTCAGTA
ATTTTACAATACAGG
Found at i:38202850 original size:108 final size:108
Alignment explanation
Indices: 38202738--38203081 Score: 318
Period size: 108 Copynumber: 3.2 Consensus size: 108
38202728 CTACCCTACA
** * * *
38202738 AGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAAT-GGTAATTTTGTAAATCAAGGGTACTTT
1 AGGGTATTTCAGTAATTTTACAAATCGAGGAT-AAATGGGTAATTTTATAAATCAAGGGTAATTT
* *
38202802 GGTAATTTTACAAGTCGAGGGTATTTTAATAATTTTGCAAACTG
65 GGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAACTG
** * **
38202846 AGGGTATTTCAGTAATTTTACAAATCGAGGATATTTGGGTAGTTTTATAAATCGGGGGTAATTTG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGATAAATGGGTAATTTTATAAATCAAGGGTAATTTG
***
38202911 GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTTG
66 GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAACTG
* * * * ** * * *
38202954 AGGGTATTTCAGTAACTTCACAAAT-TAGGGGTATTTTGGTAATTTTACAAA-CTAAGGGTATTT
1 AGGGTATTTCAGTAATTTTACAAATCGA-GGATAAATGGGTAATTTTATAAATC-AAGGGTAATT
* * * *** **
38203017 TGATAATTTTACAA-ACTAGGGGTATTTTGGTAATTTTACAAACCA
64 TGGTAATTTTACAAGTCGA-GGGTATTTCAATAATTTTACAAACTG
**
38203062 AGGGTATTTTGGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
38203082 TAAACAAAAG
Statistics
Matches: 192, Mismatches: 40, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
107 6 0.03
108 186 0.97
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (108 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGATAAATGGGTAATTTTATAAATCAAGGGTAATTTG
GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAACTG
Found at i:38203140 original size:27 final size:27
Alignment explanation
Indices: 38202774--38203133 Score: 261
Period size: 27 Copynumber: 13.3 Consensus size: 27
38202764 GAGGGTAAAA
** * *
38202774 TGGTAATTTTGTAAATCAAGGGTACTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** *
38202801 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** * **
38202828 TAATAATTTTGCAAACTGAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** * * *
38202855 CAGTAATTTTACAAATCGAGGATATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* * * * ** *
38202882 GGGTAGTTTTATAAATCGGGGGTAATT
1 TGGTAATTTTACAAACCAAGGGTATTT
** *
38202909 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*** *****
38202936 CAATAATTTTACAGGTTGAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** * * ** *
38202963 CAGTAACTTCACAAATTAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
38202990 TGGTAATTTTACAAACTAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* * *
38203017 TGATAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
38203044 TGGTAATTTTACAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* * *
38203071 TGGTAATTTTATAAACAAAAGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* *
38203098 TAGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
38203125 TGGTAATTT
1 TGGTAATTT
38203134 GGTAAACTAA
Statistics
Matches: 271, Mismatches: 62, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 271 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
TGGTAATTTTACAAACCAAGGGTATTT
Found at i:38204289 original size:42 final size:44
Alignment explanation
Indices: 38204197--38204357 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 44
38204187 AATGACAACA
* * * *
38204197 TCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCACTA
1 TCCCAGACAGTGGTCTTACACGAAATCAAATATCGATGCCAATG
38204240 TCCCAGACAG-GGTCTTACACGAAATCAAATAT-GATGCCAATG
1 TCCCAGACAGTGGTCTTACACGAAATCAAATATCGATGCCAATG
* *
38204282 TCCCAGACA-TAGTCTTACACGTAAATCACAA-ATCGATGTCAATG
1 TCCCAGACAGTGGTCTTACACG-AAATCA-AATATCGATGCCAATG
* * *
38204326 TCCCAGA-TGTGGTCTTACACGATATCACATAT
1 TCCCAGACAGTGGTCTTACACGAAATCAAATAT
38204358 TGAAATCCTA
Statistics
Matches: 101, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
42 28 0.28
43 43 0.43
44 30 0.30
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (44 bp):
TCCCAGACAGTGGTCTTACACGAAATCAAATATCGATGCCAATG
Found at i:38204341 original size:86 final size:85
Alignment explanation
Indices: 38204197--38204357 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
38204187 AATGACAACA
* * * *
38204197 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACACGA
1 TCCCAGACATAGTCTTACACGTAATCAAATATCGATGCCAATATCCCAGACAGGGTCTTACACGA
38204262 AATCAAATATGATGCCAATG
66 AATCAAATATGATGCCAATG
* * *
38204282 TCCCAGACATAGTCTTACACGTAAATCACAA-ATCGATGTCAATGTCCCAGA-TGTGGTCTTACA
1 TCCCAGACATAGTCTTACACGT-AATCA-AATATCGATGCCAATATCCCAGACAG-GGTCTTACA
* *
38204345 CGATATCACATAT
63 CGAAATCAAATAT
38204358 TGAAATCCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 20 0.31
86 42 0.66
87 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (85 bp):
TCCCAGACATAGTCTTACACGTAATCAAATATCGATGCCAATATCCCAGACAGGGTCTTACACGA
AATCAAATATGATGCCAATG
Found at i:38207128 original size:28 final size:27
Alignment explanation
Indices: 38207096--38207197 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
38207086 ACTTGTAATA
38207096 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
*
38207124 GGGCTAGGCCCAGTATACTCTGATACTG-TAAA
1 GGGCTAGGCCCAG---A-T-TGATACTGAT-AT
* **
38207156 GGGCTATGGCCCAGATTAATAAGGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
38207184 GGGCTAAGGCCCAG
1 GGGCT-AGGCCCAG
38207198 TTAACTCTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
27 7 0.12
28 24 0.40
29 3 0.05
30 2 0.03
31 2 0.03
32 15 0.25
33 7 0.12
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTGATACTGATAT
Found at i:38207159 original size:60 final size:62
Alignment explanation
Indices: 38207089--38207208 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 62
38207079 TATCTTGACT
* **
38207089 TGTAATAGGGCTACGGCCCAGATTGATACTGATATGGGCT-AGGCCCAG-TATACTCTGATAC
1 TGTAATAGGGCTACGGCCCAGATTAATAAGGATATGGGCTAAGGCCCAGTTA-ACTCTGATAC
*
38207150 TGTAA-AGGGCTATGGCCCAGATTAATAAGGATATGGGCTAAGGCCCAGTTAACTCTGAT
1 TGTAATAGGGCTACGGCCCAGATTAATAAGGATATGGGCTAAGGCCCAGTTAACTCTGAT
38207209 TTCTGAATAG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
60 30 0.57
61 21 0.40
62 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (62 bp):
TGTAATAGGGCTACGGCCCAGATTAATAAGGATATGGGCTAAGGCCCAGTTAACTCTGATAC
Found at i:38211021 original size:20 final size:21
Alignment explanation
Indices: 38210978--38211023 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
38210968 CCTGTTTTGT
38210978 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
38210998 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
38211017 TATGGGC
1 TATGGGC
38211024 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:38215058 original size:19 final size:19
Alignment explanation
Indices: 38215034--38215072 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
38215024 AACCATATAG
*
38215034 ACAGAACAATAGTTCAAAC
1 ACAGAACAATACTTCAAAC
38215053 ACAGAACAATACTTCAAAC
1 ACAGAACAATACTTCAAAC
38215072 A
1 A
38215073 TCAATAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (19 bp):
ACAGAACAATACTTCAAAC
Found at i:38217388 original size:31 final size:31
Alignment explanation
Indices: 38217339--38217424 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
38217329 CGAAGCCTTT
* *
38217339 TCATACCAGTGGGCCGAAGCCTTTTCATAAA
1 TCATATCACTGGGCCGAAGCCTTTTCATAAA
*
38217370 TCATATCACTGGGACGAAGCCTTTTCATAAA
1 TCATATCACTGGGCCGAAGCCTTTTCATAAA
*
38217401 TCATTTCACTGGGCCGAAGCCTTT
1 TCATATCACTGGGCCGAAGCCTTT
38217425 ACTGTAAACG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
TCATATCACTGGGCCGAAGCCTTTTCATAAA
Found at i:38217496 original size:42 final size:42
Alignment explanation
Indices: 38217449--38217539 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
38217439 GGCCCATAGG
* ** *
38217449 CCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAA
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAA
*
38217491 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAA
38217533 CCCATTT
1 CCCATTT
38217540 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (42 bp):
CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAA
Found at i:38217761 original size:26 final size:26
Alignment explanation
Indices: 38217684--38217858 Score: 219
Period size: 26 Copynumber: 6.8 Consensus size: 26
38217674 CCTCTTTAAT
**
38217684 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
38217709 AACTGGGGCA-AAGTCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
38217734 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
38217760 AACTGAGGCATAAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
***
38217786 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
38217812 AATTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
38217838 AAATTGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
38217859 GTACTTCCTC
Statistics
Matches: 128, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 32 0.25
26 96 0.75
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:38217802 original size:52 final size:52
Alignment explanation
Indices: 38217672--38217858 Score: 267
Period size: 52 Copynumber: 3.7 Consensus size: 52
38217662 CTGGAGGCCT
*
38217672 AGCCTCTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
*
38217720 AGTCC-TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCATA
1 AG-CCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
* *
38217772 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTTGGTAAATTGGGGCATA
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
* * *
38217824 AGCCCTTTTCAATAAAATTGGGCATAAGCCCTTTT
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTT
38217859 GTACTTCCTC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
48 5 0.04
49 5 0.04
50 10 0.08
51 26 0.21
52 79 0.63
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (52 bp):
AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:38218808 original size:27 final size:27
Alignment explanation
Indices: 38218778--38218829 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
38218768 GTAAATCTAC
38218778 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
38218805 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
38218830 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:38218891 original size:27 final size:27
Alignment explanation
Indices: 38218827--38218964 Score: 111
Period size: 27 Copynumber: 5.1 Consensus size: 27
38218817 TTTCTATAAT
* * *
38218827 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
**
38218855 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* ***
38218882 TTTTACAAAT-TGAGGGTATTTCAATAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
** *
38218909 TTGAACAAA-CTAGTGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
38218936 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
38218963 TT
1 TT
38218965 CTATCCTACA
Statistics
Matches: 87, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.01
27 78 0.90
28 8 0.09
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:38218979 original size:81 final size:81
Alignment explanation
Indices: 38218842--38218991 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
38218832 GAAAGTCAAG
* ** * **
38218842 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAAT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATCAAGGGTATTTCAAT
38218907 AATTGAACAAACTAGT
66 AATTGAACAAACTAGT
**
38218923 GGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTATCCTA-CAAGGGTATTTCA
1 GGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTA-CAAATCAAGGGTATTTCA
*
38218986 GTAATT
64 ATAATT
38218992 TCACAATCGA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
80 1 0.02
81 55 0.95
82 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACAAATCAAGGGTATTTCAAT
AATTGAACAAACTAGT
Found at i:38219032 original size:27 final size:27
Alignment explanation
Indices: 38218996--38219179 Score: 235
Period size: 27 Copynumber: 6.8 Consensus size: 27
38218986 GTAATTTCAC
*
38218996 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
38219023 AA-CTGAGGGTAAAATGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
38219050 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
38219077 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
38219104 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
38219131 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
38219158 AATCAAGGGTAAAATGGTAATT
1 AATCGAGGGTAAAACGGTAATT
38219180 CTACAAATTG
Statistics
Matches: 140, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 138 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:38219071 original size:54 final size:54
Alignment explanation
Indices: 38218996--38219179 Score: 262
Period size: 54 Copynumber: 3.4 Consensus size: 54
38218986 GTAATTTCAC
* * * * *
38218996 AATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAATGATAATTTTGTA
1 AATCAAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
* *
38219050 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* *
38219104 AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
*
38219158 AATCAAGGGTAAAATGGTAATT
1 AATCAAGGGTAAAACGGTAATT
38219180 CTACAAATTG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
54 118 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (54 bp):
AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:38233692 original size:22 final size:22
Alignment explanation
Indices: 38233666--38233732 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 22
38233656 ATGTTTATTG
*
38233666 GTGATATATGCTTAAATGTTAT
1 GTGATATATGCTTAAATGTAAT
*
38233688 GTGAT-TAT-C-T--GTGTAAT
1 GTGATATATGCTTAAATGTAAT
*
38233705 GTGATATATGCTTAAAAGTGAAT
1 GTGATATATGCTTAAATGT-AAT
38233728 GTGAT
1 GTGAT
38233733 TGCCATGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
17 10 0.29
18 3 0.09
19 2 0.06
20 2 0.06
21 3 0.09
22 7 0.20
23 8 0.23
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (22 bp):
GTGATATATGCTTAAATGTAAT
Found at i:38233742 original size:39 final size:39
Alignment explanation
Indices: 38233666--38233742 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
38233656 ATGTTTATTG
* * * **
38233666 GTGATATATGCTTAAATGTTATGTGATTATCTGTGTAAT
1 GTGATATATGCTTAAAAGTAATGTGATTAGCCATGTAAT
38233705 GTGATATATGCTTAAAAGTGAATGTGATT-GCCATGTAA
1 GTGATATATGCTTAAAAGT-AATGTGATTAGCCATGTAA
38233743 ATGAACTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 24 0.75
40 8 0.25
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.40
Consensus pattern (39 bp):
GTGATATATGCTTAAAAGTAATGTGATTAGCCATGTAAT
Found at i:38234624 original size:20 final size:20
Alignment explanation
Indices: 38234599--38234645 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
38234589 GTGTAGTCAC
*
38234599 ACACGCTCATGTGACTTGGG
1 ACACGCCCATGTGACTTGGG
*
38234619 ACACGCCCGTGTGACTTGGG
1 ACACGCCCATGTGACTTGGG
38234639 ACACGCC
1 ACACGCC
38234646 TGTGTCCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (20 bp):
ACACGCCCATGTGACTTGGG
Found at i:38234650 original size:20 final size:20
Alignment explanation
Indices: 38234608--38234650 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
38234598 CACACGCTCA
38234608 TGTGACTTGGGACACGCCCG
1 TGTGACTTGGGACACGCCCG
*
38234628 TGTGACTTGGGACACGCCTG
1 TGTGACTTGGGACACGCCCG
38234648 TGT
1 TGT
38234651 CCTCAACCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.35, T:0.26
Consensus pattern (20 bp):
TGTGACTTGGGACACGCCCG
Found at i:38239187 original size:189 final size:189
Alignment explanation
Indices: 38238954--38239325 Score: 615
Period size: 189 Copynumber: 2.0 Consensus size: 189
38238944 AGACTTATTG
*
38238954 ATACCTAACAAAAAGGTATCGGTACTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCCT
1 ATACCTAACAAAAAGGTATCGATACTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCCT
*
38239019 ATTTTGGTTTCAATTTCTAGAATCCATCGATACCTAACAAAAAGGT-TTCAATA-CTGTATCGAT
66 ATTTTGGTTTCAATTTCTAGAATCCATCAATACCTAACAAAAAGGTATT-AATACCT-TATCGAT
* *
38239082 ACTTGAAAAATTGTTTGCATGTCAGTAGCTTATTTTGGTATCAATTTCTAGAAATCCATCA
129 ACTTGAAAAATTGTTTGCAAGTCAGTAGCCTATTTTGGTATCAATTTCTAGAAATCCATCA
*
38239143 ATACCTAACAAAAAGGTATTGATACCT-TATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCC
1 ATACCTAACAAAAAGGTATCGATA-CTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCC
*
38239207 TATTTTGGTTTCAATTTCTAGAATCCATCAATACCTAACAAAAAGGTATTGATACCTTATCGATA
65 TATTTTGGTTTCAATTTCTAGAATCCATCAATACCTAACAAAAAGGTATTAATACCTTATCGATA
** *
38239272 CTTGGCAAATTGTTTGCAAGTCAGTAGCCTATTTTGGTATCCATTTCTAGAAAT
130 CTTGAAAAATTGTTTGCAAGTCAGTAGCCTATTTTGGTATCAATTTCTAGAAAT
38239326 TTATCGATCC
Statistics
Matches: 171, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
189 165 0.96
190 6 0.04
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (189 bp):
ATACCTAACAAAAAGGTATCGATACTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCCT
ATTTTGGTTTCAATTTCTAGAATCCATCAATACCTAACAAAAAGGTATTAATACCTTATCGATAC
TTGAAAAATTGTTTGCAAGTCAGTAGCCTATTTTGGTATCAATTTCTAGAAATCCATCA
Found at i:38239189 original size:95 final size:94
Alignment explanation
Indices: 38238954--38239323 Score: 584
Period size: 94 Copynumber: 3.9 Consensus size: 94
38238944 AGACTTATTG
* *
38238954 ATACCTAACAAAAAGGTATCGGTACTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCCT
1 ATACCTAACAAAAAGGTATTGATACTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCCT
* *
38239019 ATTTTGGTTTCAATTTCTAGAATCCATCG
66 ATTTTGGTATCAATTTCTAGAATCCATCA
* ** * *
38239048 ATACCTAACAAAAAGGT-TTCAATACTGTATCGATACTTGAAAAATTGTTTGCATGTCAGTAGCT
1 ATACCTAACAAAAAGGTATT-GATACTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCC
38239112 TATTTTGGTATCAATTTCTAGAAATCCATCA
65 TATTTTGGTATCAATTTCTAG-AATCCATCA
38239143 ATACCTAACAAAAAGGTATTGATACCT-TATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCC
1 ATACCTAACAAAAAGGTATTGATA-CTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCC
*
38239207 TATTTTGGTTTCAATTTCTAGAATCCATCA
65 TATTTTGGTATCAATTTCTAGAATCCATCA
38239237 ATACCTAACAAAAAGGTATTGATACCT-TATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCC
1 ATACCTAACAAAAAGGTATTGATA-CTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCC
*
38239301 TATTTTGGTATCCATTTCTAGAA
65 TATTTTGGTATCAATTTCTAGAA
38239324 ATTTATCGAT
Statistics
Matches: 255, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
93 1 0.00
94 169 0.66
95 81 0.32
96 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (94 bp):
ATACCTAACAAAAAGGTATTGATACTGTATCGATACTTGGCAAATTGTTTGCAAGTCAGTAGCCT
ATTTTGGTATCAATTTCTAGAATCCATCA
Found at i:38248834 original size:3 final size:3
Alignment explanation
Indices: 38248826--38248855 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
38248816 GCAATAAACA
*
38248826 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38248856 GCAGTGCAAG
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:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:38249730 original size:56 final size:56
Alignment explanation
Indices: 38249667--38249777 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
38249657 GTTTAAATGA
38249667 AACTTTTTTGCTAATTAAACTGAGTTATTG-CCCCCCCCCCCAAAAAAAAAACAAT
1 AACTTTTTTGCTAATTAAACTGAGTTATTGCCCCCCCCCCCCAAAAAAAAAACAAT
38249722 NAACTTTTTTGCTAATTAAACTGAGTTATTGCCCCCCCCCCCCCAAAAAAAAAACA
1 -AACTTTTTTGCTAATTAAACTGAGTTATTG-CCCCCCCCCCCCAAAAAAAAAACA
38249778 TACCTTACTG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
56 30 0.57
58 23 0.43
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.26
Consensus pattern (56 bp):
AACTTTTTTGCTAATTAAACTGAGTTATTGCCCCCCCCCCCCAAAAAAAAAACAAT
Found at i:38256115 original size:39 final size:39
Alignment explanation
Indices: 38256051--38256167 Score: 135
Period size: 39 Copynumber: 3.0 Consensus size: 39
38256041 AGACTAGCTT
* * * * * *
38256051 TAGATTCTGGCTTAGCATTGATAACCAATGAAGTAGAAG
1 TAGAGTCTGGATTAGCACTGTTAACCAGTGAAGTTGAAG
* *
38256090 TAGAGTCTGGATTAGCAGTGTTAACCAGTGAATTTGAAG
1 TAGAGTCTGGATTAGCACTGTTAACCAGTGAAGTTGAAG
* * *
38256129 TAGAGTCCGGTTTAGCACTGTTAAGCAGTGAAGTTGAAG
1 TAGAGTCTGGATTAGCACTGTTAACCAGTGAAGTTGAAG
38256168 CAGGTGACTC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (39 bp):
TAGAGTCTGGATTAGCACTGTTAACCAGTGAAGTTGAAG
Found at i:38259150 original size:79 final size:80
Alignment explanation
Indices: 38259027--38259198 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 80
38259017 GGACTAAGAT
* *
38259027 CCGAAGGCATTTGTGCGAGATGCTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
*
38259092 -ATTCCGGGCTAAG-C
66 TA-ACCGGGCTAAGTC
* * * *
38259106 CCGAAGGCATTTGTGTGAGTTACTAAATCCGGATTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
*
38259170 ATAACCGGGCTATGTC
65 ATAACCGGGCTAAGTC
*
38259186 CCGAATGCATTTG
1 CCGAAGGCATTTG
38259199 AACGAGTAGC
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 66 0.81
80 14 0.17
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
TAACCGGGCTAAGTC
Found at i:38259205 original size:40 final size:40
Alignment explanation
Indices: 38258974--38259198 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
38258964 TTGAATGATG
* * * *
38258974 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
38259014 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATGCTATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
38259054 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38259094 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
**
38259133 TCCGGATTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
38259174 -CCGGGCTATGTCCCGAATGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38259199 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38259217 original size:119 final size:120
Alignment explanation
Indices: 38258974--38259204 Score: 290
Period size: 119 Copynumber: 1.9 Consensus size: 120
38258964 TTGAATGATG
*
38258974 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
38259039 GTGCGAGATGCTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTATAACCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * *
38259094 TCCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGATTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
38259156 TTGTGCGAGTTACTATAACCGGGCTATG-TCCCGAATGCATTTGAACGAG
64 TTGTGCGAGATACTATAACCGGACTAAGAT-CCGAAGGCATTTGAACGAG
38259205 TAGCTATATC
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 2 0.02
119 76 0.80
120 17 0.18
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAACCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:38259229 original size:79 final size:80
Alignment explanation
Indices: 38259027--38259231 Score: 215
Period size: 79 Copynumber: 2.6 Consensus size: 80
38259017 GGACTAAGAT
** * *
38259027 CCGAAGGCATTTGTGCGAGAT-GCTATATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAGTTAGCTATATCCGGATTAA-ATTCCGAAGGCATTTGTGCGAGATAC
*
38259090 TAATTCCGGGCTAAGC
65 TAATACCGGGCTAAGC
*** * * * *
38259106 CCGAAGGCATTTGTGTGAGTTA-CTAAATCCGGATTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGAACGAGTTAGCTATATCCGGATTAAATTCCGAAGGCATTTGTGCGAGATACT
*
38259170 -ATAACCGGGCTATGTC
66 AAT-ACCGGGCTAAG-C
*
38259186 CCGAATGCATTTGAACGAG-TAGCTATATCCGG-TTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTAGCTATATCCGGATTAAATTCCGAAGG
38259232 TACGTGATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.02
79 78 0.74
80 25 0.24
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGAACGAGTTAGCTATATCCGGATTAAATTCCGAAGGCATTTGTGCGAGATACT
AATACCGGGCTAAGC
Found at i:38264481 original size:131 final size:131
Alignment explanation
Indices: 38264247--38264499 Score: 506
Period size: 131 Copynumber: 1.9 Consensus size: 131
38264237 TTGTCTTCTC
38264247 ATTTTAATTAGACATTTTGTTGTGTTTTAGTTTATCCAATCACATTAGATTGATTGAGTCAGCAC
1 ATTTTAATTAGACATTTTGTTGTGTTTTAGTTTATCCAATCACATTAGATTGATTGAGTCAGCAC
38264312 TCAGAAGGTTCAGAATCATACATCATCCTCCCTATCAATATCAATTTTGTAATCAATGAATAAAA
66 TCAGAAGGTTCAGAATCATACATCATCCTCCCTATCAATATCAATTTTGTAATCAATGAATAAAA
38264377 T
131 T
38264378 ATTTTAATTAGACATTTTGTTGTGTTTTAGTTTATCCAATCACATTAGATTGATTGAGTCAGCAC
1 ATTTTAATTAGACATTTTGTTGTGTTTTAGTTTATCCAATCACATTAGATTGATTGAGTCAGCAC
38264443 TCAGAAGGTTCAGAATCATACATCATCCTCCCTATCAATATCAATTTTGTAATCAAT
66 TCAGAAGGTTCAGAATCATACATCATCCTCCCTATCAATATCAATTTTGTAATCAAT
38264500 CATACATACA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 122 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (131 bp):
ATTTTAATTAGACATTTTGTTGTGTTTTAGTTTATCCAATCACATTAGATTGATTGAGTCAGCAC
TCAGAAGGTTCAGAATCATACATCATCCTCCCTATCAATATCAATTTTGTAATCAATGAATAAAA
T
Found at i:38264507 original size:4 final size:4
Alignment explanation
Indices: 38264500--38264534 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
38264490 TGTAATCAAT
38264500 CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CAT
38264535 GCATCTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:38267671 original size:14 final size:14
Alignment explanation
Indices: 38267652--38267679 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38267642 GCAAACCCCC
38267652 TAAGAATATCTCTA
1 TAAGAATATCTCTA
38267666 TAAGAATATCTCTA
1 TAAGAATATCTCTA
38267680 AACATGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TAAGAATATCTCTA
Found at i:38269707 original size:22 final size:22
Alignment explanation
Indices: 38269679--38269722 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38269669 GGCTAAGGTG
38269679 ATGGAGGAATAGTTGGATTTTA
1 ATGGAGGAATAGTTGGATTTTA
*
38269701 ATGGAGGAATAGTTTGATTTTA
1 ATGGAGGAATAGTTGGATTTTA
38269723 GTTTGTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.39
Consensus pattern (22 bp):
ATGGAGGAATAGTTGGATTTTA
Found at i:38270627 original size:34 final size:34
Alignment explanation
Indices: 38270584--38270654 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
38270574 CATAAACACG
38270584 TTTAATGAATGTCAAATGATCTCATTTGAAGTGT
1 TTTAATGAATGTCAAATGATCTCATTTGAAGTGT
38270618 TTTAATGAATGTCAAATGATCTCATTTGAAGTGT
1 TTTAATGAATGTCAAATGATCTCATTTGAAGTGT
38270652 TTT
1 TTT
38270655 GAGATTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (34 bp):
TTTAATGAATGTCAAATGATCTCATTTGAAGTGT
Found at i:38276418 original size:27 final size:27
Alignment explanation
Indices: 38276370--38276525 Score: 151
Period size: 27 Copynumber: 5.8 Consensus size: 27
38276360 GCGAGGCTGC
* *
38276370 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
38276397 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
38276423 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
** * * *
38276450 CAGATAATCATGGTATAGCCACCA-AAA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
38276477 CAGATATATGTGGCAGAGACACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
38276504 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
38276526 TAGGACGCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
26 11 0.10
27 89 0.84
28 6 0.06
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38276470 original size:54 final size:54
Alignment explanation
Indices: 38276388--38276525 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
38276378 GTGACGAAGT
** * * *
38276388 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCATGGCATAGCCACCAAAACAGATATATGTGGCAGAGA
*
38276442 CACCAGATCAGATAATCATGGTATAGCCACCAAAACAGATATATGTGGCAGAGA
1 CACCAGATCAGATAATCATGGCATAGCCACCAAAACAGATATATGTGGCAGAGA
**
38276496 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATCATGGCATAGCCAC
38276526 TAGGACGCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 5 0.07
54 69 0.93
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCATGGCATAGCCACCAAAACAGATATATGTGGCAGAGA
Found at i:38279471 original size:12 final size:12
Alignment explanation
Indices: 38279454--38279478 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38279444 TGTCAAACAT
38279454 TTCCCTACAAAC
1 TTCCCTACAAAC
38279466 TTCCCTACAAAC
1 TTCCCTACAAAC
38279478 T
1 T
38279479 CCGTTACTTC
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:0.32, C:0.40, G:0.00, T:0.28
Consensus pattern (12 bp):
TTCCCTACAAAC
Found at i:38282589 original size:46 final size:46
Alignment explanation
Indices: 38282529--38282791 Score: 337
Period size: 46 Copynumber: 5.9 Consensus size: 46
38282519 TTTGACGTGA
* * * * * *
38282529 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
38282575 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
38282621 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
38282667 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
38282713 TGCCATGGTATCTTTCAACCATCGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
38282751 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
38282792 TAGAGAGCAC
Statistics
Matches: 193, Mismatches: 15, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 32 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 147 0.76
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:38282759 original size:38 final size:38
Alignment explanation
Indices: 38282708--38282783 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
38282698 CATTTCATAT
38282708 CAGGTTGCCATGGTATCTTTCAACCATCGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATCGTCTTACACA
*
38282746 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATCGTCTTACACA
38282784 TTTCATATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATCGTCTTACACA
Found at i:38286853 original size:27 final size:27
Alignment explanation
Indices: 38286805--38286963 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
38286795 GCGACGCTGC
* *
38286805 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
38286832 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
38286858 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
38286885 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
38286912 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
38286939 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
38286964 GATGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38286898 original size:54 final size:54
Alignment explanation
Indices: 38286823--38286963 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
38286813 GTGACGAAGT
*
38286823 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
38286877 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
38286931 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
38286964 GATGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:38288616 original size:26 final size:26
Alignment explanation
Indices: 38288585--38288692 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
38288575 TGAAATGCCC
*
38288585 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
38288611 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
38288637 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
38288663 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38288689 ATCA
1 ATCA
38288693 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38289279 original size:43 final size:42
Alignment explanation
Indices: 38289189--38289289 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 42
38289179 AGCTCGTACA
* ** *
38289189 ATGCCATATCCCAGATACGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAGATACGGTCTTACATGAAATCAAATATCG
* *
38289231 GTGCCACTGTCCCAGATAGGGTCTTACATGAAATCAAATAAT-G
1 ATGCCA-TGTCCCAGATACGGTCTTACATGAAATCAAAT-ATCG
38289274 ATGCCAATGTCCCAGA
1 ATGCC-ATGTCCCAGA
38289290 CATCATTGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
42 5 0.10
43 41 0.84
44 3 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGATACGGTCTTACATGAAATCAAATATCG
Found at i:38291306 original size:40 final size:40
Alignment explanation
Indices: 38291223--38291442 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
38291213 ACCCAAGTAT
** * *
38291223 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
38291261 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAGATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
38291301 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
38291341 CTTTGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * * *
38291381 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
38291421 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
38291443 CATTCGAATA
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 120 0.79
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:38297143 original size:21 final size:20
Alignment explanation
Indices: 38297127--38297164 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38297117 AGTTAATCCA
38297127 AAAAAGAATCGATTTAAACC
1 AAAAAGAATCGATTTAAACC
* *
38297147 ACAATGAATCGATTTAAA
1 AAAAAGAATCGATTTAAA
38297165 TAATAAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAAAGAATCGATTTAAACC
Found at i:38297176 original size:20 final size:20
Alignment explanation
Indices: 38297153--38297204 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
38297143 AACCACAATG
38297153 AATCGATTTAAATAATAAAC
1 AATCGATTTAAATAATAAAC
* **
38297173 AATCGGTTTAAATAATAATG
1 AATCGATTTAAATAATAAAC
*
38297193 AATCAATTTAAA
1 AATCGATTTAAA
38297205 AGAACATTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (20 bp):
AATCGATTTAAATAATAAAC
Found at i:38305710 original size:46 final size:46
Alignment explanation
Indices: 38305638--38305946 Score: 422
Period size: 46 Copynumber: 6.7 Consensus size: 46
38305628 AATAGAAAAC
*
38305638 GTGTAAGACCATGGTTGAAAGTTACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
* *
38305684 GTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
38305730 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
* *
38305776 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
* * ***
38305822 GTTTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATGAAAT
** * * *
38305869 GAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAAT
* * * *
38305915 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
38305947 TCATGTCGAA
Statistics
Matches: 239, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 199 0.83
47 39 0.16
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
Done.