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 50 of 284
Found at i:17693420 original size:93 final size:93
Alignment explanation
Indices: 17693261--17693432 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
17693251 GGATGGTTGA
* *
17693261 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGCTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGCTGAGT
17693326 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
17693354 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGCTGAGT
17693419 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17693433 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:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGCTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17695172 original size:43 final size:43
Alignment explanation
Indices: 17695121--17695296 Score: 239
Period size: 43 Copynumber: 4.1 Consensus size: 43
17695111 CCGGCATTAC
* * * *
17695121 GCCTGCTAGGCATGAAGGCCCAAATACATATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAA
* *
17695164 GCTTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAA
* *
17695207 GCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAA
* * *
17695250 GCCTGCTAGGCACGAAGACCCGAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAA
17695291 GCCTGC
1 GCCTGC
17695297 GGGATTTATC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 103 0.86
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.14
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAA
Found at i:17695322 original size:38 final size:38
Alignment explanation
Indices: 17695267--17695351 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
17695257 AGGCACGAAG
* *
17695267 ACCCGAATATAATACCAGCACTAGGCCTGCGGGATTTA
1 ACCCGAATATAATACCAGCACGAAGCCTGCGGGATTTA
* *
17695305 TCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTA
1 ACCCGAATATAATACCAGCACGAAGCCTGCGGGATTTA
17695343 ACCCGAATA
1 ACCCGAATA
17695352 CACATCAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
ACCCGAATATAATACCAGCACGAAGCCTGCGGGATTTA
Found at i:17706401 original size:56 final size:56
Alignment explanation
Indices: 17706334--17706445 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
17706324 GATTGATAGC
*
17706334 AGGAATGAGGAGTATAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAG
1 AGGAATGAGGAGTATAAACTCCTCAAACCACCATGACCATTCACCGAAGAGGTAAG
* * *
17706390 AGGAATGAGGAGTATAAACTCTTCAAACCACCCTGACCATTCACCGGAGAGGTAAG
1 AGGAATGAGGAGTATAAACTCCTCAAACCACCATGACCATTCACCGAAGAGGTAAG
17706446 TCGAGCTTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (56 bp):
AGGAATGAGGAGTATAAACTCCTCAAACCACCATGACCATTCACCGAAGAGGTAAG
Found at i:17710034 original size:42 final size:42
Alignment explanation
Indices: 17709838--17710041 Score: 238
Period size: 42 Copynumber: 4.9 Consensus size: 42
17709828 AACTCATACT
* * *
17709838 ATGCC-ATATCCCAGATATGGTCTTACATGTTATAGT-ATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AATA-TCATATCG
* * *
17709880 ATGCCAATAG-CCCAG-CTATTGTCTTACACGAATCTCATATCG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACATGAATATCATATCG
* * * * *
17709922 ATGCCAATGTCCCAGACATGATCTTACACGAATCTCATGTCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGAATATCATATCG
17709964 ATGCCAATGTCCCAGACATGGTCTTACATGAATATCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAATATCATATCG
17710006 ATGCCAATGTCCCAGACATGGTCTTACATGAA-ATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGAATATCA
17710042 CATCTCGGTA
Statistics
Matches: 141, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
41 6 0.04
42 116 0.82
43 19 0.13
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAATATCATATCG
Found at i:17715987 original size:33 final size:33
Alignment explanation
Indices: 17715944--17716008 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
17715934 AAAATAAACC
*
17715944 CATAATCACTAAACCATCACCATTTCCACAACT
1 CATAACCACTAAACCATCACCATTTCCACAACT
17715977 CATAACCACTAAACCATCACCATTTCCACAAC
1 CATAACCACTAAACCATCACCATTTCCACAAC
17716009 AATCTTACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (33 bp):
CATAACCACTAAACCATCACCATTTCCACAACT
Found at i:17716983 original size:84 final size:83
Alignment explanation
Indices: 17716871--17717077 Score: 210
Period size: 84 Copynumber: 2.5 Consensus size: 83
17716861 TCTCATATAA
* * * * *
17716871 CTCATA-CGATGCC-ATATCCCAGATATGGTCTTACATGTTAT-AGTATACCGATGCCAATAG-C
1 CTCATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AATCTG-ATACCGATGCCAAT-GTC
*
17716932 CTAG-CTACGGTCTTCAT-GAAT
63 CCAGAC-ACGGTCTT-ATAGAAT
* **
17716953 CTCATATCGATGCCAATGTCCCAGACATGGTCTTTCACGAATCTGATATTGATGCCAATGTCCCA
1 CTCATATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCTGATACCGATGCCAATGTCCCA
*
17717018 GACATGGTCTTATAAGAAT
66 GACACGGTCTTAT-AGAAT
* *
17717037 CTCATATTGATGCCAATGTCCCAGGCATGGTCTTACACGAA
1 CTCATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
17717078 ATGACATCCT
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
82 9 0.09
83 32 0.30
84 64 0.61
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (83 bp):
CTCATATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCTGATACCGATGCCAATGTCCCA
GACACGGTCTTATAGAAT
Found at i:17717008 original size:42 final size:42
Alignment explanation
Indices: 17716940--17717077 Score: 199
Period size: 42 Copynumber: 3.3 Consensus size: 42
17716930 GCCTAGCTAC
* *
17716940 GGTC-TTCATGAATCTCATATCGATGCCAATGTCCCAGACAT
1 GGTCTTTCACGAATCTCATATTGATGCCAATGTCCCAGACAT
*
17716981 GGTCTTTCACGAATCTGATATTGATGCCAATGTCCCAGACAT
1 GGTCTTTCACGAATCTCATATTGATGCCAATGTCCCAGACAT
* *
17717023 GGTCTTAT-AAGAATCTCATATTGATGCCAATGTCCCAGGCAT
1 GGTCTT-TCACGAATCTCATATTGATGCCAATGTCCCAGACAT
*
17717065 GGTCTTACACGAA
1 GGTCTTTCACGAA
17717078 ATGACATCCT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.05
42 81 0.94
43 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (42 bp):
GGTCTTTCACGAATCTCATATTGATGCCAATGTCCCAGACAT
Found at i:17723679 original size:40 final size:39
Alignment explanation
Indices: 17723629--17723716 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
17723619 CAAATCCAAT
* *
17723629 CACCACCACAAAGCATGCGGGACTTTAACACCGAATATAA
1 CACCAGCACAAAGCATACGGGACTTTAAC-CCGAATATAA
* * * *
17723669 TACCAGCACAAAGCCTACGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCATACGGGACTTTAACCCGAATATAA
17723708 CACCAGCAC
1 CACCAGCAC
17723717 GAATGCCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 17 0.41
40 24 0.59
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.15
Consensus pattern (39 bp):
CACCAGCACAAAGCATACGGGACTTTAACCCGAATATAA
Found at i:17723736 original size:39 final size:39
Alignment explanation
Indices: 17723663--17723976 Score: 441
Period size: 39 Copynumber: 8.1 Consensus size: 39
17723653 TTAACACCGA
* * *
17723663 ATATAATACCAGCAC-AAAGCCTACGGGACTTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGG
* *
17723702 ATATAACACCAGCACGAATGCCATCGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* * * *
17723741 ATATACCAGCATCACGAATGCCTTCGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* **
17723780 ATATAACACCAGCACGAATGCCTTCGGAACTTAGCTTGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
*
17723819 ATATAACACCAGCACGAATGCCTTCGAGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* * *
17723858 ATATAACACCAGCAAGAATGCCTTTGAGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* * *
17723897 ATATAACACCAGCATGAATGCCTTTGGGACTTAGCCTGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
17723936 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
17723975 AT
1 AT
17723977 GTAATTCTCC
Statistics
Matches: 246, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 236 0.96
40 10 0.04
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
Found at i:17729382 original size:40 final size:39
Alignment explanation
Indices: 17729332--17729575 Score: 147
Period size: 39 Copynumber: 6.2 Consensus size: 39
17729322 CAAATCCAAT
* * *
17729332 CACCACCACAAAGCATACGGGACTTTAAGCCTGAATATAA
1 CACCAGCACAAAGCATACGGGACTTTAACCCAG-ATATAA
* *
17729372 TACCAGCACAAAGCCTACGGGACTTTAACCCAGATATAA
1 CACCAGCACAAAGCATACGGGACTTTAACCCAGATATAA
* * * * * *
17729411 CACCAGCACGAATGCCTTCGGGGC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCATACGGGACTTTAACCCAGATATAA
* * * * *
17729450 CACTAGCACGAATGCCAT-CGGGGC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAG-CATACGGGACTTTAACCCAGATATAA
* * ** * * *
17729489 CACCAGCACGAATGCCTTTGGGGC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCATACGGGACTTTAACCCAGATATAA
* * * * *
17729528 CACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCATACGGGACTTTAACCCAGATATAA
17729567 CACCAGCAC
1 CACCAGCAC
17729576 GAATGCCTTT
Statistics
Matches: 183, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
38 2 0.01
39 140 0.77
40 41 0.22
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (39 bp):
CACCAGCACAAAGCATACGGGACTTTAACCCAGATATAA
Found at i:17729447 original size:39 final size:39
Alignment explanation
Indices: 17729366--17729722 Score: 518
Period size: 39 Copynumber: 9.2 Consensus size: 39
17729356 TTAAGCCTGA
* * * * *
17729366 ATATAATACCAGCAC-AAAGCCTACGGGACTTTAACCCAG
1 ATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGG
*
17729405 ATATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* * *
17729444 ATATAACACTAGCACGAATGCCATCGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* *
17729483 ATATAACACCAGCACGAATGCCTTTGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
17729522 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* *
17729561 ATATAACACCAGCACGAATGCCTTTGAGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* * *
17729600 ATATAACACCAGCATGAATACCTTCGAGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
* * *
17729639 ATTTAACACCAGCATGAATGCCTTCGGGACTTAGCCTGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
*
17729678 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCTGG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
17729717 ATATAA
1 ATATAA
17729723 TTCTCCATTA
Statistics
Matches: 293, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
39 282 0.96
40 11 0.04
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
Found at i:17738054 original size:93 final size:93
Alignment explanation
Indices: 17737895--17738064 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
17737885 CCCCTAAGTA
** *
17737895 AACTCAGACTCAACTCAACAAGCTCGCCCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
17737960 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* * * * * *
17737988 AACTCGGACTCAACTCAACGAGTTCGAACATTCGTATCCGTAAGTGAACTTGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
17738053 GAGTTCGGATGC
66 GAGTTCGGATGC
17738065 TCAACCATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:17742952 original size:25 final size:25
Alignment explanation
Indices: 17742918--17742967 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
17742908 ATTTTTCTTT
17742918 CTCAGCTCTCTCTAGGCAGTCTCTG
1 CTCAGCTCTCTCTAGGCAGTCTCTG
17742943 CTCAGCTCTCTCTAGGCAGTCTCTG
1 CTCAGCTCTCTCTAGGCAGTCTCTG
17742968 ATAAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.36, G:0.20, T:0.32
Consensus pattern (25 bp):
CTCAGCTCTCTCTAGGCAGTCTCTG
Found at i:17745613 original size:46 final size:47
Alignment explanation
Indices: 17745493--17745616 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 47
17745483 AACCCGCCCC
* * * *
17745493 TAAGTGAACTCGGACTCAACTCAACGAGCTC-AGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCATCCA
*
17745539 TAAGTGAACTCGGACTCAACTCAACGAGTTCGA-ACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCATCCA
17745585 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
17745617 GATGCTCAAC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 71 0.99
47 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCATCCA
Found at i:17748229 original size:29 final size:29
Alignment explanation
Indices: 17748163--17748258 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
17748153 AAGTCTACAG
* * *
17748163 ACATACATATGGCCCACTAGG-CCTAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
17748191 TTATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
17748220 ACATTCATATAGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
17748249 ACATTCATAT
1 ACATTCATAT
17748259 ACATGCTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 17 0.29
29 42 0.71
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:17752800 original size:29 final size:29
Alignment explanation
Indices: 17752728--17752853 Score: 157
Period size: 29 Copynumber: 4.4 Consensus size: 29
17752718 AAAGTCTACA
* *
17752728 TACATACATATGGCCCACTAGGCCC-AAT
1 TACATTCATATGGCCCATTAGGCCCAAAT
*
17752756 CT-CATTCATATGGCCCATTAGGCCTAAAT
1 -TACATTCATATGGCCCATTAGGCCCAAAT
*
17752785 TACATTCGTATGGCCCATTAGGCCCAAAT
1 TACATTCATATGGCCCATTAGGCCCAAAT
* * *
17752814 CAAATTCATACGGCCCATTAGGCCCAAAT
1 TACATTCATATGGCCCATTAGGCCCAAAT
*
17752843 GACATTCATAT
1 TACATTCATAT
17752854 ACATGCTTTC
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
28 21 0.25
29 62 0.75
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (29 bp):
TACATTCATATGGCCCATTAGGCCCAAAT
Found at i:17772903 original size:41 final size:41
Alignment explanation
Indices: 17772846--17772927 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
17772836 TTTGAGGGAA
*
17772846 AAATCACGAAACTGATTTTTGAGTTGTGAAACTCAAGATAT
1 AAATCACAAAACTGATTTTTGAGTTGTGAAACTCAAGATAT
17772887 AAATCACAAAACTGATTTTTGAGTTGTGAAACTCAAGATAT
1 AAATCACAAAACTGATTTTTGAGTTGTGAAACTCAAGATAT
17772928 GATTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (41 bp):
AAATCACAAAACTGATTTTTGAGTTGTGAAACTCAAGATAT
Found at i:17774717 original size:26 final size:27
Alignment explanation
Indices: 17774662--17774717 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
17774652 CATTTAACAC
* * * *
17774662 TTAGGGGTATTTTGGTCATTTTTGCCT
1 TTAGGGGCATTTCGGTCAATTTTCCCT
17774689 TTAGGGGCATTTCGGT-AATTTTCCCT
1 TTAGGGGCATTTCGGTCAATTTTCCCT
17774715 TTA
1 TTA
17774718 TTACGGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.48
Consensus pattern (27 bp):
TTAGGGGCATTTCGGTCAATTTTCCCT
Found at i:17775037 original size:29 final size:29
Alignment explanation
Indices: 17774976--17775065 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
17774966 ACATACATGC
* * ** *
17774976 ATATGGCCCATTAGGCCCAATTCATATTC
1 ATATGGCCTATTAGGCCCAAATCACCTTT
17775005 ATATGGCCTATTAGGCCCAAATCACCTTT
1 ATATGGCCTATTAGGCCCAAATCACCTTT
* *
17775034 ATATCGCCTGTTAGGCCCAAATCACC-TT
1 ATATGGCCTATTAGGCCCAAATCACCTTT
17775062 ATAT
1 ATAT
17775066 TCATGCTCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 6 0.11
29 48 0.89
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (29 bp):
ATATGGCCTATTAGGCCCAAATCACCTTT
Found at i:17777804 original size:27 final size:26
Alignment explanation
Indices: 17777746--17777828 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
17777736 ACATATATAG
* * * *
17777746 GGGCAAAACAATCATCTTAGCATATAA
1 GGGCAAAACAGTCATTTTACCACA-AA
* *
17777773 TGGCAAAATAGTCATTTTACCACACAA
1 GGGCAAAACAGTCATTTTACCACA-AA
*
17777800 GGGCAATACAGTCATTTTACCACAAA
1 GGGCAAAACAGTCATTTTACCACAAA
17777826 GGG
1 GGG
17777829 GGTCTAGGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
26 5 0.11
27 41 0.89
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (26 bp):
GGGCAAAACAGTCATTTTACCACAAA
Found at i:17780363 original size:40 final size:40
Alignment explanation
Indices: 17780319--17780446 Score: 247
Period size: 40 Copynumber: 3.2 Consensus size: 40
17780309 AAAAACCAGT
17780319 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
*
17780359 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCAC
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
17780399 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
17780439 ACGAATGC
1 ACGAATGC
17780447 TATGCACTTA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (40 bp):
ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
Found at i:17793634 original size:50 final size:49
Alignment explanation
Indices: 17793565--17793666 Score: 186
Period size: 50 Copynumber: 2.1 Consensus size: 49
17793555 ATTGCAACCT
17793565 GTGAAAATTCCGCTATGGAAGTGGGAAAGAGGAACAATGGACTTTGTGA
1 GTGAAAATTCCGCTATGGAAGTGGGAAAGAGGAACAATGGACTTTGTGA
*
17793614 GTNGAAAATTCCGCTATGGAAGTGGGAAAGAGTAACAATGGACTTTGTGA
1 GT-GAAAATTCCGCTATGGAAGTGGGAAAGAGGAACAATGGACTTTGTGA
17793664 GTG
1 GTG
17793667 GGTTACCTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 3 0.06
50 48 0.94
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.24
Consensus pattern (49 bp):
GTGAAAATTCCGCTATGGAAGTGGGAAAGAGGAACAATGGACTTTGTGA
Found at i:17795451 original size:15 final size:15
Alignment explanation
Indices: 17795431--17795460 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17795421 CAACACTTGT
17795431 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
17795446 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
17795461 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:17801639 original size:50 final size:49
Alignment explanation
Indices: 17801564--17801662 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 49
17801554 TATGGAAGTG
17801564 GGAAAGAGGAACAATGGACTTTGTGAGTGGGTTACCTTTGACACCCACC
1 GGAAAGAGGAACAATGGACTTTGTGAGTGGGTTACCTTTGACACCCACC
*
17801613 NGGAAAGAGTAACAATGGACTTTGTGAGTGGGTTACCTTTGACACCCACC
1 -GGAAAGAGGAACAATGGACTTTGTGAGTGGGTTACCTTTGACACCCACC
17801663 AAGGAAGATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
GGAAAGAGGAACAATGGACTTTGTGAGTGGGTTACCTTTGACACCCACC
Found at i:17807930 original size:11 final size:11
Alignment explanation
Indices: 17807914--17807938 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17807904 ACAATATTAC
17807914 TTTCTTTAAAT
1 TTTCTTTAAAT
17807925 TTTCTTTAAAT
1 TTTCTTTAAAT
17807936 TTT
1 TTT
17807939 AGTTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTCTTTAAAT
Found at i:17810527 original size:35 final size:35
Alignment explanation
Indices: 17810481--17810552 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
17810471 AAGTTTAGTC
17810481 CAATTCAGAAAAGGCCAATTTTGAGGGTTCTTAGG
1 CAATTCAGAAAAGGCCAATTTTGAGGGTTCTTAGG
17810516 CAATTCAGAAAAGGCCAATTTTGAGGGTTCTTAGG
1 CAATTCAGAAAAGGCCAATTTTGAGGGTTCTTAGG
17810551 CA
1 CA
17810553 TTCTAAAGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (35 bp):
CAATTCAGAAAAGGCCAATTTTGAGGGTTCTTAGG
Found at i:17811516 original size:40 final size:40
Alignment explanation
Indices: 17811461--17811541 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
17811451 CTGATAATAG
17811461 TTAGTTTCAAGAACAATTCATTATAAATATTTAAAACCTA
1 TTAGTTTCAAGAACAATTCATTATAAATATTTAAAACCTA
17811501 TTAGTTTCAAGAACAATTCATTATAAATATTTAAAACCTA
1 TTAGTTTCAAGAACAATTCATTATAAATATTTAAAACCTA
17811541 T
1 T
17811542 GACCAATATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.38
Consensus pattern (40 bp):
TTAGTTTCAAGAACAATTCATTATAAATATTTAAAACCTA
Found at i:17816944 original size:29 final size:29
Alignment explanation
Indices: 17816894--17816960 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
17816884 TGGCCCAAGA
* *
17816894 GTAAATACTCAAAATTTGAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAGGACTAATAGT
*
17816923 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTG-AGGACTAATAGT
*
17816953 GCAAATAT
1 GTAAATAT
17816961 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 8 0.25
29 14 0.44
30 10 0.31
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.28
Consensus pattern (29 bp):
GTAAATATCAAAAGTTGAGGACTAATAGT
Found at i:17817226 original size:25 final size:24
Alignment explanation
Indices: 17817169--17817226 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
17817159 ATATTTTATA
*
17817169 ATTATTTAATTAGATAATTTATTT
1 ATTATTTAATAAGATAATTTATTT
* *
17817193 AATATTTTAATAAGATATTTTATTGT
1 ATTA-TTTAATAAGATAATTTATT-T
*
17817219 TTTATTTA
1 ATTATTTA
17817227 GTCTATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 3 0.11
25 21 0.78
26 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (24 bp):
ATTATTTAATAAGATAATTTATTT
Found at i:17823128 original size:17 final size:17
Alignment explanation
Indices: 17823106--17823138 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17823096 CACTAACATG
*
17823106 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
17823123 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
17823139 GTGTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:17825011 original size:27 final size:26
Alignment explanation
Indices: 17824994--17825056 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
17824984 ATATTAAGTC
17824994 CGCACACTCAATGCTATATAATCAACT
1 CGCACACTCAATGCTATAT-ATCAACT
* *
17825021 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAATGCTATAT-ATC-AACT
17825049 CGCACACT
1 CGCACACT
17825057 TAGTGCTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (26 bp):
CGCACACTCAATGCTATATATCAACT
Found at i:17825057 original size:28 final size:28
Alignment explanation
Indices: 17824994--17825088 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
17824984 ATATTAAGTC
* *
17824994 CGCACACTCAATGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
17825021 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
17825049 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
17825078 CGCACACTTAG
1 CGCACACTTAG
17825089 CGCCAATCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 21 0.35
28 23 0.38
29 16 0.27
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17840126 original size:39 final size:41
Alignment explanation
Indices: 17840031--17840214 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
17840021 TTGAATGATG
*
17840031 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
17840070 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
17840110 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
17840149 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
17840189 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17840215 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
39 55 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:17840236 original size:79 final size:79
Alignment explanation
Indices: 17840083--17840247 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
17840073 GGACTAAGAT
* **
17840083 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
17840148 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
17840162 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-G
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA-GATA
* *
17840224 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
17840241 CCGAAGG
1 CCGAAGG
17840248 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.61
80 24 0.32
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:17847492 original size:193 final size:193
Alignment explanation
Indices: 17847163--17847560 Score: 733
Period size: 193 Copynumber: 2.1 Consensus size: 193
17847153 CAGCGGTGTG
17847163 GCTAGGCCGTGTGCTTCACATGGTTAAGACACACGACCATGTTTGAGGCCATGTAACAATCGAAA
1 GCTAGGCCGTGTGCTTCACATGGTTAAGACACACGACCATGTTTGAGGCCATGTAACAATCGAAA
* * *
17847228 TTGGGACACACAGCCATGTCCTATCCCATGTCCTCACCCGTGTAACTCTTGGAGTTGGGTTACAT
66 TTGGGACACACAGCCATGTCCTATCCCATATCCTCACCCATGTAACTCTTGGAGTTGGGTTACAC
17847293 GACCAAGCCACACACCAATGTGCCAGGCCGTGTAAGTCTCGAAATAGACACACACGCCCATGT
131 GACCAAGCCACACACCAATGTGCCAGGCCGTGTAAGTCTCGAAATAGACACACACGCCCATGT
* *
17847356 GCTAGGCCGTGTGCTTCACATGGTTGAGACACACGACCATGTTTGAGGCCATGTAATAATCGAAA
1 GCTAGGCCGTGTGCTTCACATGGTTAAGACACACGACCATGTTTGAGGCCATGTAACAATCGAAA
*
17847421 TTGGGACACACAGCCATGTCCTATCCCATATCCTCACCCATGTAACTCTTTGAGTTGGGTTACAC
66 TTGGGACACACAGCCATGTCCTATCCCATATCCTCACCCATGTAACTCTTGGAGTTGGGTTACAC
*
17847486 GACCAAGCCACACACCCATGTGCCAGGCCGTGTAAGTCTCGAAATAGACACACACGCCCATGT
131 GACCAAGCCACACACCAATGTGCCAGGCCGTGTAAGTCTCGAAATAGACACACACGCCCATGT
17847549 GCTAGGCCGTGT
1 GCTAGGCCGTGT
17847561 AATAGCCTGA
Statistics
Matches: 198, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 198 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (193 bp):
GCTAGGCCGTGTGCTTCACATGGTTAAGACACACGACCATGTTTGAGGCCATGTAACAATCGAAA
TTGGGACACACAGCCATGTCCTATCCCATATCCTCACCCATGTAACTCTTGGAGTTGGGTTACAC
GACCAAGCCACACACCAATGTGCCAGGCCGTGTAAGTCTCGAAATAGACACACACGCCCATGT
Found at i:17857594 original size:21 final size:21
Alignment explanation
Indices: 17857570--17857609 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17857560 ATAAACTTTT
*
17857570 CAATTCATTGTATAAAACAAA
1 CAATACATTGTATAAAACAAA
**
17857591 CAATAGGTTGTATAAAACA
1 CAATACATTGTATAAAACA
17857610 GTCTACCTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (21 bp):
CAATACATTGTATAAAACAAA
Found at i:17858573 original size:20 final size:21
Alignment explanation
Indices: 17858529--17858578 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
17858519 AAAAAAGACG
17858529 TTGGGAGAAAAAATTAAGGGAT
1 TTGGG-GAAAAAATTAAGGGAT
17858551 TTGGGGAAAAAA-T-AGGGATT
1 TTGGGGAAAAAATTAAGGGA-T
17858571 TTGGGGAA
1 TTGGGGAA
17858579 CTAATTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 10 0.37
21 7 0.26
22 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (21 bp):
TTGGGGAAAAAATTAAGGGAT
Found at i:17868270 original size:20 final size:20
Alignment explanation
Indices: 17868245--17868283 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17868235 ATTTTTTAGG
*
17868245 CCATTTTCATTTTCTGTTTT
1 CCATTTTCATTTTCAGTTTT
17868265 CCATTTTCATTTTCAGTTT
1 CCATTTTCATTTTCAGTTT
17868284 AGAGAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.21, G:0.05, T:0.62
Consensus pattern (20 bp):
CCATTTTCATTTTCAGTTTT
Found at i:17868334 original size:63 final size:65
Alignment explanation
Indices: 17868267--17868393 Score: 186
Period size: 63 Copynumber: 2.0 Consensus size: 65
17868257 TCTGTTTTCC
* * *
17868267 ATTTTCATTTTCAGTTTAGAGAAAACCATAATAATTTCTAGATGA-TT-TCATTTCTCCATTTTG
1 ATTTTCATTTTCAGTTTAGAGAAAACCATAATAATTTCCAAATGATTTCTCAGTTCTCCATTTTG
* * *
17868330 ATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCTCAGTTCTCCATTTT
1 ATTTTCATTTTCAGTTTAGAGAAAACCATAATAATTTCCAAATGATTTCTCAGTTCTCCATTTT
17868394 TTTCATTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 40 0.71
64 2 0.04
65 14 0.25
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.46
Consensus pattern (65 bp):
ATTTTCATTTTCAGTTTAGAGAAAACCATAATAATTTCCAAATGATTTCTCAGTTCTCCATTTTG
Found at i:17872590 original size:22 final size:22
Alignment explanation
Indices: 17872565--17872608 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17872555 ACAATCAACT
17872565 TGTACAGATATGGCAGCGTCAA
1 TGTACAGATATGGCAGCGTCAA
17872587 TGTACAGATATGGCAGCGTCAA
1 TGTACAGATATGGCAGCGTCAA
17872609 GTTTCTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (22 bp):
TGTACAGATATGGCAGCGTCAA
Found at i:17874755 original size:26 final size:26
Alignment explanation
Indices: 17874722--17874773 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
17874712 AGTTCTATAA
* *
17874722 AATTTAAATCATTATGAGAAAAATAT
1 AATTTAAATCACTATCAGAAAAATAT
*
17874748 AATTTAAATCACTATCATAAAAATAT
1 AATTTAAATCACTATCAGAAAAATAT
17874774 GCAAATTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (26 bp):
AATTTAAATCACTATCAGAAAAATAT
Found at i:17884579 original size:73 final size:73
Alignment explanation
Indices: 17884460--17884609 Score: 264
Period size: 73 Copynumber: 2.1 Consensus size: 73
17884450 CACAATTTGG
* * *
17884460 CCCAAACAGACCTTTTTTCCCACCCATTTAGTAGTAATCTTTCTATTTCCCTCCAATTCTCAATA
1 CCCAAACAAACATTTTTTCCCACCCATTTAGTAGTAATCTTTCTATTTCCCTCCAATTATCAATA
17884525 TCTCATTA
66 TCTCATTA
*
17884533 CCCAAACAAACATTTTTTCCCACCCATTTTGTAGTAATCTTTCTATTTCCCTCCAATTATCAATA
1 CCCAAACAAACATTTTTTCCCACCCATTTAGTAGTAATCTTTCTATTTCCCTCCAATTATCAATA
17884598 TCTCATTA
66 TCTCATTA
17884606 CCCA
1 CCCA
17884610 TGTTAGGCCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.31, G:0.03, T:0.38
Consensus pattern (73 bp):
CCCAAACAAACATTTTTTCCCACCCATTTAGTAGTAATCTTTCTATTTCCCTCCAATTATCAATA
TCTCATTA
Found at i:17887222 original size:18 final size:18
Alignment explanation
Indices: 17887199--17887234 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17887189 CATTGGATAA
17887199 TATGAAAGAATGATAAAT
1 TATGAAAGAATGATAAAT
*
17887217 TATGAATGAATGATAAAT
1 TATGAAAGAATGATAAAT
17887235 CATTAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TATGAAAGAATGATAAAT
Found at i:17888646 original size:19 final size:20
Alignment explanation
Indices: 17888609--17888646 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17888599 GCCCTTACTT
17888609 CTTAAATTTTATAGTTTTGC
1 CTTAAATTTTATAGTTTTGC
17888629 CTTAAATTTTAT-GTTTTG
1 CTTAAATTTTATAGTTTTG
17888647 TACCGAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (20 bp):
CTTAAATTTTATAGTTTTGC
Found at i:17888840 original size:16 final size:16
Alignment explanation
Indices: 17888813--17888854 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
17888803 TGGTTCACTG
*
17888813 TAATGGATTAGAGCTA
1 TAATGGAATAGAGCTA
* *
17888829 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTA
17888845 TAATGGAATA
1 TAATGGAATA
17888855 AAGTTGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:17888862 original size:16 final size:16
Alignment explanation
Indices: 17888810--17888864 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
17888800 AATTGGTTCA
* *
17888810 CTGTAATGGATTAGAG
1 CTGTAATGGAATAAAG
* * *
17888826 CTATAATTGAATAGAG
1 CTGTAATGGAATAAAG
17888842 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
*
17888858 TTGTAAT
1 CTGTAAT
17888865 CAGTAGTTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (16 bp):
CTGTAATGGAATAAAG
Found at i:17888897 original size:46 final size:44
Alignment explanation
Indices: 17888846--17888939 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
17888836 ATAGAGCTGT
* *
17888846 AATGGAATA-AAGTTGTAATCAGTAGTTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAA-CTGTAAT-AGTA-TTC-ATGTGTTTGGTTGAATAG
*
17888892 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATAG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATAG
17888936 AATG
1 AATG
17888940 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 4 0.09
46 15 0.35
47 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATAG
Found at i:17889158 original size:58 final size:58
Alignment explanation
Indices: 17889030--17889164 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 58
17889020 TTGTTATGAA
* **
17889030 ATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCAT
1 ATTTTAATATA-ATTATTATTAAAAATAATTTAATAAAAATAACAAATAATTTAAAAAT
* * *
17889088 ATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATAACATATAATTTAATAAAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAACAAATAATTTAA-AAAT
17889146 -TTCTTAATATAATTATTAT
1 ATT-TTAATATAATTATTAT
17889165 ATGACTTTAC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
57 19 0.28
58 47 0.70
59 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAACAAATAATTTAAAAAT
Found at i:17889429 original size:41 final size:42
Alignment explanation
Indices: 17889381--17889534 Score: 206
Period size: 41 Copynumber: 3.7 Consensus size: 42
17889371 GACCAAGGGT
*
17889381 GGCGTTTTTGAAG-AAGCACCGCTAATGCTCTAGGCTTTAGC
1 GGCGTTTTTGAAGAAAGCACCGCTAATGCTCTGGGCTTTAGC
* *
17889422 GGCGTTTTTGAAG-AAGCGCCGCTAATGCTCTGGGCATTAGC
1 GGCGTTTTTGAAGAAAGCACCGCTAATGCTCTGGGCTTTAGC
* * *
17889463 GGTGTTTTTGAAGAAAGCACCGCTATTGCTCTGGGATTTAGC
1 GGCGTTTTTGAAGAAAGCACCGCTAATGCTCTGGGCTTTAGC
* * *
17889505 AGCGTTTTT-TAGAAAGCGCCGCTAATGCTC
1 GGCGTTTTTGAAGAAAGCACCGCTAATGCTC
17889535 AGGGGATTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 68 0.69
42 31 0.31
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (42 bp):
GGCGTTTTTGAAGAAAGCACCGCTAATGCTCTGGGCTTTAGC
Found at i:17889913 original size:21 final size:21
Alignment explanation
Indices: 17889889--17889929 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17889879 TAGGGCTTGA
* * *
17889889 TGTTTATGGTTTACGGTTTAG
1 TGTTAATGATTTAAGGTTTAG
17889910 TGTTAATGATTTAAGGTTTA
1 TGTTAATGATTTAAGGTTTA
17889930 CAATGCATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.51
Consensus pattern (21 bp):
TGTTAATGATTTAAGGTTTAG
Found at i:17889948 original size:7 final size:7
Alignment explanation
Indices: 17889938--17889972 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
17889928 TACAATGCAT
17889938 GGTTTAG
1 GGTTTAG
*
17889945 GGTTTTG
1 GGTTTAG
*
17889952 GATTTAG
1 GGTTTAG
17889959 GGTTTAG
1 GGTTTAG
17889966 GGTTTAG
1 GGTTTAG
17889973 TGTTACGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:17890738 original size:31 final size:31
Alignment explanation
Indices: 17890700--17890771 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
17890690 TTGGATTTTA
*
17890700 ATTGGTTTTTGCAGCTAAGATGGCACCTTCT
1 ATTGGTTTTTGCAGCTAAGATGGCACATTCT
* *
17890731 ATTGGTTTTTGCTGCTAAGATGGTACATTCT
1 ATTGGTTTTTGCAGCTAAGATGGCACATTCT
*
17890762 ATTGATTTTT
1 ATTGGTTTTT
17890772 ACTGCTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (31 bp):
ATTGGTTTTTGCAGCTAAGATGGCACATTCT
Found at i:17890777 original size:31 final size:31
Alignment explanation
Indices: 17890713--17890779 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
17890703 GGTTTTTGCA
* * *
17890713 GCTAAGATGGCACCTTCTATTGGTTTTTGCT
1 GCTAAGATGGCACATTCTATTGATTTTTACT
*
17890744 GCTAAGATGGTACATTCTATTGATTTTTACT
1 GCTAAGATGGCACATTCTATTGATTTTTACT
17890775 GCTAA
1 GCTAA
17890780 ATCAACCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.42
Consensus pattern (31 bp):
GCTAAGATGGCACATTCTATTGATTTTTACT
Found at i:17892950 original size:43 final size:42
Alignment explanation
Indices: 17892888--17893036 Score: 172
Period size: 43 Copynumber: 3.5 Consensus size: 42
17892878 AATTGGATTT
*
17892888 TAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCAC
1 TAAAGATCATGTTCTTTAGCGGCGTTTGTGAT-AAAGCGCCAC
* * *
17892931 TAAAGATCATGTTCCTTAGCGGCGTTTGTGGGTAAAGCGCCGC
1 TAAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAGCGCCAC
* * * * *
17892974 TAAAGGTCATATTCTTTAGCGGCGTTTGTGTGTAAAGCACCGC
1 TAAAGATCATGTTCTTTAGCGGCGTTTGTG-ATAAAGCGCCAC
* *
17893017 TAAAGAACATGATCTTTAGC
1 TAAAGATCATGTTCTTTAGC
17893037 AGTGTTTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 89 0.97
44 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAGCGCCAC
Found at i:17896807 original size:24 final size:24
Alignment explanation
Indices: 17896758--17896804 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
17896748 ATTGGTCATA
*
17896758 GAGAGATTTAAGGAGGGATATTTG
1 GAGAGATTTAAGGAGGAATATTTG
*
17896782 GAGAGATTTGAGGAGAGAATATT
1 GAGAGATTTAAGGAG-GAATATT
17896805 GGAATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (24 bp):
GAGAGATTTAAGGAGGAATATTTG
Found at i:17897292 original size:27 final size:27
Alignment explanation
Indices: 17897262--17897491 Score: 246
Period size: 27 Copynumber: 8.5 Consensus size: 27
17897252 AAATACCTGT
*
17897262 ATAGGGTAAGATGACCAAAATACCCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
* *** *
17897289 ATAGTGTAAAATGATTGAAATACCCTC
1 ATAGGGTAAAATGACCAAAATACCCCC
* * *
17897316 ATAAGCTAAAATGACAAAAATA-CCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
* * *
17897342 ATATGGTAAAATGATCAAAATTCCCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
* *
17897369 ATAGGGTAAAATGATCAAAATTCCCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
* *
17897396 ATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
* *
17897423 AAAAGGGTAAAATGACCGAAATACCCCC
1 -ATAGGGTAAAATGACCAAAATACCCCC
* **
17897451 AAAGGGTAAAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACCAAAATACCCCC
*
17897478 ATAAGGTAAAATGA
1 ATAGGGTAAAATGA
17897492 TTTTTATACC
Statistics
Matches: 175, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 20 0.11
27 130 0.74
28 25 0.14
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
ATAGGGTAAAATGACCAAAATACCCCC
Found at i:17897330 original size:54 final size:54
Alignment explanation
Indices: 17897266--17897491 Score: 285
Period size: 54 Copynumber: 4.2 Consensus size: 54
17897256 ACCTGTATAG
* * * *
17897266 GGTAAGATGACCAAAATACCCCCATAGTGTAAAATGATTGAAATACCCTCATAA
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAA
* * * * * *
17897320 GCTAAAATGACAAAAATA-CCCCATATGGTAAAATGATCAAAATTCCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAA
* * *
17897373 GGTAAAATGATCAAAATTCCCCCATAGGGTAAAATGATCGAAATACCCCCAAAA
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAA
* *
17897427 GGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGA-CTGAAATACCCCCATAA
1 -GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATC-GAAATACCCCCATAA
17897482 GGTAAAATGA
1 GGTAAAATGA
17897492 TTTTTATACC
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
53 42 0.29
54 56 0.39
55 47 0.32
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (54 bp):
GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAA
Found at i:17897905 original size:28 final size:28
Alignment explanation
Indices: 17897865--17897968 Score: 172
Period size: 28 Copynumber: 3.7 Consensus size: 28
17897855 CTATAATGTC
17897865 ACTGTATTGGGCTAAGGCCCACACTGAT
1 ACTGTATTGGGCTAAGGCCCACACTGAT
*
17897893 ACTGTATTGGGCTAAGGCCCACATTGAT
1 ACTGTATTGGGCTAAGGCCCACACTGAT
*
17897921 ACTGTATTGGGCTAAGGCCCACACTGCT
1 ACTGTATTGGGCTAAGGCCCACACTGAT
**
17897949 ACTAAATTGGGCTAAGGCCC
1 ACTGTATTGGGCTAAGGCCC
17897969 TCGTTGTACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (28 bp):
ACTGTATTGGGCTAAGGCCCACACTGAT
Found at i:17899785 original size:13 final size:13
Alignment explanation
Indices: 17899752--17899791 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
17899742 ACAGTTCTTT
17899752 ATTACTTTTGAGA
1 ATTACTTTTGAGA
* * *
17899765 AGTGCTTTTCAGA
1 ATTACTTTTGAGA
17899778 ATTACTTTTGAGA
1 ATTACTTTTGAGA
17899791 A
1 A
17899792 ATTTGAGTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (13 bp):
ATTACTTTTGAGA
Found at i:17900422 original size:3 final size:3
Alignment explanation
Indices: 17900414--17900461 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
17900404 TGATTCACCG
* * * *
17900414 TCA TCA TCA CCA TCA TCA TCA CCA TCA TCA TCG TCA TCG TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
17900462 CTTTCTCGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.29, C:0.38, G:0.04, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:17900451 original size:12 final size:12
Alignment explanation
Indices: 17900408--17900445 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
17900398 ATTGTTTGAT
*
17900408 TCACCGTCATCA
1 TCACCATCATCA
17900420 TCACCATCATCA
1 TCACCATCATCA
17900432 TCACCATCATCA
1 TCACCATCATCA
17900444 TC
1 TC
17900446 GTCATCGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.42, G:0.03, T:0.26
Consensus pattern (12 bp):
TCACCATCATCA
Found at i:17901968 original size:72 final size:72
Alignment explanation
Indices: 17901846--17902011 Score: 253
Period size: 72 Copynumber: 2.3 Consensus size: 72
17901836 AAATCATATT
* ** * *
17901846 TAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAGA
1 TAAACAACTATTGATAAAACTAGATTAAACATAAATAAATAGAACATAAATTCAATATCCAAAAA
17901910 CCAAACA
66 CCAAACA
* *
17901917 TAAACAACTATTAATAAAACTAGATTAAACATAAATAAATAGAACATAAATTCAATATCTAAAAA
1 TAAACAACTATTGATAAAACTAGATTAAACATAAATAAATAGAACATAAATTCAATATCCAAAAA
17901982 CCAAACA
66 CCAAACA
*
17901989 TAAATAACTATTGATAAAACTAG
1 TAAACAACTATTGATAAAACTAG
17902012 TTTAGCATTG
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
71 21 0.25
72 64 0.75
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.25
Consensus pattern (72 bp):
TAAACAACTATTGATAAAACTAGATTAAACATAAATAAATAGAACATAAATTCAATATCCAAAAA
CCAAACA
Found at i:17905702 original size:21 final size:21
Alignment explanation
Indices: 17905659--17905702 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17905649 AATACCAGCA
* * *
17905659 AATCAACAGCTTCAAACTCTT
1 AATCAACAGCTTAAAAATATT
17905680 AATCAACAGCTTAAAAATATT
1 AATCAACAGCTTAAAAATATT
17905701 AA
1 AA
17905703 ACAGAAGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (21 bp):
AATCAACAGCTTAAAAATATT
Found at i:17905740 original size:19 final size:19
Alignment explanation
Indices: 17905694--17905742 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
17905684 AACAGCTTAA
* *
17905694 AAATATTAAACAGAAGAGG
1 AAATATAAAACAGAAGAAG
*
17905713 AACTAATAAAACAGAAGAAG
1 AAAT-ATAAAACAGAAGAAG
17905733 AAATATAAAA
1 AAATATAAAA
17905743 GAAACTCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.65, C:0.06, G:0.14, T:0.14
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:17906350 original size:27 final size:27
Alignment explanation
Indices: 17906311--17906507 Score: 258
Period size: 27 Copynumber: 7.3 Consensus size: 27
17906301 ATAATGGGCC
* *
17906311 TAAAATGACCGAAATACCC-CTGGAGGG
1 TAAAATGATCGAAATACCCTC-GAAGGG
17906338 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
17906365 TAAAATGA-CTGAAATACCCTCAAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* *
17906392 TAAAATGA-CTAAAATACCC-CTAAAGGG
1 TAAAATGATC-GAAATACCCTC-GAAGGG
* *
17906419 TAAAATGATCGAAATACCCCCGAAGCG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
17906446 TAAAATGATCGAAATACCCTCAAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
17906473 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
17906500 TAAAATGA
1 TAAAATGA
17906508 CTGTTATACC
Statistics
Matches: 154, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.01
27 149 0.97
28 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCTCGAAGGG
Found at i:17906449 original size:81 final size:81
Alignment explanation
Indices: 17906311--17906507 Score: 292
Period size: 81 Copynumber: 2.4 Consensus size: 81
17906301 ATAATGGGCC
* * * *
17906311 TAAAATGACCGAAATACCCCTGGAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGA-CT
1 TAAAATGACTGAAATACCCCTGAAGGGTAAAATGATCGAAATACCCCCGAAGCGTAAAATGATC-
17906375 GAAATACCCTCAAAGGG
65 GAAATACCCTCAAAGGG
* *
17906392 TAAAATGACTAAAATACCCCTAAAGGGTAAAATGATCGAAATACCCCCGAAGCGTAAAATGATCG
1 TAAAATGACTGAAATACCCCTGAAGGGTAAAATGATCGAAATACCCCCGAAGCGTAAAATGATCG
17906457 AAATACCCTCAAAGGG
66 AAATACCCTCAAAGGG
17906473 TAAAATGA-TCGAAATA-CCCTCGAAGGGTAAAATGA
1 TAAAATGACT-GAAATACCCCT-GAAGGGTAAAATGA
17906508 CTGTTATACC
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
80 5 0.05
81 99 0.94
82 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (81 bp):
TAAAATGACTGAAATACCCCTGAAGGGTAAAATGATCGAAATACCCCCGAAGCGTAAAATGATCG
AAATACCCTCAAAGGG
Found at i:17906876 original size:28 final size:28
Alignment explanation
Indices: 17906844--17906961 Score: 157
Period size: 28 Copynumber: 4.2 Consensus size: 28
17906834 ACTGCACTGG
* * * * *
17906844 TTACTGTATTCGGTTAAGGCCTACACTG
1 TTACTGTAATGGGCTAAGGCCCACACTA
*
17906872 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTAATGGGCTAAGGCCCACACTA
*
17906900 TTACTATAATGGGCTAAGGCCCACACTA
1 TTACTGTAATGGGCTAAGGCCCACACTA
*
17906928 TTACTGTAATGGGCTAAGGCCCACACCA
1 TTACTGTAATGGGCTAAGGCCCACACTA
17906956 -TACTGT
1 TTACTGT
17906962 TACTGTTTGG
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 6 0.07
28 76 0.93
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (28 bp):
TTACTGTAATGGGCTAAGGCCCACACTA
Found at i:17910884 original size:339 final size:333
Alignment explanation
Indices: 17910337--17910970 Score: 936
Period size: 339 Copynumber: 1.9 Consensus size: 333
17910327 TTACTTTCGC
*
17910337 ATACATGACATTTAAATCATTTAGGCTATTAGAATATGAATTTTTATTTAATTATGAATGAAACA
1 ATACATGACACTTAAATCATTTAGGCTATTAGAATATGAATTTTTATTTAATTATGAATGAAACA
* * ** *
17910402 TGTTTTTTATTAAATTTATGTTAATATCACTTTTCTGCTACTAAATTGTAAATATGTATTGTTAA
66 TGGTTTTTATTAAAGTTACATTAATATCACTTTTCTGCTACTAAATTGCAAATATGTATTGTTAA
17910467 AAAGGTAATTCTGATTTTCAACTAAGTTTTCAATAGTAAACACCATTATAATGAAGATGTTACAA
131 AAAGGTAATTCTGATTTTCAACTAAGTTTTCAATAGTAAACACCATTATAATGAAGATGTTACAA
* * * ** *
17910532 TTAATCGTTTTTTAAAAACTCCTGTGTTTTTTCTCAAAAAAGACTAAACTTTCGTCTAAAATAAA
196 TTAATCGTTTTTT--AAACTCCTAT-ATTTTTCTCAAAAAAGACTAAACTTCCGTAAAAAACAAA
17910597 CAAATATTTTAATTAACTATTTCTAAAACTTCGATAACTTATCGTGCCATGGGAGCTAGTTTACG
258 CAAATATTTTAATTAA-T-TTT-TAAAACTTCGATAACTTATCGTGCCATGGGAGCTAGTTTACG
17910662 ATTTATCTTTAGGT
320 ATTTATCTTTAGGT
* *
17910676 ATACATGACACTTAATTCATTTAGGCTATTAGAATATGAATTTTTATTTAATTATGCATGAAACA
1 ATACATGACACTTAAATCATTTAGGCTATTAGAATATGAATTTTTATTTAATTATGAATGAAACA
* *
17910741 TGGTTTTTATTAAAGTTACATTAATATCACTTTT-TCGTTGCGT-AATTGCAAATATGTATTGTT
66 TGGTTTTTATTAAAGTTACATTAATATCACTTTTCT-GCTAC-TAAATTGCAAATATGTATTGTT
*
17910804 -AAAAGAGTAATT-TGGATTTTCAACTAAGTTTTCAATAGTAAACACTATTATAATGAAGATGTT
129 AAAAAG-GTAATTCT-GATTTTCAACTAAGTTTTCAATAGTAAACACCATTATAATGAAGATGTT
* * * *
17910867 A-AACTTAATCTTTTTTTAAACTCCTATATTTTTCTGAAAATAGACTAAACTTCCTTAAAAAACA
192 ACAA-TTAATCGTTTTTTAAACTCCTATATTTTTCTCAAAAAAGACTAAACTTCCGTAAAAAACA
*
17910931 AACAAATGTTTTAATTAATTTTTAAAACTTCGATAACTTA
256 AACAAATATTTTAATTAATTTTTAAAACTTCGATAACTTA
17910971 CTGGGCTGCT
Statistics
Matches: 268, Mismatches: 22, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
333 18 0.07
334 3 0.01
335 1 0.00
336 46 0.17
337 9 0.03
338 9 0.03
339 181 0.68
340 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (333 bp):
ATACATGACACTTAAATCATTTAGGCTATTAGAATATGAATTTTTATTTAATTATGAATGAAACA
TGGTTTTTATTAAAGTTACATTAATATCACTTTTCTGCTACTAAATTGCAAATATGTATTGTTAA
AAAGGTAATTCTGATTTTCAACTAAGTTTTCAATAGTAAACACCATTATAATGAAGATGTTACAA
TTAATCGTTTTTTAAACTCCTATATTTTTCTCAAAAAAGACTAAACTTCCGTAAAAAACAAACAA
ATATTTTAATTAATTTTTAAAACTTCGATAACTTATCGTGCCATGGGAGCTAGTTTACGATTTAT
CTTTAGGT
Found at i:17912887 original size:39 final size:40
Alignment explanation
Indices: 17912799--17912888 Score: 146
Period size: 40 Copynumber: 2.3 Consensus size: 40
17912789 GTGAAAGTTT
17912799 GGGCCTTAGCCCATCTCAGTACAGTGTCAAAAATGCAGTA
1 GGGCCTTAGCCCATCTCAGTACAGTGTCAAAAATGCAGTA
* * *
17912839 GGGCTTTAGCCCATCTTAGTGCAGTGTC-AAAATGCAGTA
1 GGGCCTTAGCCCATCTCAGTACAGTGTCAAAAATGCAGTA
17912878 GGGCCTTAGCC
1 GGGCCTTAGCC
17912889 TGTCATAGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 21 0.46
40 25 0.54
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
GGGCCTTAGCCCATCTCAGTACAGTGTCAAAAATGCAGTA
Found at i:17915240 original size:66 final size:66
Alignment explanation
Indices: 17915147--17915275 Score: 240
Period size: 66 Copynumber: 2.0 Consensus size: 66
17915137 GCGGGTATAA
17915147 CCATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTGAATGGTACAGCACTAAGTGTGCGA
1 CCATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTGAATGGTACAGCACTAAGTGTGCGA
17915212 T
66 T
* *
17915213 CCATTTATGACCATGAGATTGGTGCTAAGTGCGCGGGATTGAATTGTACAGCACTAAGTGTGC
1 CCATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTGAATGGTACAGCACTAAGTGTGC
17915276 AATTTGACTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (66 bp):
CCATTTATGACCATGAGATTGGCGCTAAGTGCGCGGGATTGAATGGTACAGCACTAAGTGTGCGA
T
Found at i:17915296 original size:27 final size:28
Alignment explanation
Indices: 17915262--17915437 Score: 193
Period size: 27 Copynumber: 6.5 Consensus size: 28
17915252 TGAATTGTAC
17915262 AGCACTAAGTGTGC-AATTTGACTATGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
17915289 TGCACTAAGTGTGCGAA-ATGAATATG-
1 AGCACTAAGTGTGCGAATTTGACTATGT
*
17915315 ATGCACTAAGTGTGCGAA-TTGACCATGT
1 A-GCACTAAGTGTGCGAATTTGACTATGT
* *
17915343 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* *
17915371 AGCACTAAGTGTGCG-ATTTGATTACGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
17915398 AGCACTAAGTGTGCG-AGTTGATTATAT
1 AGCACTAAGTGTGCGAATTTGACTATGT
*
17915425 AGCACTGAGTGTG
1 AGCACTAAGTGTG
17915438 TGGACTCAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAATTTGACTATGT
Found at i:17915376 original size:82 final size:81
Alignment explanation
Indices: 17915263--17915418 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
17915253 GAATTGTACA
* *
17915263 GCACTAAGTGTGCAATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17915327 TGCGAATTGACCATGTG
65 TGCGAATTGACCATGTG
* ** *
17915344 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGC-AATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17915409 TGCGAGTTGA
65 TGCGAATTGA
17915419 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 13 0.20
82 52 0.79
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGTG
Found at i:17915430 original size:82 final size:81
Alignment explanation
Indices: 17915262--17915437 Score: 219
Period size: 82 Copynumber: 2.2 Consensus size: 81
17915252 TGAATTGTAC
* *
17915262 AGCACTAAGTGTGCAATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
17915327 TGCGAATTGACCATGT
66 TGCGAATTGACCATAT
* * ** *
17915343 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGC-AATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* **
17915407 TGTGCGAGTTGATTATAT
64 TGTGCGAATTGACCATAT
*
17915425 AGCACTGAGTGTG
1 AGCACTAAGTGTG
17915438 TGGACTCAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 14 0.17
82 66 0.82
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (81 bp):
AGCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATAT
Found at i:17923268 original size:18 final size:18
Alignment explanation
Indices: 17923245--17923281 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
17923235 GTCTGGGATG
17923245 TTGACATCGTATTTGATT
1 TTGACATCGTATTTGATT
17923263 TTGACATCGTATTTGATT
1 TTGACATCGTATTTGATT
17923281 T
1 T
17923282 CATGTAAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (18 bp):
TTGACATCGTATTTGATT
Found at i:17929291 original size:100 final size:100
Alignment explanation
Indices: 17929118--17929316 Score: 389
Period size: 100 Copynumber: 2.0 Consensus size: 100
17929108 TAAATTTTTC
17929118 TTTTAACTTAATTGCTAGAGAGTGCTTTATGGATGCCGAACGTAGACTTGAAATGGGAGGTTAAT
1 TTTTAACTTAATTGCTAGAGAGTGCTTTATGGATGCCGAACGTAGACTTGAAATGGGAGGTTAAT
17929183 AATTTGTTGTTATTGAGTTAGATATATATATGTAT
66 AATTTGTTGTTATTGAGTTAGATATATATATGTAT
*
17929218 TTTTAACTTAATTGCTAGAGAGTGCTTTATGGATGCCGAATGTAGACTTGAAATGGGAGGTTAAT
1 TTTTAACTTAATTGCTAGAGAGTGCTTTATGGATGCCGAACGTAGACTTGAAATGGGAGGTTAAT
17929283 AATTTGTTGTTATTGAGTTAGATATATATATGTA
66 AATTTGTTGTTATTGAGTTAGATATATATATGTA
17929317 CATTCGGTCA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (100 bp):
TTTTAACTTAATTGCTAGAGAGTGCTTTATGGATGCCGAACGTAGACTTGAAATGGGAGGTTAAT
AATTTGTTGTTATTGAGTTAGATATATATATGTAT
Found at i:17930308 original size:39 final size:39
Alignment explanation
Indices: 17930254--17930534 Score: 427
Period size: 39 Copynumber: 7.2 Consensus size: 39
17930244 GAAATGTGTA
17930254 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
17930293 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * * *
17930332 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGCGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
17930371 TGGAAACATATCCGGGCTAAAGACCCGTAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
17930410 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
17930449 TGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
17930488 TGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
17930527 TGGTAATA
1 TGGAAATA
17930535 AAATTTCAGG
Statistics
Matches: 219, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 219 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:17932402 original size:16 final size:16
Alignment explanation
Indices: 17932381--17932411 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17932371 CTATGCATGC
*
17932381 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
17932397 AAAATACAAAAGACA
1 AAAATACAAAAGACA
17932412 TAGTAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:17942769 original size:27 final size:27
Alignment explanation
Indices: 17942730--17942834 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
17942720 CATAATGCCG
* *
17942730 TGGTCCAGGTTGTTGATCACCATGGCT
1 TGGTACAGATTGTTGATCACCATGGCT
* *
17942757 TGGTACAGATTGTTGATCACCGTGGTT
1 TGGTACAGATTGTTGATCACCATGGCT
** * *
17942784 TGACATAGGTTGTTGATCACCATGGCT
1 TGGTACAGATTGTTGATCACCATGGCT
*
17942811 TAGTACAGATTGTTGATCACCATG
1 TGGTACAGATTGTTGATCACCATG
17942835 AATCGGCAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (27 bp):
TGGTACAGATTGTTGATCACCATGGCT
Found at i:17942850 original size:54 final size:54
Alignment explanation
Indices: 17942738--17942865 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
17942728 CGTGGTCCAG
* * ** * * *
17942738 GTTGTTGATCACCATGGCTTGGTACAGATTGTTGATCACCGTGGTTTGACATAG
1 GTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGACAAAA
*
17942792 GTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAAAA
1 GTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGACAAAA
17942846 GTTGTTGA-CGACCATGGCTT
1 GTTGTTGATC-ACCATGGCTT
17942866 GATCTTAAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (54 bp):
GTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGACAAAA
Found at i:17942979 original size:27 final size:27
Alignment explanation
Indices: 17942949--17943038 Score: 63
Period size: 27 Copynumber: 3.3 Consensus size: 27
17942939 AGTTGGTAAT
* * * *
17942949 ATGGTTTGACATAGGTTGTTGATCATC
1 ATGGCTTGACACAGATTGTTGATCACC
**
17942976 ATGGCTTGGTACAGATTGTTGATCACC
1 ATGGCTTGACACAGATTGTTGATCACC
* * * * * * *
17943003 ATGGATCGGCAAAGGTTGTCGATGACC
1 ATGGCTTGACACAGATTGTTGATCACC
17943030 ATGGCTTGA
1 ATGGCTTGA
17943039 TCTTAAATTA
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (27 bp):
ATGGCTTGACACAGATTGTTGATCACC
Found at i:17943064 original size:171 final size:171
Alignment explanation
Indices: 17942779--17943121 Score: 596
Period size: 171 Copynumber: 2.0 Consensus size: 171
17942769 TTGATCACCG
17942779 TGGTTTGACATAGGTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAA
1 TGGTTTGACATAGGTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAA
*
17942844 AAGTTGTTGACGACCATGGCTTGATCTTAAACGAGGTCTCTTCCTCCTAGGTAGTTTTGCCACTC
66 AAGTTGTCGACGACCATGGCTTGATCTTAAACGAGGTCTCTTCCTCCTAGGTAGTTTTGCCACTC
*
17942909 GCTCATTGATTTGTACTGGATGGGGATCATAGTTGGTAATA
131 GCTCATTGATTTGTACTGGATGGGAATCATAGTTGGTAATA
* * *
17942950 TGGTTTGACATAGGTTGTTGATCATCATGGCTTGGTACAGATTGTTGATCACCATGGATCGGCAA
1 TGGTTTGACATAGGTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAA
* * ** *
17943015 AGGTTGTCGATGACCATGGCTTGATCTTAAATTAGGTCTCTTCCTCCTAGGTTGTTTTGCCACTC
66 AAGTTGTCGACGACCATGGCTTGATCTTAAACGAGGTCTCTTCCTCCTAGGTAGTTTTGCCACTC
17943080 GCTCATTGATTTGTACTGGATGGGAATCATAGTTGGTAATA
131 GCTCATTGATTTGTACTGGATGGGAATCATAGTTGGTAATA
17943121 T
1 T
17943122 AAGCCACAGG
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
171 162 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (171 bp):
TGGTTTGACATAGGTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAA
AAGTTGTCGACGACCATGGCTTGATCTTAAACGAGGTCTCTTCCTCCTAGGTAGTTTTGCCACTC
GCTCATTGATTTGTACTGGATGGGAATCATAGTTGGTAATA
Found at i:17944599 original size:2 final size:2
Alignment explanation
Indices: 17944592--17944621 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17944582 CAGTGAAGTT
17944592 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
17944622 GAAGAGGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17944977 original size:16 final size:16
Alignment explanation
Indices: 17944956--17945046 Score: 76
Period size: 16 Copynumber: 5.8 Consensus size: 16
17944946 GAACTAGGAC
* *
17944956 TTTCTCGGGTTCAAAT
1 TTTCTCGAGCTCAAAT
*
17944972 TTTCTCAAGCTCAAAT
1 TTTCTCGAGCTCAAAT
**
17944988 TTT-TCGAGCTCAAGC
1 TTTCTCGAGCTCAAAT
* * * *
17945003 TTTCTCAAACTTAAAC
1 TTTCTCGAGCTCAAAT
*
17945019 TTTCTCGGGCTCAAAT
1 TTTCTCGAGCTCAAAT
*
17945035 TTTCTCGGGCTC
1 TTTCTCGAGCTC
17945047 GGGCCCTATT
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
15 12 0.20
16 47 0.80
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (16 bp):
TTTCTCGAGCTCAAAT
Found at i:17948975 original size:37 final size:35
Alignment explanation
Indices: 17948933--17949038 Score: 99
Period size: 37 Copynumber: 2.9 Consensus size: 35
17948923 AAAGATAAAC
17948933 ATTAAATTTAATTTAATATTAAGATAATCATTTTAAT
1 ATTAAATTTAATTTAATATTAAGATAAT-A-TTTAAT
**
17948970 ATTAAATTAATAAAATAATATTAAGATAAGTATTTAAT
1 ATTAAATT--TAATTTAATATTAAGATAA-TATTTAAT
*
17949008 -TT-AATTTAATATTAAACTATTAAAATAATAT
1 ATTAAATTTAAT-TT-AA-TATTAAGATAATAT
17949039 CATTTTTGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
34 3 0.05
35 1 0.02
36 9 0.16
37 20 0.34
38 6 0.10
39 18 0.31
40 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (35 bp):
ATTAAATTTAATTTAATATTAAGATAATATTTAAT
Found at i:17948992 original size:39 final size:37
Alignment explanation
Indices: 17948946--17949018 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
17948936 AAATTTAATT
17948946 TAATATTAAGATAA-TCATTTTAATATTAAATTAATAAAA
1 TAATATTAAGATAAGT-A-TTTAAT-TTAAATTAATAAAA
*
17948985 TAATATTAAGATAAGTATTTAATTTAATTTAATA
1 TAATATTAAGATAAGTATTTAATTTAAATTAATA
17949019 TTAAACTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 10 0.31
38 6 0.19
39 15 0.47
40 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (37 bp):
TAATATTAAGATAAGTATTTAATTTAAATTAATAAAA
Found at i:17949007 original size:19 final size:19
Alignment explanation
Indices: 17948941--17949011 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
17948931 ACATTAAATT
17948941 TAATTTAATATTAAGATAA
1 TAATTTAATATTAAGATAA
*
17948960 TCATTTTAATATTAA-ATTAA
1 T-AATTTAATATTAAGA-TAA
**
17948980 TAAAATAATATTAAGATAA
1 TAATTTAATATTAAGATAA
17948999 GT-ATTTAAT-TTAA
1 -TAATTTAATATTAA
17949012 TTTAATATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
18 4 0.10
19 20 0.48
20 18 0.43
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (19 bp):
TAATTTAATATTAAGATAA
Found at i:17951062 original size:16 final size:16
Alignment explanation
Indices: 17951041--17951075 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17951031 CTAAGAGCTT
17951041 GAAAATAAGAAGGAAA
1 GAAAATAAGAAGGAAA
*
17951057 GAAAATAAGAATGAAA
1 GAAAATAAGAAGGAAA
17951073 GAA
1 GAA
17951076 GCTATGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.09
Consensus pattern (16 bp):
GAAAATAAGAAGGAAA
Found at i:17951595 original size:11 final size:11
Alignment explanation
Indices: 17951579--17951608 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17951569 AATAGCTTGA
17951579 TAAATATGTTT
1 TAAATATGTTT
17951590 TAAATATGTTT
1 TAAATATGTTT
17951601 TAAA-ATGT
1 TAAATATGT
17951609 GGAATGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (11 bp):
TAAATATGTTT
Found at i:17972731 original size:20 final size:20
Alignment explanation
Indices: 17972706--17972770 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 20
17972696 TATGAAAATA
17972706 TAAAATAATAAAATTTTTTT
1 TAAAATAATAAAATTTTTTT
* *
17972726 TAAAATCATACAATTTATTTT
1 TAAAATAATAAAATTT-TTTT
* *
17972747 AAAAAATAATAATATTTTATTT
1 -TAAAATAATAAAATTTT-TTT
17972769 TA
1 TA
17972771 TTGATGTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 14 0.40
21 6 0.17
22 15 0.43
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAAATAATAAAATTTTTTT
Found at i:17972752 original size:22 final size:23
Alignment explanation
Indices: 17972707--17972770 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 23
17972697 ATGAAAATAT
*
17972707 AAAATAATAAAATTTT-TTTT--
1 AAAATAATAATATTTTATTTTAA
*
17972727 AAAATCATACA-A-TTTATTTTAA
1 AAAATAATA-ATATTTTATTTTAA
17972749 AAAATAATAATATTTTATTTTA
1 AAAATAATAATATTTTATTTTA
17972771 TTGATGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 3 0.08
20 13 0.36
21 2 0.06
22 9 0.25
23 9 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATAATAATATTTTATTTTAA
Found at i:17973027 original size:18 final size:18
Alignment explanation
Indices: 17973004--17973043 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
17972994 AGAATGGATG
17973004 AAAGAATAAAATTAAAGA
1 AAAGAATAAAATTAAAGA
*
17973022 AAAGAATAAAATTAGAGA
1 AAAGAATAAAATTAAAGA
17973040 AAAG
1 AAAG
17973044 GATTATAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAGAATAAAATTAAAGA
Found at i:17976158 original size:40 final size:40
Alignment explanation
Indices: 17976071--17976292 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
17976061 ATTCCCAAAC
* * * * *
17976071 CAAATGCCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCT
1 CAAATGCCTTCGGGACTTAGCCCAGATATAG-TAACTCGCA
*
17976110 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
* * *
17976150 CAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
**
17976190 CAAATGCCTTCGACACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
**
17976230 CAAATGCCTTCGACACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
17976270 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
17976293 GGAATTAGTN
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 19 0.11
40 147 0.89
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
Found at i:17976283 original size:120 final size:119
Alignment explanation
Indices: 17976071--17976294 Score: 335
Period size: 120 Copynumber: 1.9 Consensus size: 119
17976061 ATTCCCAAAC
* * * * ** *
17976071 CAAATGCCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCAGT
1 CAAATGCCTTCGGAACTTAGCCAGATATAGCTACTCGCACAAATGCCTTCGACACTTAGCCCAGA
*
17976136 TATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
66 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
17976190 CAAATGCCTTC-GACACTTAGCCCAGATATAG-TAACTCGCACAAATGCCTTCGACACTTAGCCC
1 CAAATGCCTTCGGA-ACTTAG-CCAGATATAGCT-ACTCGCACAAATGCCTTCGACACTTAGCCC
17976253 AGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
63 AGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
17976295 AATTAGTNTT
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
118 2 0.02
119 17 0.18
120 75 0.80
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGAACTTAGCCAGATATAGCTACTCGCACAAATGCCTTCGACACTTAGCCCAGA
TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:17985242 original size:68 final size:66
Alignment explanation
Indices: 17985170--17985319 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
17985160 CATCATGTGT
* * * *
17985170 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
17985233 TGTAG
62 TGTAG
** * *
17985238 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
17985303 AG
65 AG
17985305 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
17985320 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:17985275 original size:64 final size:64
Alignment explanation
Indices: 17985194--17985377 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
17985184 AGACATTATG
* * *
17985194 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
17985258 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
17985323 AA
63 AA
* *
17985325 ACTG--GCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
17985378 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 20 0.20
67 32 0.32
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:17990426 original size:20 final size:20
Alignment explanation
Indices: 17990401--17990441 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17990391 TGAAACCAAT
* *
17990401 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATAAAATAAAA
*
17990421 TTGATTAGAATAAAATAAAA
1 TTGATTAAAATAAAATAAAA
17990441 T
1 T
17990442 CAGGATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATAAAATAAAA
Found at i:17993788 original size:28 final size:28
Alignment explanation
Indices: 17993750--17993820 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
17993740 ATGGCTTGGC
*
17993750 ACACGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGACATG
* *
17993778 ATACGCTCGTGTCCTTCACACGGACATG
1 ACACGCCCGTGTCCTTCACACGGACATG
17993806 ACACGCCCGTGTCCT
1 ACACGCCCGTGTCCT
17993821 AGCTCGTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.18, C:0.39, G:0.21, T:0.21
Consensus pattern (28 bp):
ACACGCCCGTGTCCTTCACACGGACATG
Found at i:17996199 original size:79 final size:81
Alignment explanation
Indices: 17996090--17996272 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
17996080 TACTCGTTCA
* *
17996090 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
17996153 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
17996170 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
17996233 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
17996249 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
17996273 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:17996272 original size:40 final size:40
Alignment explanation
Indices: 17996069--17996272 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
17996059 CGGAATTTAA
** *
17996069 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17996109 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17996149 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
17996188 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
17996228 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
17996268 CCGGA
1 CCGGA
17996273 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18012708 original size:13 final size:13
Alignment explanation
Indices: 18012690--18012716 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18012680 GCTCGGCAGG
18012690 GACACGCCCGTGT
1 GACACGCCCGTGT
18012703 GACACGCCCGTGT
1 GACACGCCCGTGT
18012716 G
1 G
18012717 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:18015262 original size:23 final size:22
Alignment explanation
Indices: 18015234--18015278 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
18015224 GAGAGACATT
18015234 GGCATGG-AAATGTCATGAGGATG
1 GGCATGGTAAA-GTCATG-GGATG
18015257 GGCATGGTAAAGTCATGGGATG
1 GGCATGGTAAAGTCATGGGATG
18015279 AAGTTTCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 13 0.62
24 3 0.14
ACGTcount: A:0.29, C:0.09, G:0.40, T:0.22
Consensus pattern (22 bp):
GGCATGGTAAAGTCATGGGATG
Found at i:18029809 original size:37 final size:37
Alignment explanation
Indices: 18029759--18029839 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
18029749 GCCAGAATTC
18029759 AAATATGAAAACAATAGTTAACACCCTTTATTAACAT
1 AAATATGAAAACAATAGTTAACACCCTTTATTAACAT
18029796 AAATATGAAAACAATAGTTAACACCCTTTATTAACAT
1 AAATATGAAAACAATAGTTAACACCCTTTATTAACAT
*
18029833 ACATATG
1 AAATATG
18029840 CATGAAGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (37 bp):
AAATATGAAAACAATAGTTAACACCCTTTATTAACAT
Found at i:18031070 original size:45 final size:45
Alignment explanation
Indices: 18031000--18031113 Score: 185
Period size: 45 Copynumber: 2.6 Consensus size: 45
18030990 TGGCATTTCA
* *
18031000 CCTGCTAGGCTC-GAGGCCCGAATAATATCTCACCGGTATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATAG
* *
18031044 CCTGCTAGGCTCACAGGCCCAAATAATATCTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATAG
18031089 CCTGCTAGGCTCAAAGGCCCGAATA
1 CCTGCTAGGCTCAAAGGCCCGAATA
18031114 GTACTGTACA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
44 12 0.19
45 52 0.81
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (45 bp):
CCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATAG
Found at i:18031201 original size:33 final size:33
Alignment explanation
Indices: 18031154--18031220 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
18031144 TATACAACAC
*
18031154 AATCACACCGATTTAGGTACAATCATCATTCGA
1 AATCACACCAATTTAGGTACAATCATCATTCGA
18031187 AATCACACCAATTTAGGTACAATCATCATTCGA
1 AATCACACCAATTTAGGTACAATCATCATTCGA
18031220 A
1 A
18031221 TATATCATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (33 bp):
AATCACACCAATTTAGGTACAATCATCATTCGA
Found at i:18039379 original size:20 final size:21
Alignment explanation
Indices: 18039342--18039380 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
18039332 TCTAGCCCAT
*
18039342 TTATTAACAAATAGAATAAGG
1 TTATTAACAAATAAAATAAGG
18039363 TTATTAA-AAATAAAATAA
1 TTATTAACAAATAAAATAA
18039381 TCCCAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (21 bp):
TTATTAACAAATAAAATAAGG
Found at i:18039983 original size:26 final size:26
Alignment explanation
Indices: 18039918--18040055 Score: 183
Period size: 26 Copynumber: 5.4 Consensus size: 26
18039908 CTGGAGGCCT
18039918 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
18039942 AGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
18039968 AACCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
18039994 AGCCCTTTTCGGTATACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
18040020 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
18040046 AGCCCTTTTC
1 AGCCCTTTTC
18040056 CACTTCCTCC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 9 0.09
26 78 0.80
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:18040002 original size:52 final size:52
Alignment explanation
Indices: 18039923--18040055 Score: 218
Period size: 52 Copynumber: 2.6 Consensus size: 52
18039913 GGCCTAGCCT
18039923 CTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTAGGGCATAAACC
1 CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAACC
* * *
18039972 CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTATACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAACC
18040024 CTTTTCAATAAACTGGGGCATAAGCCCTTTTC
1 CTTTTCAATAAACTGGGGCATAAGCCCTTTTC
18040056 CACTTCCTCC
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
49 5 0.06
50 3 0.04
51 10 0.13
52 60 0.77
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (52 bp):
CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAACC
Found at i:18040129 original size:20 final size:20
Alignment explanation
Indices: 18040104--18040178 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
18040094 TTATGAATTC
*
18040104 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
18040124 ATCATGTGCATATCATAGAT
1 ATCATGTGCATATCATACAT
18040144 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATA-CAT
18040165 -TCATGT--ATATCATA
1 ATCATGTGCATATCATA
18040179 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:18040135 original size:11 final size:11
Alignment explanation
Indices: 18040104--18040159 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18040094 TTATGAATTC
18040104 ATCATGTGCAT
1 ATCATGTGCAT
* *
18040115 TTCA--TACAT
1 ATCATGTGCAT
18040124 ATCATGTGCAT
1 ATCATGTGCAT
*
18040135 ATCAT-AG-AT
1 ATCATGTGCAT
18040144 ATCATGTGCAT
1 ATCATGTGCAT
18040155 ATCAT
1 ATCAT
18040160 ATCATTCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:18040177 original size:9 final size:10
Alignment explanation
Indices: 18040121--18040177 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 10
18040111 GCATTTCATA
18040121 CATATCATGT
1 CATATCATGT
18040131 GCATATCATAG-
1 -CATATCAT-GT
18040142 -ATATCATGT
1 CATATCATGT
*
18040151 GCATATCATAT
1 -CATATCATGT
18040162 CAT-TCATGT
1 CATATCATGT
18040171 -ATATCAT
1 CATATCAT
18040178 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
8 3 0.08
9 16 0.41
10 3 0.08
11 16 0.41
12 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (10 bp):
CATATCATGT
Found at i:18056692 original size:31 final size:31
Alignment explanation
Indices: 18056655--18056717 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
18056645 GATACATATG
18056655 ATGATTGCCTAGCCAATCTAGCCAAGGTACT
1 ATGATTGCCTAGCCAATCTAGCCAAGGTACT
18056686 ATGATTGCCTAGCCAATCTAGCCAAGGTACT
1 ATGATTGCCTAGCCAATCTAGCCAAGGTACT
18056717 A
1 A
18056718 AGGCAATGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (31 bp):
ATGATTGCCTAGCCAATCTAGCCAAGGTACT
Found at i:18066806 original size:6 final size:6
Alignment explanation
Indices: 18066795--18066956 Score: 138
Period size: 6 Copynumber: 26.8 Consensus size: 6
18066785 AACCAAAATG
*
18066795 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
18066843 AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * *
18066892 AGAATC AGTAA-C AGAATC AAAATC AGAATC AAAATC AGTATT AGTAA-C
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
18066940 AGAATT AGAATT AGAAT
1 AGAATC AGAATC AGAAT
18066957 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
5 10 0.08
6 108 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:18066810 original size:30 final size:29
Alignment explanation
Indices: 18066774--18066956 Score: 163
Period size: 30 Copynumber: 6.1 Consensus size: 29
18066764 AAGAAACATT
* * *
18066774 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
18066804 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
18066834 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*
18066864 ATCAGAATTACGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
** * *
18066895 ATCAGTAACAG-AATCAAAATCAGAATCAAA
1 ATCAG-AATTGTAA-CAGAATCAGAATCAGA
* * *
18066925 ATCAGTATTAGTAACAGAATTAGAATTAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
18066955 AT
1 AT
18066957 GTGAATGCAA
Statistics
Matches: 125, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
29 3 0.02
30 90 0.72
31 30 0.24
32 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:18067111 original size:27 final size:26
Alignment explanation
Indices: 18067074--18067139 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
18067064 AGCATGGCTG
*
18067074 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
18067100 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
18067127 CCAGAATCAGATA
1 CCAGAA-CAGATA
18067140 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:18067144 original size:27 final size:27
Alignment explanation
Indices: 18067074--18067147 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
18067064 AGCATGGCTG
* *
18067074 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
18067100 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
18067127 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
18067148 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:18067154 original size:27 final size:27
Alignment explanation
Indices: 18067098--18067155 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
18067088 GTGACAGAGT
* * *
18067098 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
18067125 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
18067152 CACC
1 CACC
18067156 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:18067510 original size:27 final size:27
Alignment explanation
Indices: 18067453--18067693 Score: 353
Period size: 27 Copynumber: 9.0 Consensus size: 27
18067443 GGGGCAAAAT
* * *
18067453 GGTAATTTTACCCTACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18067479 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18067506 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18067533 GGTAATTCTACCCTACA-GGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18067559 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18067586 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
18067613 GGTAATTCTACCCTACAGGGG-ATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18067639 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
18067666 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
18067693 G
1 G
18067694 ATATTTTTCA
Statistics
Matches: 191, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 63 0.33
27 128 0.67
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:18067522 original size:53 final size:54
Alignment explanation
Indices: 18067454--18067693 Score: 335
Period size: 53 Copynumber: 4.5 Consensus size: 54
18067444 GGGCAAAATG
* * * * *
18067454 GTAATTTTACCCTACA-AGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
18067507 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTAC-
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
18067559 GATAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
18067614 GTAATTCTACCCTACAGGGG-ATTTCAGTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
18067667 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
18067694 ATATTTTTCA
Statistics
Matches: 168, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
52 1 0.01
53 112 0.67
54 54 0.32
55 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:18067579 original size:80 final size:79
Alignment explanation
Indices: 18067453--18067693 Score: 349
Period size: 80 Copynumber: 3.0 Consensus size: 79
18067443 GGGGCAAAAT
* * * * **
18067453 GGTAATTTTACCCTACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
1 GGTAATTCTACCCTACAGGGTAT-TCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
18067518 CTACAGGGGTATTTC
65 CTACAGGGGTATTTC
* *
18067533 GGTAATTCTACCCTACAGGGTATTACGATAATTCTACCCTATAGGGGTATTTCGGTAATTTTACC
1 GGTAATTCTACCCTACAGGGTATT-CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
18067598 CTACAGGGGTATTTC
65 CTACAGGGGTATTTC
* *
18067613 GGTAATTCTACCCTACAGGGGATTTC-AGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGTA-TTCGA-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
18067677 CCTACAGGGGTATTTC
64 CCTACAGGGGTATTTC
18067693 G
1 G
18067694 ATATTTTTCA
Statistics
Matches: 146, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 2 0.01
80 142 0.97
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (79 bp):
GGTAATTCTACCCTACAGGGTATTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTTC
Done.