Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 146 of 373
Found at i:48382257 original size:46 final size:46
Alignment explanation
Indices: 48382201--48382376 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
48382191 TGGTTGAGCA
* * *
48382201 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGGTGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
48382247 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
48382294 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
48382340 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48382377 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
45 6 0.06
46 59 0.56
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:48382357 original size:93 final size:93
Alignment explanation
Indices: 48382198--48382368 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
48382188 GGATGGTTGA
* * * * *
48382198 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGGTGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCGTTGAGT
48382263 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
48382291 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAA-CTCGTTGAG
48382355 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
48382369 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48384297 original size:23 final size:23
Alignment explanation
Indices: 48384253--48384297 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48384243 AGTTTTCATA
*
48384253 AATTATTTCACAATGAATAACAC
1 AATTATTTCACAATGAAGAACAC
*
48384276 AATTATATT-ACAATTAAGAACA
1 AATTAT-TTCACAATGAAGAACA
48384298 TACATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTATTTCACAATGAAGAACAC
Found at i:48389073 original size:12 final size:12
Alignment explanation
Indices: 48389056--48389080 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48389046 TTTTTCAAAG
48389056 TTAGACTACTGC
1 TTAGACTACTGC
48389068 TTAGACTACTGC
1 TTAGACTACTGC
48389080 T
1 T
48389081 GCTGTCCAAA
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:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (12 bp):
TTAGACTACTGC
Found at i:48390250 original size:24 final size:24
Alignment explanation
Indices: 48390223--48390269 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
48390213 AGTTTCCTAA
*
48390223 TTTT-CTTCTCTCAGTTAAACTCTG
1 TTTTACTT-TCTCACTTAAACTCTG
*
48390247 TTTTAGTTTCTCACTTAAACTCT
1 TTTTACTTTCTCACTTAAACTCT
48390270 AATTAACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.51
Consensus pattern (24 bp):
TTTTACTTTCTCACTTAAACTCTG
Found at i:48397105 original size:28 final size:28
Alignment explanation
Indices: 48397037--48397246 Score: 332
Period size: 28 Copynumber: 7.5 Consensus size: 28
48397027 CATGAGATTG
* * * *
48397037 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48397066 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48397094 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48397122 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
48397150 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48397178 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48397206 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
48397233 ACACTGAGTGTGCG
1 GCACTAAGTGTGCG
48397247 GACTTAATAT
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
27 23 0.13
28 130 0.76
29 18 0.11
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48405125 original size:28 final size:28
Alignment explanation
Indices: 48405057--48405238 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
48405047 CATGAGATTG
* * * *
48405057 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48405086 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48405114 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
48405142 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48405170 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48405198 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
48405225 ACACTGAGTGTGCG
1 GCACTAAGTGTGCG
48405239 GACTTAATAT
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
27 23 0.16
28 102 0.71
29 18 0.13
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48411091 original size:16 final size:17
Alignment explanation
Indices: 48411054--48411094 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
48411044 GGAATTTTGG
48411054 GAAATAATAAAATTTAA
1 GAAATAATAAAATTTAA
*
48411071 AAAATAA-AGAAA-TTAA
1 GAAATAATA-AAATTTAA
48411087 GAAATAAT
1 GAAATAAT
48411095 CCCAACTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (17 bp):
GAAATAATAAAATTTAA
Found at i:48428996 original size:49 final size:49
Alignment explanation
Indices: 48428930--48429026 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
48428920 AAAAGTCATA
*
48428930 TGCAGATTTAAAAAGAAAATAGATTGAATTCCAGGTAGGTGATAAAGTT
1 TGCAGATTTAAAAAGAAAAGAGATTGAATTCCAGGTAGGTGATAAAGTT
*
48428979 TGCAGATTTAAAAAGAAAAGAGATTGAATTCTAGGTAGGTGATAAAGT
1 TGCAGATTTAAAAAGAAAAGAGATTGAATTCCAGGTAGGTGATAAAGT
48429027 GTTCTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.28
Consensus pattern (49 bp):
TGCAGATTTAAAAAGAAAAGAGATTGAATTCCAGGTAGGTGATAAAGTT
Found at i:48438211 original size:27 final size:26
Alignment explanation
Indices: 48438170--48438282 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
48438160 CAACATAGCT
* * *
48438170 ACCAGAACAGGTAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
48438196 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
48438224 ACCAGAACAGATATATGTGGCAGAACC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
48438251 ACCAGATCAAATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
48438278 ACCAG
1 ACCAG
48438283 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.68
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:48438265 original size:54 final size:54
Alignment explanation
Indices: 48438170--48438282 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
48438160 CAACATAGCT
* ** *
48438170 ACCAGAACAGGTAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAACCACCAGATACAAATAATCGTGGCAGAGCC
* * *
48438224 ACCAGAACAGATATATGTGGCAGAACCACCAGAT-CAAATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAACCACCAGATACAAATAATCGTGGCAGAGCC
48438278 ACCAG
1 ACCAG
48438283 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAACCACCAGATACAAATAATCGTGGCAGAGCC
Found at i:48440228 original size:30 final size:30
Alignment explanation
Indices: 48440194--48440254 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
48440184 TTAATACACC
48440194 TCATTGCATGTAAAACTCATCTCATCGGTT
1 TCATTGCATGTAAAACTCATCTCATCGGTT
48440224 TCATTGCATGTAAAACTCATCTCATCGGTT
1 TCATTGCATGTAAAACTCATCTCATCGGTT
48440254 T
1 T
48440255 TCATACATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (30 bp):
TCATTGCATGTAAAACTCATCTCATCGGTT
Found at i:48449114 original size:133 final size:133
Alignment explanation
Indices: 48448914--48449183 Score: 432
Period size: 133 Copynumber: 2.0 Consensus size: 133
48448904 ATTTAATTAT
* * * ** *
48448914 ATGAAGTGTTATGAGATCATGATAGATGAAATGGAAAATGTTGGCATAATTTTTTTGGTTGGAAT
1 ATGAAATGTTATGAGATCATGATAGATGAAAAGGAAAATGTTGGCATAAATGATTTGATTGGAAT
* *
48448979 GAGTAATGCAAATTGGAATTGGATGAATGAAATGTATATTGAGATGTTACTAGTACATGTTTTAT
66 GAGTAATGCAAATTGGAATTGGATGAATAAAATGTATATTGAGATATTACTAGTACATGTTTTAT
48449044 ATA
131 ATA
48449047 ATGAAATGTTATGAGATCATGATAGATGAAAAGGAAAATGTTGGCATAAATGATTTGATTGGAAT
1 ATGAAATGTTATGAGATCATGATAGATGAAAAGGAAAATGTTGGCATAAATGATTTGATTGGAAT
* * *
48449112 GAGTAATGCAAATTGGAATTTGATTAATAAAATGTATATTGAGATATTATTAGTACATGTTTTAT
66 GAGTAATGCAAATTGGAATTGGATGAATAAAATGTATATTGAGATATTACTAGTACATGTTTTAT
*
48449177 TTA
131 ATA
48449180 ATGA
1 ATGA
48449184 TAAGATTATA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 125 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (133 bp):
ATGAAATGTTATGAGATCATGATAGATGAAAAGGAAAATGTTGGCATAAATGATTTGATTGGAAT
GAGTAATGCAAATTGGAATTGGATGAATAAAATGTATATTGAGATATTACTAGTACATGTTTTAT
ATA
Found at i:48453697 original size:28 final size:28
Alignment explanation
Indices: 48453634--48453841 Score: 350
Period size: 28 Copynumber: 7.5 Consensus size: 28
48453624 ATATTAAGTC
* *
48453634 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
48453661 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
48453689 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
48453716 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
48453744 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
48453772 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
48453800 CGCACACTTAGTGCTACATAGTC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
48453827 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48453842 GCACAATTTA
Statistics
Matches: 174, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
27 67 0.39
28 107 0.61
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:48453718 original size:55 final size:55
Alignment explanation
Indices: 48453634--48453841 Score: 362
Period size: 55 Copynumber: 3.8 Consensus size: 55
48453624 ATATTAAGTC
* *
48453634 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
48453689 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
48453744 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
*
48453800 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCT
48453842 GCACAATTTA
Statistics
Matches: 145, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
55 92 0.63
56 53 0.37
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:48453827 original size:111 final size:110
Alignment explanation
Indices: 48453634--48453841 Score: 389
Period size: 111 Copynumber: 1.9 Consensus size: 110
48453624 ATATTAAGTC
*
48453634 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
48453699 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
66 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
48453744 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
48453809 AGTGCTACATAGTCAACTCGCACACTTAGTGCT
65 AGTGCTACATAGTCAACTCGCACACTTAGTGCT
48453842 GCACAATTTA
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
110 21 0.22
111 74 0.78
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (110 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:48460568 original size:37 final size:37
Alignment explanation
Indices: 48460518--48460591 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
48460508 TAAATATTCT
**
48460518 TTTGATAAGTACATTCGTTGTTCTAAGAGAAAAAAAA
1 TTTGATAAGTACATTCACTGTTCTAAGAGAAAAAAAA
48460555 TTTGATAAGTACATTCACTGTTCTAAGAGAAAAAAAA
1 TTTGATAAGTACATTCACTGTTCTAAGAGAAAAAAAA
48460592 ATATGGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (37 bp):
TTTGATAAGTACATTCACTGTTCTAAGAGAAAAAAAA
Found at i:48462288 original size:23 final size:23
Alignment explanation
Indices: 48462262--48462307 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
48462252 GTATGTGGTT
48462262 AGAGTACAC-AGTTGTATGGTTCA
1 AGAGTACACGA-TTGTATGGTTCA
48462285 AGAGTACACGATTGTATGGTTCA
1 AGAGTACACGATTGTATGGTTCA
48462308 GCACCACACG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (23 bp):
AGAGTACACGATTGTATGGTTCA
Found at i:48462316 original size:23 final size:23
Alignment explanation
Indices: 48462273--48462317 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48462263 GAGTACACAG
**
48462273 TTGTATGGTTCAAGAGTACACGA
1 TTGTATGGTTCAAGACCACACGA
48462296 TTGTATGGTTC-AGCACCACACG
1 TTGTATGGTTCAAG-ACCACACG
48462318 GCATCAGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (23 bp):
TTGTATGGTTCAAGACCACACGA
Found at i:48472229 original size:26 final size:25
Alignment explanation
Indices: 48472180--48472232 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
48472170 AATGGTAGTT
48472180 AAATGTTAAATTTATATGCTGTTATG
1 AAATGTTAAATTTATATGC-GTTATG
48472206 AAATGTTAGAATTTATATTG-GTTATG
1 AAATGTTA-AATTTATA-TGCGTTATG
48472232 A
1 A
48472233 CTAAATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.60
27 8 0.32
28 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (25 bp):
AAATGTTAAATTTATATGCGTTATG
Found at i:48476884 original size:20 final size:20
Alignment explanation
Indices: 48476861--48476899 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48476851 TATTCATTTA
48476861 TTTATATAAATTTTATAAAT
1 TTTATATAAATTTTATAAAT
* **
48476881 TTTATGTATTTTTTATAAA
1 TTTATATAAATTTTATAAA
48476900 ATCTTATGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTATATAAATTTTATAAAT
Found at i:48476906 original size:21 final size:20
Alignment explanation
Indices: 48476871--48476914 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
48476861 TTTATATAAA
* *
48476871 TTTTATAAATTTTATGTATT
1 TTTTATAAATCTTATGTAAT
48476891 TTTTATAAAATCTTATGTAAT
1 TTTTAT-AAATCTTATGTAAT
48476912 TTT
1 TTT
48476915 ATTGAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTATAAATCTTATGTAAT
Found at i:48476913 original size:31 final size:32
Alignment explanation
Indices: 48476856--48476916 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
48476846 ATATATATTC
*
48476856 ATTTATTTATATAAATTTTATAAATTTTATGT
1 ATTTATTTATATAAATCTTATAAATTTTATGT
*
48476888 ATTT-TTTATA-AAATCTTATGTAATTTTAT
1 ATTTATTTATATAAATCTTAT-AAATTTTAT
48476917 TGAAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 14 0.54
32 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (32 bp):
ATTTATTTATATAAATCTTATAAATTTTATGT
Found at i:48476914 original size:20 final size:19
Alignment explanation
Indices: 48476869--48476916 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
48476859 TATTTATATA
*
48476869 AATTTTATAAATTTTATGT
1 AATTTTATAAATCTTATGT
*
48476888 ATTTTTTATAAAATCTTATGT
1 A-ATTTTAT-AAATCTTATGT
48476909 AATTTTAT
1 AATTTTAT
48476917 TGAAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 11 0.46
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (19 bp):
AATTTTATAAATCTTATGT
Found at i:48482030 original size:28 final size:28
Alignment explanation
Indices: 48481996--48482051 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
48481986 GTACGAGTAA
48481996 GACCATGGCATCGATATGTGATTCCAAT
1 GACCATGGCATCGATATGTGATTCCAAT
48482024 GACCATGGCATCGATATGTGATTCCAAT
1 GACCATGGCATCGATATGTGATTCCAAT
48482052 ATGTGTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (28 bp):
GACCATGGCATCGATATGTGATTCCAAT
Found at i:48501393 original size:12 final size:12
Alignment explanation
Indices: 48501376--48501401 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48501366 CTAAAAATGT
48501376 GAAAATCATCAA
1 GAAAATCATCAA
48501388 GAAAATCATCAA
1 GAAAATCATCAA
48501400 GA
1 GA
48501402 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:48505955 original size:30 final size:30
Alignment explanation
Indices: 48505921--48505981 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48505911 TCCTTAACTC
48505921 AAACTTTGGCAAAATTACAATTTTACCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
* * * * *
48505951 AAACTTTTGCATATTTACACTTTTCCCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
48505981 A
1 A
48505982 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:0.26, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTACCCCT
Found at i:48519034 original size:80 final size:76
Alignment explanation
Indices: 48518949--48519203 Score: 271
Period size: 88 Copynumber: 3.2 Consensus size: 76
48518939 ATAACTATTT
* *
48518949 TAAAATTATTTTGTTAGTAATTTAGGATTATGTTATAAATT-TTTGTGTTTAGTTTAGTATTTTG
1 TAAAATTATTTTGTTAGTAATTTAGGATTAGGTTATAAATTGTTAGTG--T--TTT-GTATTTTG
48519013 TGATTTTTTATTAATG
61 TGATTTTTTATTAATG
* * *
48519029 TAAAATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATT
1 TAAAATTATTTTGTTAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTTTGTATTTTGTGATT
48519094 TTTTATTAATG
66 TTTTATTAATG
*
48519105 TAAAATTGTTTTGTTAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTG
1 T--AA----------AATTATTTTGTTAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTTTG
* *
48519170 TGTTTTGTGATTTTTTAGTAATG
54 TATTTTGTGATTTTTTATTAATG
48519193 TAAAA-TATTTT
1 TAAAATTATTTT
48519204 AAAAAAATAT
Statistics
Matches: 155, Mismatches: 7, Indels: 31
0.80 0.04 0.16
Matches are distributed among these distances:
75 6 0.04
76 26 0.17
77 3 0.02
78 2 0.01
79 1 0.01
80 38 0.25
81 5 0.03
86 2 0.01
88 72 0.46
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.56
Consensus pattern (76 bp):
TAAAATTATTTTGTTAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTTTGTATTTTGTGATT
TTTTATTAATG
Found at i:48519118 original size:76 final size:78
Alignment explanation
Indices: 48518949--48519120 Score: 235
Period size: 76 Copynumber: 2.2 Consensus size: 78
48518939 ATAACTATTT
* * *
48518949 TAAAATTATTTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTAGTTTAGTATTTTGT
1 TAAAATTGTTTTGTTAGTAATTTAGGATTAGGTTATAAATTTTAGTG-TTA-TTTAGTATTTTGT
48519014 GATTTTTTATTAATG
64 GATTTTTTATTAATG
* *
48519029 TAAAATTAG-TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTG-T-TTT-GTGTTTTGT
1 TAAAATT-GTTTTGTTAGTAATTTAGGATTAGGTTATAAATT-TTAGTGTTATTTAGTATTTTGT
48519090 GATTTTTTATTAATG
64 GATTTTTTATTAATG
48519105 TAAAATTGTTTTGTTA
1 TAAAATTGTTTTGTTA
48519121 ATTATTTTGT
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
75 1 0.01
76 37 0.44
77 3 0.04
79 1 0.01
80 37 0.44
81 5 0.06
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.56
Consensus pattern (78 bp):
TAAAATTGTTTTGTTAGTAATTTAGGATTAGGTTATAAATTTTAGTGTTATTTAGTATTTTGTGA
TTTTTTATTAATG
Found at i:48519138 original size:88 final size:88
Alignment explanation
Indices: 48519032--48519198 Score: 316
Period size: 88 Copynumber: 1.9 Consensus size: 88
48519022 ATTAATGTAA
48519032 AATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTT
1 AATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTT
*
48519097 TATTAATGTAAAATTGTTTTGTT
66 TAGTAATGTAAAATTGTTTTGTT
*
48519120 AATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTT
1 AATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTT
48519185 TAGTAATGTAAAAT
66 TAGTAATGTAAAAT
48519199 ATTTTAAAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (88 bp):
AATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTT
TAGTAATGTAAAATTGTTTTGTT
Found at i:48519215 original size:88 final size:88
Alignment explanation
Indices: 48519038--48519216 Score: 288
Period size: 88 Copynumber: 2.0 Consensus size: 88
48519028 GTAAAATTAG
*
48519038 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTTTATTAA
1 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTTTAGTAA
**** *
48519103 TGTAAAATTGTTTTGTTAATTAT
66 TGTAAAATTGTTTAAAAAAATAT
48519126 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTTTAGTAA
1 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTTTAGTAA
48519191 TGTAAAATAT-TTTAAAAAAATAT
66 TGTAAAAT-TGTTTAAAAAAATAT
48519214 TTT
1 TTT
48519217 TATAGTTATT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 83 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (88 bp):
TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTTTAGTAA
TGTAAAATTGTTTAAAAAAATAT
Found at i:48519347 original size:102 final size:102
Alignment explanation
Indices: 48519122--48519411 Score: 428
Period size: 102 Copynumber: 2.8 Consensus size: 102
48519112 GTTTTGTTAA
* *
48519122 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTT--TGT--GTTTTGTGATTT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGGTTTTGTGATTT
48519183 TTTAGTAATGTAAAATATTTTAAAAAAATATTTTTATAG
66 TTTAGTAATGT-AAAT-TTTTAAAAAAATATTTTTATAG
**
48519222 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTTTTGTTTAGTTTAGGATTTTGTGATT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGG-TTTTGTGATT
*
48519287 TTTTAGTAATGT-AATTTTTAAAAATATATTTTTATAG
65 TTTTAGTAATGTAAATTTTTAAAAAAATATTTTTATAG
48519324 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAGTTTAG-GTTTTGTGA
*
48519389 TTTTTTTATTAATGTAAATTTTT
63 -TTTTTTAGTAATGTAAATTTTT
48519412 TATAATGTAA
Statistics
Matches: 172, Mismatches: 8, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
100 43 0.25
102 48 0.28
103 6 0.03
104 32 0.19
105 36 0.21
106 7 0.04
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (102 bp):
TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGGTTTTGTGATTT
TTTAGTAATGTAAATTTTTAAAAAAATATTTTTATAG
Found at i:48519417 original size:16 final size:16
Alignment explanation
Indices: 48519390--48519425 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
48519380 GTTTTGTGAT
48519390 TTTTTTATTAATGTAAA
1 TTTTTTATTAATGT-AA
48519407 TTTTTTA-TAATGTAA
1 TTTTTTATTAATGTAA
48519422 TTTT
1 TTTT
48519426 ATTTGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTTTTATTAATGTAA
Found at i:48528151 original size:12 final size:12
Alignment explanation
Indices: 48528130--48528163 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
48528120 AATAGAGCAC
*
48528130 CTACTCGGGTGA
1 CTACTAGGGTGA
48528142 CTACTAGGGTGA
1 CTACTAGGGTGA
48528154 CTACTAGGGT
1 CTACTAGGGT
48528164 TTGGTGTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (12 bp):
CTACTAGGGTGA
Found at i:48529215 original size:132 final size:129
Alignment explanation
Indices: 48529068--48529315 Score: 318
Period size: 132 Copynumber: 1.9 Consensus size: 129
48529058 GAAAATAAGC
* * *
48529068 TTACCTTTATTTTTTATTTGAAATCTTATGCATTTT-AATTTAAAAGGATATTCGATTATTTAGA
1 TTACCTTTATTTTTTATTT-AAAACTTAAGCATTTTAAATTTAAAAGGATATTCGATTATTTAAA
* *
48529132 TCCAACGAGAAAAAATTGAAACCCCGTAAGTTAGGGCACGACTTTCTCGAGTTTCTAAACATAGA
65 TCCAACGAG--AAAATCGAAACCCCGTAAGTTAGGGCACGAC-TTCTCGAATTTCTAAACATAGA
48529197 ATA
127 ATA
* * * * *
48529200 TTACCTTTATTTTTTATTTAAAACTTAAGTATTTTAAATTTAGAAGGATGTTCGGTTGTTTAAAT
1 TTACCTTTATTTTTTATTTAAAACTTAAGCATTTTAAATTTAAAAGGATATTCGATTATTTAAAT
** * * *
48529265 TTAACGAGAAAATCGAAACCTCGTAAGTTAGGGTATGACTTCTCGAATTTC
66 CCAACGAGAAAATCGAAACCCCGTAAGTTAGGGCACGACTTCTCGAATTTC
48529316 CAAAAACGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
129 11 0.11
130 27 0.27
131 13 0.13
132 49 0.49
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (129 bp):
TTACCTTTATTTTTTATTTAAAACTTAAGCATTTTAAATTTAAAAGGATATTCGATTATTTAAAT
CCAACGAGAAAATCGAAACCCCGTAAGTTAGGGCACGACTTCTCGAATTTCTAAACATAGAATA
Found at i:48529458 original size:51 final size:52
Alignment explanation
Indices: 48529398--48529501 Score: 201
Period size: 51 Copynumber: 2.0 Consensus size: 52
48529388 CATGCTATTT
48529398 AATTGAAATATAATAAAATGGCCTATTATGAATAAAGGGAAAATTAAATAAG
1 AATTGAAATATAATAAAATGGCCTATTATGAATAAAGGGAAAATTAAATAAG
48529450 AATT-AAATATAATAAAATGGCCTATTATGAATAAAGGGAAAATTAAATAAG
1 AATTGAAATATAATAAAATGGCCTATTATGAATAAAGGGAAAATTAAATAAG
48529501 A
1 A
48529502 CCTTTGAAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 48 0.92
52 4 0.08
ACGTcount: A:0.55, C:0.04, G:0.14, T:0.27
Consensus pattern (52 bp):
AATTGAAATATAATAAAATGGCCTATTATGAATAAAGGGAAAATTAAATAAG
Found at i:48529723 original size:27 final size:27
Alignment explanation
Indices: 48529692--48529892 Score: 72
Period size: 26 Copynumber: 7.9 Consensus size: 27
48529682 AAGCGAAACA
48529692 AAATAATATATAAAAAAAATTTGAAG-T
1 AAATAATATATAAAAAAAATTT-AAGAT
* *
48529719 AAAT-A-GTAT-AAAACAATTTAAGAT
1 AAATAATATATAAAAAAAATTTAAGAT
* * *
48529743 AAATAATATGT-AAAACAA-TTAA-AA
1 AAATAATATATAAAAAAAATTTAAGAT
* ** * *
48529767 AAACAATA-A-ACAAAGCAATTTAAAAC
1 AAATAATATATA-AAAAAAATTTAAGAT
* * * *
48529793 AAATAATACAT-AAGACAACTT---A-
1 AAATAATATATAAAAAAAATTTAAGAT
* ** *
48529815 AAATAATATATGAAAAACGTTTAAAAT
1 AAATAATATATAAAAAAAATTTAAGAT
* *
48529842 AAATAATATGTAAAAAGAAATTTAAAAT
1 AAATAATATATAAAAA-AAATTTAAGAT
* *
48529870 AAATAATATA-CAAAACAATTTAA
1 AAATAATATATAAAAAAAATTTAA
48529893 AAAAGAATAA
Statistics
Matches: 133, Mismatches: 26, Indels: 31
0.70 0.14 0.16
Matches are distributed among these distances:
22 10 0.08
23 9 0.07
24 28 0.21
25 12 0.09
26 33 0.25
27 23 0.17
28 18 0.14
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.26
Consensus pattern (27 bp):
AAATAATATATAAAAAAAATTTAAGAT
Found at i:48529731 original size:24 final size:24
Alignment explanation
Indices: 48529696--48529747 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
48529686 GAAACAAAAT
48529696 AATATATAAAAAAAATTTGAAG-TA
1 AATATATAAAAAAAATTT-AAGATA
*
48529720 AATAGTAT-AAAACAATTTAAGATA
1 AATA-TATAAAAAAAATTTAAGATA
48529744 AATA
1 AATA
48529748 ATATGTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 19 0.76
25 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (24 bp):
AATATATAAAAAAAATTTAAGATA
Found at i:48529798 original size:50 final size:50
Alignment explanation
Indices: 48529729--48529894 Score: 149
Period size: 50 Copynumber: 3.3 Consensus size: 50
48529719 AAATAGTATA
* *
48529729 AAACAATTTAAGATAAATAATATGTAAAACAA-TTAAAAAAACAATAAAC
1 AAACAATTTAAAATAAATAATATGTAAAACAACTTAAAAAAATAATAAAC
* ** * * *
48529778 AAAGCAATTTAAAACAAATAATACATAAGACAACTTAAAATAATATATGAA-
1 AAA-CAATTTAAAATAAATAATATGTAAAACAACTTAAAAAAATA-ATAAAC
* * * *
48529829 AAAC-GTTTAAAATAAATAATATGTAAAAAGAAATTTAAAATAAATAATATAC
1 AAACAATTTAAAATAAATAATATGT-AAAA-CAACTTAAAA-AAATAATAAAC
48529881 AAAACAATTTAAAA
1 -AAACAATTTAAAA
48529895 AAGAATAAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
49 19 0.21
50 28 0.31
51 23 0.26
52 8 0.09
53 4 0.04
54 7 0.08
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (50 bp):
AAACAATTTAAAATAAATAATATGTAAAACAACTTAAAAAAATAATAAAC
Found at i:48529946 original size:36 final size:36
Alignment explanation
Indices: 48529866--48529948 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
48529856 AAGAAATTTA
* *
48529866 AAATAAATA-ATATACAAAACAATTTAAAAAAGAAT
1 AAATATATATATATACAAAACAATTCAAAAAAGAAT
*
48529901 AAATGATATATATATA-AAAACAATTCAAAATA-AAT
1 AAAT-ATATATATATACAAAACAATTCAAAAAAGAAT
48529936 AACA-ATATATATA
1 AA-ATATATATATA
48529949 ACAGTTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
34 9 0.21
35 9 0.21
36 19 0.45
37 5 0.12
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (36 bp):
AAATATATATATATACAAAACAATTCAAAAAAGAAT
Found at i:48530045 original size:25 final size:26
Alignment explanation
Indices: 48530005--48530081 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 26
48529995 TTTAAATTAG
* *
48530005 TTTAAAATACATAATATGTGAAAAAA
1 TTTAAAATAAATAATATATGAAAAAA
*
48530031 -TTAAAATAAACAATA-AT-AAAACAA
1 TTTAAAATAAATAATATATGAAAA-AA
48530055 TTTAAAATAAATAATATATGAGAAAAA
1 TTTAAAATAAATAATATATGA-AAAAA
48530082 AGGTTGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
23 4 0.10
24 3 0.07
25 27 0.64
26 2 0.05
27 3 0.07
28 3 0.07
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (26 bp):
TTTAAAATAAATAATATATGAAAAAA
Found at i:48530934 original size:40 final size:40
Alignment explanation
Indices: 48530876--48530955 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
48530866 CGACGGAGAG
*
48530876 GAAGGTCAATCAATAGGTAAGATTTCTAATATTTATTCAT
1 GAAGGTCAATCAACAGGTAAGATTTCTAATATTTATTCAT
*
48530916 GAAGGTCAATCGACAGGTAAGATTTCTAATATTTATTCAT
1 GAAGGTCAATCAACAGGTAAGATTTCTAATATTTATTCAT
48530956 TTATTTCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (40 bp):
GAAGGTCAATCAACAGGTAAGATTTCTAATATTTATTCAT
Found at i:48531916 original size:76 final size:76
Alignment explanation
Indices: 48531782--48532179 Score: 428
Period size: 76 Copynumber: 5.1 Consensus size: 76
48531772 TTTTTTAAAT
* * * * * * *
48531782 AACTTTATATTTGTATAATGACTTTTTTGCCATTTTAGTTATTAATTTAAT-GTGTTTTTTTGCT
1 AACTTTGTATTTATGTAATGACTTTTTTGCCATTTCAGTTATTAATTT-ATGGTTTTTTTTTACA
48531846 ATTTAAATAGTC
65 ATTTAAATAGTC
* ** * *
48531858 AACTTTGTATTTATGTAATTACTTTTTCACCATTTCAGTTATTAATTTATGGTTTTTTTATGCAA
1 AACTTTGTATTTATGTAATGACTTTTTTGCCATTTCAGTTATTAATTTATGGTTTTTTTTTACAA
48531923 TTTAAATAGTC
66 TTTAAATAGTC
* *
48531934 AACTTTGTATTTATGTAATGACTTTTTTGCCATTTCATTTATTAATTTTAGGGTTTTTTTTGTTT
1 AACTTTGTATTTATGTAATGACTTTTTTGCCATTTCAGTTATTAA-TTTATGG-------T-TTT
*
48531999 TTTTTACAATTTACATAGTC
57 TTTTTACAATTTAAATAGTC
* * *
48532019 AACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAGTTATTAATTT-TAGGGTTTTTTTTACA
1 AACTTTGTATTTATGTAATGACTTTTTTGCCATTTCAGTTATTAATTTAT-GGTTTTTTTTTACA
48532083 ATTTAAATAGTC
65 ATTTAAATAGTC
* * ** *
48532095 AACTTTGTATTTACGTAATGACTTTTTTGCTATTTCAACTATTAATTTTAAGG--TTTTTTT-CA
1 AACTTTGTATTTATGTAATGACTTTTTTGCCATTTCAGTTATTAA-TTTATGGTTTTTTTTTACA
* *
48532157 ATTTAAATAATA
65 ATTTAAATAGTC
48532169 AACTTTGTATT
1 AACTTTGTATT
48532180 ATTTACTTAA
Statistics
Matches: 278, Mismatches: 31, Indels: 28
0.82 0.09 0.08
Matches are distributed among these distances:
74 23 0.08
75 9 0.03
76 167 0.60
77 11 0.04
84 6 0.02
85 62 0.22
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.54
Consensus pattern (76 bp):
AACTTTGTATTTATGTAATGACTTTTTTGCCATTTCAGTTATTAATTTATGGTTTTTTTTTACAA
TTTAAATAGTC
Found at i:48532045 original size:43 final size:43
Alignment explanation
Indices: 48531911--48532045 Score: 98
Period size: 42 Copynumber: 3.1 Consensus size: 43
48531901 AATTTATGGT
*
48531911 TTTTTTATGCAATTTAAATAGTCAACTTTGTATTTATGTAATGAC
1 TTTTTTA--CAATTTACATAGTCAACTTTGTATTTATGTAATGAC
* * * * ** ** **
48531956 TTTTTTGCCATTT-CATTTA-TTAATTTTAGGGTTT-T-TTTTGTT
1 TTTTTTACAATTTACA--TAGTCAACTTT-GTATTTATGTAATGAC
48531998 TTTTTTACAATTTACATAGTCAACTTTGTATTTATGTAATGAC
1 TTTTTTACAATTTACATAGTCAACTTTGTATTTATGTAATGAC
48532041 TTTTT
1 TTTTT
48532046 CGCTATTTCA
Statistics
Matches: 62, Mismatches: 21, Indels: 16
0.63 0.21 0.16
Matches are distributed among these distances:
41 6 0.10
42 22 0.35
43 22 0.35
44 6 0.10
45 6 0.10
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.56
Consensus pattern (43 bp):
TTTTTTACAATTTACATAGTCAACTTTGTATTTATGTAATGAC
Found at i:48532058 original size:161 final size:161
Alignment explanation
Indices: 48531836--48532154 Score: 505
Period size: 161 Copynumber: 2.0 Consensus size: 161
48531826 ATTTAATGTG
* * *
48531836 TTTTTTTGCTATTTAAATAGTCAACTTTGTATTTATGTAATTACTTTTTCACCATTTCAGTTATT
1 TTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCACCATTTCAGTTATT
* * *
48531901 AA-TTTATGGTTTTTTTATGCAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTTGCC
66 AATTTTAGGGTTTTTTT-TACAATTTAAATAGTCAACTTTGTATTTACGTAATGACTTTTTTGCC
** *
48531965 ATTTCATTTATTAATTTTAGGGTTTTTTTTGT
130 ATTTCAACTATTAATTTTAAGGTTTTTTTTGT
* * *
48531997 TTTTTTTACAATTTACATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAGTTATT
1 TTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCACCATTTCAGTTATT
*
48532062 AATTTTAGGGTTTTTTTTACAATTTAAATAGTCAACTTTGTATTTACGTAATGACTTTTTTGCTA
66 AATTTTAGGGTTTTTTTTACAATTTAAATAGTCAACTTTGTATTTACGTAATGACTTTTTTGCCA
48532127 TTTCAACTATTAATTTTAAGGTTTTTTT
131 TTTCAACTATTAATTTTAAGGTTTTTTT
48532155 CAATTTAAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
161 131 0.91
162 13 0.09
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (161 bp):
TTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCACCATTTCAGTTATT
AATTTTAGGGTTTTTTTTACAATTTAAATAGTCAACTTTGTATTTACGTAATGACTTTTTTGCCA
TTTCAACTATTAATTTTAAGGTTTTTTTTGT
Found at i:48539189 original size:3 final size:3
Alignment explanation
Indices: 48539181--48539206 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48539171 CTTTAGCAAA
48539181 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
48539207 ACATTAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48542627 original size:25 final size:26
Alignment explanation
Indices: 48542569--48542627 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
48542559 AAAAAAGGGT
* * *
48542569 AATTTTTTTTCCTTTTTTCTTTTAAA
1 AATTTATTTCCCTTTTTTCATTTAAA
*
48542595 AATATATTTCCCTTTTTT-ATTTAAA
1 AATTTATTTCCCTTTTTTCATTTAAA
*
48542620 TATTTATT
1 AATTTATT
48542628 ATGAAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.64
Consensus pattern (26 bp):
AATTTATTTCCCTTTTTTCATTTAAA
Found at i:48550805 original size:14 final size:14
Alignment explanation
Indices: 48550786--48550856 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
48550776 AAACGTACAT
48550786 AAAAATATATATAA
1 AAAAATATATATAA
* *
48550800 AAAAATATATTTAC
1 AAAAATATATATAA
*
48550814 AACAATA-ATATAA
1 AAAAATATATATAA
* *
48550827 AATAATGATATGTACA
1 AAAAAT-ATATATA-A
*
48550843 TAATAATATATATA
1 -AAAAATATATATA
48550857 TGTATATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 9 0.20
14 19 0.42
15 4 0.09
16 7 0.16
17 6 0.13
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAAATATATATAA
Found at i:48550847 original size:27 final size:27
Alignment explanation
Indices: 48550789--48550852 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
48550779 CGTACATAAA
*
48550789 AATATATATAAAAAAATATATTTACAAC
1 AATA-ATATAAAAAAATATATGTACAAC
* *
48550817 AATAATATAAAATAATGATATGTAC-AT
1 AATAATATAAAAAAAT-ATATGTACAAC
48550844 AATAATATA
1 AATAATATA
48550853 TATATGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (27 bp):
AATAATATAAAAAAATATATGTACAAC
Found at i:48551053 original size:3 final size:3
Alignment explanation
Indices: 48551039--48551174 Score: 65
Period size: 3 Copynumber: 47.0 Consensus size: 3
48551029 GAAAACACAC
* * * * *
48551039 AAT AAT ACT AAT AAT GAT AAT GAT AGT AAT AAT AAT ACT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * * *
48551086 AA- ATGT AAT AGT GGT AAA AAT AAT -AT AAT AAT GAT AGT -AT GAAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
48551130 AAT -AT ATAT AA- AA- AAT AA- AAT AAT AAAT AAT AAT AAT -AT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
48551172 AAT
1 AAT
48551175 TATAGAAAAA
Statistics
Matches: 99, Mismatches: 22, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
2 16 0.16
3 74 0.75
4 9 0.09
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48551153 original size:21 final size:21
Alignment explanation
Indices: 48551127--48551184 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
48551117 TGATAGTATG
48551127 AATAATATATATAAAAAATAA
1 AATAATATATATAAAAAATAA
*
48551148 AATAATA-A-ATAATAATAATAT
1 AATAATATATATAA-AA-AATAA
*
48551169 AATAAT-TATAGAAAAA
1 AATAATATATATAAAAA
48551185 TTAATATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 20 0.65
22 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAATATATATAAAAAATAA
Found at i:48551838 original size:24 final size:25
Alignment explanation
Indices: 48551782--48551838 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
48551772 AAAAAAGGGT
* * *
48551782 AATTTTTTTCCTTTTTTCTTTTAAA
1 AATTTATTTCCCTTTTTCATTTAAA
*
48551807 AATATATTTCCCTTTTT-ATTTAAA
1 AATTTATTTCCCTTTTTCATTTAAA
*
48551831 TATTTATT
1 AATTTATT
48551839 ATGAAAATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (25 bp):
AATTTATTTCCCTTTTTCATTTAAA
Found at i:48552299 original size:13 final size:13
Alignment explanation
Indices: 48552281--48552306 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48552271 TGCAACAGTT
48552281 ATAATTATTATTA
1 ATAATTATTATTA
48552294 ATAATTATTATTA
1 ATAATTATTATTA
48552307 TGGTTTTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATAATTATTATTA
Found at i:48552906 original size:6 final size:6
Alignment explanation
Indices: 48552895--48552921 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48552885 GGAAAGAAGT
48552895 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
48552922 CTAAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:48559058 original size:16 final size:17
Alignment explanation
Indices: 48559037--48559069 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
48559027 TTTGTAATAC
48559037 ATTAAAAT-AATAAACA
1 ATTAAAATAAATAAACA
48559053 ATTAAAATAAATAAACA
1 ATTAAAATAAATAAACA
48559070 CAAAGGCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTAAAATAAATAAACA
Found at i:48559313 original size:15 final size:15
Alignment explanation
Indices: 48559295--48559333 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
48559285 ATGTGTAAGT
48559295 AAATAATAATGGATA-
1 AAATAATAAT-GATAG
48559310 AAATAATAATGATAG
1 AAATAATAATGATAG
*
48559325 TAATAATAA
1 AAATAATAA
48559334 ATAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (15 bp):
AAATAATAATGATAG
Found at i:48559419 original size:12 final size:12
Alignment explanation
Indices: 48559404--48559428 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48559394 AATAAATAAA
48559404 TAAATTAAATAT
1 TAAATTAAATAT
48559416 TAAATTAAATAT
1 TAAATTAAATAT
48559428 T
1 T
48559429 TAATAAAAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATTAAATAT
Found at i:48565876 original size:21 final size:21
Alignment explanation
Indices: 48565852--48565896 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
48565842 TTCTGTTCTG
*
48565852 CTCTGCCTCCCTCGCTGCTGC
1 CTCTGCCTCCCGCGCTGCTGC
48565873 CTCTGCCTCCCGCGCTGCTGC
1 CTCTGCCTCCCGCGCTGCTGC
48565894 CTC
1 CTC
48565897 CGCTCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.53, G:0.20, T:0.27
Consensus pattern (21 bp):
CTCTGCCTCCCGCGCTGCTGC
Found at i:48569449 original size:9 final size:9
Alignment explanation
Indices: 48569435--48569551 Score: 117
Period size: 9 Copynumber: 12.3 Consensus size: 9
48569425 ATGTATTAGT
48569435 TAAGTTATG
1 TAAGTTATG
48569444 TAAGTTGTTATG
1 TAA---GTTATG
*
48569456 TACGTTATG
1 TAAGTTATG
*
48569465 TGAGTTATG
1 TAAGTTATG
*
48569474 TAAATTATG
1 TAAGTTATG
48569483 TAAGTTATG
1 TAAGTTATG
*
48569492 TGAGTTATG
1 TAAGTTATG
48569501 TAAGTTGTTATG
1 TAA---GTTATG
*
48569513 TAAATTATG
1 TAAGTTATG
*
48569522 TAAGTTATA
1 TAAGTTATG
*
48569531 TGAGTTATG
1 TAAGTTATG
48569540 TAAGTTATG
1 TAAGTTATG
48569549 TAA
1 TAA
48569552 TTTTTTTAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 71 0.81
12 17 0.19
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:48569482 original size:39 final size:38
Alignment explanation
Indices: 48569439--48569551 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
48569429 ATTAGTTAAG
48569439 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTGTTATGTA-GTTATGTGAGTTATGTAAA
*
48569478 TTATGTAA---GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGT-AGTTATGT--G-AGTTATGTAAA
* *
48569517 TTATGTAAGTT-ATATG-AGTTATGTAAGTTATGTAA
1 TTATGTAAGTTGTTATGTAGTTATGTGAGTTATGTAA
48569552 TTTTTTTAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
36 23 0.37
37 1 0.02
38 1 0.02
39 34 0.54
41 4 0.06
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (38 bp):
TTATGTAAGTTGTTATGTAGTTATGTGAGTTATGTAAA
Found at i:48569528 original size:57 final size:57
Alignment explanation
Indices: 48569437--48569549 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
48569427 GTATTAGTTA
** * *
48569437 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
* *
48569494 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGT
48569550 AATTTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
Found at i:48570552 original size:10 final size:10
Alignment explanation
Indices: 48570537--48570575 Score: 78
Period size: 10 Copynumber: 3.9 Consensus size: 10
48570527 AATAAAATTA
48570537 ATTCATACTT
1 ATTCATACTT
48570547 ATTCATACTT
1 ATTCATACTT
48570557 ATTCATACTT
1 ATTCATACTT
48570567 ATTCATACT
1 ATTCATACT
48570576 CCACTCTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTCATACTT
Found at i:48571072 original size:183 final size:183
Alignment explanation
Indices: 48570764--48571132 Score: 738
Period size: 183 Copynumber: 2.0 Consensus size: 183
48570754 CCTAGAACAG
48570764 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
48570829 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
48570894 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
48570947 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
48571012 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
48571077 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
48571130 ATG
1 ATG
48571133 GAACTATATC
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 186 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:48571222 original size:14 final size:13
Alignment explanation
Indices: 48571203--48571232 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
48571193 CAATATAATT
48571203 TTACTTCATATATA
1 TTACTTCATATA-A
48571217 TTACTTCATATAA
1 TTACTTCATATAA
48571230 TTA
1 TTA
48571233 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:48572537 original size:37 final size:37
Alignment explanation
Indices: 48572444--48572557 Score: 129
Period size: 37 Copynumber: 3.0 Consensus size: 37
48572434 CTATGCAGTA
*
48572444 GATGTACGGGGCGAAGGCGATGGAGGCCGAGATGGGTTGC
1 GATGAACGGGGCGAAGGCGATGGAGG--G-GATGGGTTGC
* * *
48572484 GATGAACGGTGCGAAGGCGATGGAGGGGATGGTTTGT
1 GATGAACGGGGCGAAGGCGATGGAGGGGATGGGTTGC
* * * *
48572521 GATGCACGGGGAGAAGGCGATGGAGGAGATGTGTTGC
1 GATGAACGGGGCGAAGGCGATGGAGGGGATGGGTTGC
48572558 AATGCACAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 38 0.60
38 1 0.02
40 24 0.38
ACGTcount: A:0.22, C:0.11, G:0.49, T:0.18
Consensus pattern (37 bp):
GATGAACGGGGCGAAGGCGATGGAGGGGATGGGTTGC
Found at i:48572563 original size:37 final size:36
Alignment explanation
Indices: 48572444--48572571 Score: 121
Period size: 37 Copynumber: 3.4 Consensus size: 36
48572434 CTATGCAGTA
* *
48572444 GATGTACGGGGCGAAGGCGATGGAGGCCGAGATGGGTTGC
1 GATGCACGGGGAGAAGGCGATGGA-G--GAGAT-GGTTGC
* * * * *
48572484 GATGAACGGTGCGAAGGCGATGGAGGGGATGGTTTGT
1 GATGCACGGGGAGAAGGCGATGGAGGAGATGG-TTGC
48572521 GATGCACGGGGAGAAGGCGATGGAGGAGATGTGTTGC
1 GATGCACGGGGAGAAGGCGATGGAGGAGATG-GTTGC
* *
48572558 AATGCACAGGGAGA
1 GATGCACGGGGAGA
48572572 TTTGGGGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
36 2 0.03
37 49 0.65
38 1 0.01
39 1 0.01
40 22 0.29
ACGTcount: A:0.24, C:0.12, G:0.48, T:0.16
Consensus pattern (36 bp):
GATGCACGGGGAGAAGGCGATGGAGGAGATGGTTGC
Found at i:48572641 original size:24 final size:25
Alignment explanation
Indices: 48572591--48572641 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
48572581 AAACTTACCG
* * *
48572591 ATTTGGGGAATTTGGGGATTTCTGA
1 ATTTAGGGAAATTGGGGATTTCAGA
48572616 ATTTAGGGAAATT-GGGATTTCAGA
1 ATTTAGGGAAATTGGGGATTTCAGA
48572640 AT
1 AT
48572642 CAGGGCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.37
Consensus pattern (25 bp):
ATTTAGGGAAATTGGGGATTTCAGA
Found at i:48573536 original size:18 final size:17
Alignment explanation
Indices: 48573510--48573543 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48573500 CACTGTAACC
48573510 CCTAAACCAACCATAAAT
1 CCTAAACC-ACCATAAAT
*
48573528 CCTAGACCACCATAAA
1 CCTAAACCACCATAAA
48573544 GCCCAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.35, G:0.03, T:0.15
Consensus pattern (17 bp):
CCTAAACCACCATAAAT
Found at i:48577281 original size:15 final size:14
Alignment explanation
Indices: 48577263--48577301 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
48577253 CATTTAATTA
48577263 TATTAGTATTTTTT
1 TATTAGTATTTTTT
*
48577277 CTATTAGGA-TTTTT
1 -TATTAGTATTTTTT
48577291 TATTAGTATTT
1 TATTAGTATTT
48577302 ATTAGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 7 0.33
14 7 0.33
15 7 0.33
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (14 bp):
TATTAGTATTTTTT
Found at i:48583942 original size:12 final size:12
Alignment explanation
Indices: 48583925--48583958 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
48583915 TTGGTTTTTA
48583925 TAAAATAATTTG
1 TAAAATAATTTG
48583937 TAAAATAATTTG
1 TAAAATAATTTG
48583949 --AAATAATTTG
1 TAAAATAATTTG
48583959 GATAACAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
12 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (12 bp):
TAAAATAATTTG
Found at i:48590080 original size:20 final size:20
Alignment explanation
Indices: 48590055--48590093 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48590045 GGCCGTGTGA
*
48590055 GTCACATGGGCGTGTGGGCG
1 GTCACACGGGCGTGTGGGCG
48590075 GTCACACGGGCGTGTGGGC
1 GTCACACGGGCGTGTGGGC
48590094 TCGATTTGTT
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:0.10, C:0.23, G:0.49, T:0.18
Consensus pattern (20 bp):
GTCACACGGGCGTGTGGGCG
Found at i:48591429 original size:22 final size:22
Alignment explanation
Indices: 48591399--48591472 Score: 55
Period size: 22 Copynumber: 3.3 Consensus size: 22
48591389 ACACCAATCA
48591399 TCACATACTTGAATTTATCAGAT
1 TCAC-TACTTGAATTTATCAGAT
***
48591422 TCACTACTTAGACACCAATC--A-
1 TCACTACTT-GA-ATTTATCAGAT
*
48591443 TCATATACTTGAATTTATCAGAT
1 TCA-CTACTTGAATTTATCAGAT
48591466 TCACTAC
1 TCACTAC
48591473 CAATATACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 13
0.64 0.14 0.22
Matches are distributed among these distances:
20 4 0.11
21 5 0.14
22 15 0.41
23 9 0.24
24 4 0.11
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (22 bp):
TCACTACTTGAATTTATCAGAT
Found at i:48591439 original size:44 final size:44
Alignment explanation
Indices: 48591389--48591472 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
48591379 CAATACTCAT
48591389 ACACCAATCATCACATACTTGAATTTATCAGATTCACTACTTAG
1 ACACCAATCATCACATACTTGAATTTATCAGATTCACTACTTAG
*
48591433 ACACCAATCATCATATACTTGAATTTATCAGATTCACTAC
1 ACACCAATCATCACATACTTGAATTTATCAGATTCACTAC
48591473 CAATATACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (44 bp):
ACACCAATCATCACATACTTGAATTTATCAGATTCACTACTTAG
Found at i:48594767 original size:20 final size:20
Alignment explanation
Indices: 48594728--48594768 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
48594718 AAATAGTAGC
**
48594728 TCATCCATATAAACTGTATT
1 TCATCCATATAAACAATATT
48594748 TCATCCATATAAACAATATT
1 TCATCCATATAAACAATATT
48594768 T
1 T
48594769 ATGCTCGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (20 bp):
TCATCCATATAAACAATATT
Found at i:48594920 original size:25 final size:25
Alignment explanation
Indices: 48594866--48594923 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
48594856 TTCCACTTTT
* *
48594866 TTGAGCTATGAACAGTAAGTTCCTC
1 TTGAGCTATGAACAGTAAGCTCCTA
* *
48594891 CTGAGCTGATGGACAGTAAGCT-CTA
1 TTGAGCT-ATGAACAGTAAGCTCCTA
48594916 TTGAGCTA
1 TTGAGCTA
48594924 AAATGGTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.04
25 14 0.52
26 12 0.44
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (25 bp):
TTGAGCTATGAACAGTAAGCTCCTA
Found at i:48594956 original size:24 final size:24
Alignment explanation
Indices: 48594905--48595018 Score: 126
Period size: 24 Copynumber: 4.8 Consensus size: 24
48594895 GCTGATGGAC
48594905 AGTAAGCTC-TATTGAGCT-AAAAT
1 AGTAAGCTCTTA-TGAGCTGAAAAT
* * * *
48594928 GGTAAGCTCTGACGAGCTGAAAAC
1 AGTAAGCTCTTATGAGCTGAAAAT
*
48594952 AGTAAGCTTTTATGAGCTG-AAAT
1 AGTAAGCTCTTATGAGCTGAAAAT
** *
48594975 AGTAAGCTCCAACGAGCTGAAAAT
1 AGTAAGCTCTTATGAGCTGAAAAT
48594999 AGTAAGCTCTTATGAGCTGA
1 AGTAAGCTCTTATGAGCTGA
48595019 TATATCAGCA
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
23 31 0.43
24 41 0.57
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (24 bp):
AGTAAGCTCTTATGAGCTGAAAAT
Found at i:48595017 original size:47 final size:47
Alignment explanation
Indices: 48594903--48595018 Score: 162
Period size: 47 Copynumber: 2.5 Consensus size: 47
48594893 GAGCTGATGG
* * **
48594903 ACAGTAAGCTC-TATTGAGCTAAAATGGTAAGCTCTGACGAGCTGAAA
1 ACAGTAAGCTCTTA-TGAGCTGAAATAGTAAGCTCCAACGAGCTGAAA
*
48594950 ACAGTAAGCTTTTATGAGCTGAAATAGTAAGCTCCAACGAGCTGAAA
1 ACAGTAAGCTCTTATGAGCTGAAATAGTAAGCTCCAACGAGCTGAAA
*
48594997 ATAGTAAGCTCTTATGAGCTGA
1 ACAGTAAGCTCTTATGAGCTGA
48595019 TATATCAGCA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 59 0.97
48 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (47 bp):
ACAGTAAGCTCTTATGAGCTGAAATAGTAAGCTCCAACGAGCTGAAA
Found at i:48605579 original size:11 final size:11
Alignment explanation
Indices: 48605565--48605589 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48605555 TCCCATAAAC
48605565 AATAAAATAAT
1 AATAAAATAAT
48605576 AATAAAATAAT
1 AATAAAATAAT
48605587 AAT
1 AAT
48605590 TTACTCATTG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:48607576 original size:20 final size:19
Alignment explanation
Indices: 48607539--48607582 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
48607529 TATTAATGAA
*
48607539 TTTG-TGATGATTTTTAAG
1 TTTGATGATGATTTATAAG
48607557 TTTGATGATAGATTTATAAG
1 TTTGATGAT-GATTTATAAG
48607577 TTTGAT
1 TTTGAT
48607583 AGTTAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.52
Consensus pattern (19 bp):
TTTGATGATGATTTATAAG
Found at i:48608440 original size:45 final size:46
Alignment explanation
Indices: 48608369--48608578 Score: 155
Period size: 45 Copynumber: 4.6 Consensus size: 46
48608359 GATGAAGACA
* * * * *
48608369 AGTAAGACCATAGCTGAAAGAAGCTATGGA-ATTATTATTCAGATG
1 AGTAAGACCTTAGTTGAAAGACGCTATGGACATTATGATTCAAATG
*
48608414 AGTAAGACCTTAGTTGGAAGACGCTAT-GACATTATGATTCAAATG
1 AGTAAGACCTTAGTTGAAAGACGCTATGGACATTATGATTCAAATG
* * ** *
48608459 AATAAGA-CTATAGTTGAAAGACACTAT-GACATCCT-ATTGAAAATG
1 AGTAAGACCT-TAGTTGAAAGACGCTATGGACATTATGATT-CAAATG
* * * * *
48608504 AATAAGACCATAGTTGAAAGACACTATGG-CATCAT-ATTAGAAAGTG
1 AGTAAGACCTTAGTTGAAAGACGCTATGGACATTATGATT-CAAA-TG
* * * *
48608550 AATAAGACCATAGTTTAAAGACACTATGG
1 AGTAAGACCTTAGTTGAAAGACGCTATGG
48608579 CGTTATATCA
Statistics
Matches: 142, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
44 7 0.05
45 103 0.73
46 32 0.23
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (46 bp):
AGTAAGACCTTAGTTGAAAGACGCTATGGACATTATGATTCAAATG
Found at i:48608570 original size:46 final size:46
Alignment explanation
Indices: 48608457--48608673 Score: 276
Period size: 45 Copynumber: 4.8 Consensus size: 46
48608447 ATGATTCAAA
* * * * *
48608457 TGAATAAGACTATAGTTGAAAGACACTATGACATCCTAT-TGAAAA
1 TGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCAGAAAG
*
48608502 TGAATAAGACCATAGTTGAAAGACACTATGGCATCATATTAGAAAG
1 TGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCAGAAAG
* * * *
48608548 TGAATAAGACCATAGTTTAAAGACACTATGGCGTTATATCAGATAG
1 TGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCAGAAAG
* * * *
48608594 TAAATAAGACCGTGGTTG-AAGACACTATGGCATCATATCGGAAAG
1 TGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCAGAAAG
* *
48608639 TGAATAAGACCATGGTTGAAAGACACCATGGCATC
1 TGAATAAGACCATAGTTGAAAGACACTATGGCATC
48608674 CTTCAATCAT
Statistics
Matches: 149, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
45 75 0.50
46 74 0.50
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (46 bp):
TGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCAGAAAG
Found at i:48608576 original size:91 final size:90
Alignment explanation
Indices: 48608411--48608675 Score: 282
Period size: 91 Copynumber: 2.9 Consensus size: 90
48608401 TATTATTCAG
* * * * * * *
48608411 ATGAGTAAGACCTTAGTTGGAAGACGCTATGACATTATGATTCAAA-TGAATAAGACTATAGTTG
1 ATGAATAAGACCATAGTT-GAAGACACTATGGCATCAT-ATTGAAAGTGAATAAGACCATAGTTG
* *
48608475 AAAGACACTATGACATCCTAT-TGAAA
64 AAAGACACTATGGCATCCTATCAGAAA
*
48608501 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATTAGAAAGTGAATAAGACCATAGTTT
1 ATGAATAAGACCATAGTTG-AAGACACTATGGCATCATATT-GAAAGTGAATAAGACCATAGTTG
* ** *
48608566 AAAGACACTATGGCGTTATATCAGATA
64 AAAGACACTATGGCATCCTATCAGAAA
* * * * * *
48608593 GTAAATAAGACCGTGGTTGAAGACACTATGGCATCATATCGGAAAGTGAATAAGACCATGGTTGA
1 ATGAATAAGACCATAGTTGAAGACACTATGGCATCATAT-TGAAAGTGAATAAGACCATAGTTGA
*
48608658 AAGACACCATGGCATCCT
65 AAGACACTATGGCATCCT
48608676 TCAATCATTG
Statistics
Matches: 145, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
89 4 0.03
90 34 0.23
91 89 0.61
92 18 0.12
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (90 bp):
ATGAATAAGACCATAGTTGAAGACACTATGGCATCATATTGAAAGTGAATAAGACCATAGTTGAA
AGACACTATGGCATCCTATCAGAAA
Found at i:48612578 original size:12 final size:12
Alignment explanation
Indices: 48612563--48612592 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48612553 AATAATTAAA
48612563 TAAATTAGAAAT
1 TAAATTAGAAAT
*
48612575 TAAATTGGAAAT
1 TAAATTAGAAAT
48612587 TAAATT
1 TAAATT
48612593 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:48614753 original size:47 final size:47
Alignment explanation
Indices: 48614682--48615180 Score: 845
Period size: 47 Copynumber: 10.6 Consensus size: 47
48614672 CCCTTCGGGA
* * * * * *
48614682 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48614729 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48614776 GTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48614823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48614870 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48614917 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48614964 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48615011 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48615058 CTTATCACATATATATACACTTTCACATTCAGCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48615107 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48615154 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
48615181 TATTCAAATA
Statistics
Matches: 430, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 386 0.90
49 44 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48614760 original size:25 final size:25
Alignment explanation
Indices: 48614732--48614810 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
48614722 ACTCGGCCCT
48614732 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
48614757 ATCACAT-T-GGC-CATTCGGCGTT-
1 ATCACATATATACACTTTC-ACATTC
48614779 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
48614804 ATCACAT
1 ATCACAT
48614811 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:48635017 original size:19 final size:19
Alignment explanation
Indices: 48634995--48635031 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
48634985 AAGTAATTTA
48634995 ATGTTATTTAT-ATGAAATG
1 ATGTTA-TTATCATGAAATG
48635014 ATGTTATTATCATGAAAT
1 ATGTTATTATCATGAAAT
48635032 ATTATGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (19 bp):
ATGTTATTATCATGAAATG
Found at i:48638602 original size:14 final size:14
Alignment explanation
Indices: 48638577--48638613 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
48638567 TAGAAGTAAA
48638577 CAAATA-AAAAATT
1 CAAATATAAAAATT
48638590 CAAATATAAAAATT
1 CAAATATAAAAATT
48638604 -AAAT-TAAAAA
1 CAAATATAAAAA
48638614 AATATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 7 0.30
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (14 bp):
CAAATATAAAAATT
Found at i:48638616 original size:22 final size:22
Alignment explanation
Indices: 48638591--48638635 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48638581 TAAAAAATTC
*
48638591 AAATATAAAAATTAAATTAAAA
1 AAATATAAAAATTAAAATAAAA
*
48638613 AAATATTAAAATTAAAATAAAA
1 AAATATAAAAATTAAAATAAAA
48638635 A
1 A
48638636 TGGCTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATATAAAAATTAAAATAAAA
Found at i:48638620 original size:16 final size:16
Alignment explanation
Indices: 48638597--48638634 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
48638587 ATTCAAATAT
48638597 AAAAATT-AAATTAAA
1 AAAAATTAAAATTAAA
48638612 AAAATATTAAAATTAAA
1 AAAA-ATTAAAATTAAA
48638629 ATAAAA
1 A-AAAA
48638635 ATGGCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 3 0.15
17 10 0.50
18 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATTAAAATTAAA
Found at i:48644909 original size:224 final size:224
Alignment explanation
Indices: 48644519--48644961 Score: 787
Period size: 224 Copynumber: 2.0 Consensus size: 224
48644509 ACAAAGCACT
48644519 GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAACAGAGTTTAG
1 GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAACAGAGTTTAG
*
48644584 AAAAGACTTACTCTTAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
66 AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
48644649 TACATGATGCGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCACTTTCCTCT
131 TACATGATGCGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCACTTTCCTCT
* *
48644714 TATCTTTGCTTGTAGACTATAACATTATA
196 TATCTTTACTTGCAGACTATAACATTATA
*
48644743 GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAATAGAGTTTAG
1 GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAACAGAGTTTAG
*
48644808 AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAATTTTTTTATTTACATTATAGTTCGTACA
66 AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
* * * * *
48644873 TACATGATGTGATCCCTGAACACTTACCAATTTGCTAAAAGCTTAAATGAGCTTCGCTTTTCTCT
131 TACATGATGCGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCACTTTCCTCT
*
48644938 TATCTTTACTTGCAGACTGTAACA
196 TATCTTTACTTGCAGACTATAACA
48644962 ACCCGATTTA
Statistics
Matches: 208, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 208 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (224 bp):
GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAACAGAGTTTAG
AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
TACATGATGCGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCACTTTCCTCT
TATCTTTACTTGCAGACTATAACATTATA
Found at i:48646186 original size:46 final size:46
Alignment explanation
Indices: 48646133--48646300 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 46
48646123 TTGTGAGCTA
*
48646133 GTGTAAGACATGTCTGGGACATGCATCGGCCACACTATGAGAGCCT
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGAGCCT
* * * *
48646179 GTGTAAGACCATGTTTGGGACATGGCATTGG-CA-TCGA-GACGAGTGCT
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACACGATGA-GAG-CCT
* * * *
48646226 AGTGTAAGACATGTCTAGGACATGTATCGGCCTCGA-GATGTA-AGCCA
1 -GTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATG-AGAGCCT
*
48646273 GTGTAAGACATGTCTGGGACATGTATCG
1 GTGTAAGACATGTCTGGGACATGCATCG
48646301 ACTATGAGAT
Statistics
Matches: 98, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
45 2 0.02
46 45 0.46
47 31 0.32
48 18 0.18
49 1 0.01
50 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGAGCCT
Found at i:48646310 original size:46 final size:45
Alignment explanation
Indices: 48646226--48646389 Score: 168
Period size: 46 Copynumber: 3.5 Consensus size: 45
48646216 GACGAGTGCT
* *
48646226 AGTGTAAGACATGTCTAGGACATGTATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGTATC-GACTTGAGATGTAAGCC
* *
48646272 AGTGTAAGACATGTCTGGGACATGTATCGACTATGAGATG-ATAGTC
1 AGTGTAAGACATGTCTAGGACATGTATCGACT-TGAGATGTA-AGCC
* * * *
48646318 AGTGTAAGACCATGTCTAGGACATGGCATAGACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTAGGACAT-GTATCGACTTGAGATGTAAGCC
* * *
48646365 AGTATAAGACTATATCTGGGACATG
1 AGTGTAAGAC-ATGTCTAGGACATG
48646390 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
45 4 0.04
46 47 0.47
47 41 0.41
48 7 0.07
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGTATCGACTTGAGATGTAAGCC
Found at i:48646387 original size:140 final size:140
Alignment explanation
Indices: 48646132--48646389 Score: 297
Period size: 140 Copynumber: 1.8 Consensus size: 140
48646122 ATTGTGAGCT
* * * * *
48646132 AGTGTAAGACATGTCTGGGACATGCATCGGCCACACTATGAGAGCCTGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACACGATGAGAGCCAGTGTAAGACCATGTCTAG
* * * * * *
48646197 GACATGGCATTGGCATCGAGACGAGTGCTAGTGTAAGACATGTCTAGGACATGTATCGGCCTCGA
66 GACATGGCATAGACATCGAGACGAGAGCCAGTATAAGACATATCTAGGACATGTATCGGCCTCGA
48646262 GATGTAAGCC
131 GATGTAAGCC
* * * * *
48646272 AGTGTAAGACATGTCTGGGACATGTATCGACTATGA-GATGATAGTCAGTGTAAGACCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGACCA-CACGATGAGAGCCAGTGTAAGACCATGTCTA
* * *
48646336 GGACATGGCATAGAC-TTGAGA-TATGAGCCAGTATAAGACTATATCTGGGACATG
65 GGACATGGCATAGACATCGAGACGA-GAGCCAGTATAAGAC-ATATCTAGGACATG
48646390 GCATCGGCAC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.18
140 77 0.80
141 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACACGATGAGAGCCAGTGTAAGACCATGTCTAG
GACATGGCATAGACATCGAGACGAGAGCCAGTATAAGACATATCTAGGACATGTATCGGCCTCGA
GATGTAAGCC
Found at i:48646390 original size:47 final size:47
Alignment explanation
Indices: 48646132--48646393 Score: 166
Period size: 47 Copynumber: 5.6 Consensus size: 47
48646122 ATTGTGAGCT
* * * * * *
48646132 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-CACTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATAGACTATGA-GATGATAGCC
* * * * * *
48646178 TGTGTAAGACCATGTTTGGGACATGGCATTGGC-ATCGAGACGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATAGACTAT-GAGATGA-TAGCC
* * * * *
48646226 AGTGTAAGACATGTCTAGGACAT-GTATCGGCCT-CGAGATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCAT-AGACTATGAGATGAT-AGCC
* * *
48646272 AGTGTAAGACATGTCTGGGACAT-GTATCGACTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATAGACTATGAGATGATAGCC
*
48646318 AGTGTAAGACCATGTCTAGGACATGGCATAGACT-TGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATAGACTATGAGATGAT-AGCC
* *
48646365 AGTATAAGACTATATCTGGGACATGGCAT
1 AGTGTAAGAC-ATGTCTGGGACATGGCAT
48646394 CGGCACCTTA
Statistics
Matches: 172, Mismatches: 29, Indels: 29
0.75 0.13 0.13
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 65 0.38
47 75 0.44
48 27 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATAGACTATGAGATGATAGCC
Found at i:48667751 original size:19 final size:18
Alignment explanation
Indices: 48667723--48667763 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
48667713 TTTATTTACG
48667723 TTTTTATATTTCAGCATA
1 TTTTTATATTTCAGCATA
* *
48667741 TTTTATATATTTTAGCTTA
1 TTTT-TATATTTCAGCATA
48667760 TTTT
1 TTTT
48667764 GACCATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTTATATTTCAGCATA
Found at i:48668893 original size:40 final size:40
Alignment explanation
Indices: 48668822--48669007 Score: 259
Period size: 40 Copynumber: 4.7 Consensus size: 40
48668812 TTCTAGCACA
* * * *
48668822 AGCCTACGGGTCTTTAA-CCCGGATACCATTCCAGTACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-TAT
* *
48668861 AGCTTGCGGGTCTTTATGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
48668901 AGCCTGCGGGTCTTTAAGCCTGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
** *
48668941 AGCCTATGGGTCTTTAAGCCCGGATACAATTCTAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
48668981 AGCCTGCGGGTCTTTAAGCCCGGATAC
1 AGCCTGCGGGTCTTTAAGCCCGGATAC
48669008 CACATCAAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 15 0.12
40 115 0.88
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:48670292 original size:21 final size:21
Alignment explanation
Indices: 48670267--48670307 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48670257 CGACAATTTC
48670267 AATTCATACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
48670288 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
48670308 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:48670317 original size:21 final size:21
Alignment explanation
Indices: 48670278--48670317 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48670268 ATTCATACCT
* *
48670278 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
48670299 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
48670318 ACTTAACATA
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:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:48673075 original size:46 final size:48
Alignment explanation
Indices: 48672912--48673130 Score: 151
Period size: 46 Copynumber: 4.7 Consensus size: 48
48672902 ATTGTGAGCT
* * *
48672912 AGTGTAAGA-CATGTCTGGGACATGCATCGACCATACTATGA-G--AGCC
1 AGTGTAAGACCATGTCTGGAACATGCATCGGCC-TACGA-GACGATAGCC
* * *
48672958 AGTGTAAGACCATGTCTGGGACATGGCATCGG--TATCGAGATGA-ATGCT
1 AGTGTAAGACCATGTCTGGAACAT-GCATCGGCCTA-CGAGACGATA-GCC
* *
48673006 AGTGCAAGA-CA-GTTCT-AAGACATGCATCGGCCT-CGAGACG-TAAGCC
1 AGTGTAAGACCATG-TCTGGA-ACATGCATCGGCCTACGAGACGAT-AGCC
* * *
48673052 AGTGTAAG-TCATGTCTGGAACATGCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGAACATGCATCGGCCTACGAGACGATAGCC
*
48673098 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGAACAT-GCATCGGC
48673131 ACCTTACCCC
Statistics
Matches: 139, Mismatches: 14, Indels: 37
0.73 0.07 0.19
Matches are distributed among these distances:
45 6 0.04
46 68 0.49
47 41 0.29
48 24 0.17
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGAACATGCATCGGCCTACGAGACGATAGCC
Found at i:48673127 original size:94 final size:94
Alignment explanation
Indices: 48672909--48673130 Score: 237
Period size: 94 Copynumber: 2.4 Consensus size: 94
48672899 GTTATTGTGA
* *
48672909 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCATACTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGAGCCAGTGTAAGACCATGTC
*
48672974 TGGGACATGGCATCGGTATCGAGATGAAT
66 TGGAACATGGCATCGGTATCGAGATGAAT
* ** *
48673003 GCTAGTGCAAGACA-GTTCTAAGACATGCATCGGCC-T-CGA-GACGTAAGCCAGTGTAAG-TCA
1 GCTAGTGTAAGACATG-TCTGGGACATGCATCGGCCATACGATGA-G--AGCCAGTGTAAGACCA
48673063 TGTCTGGAACAT-GCATCGGCTA-CGAGATG-AT
62 TGTCTGGAACATGGCATCGG-TATCGAGATGAAT
48673094 AG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
48673131 ACCTTACCCC
Statistics
Matches: 108, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
91 5 0.05
92 26 0.24
93 27 0.25
94 50 0.46
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATACGATGAGAGCCAGTGTAAGACCATGTC
TGGAACATGGCATCGGTATCGAGATGAAT
Found at i:48677264 original size:29 final size:28
Alignment explanation
Indices: 48677211--48677266 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
48677201 CATGGCCAAG
*
48677211 ACACACGCCCGTGTTCTAGGCCGTGTGGC
1 ACACACACCCGTGTTCTA-GCCGTGTGGC
48677240 ACACACACCCGTGTCTCT-GCTCGTGTG
1 ACACACACCCGTGT-TCTAGC-CGTGTG
48677267 CCCAATTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 19 0.79
30 3 0.12
ACGTcount: A:0.14, C:0.36, G:0.27, T:0.23
Consensus pattern (28 bp):
ACACACACCCGTGTTCTAGCCGTGTGGC
Found at i:48684420 original size:13 final size:13
Alignment explanation
Indices: 48684402--48684434 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
48684392 ATTGGGACAC
48684402 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
*
48684415 GCCCGTGTCCTTA
1 GCCCGTGTCCCTA
48684428 GCCCGTG
1 GCCCGTG
48684435 CTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.42, G:0.27, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:48686733 original size:92 final size:95
Alignment explanation
Indices: 48686619--48686885 Score: 266
Period size: 95 Copynumber: 2.8 Consensus size: 95
48686609 TGAGAGCCAA
48686619 TGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACGAGAGCTAGTGTAAGA-CATGTCTAG
1 TGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGA-GAGAGCTAGTGTAAGACCATGTCTAG
*
48686683 GACAT-GCATCGG-CT-A-TGAGATGTGTCAG
65 GACATGGCATCGGCCTCATTGAGAT-AGTCAG
* * *
48686711 TGTAAGACCATGTCTGGGACAT-GACATCGGCA-CGAAGATGTGGGAGCCAGTGTAAGACCATGT
1 TGTAAGACCATGTCTGGGACATGGA-ATCGGCATTG-AGA---GAGAGCTAGTGTAAGACCATGT
* * **
48686774 CTGGGACATGGCGTCGGCCTCGATTTCGATAGTCAG
61 CTAGGACATGGCATCGGCCTC-ATTGAGATAGTCAG
* * * *
48686810 TGTAAGACCATGTTTGGGA-ATGGCATCGAC-TTGATG-GATGAGGTAGTGTAAGACCATGTCTA
1 TGTAAGACCATGTCTGGGACATGGAATCGGCATTGA-GAGA-GAGCTAGTGTAAGACCATGTCTA
48686872 GGACATGGCATCGG
64 GGACATGGCATCGG
48686886 TATTACACCC
Statistics
Matches: 143, Mismatches: 18, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
91 3 0.02
92 32 0.22
94 15 0.10
95 46 0.32
96 6 0.04
97 3 0.02
98 9 0.06
99 25 0.17
100 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (95 bp):
TGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGAGAGAGCTAGTGTAAGACCATGTCTAGG
ACATGGCATCGGCCTCATTGAGATAGTCAG
Found at i:48686739 original size:46 final size:46
Alignment explanation
Indices: 48686619--48686885 Score: 217
Period size: 46 Copynumber: 5.7 Consensus size: 46
48686609 TGAGAGCCAA
* * *
48686619 TGTAAGACCATGTCTGGGACATGGAATCGGC-ATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGATGAG-TC-AG
* *
48686667 TGTAAGA-CATGTCTAGGACAT-GCATCGGCTATGAGATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGTCAG
* * *
48686711 TGTAAGACCATGTCTGGGACATGACATCGGC-ACGAAGATGTGGGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTATG-AGA--T--GAGTCAG
* **
48686761 TGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CT--A-TGAGATGAGTCAG
* *
48686810 TGTAAGACCATGTTTGGGA-ATGGCATCGACT-TGATGGATGAGGT-AG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTATGA--GATGA-GTCAG
*
48686856 TGTAAGACCATGTCTAGGACATGGCATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
48686886 TATTACACCC
Statistics
Matches: 177, Mismatches: 24, Indels: 37
0.74 0.10 0.16
Matches are distributed among these distances:
43 1 0.01
44 9 0.05
45 19 0.11
46 44 0.25
47 27 0.15
48 16 0.09
49 23 0.13
50 33 0.19
51 1 0.01
52 1 0.01
54 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATGAGTCAG
Found at i:48686766 original size:50 final size:48
Alignment explanation
Indices: 48686612--48686783 Score: 187
Period size: 50 Copynumber: 3.6 Consensus size: 48
48686602 CACATTATGA
* * *
48686612 GAGCCAATGTAAGACCATGTCTGGGACATGGA-ATCGGCATTGAGACG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GACATCGGCA-TGAGATGTG
* *
48686660 GAGCTAGTGTAAGA-CATGTCTAGGACATG-CATCGGCTATGAGATGT-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGC-ATGAGATGTG
* *
48686706 --GTCAGTGTAAGACCATGTCTGGGACATGACATCGGCACGAAGATGTGG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATG-AGATGT-G
48686754 GAGCCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGACCATGTCTGGGACATG
48686784 GCGTCGGCCT
Statistics
Matches: 105, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
44 10 0.10
45 16 0.15
46 26 0.25
47 14 0.13
48 12 0.11
50 27 0.26
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATGAGATGTG
Found at i:48688600 original size:95 final size:93
Alignment explanation
Indices: 48688437--48688750 Score: 314
Period size: 95 Copynumber: 3.3 Consensus size: 93
48688427 GGTGAATTGC
* * * * * **
48688437 CGATGCCATATTCCAAACATGGTCTTACACTGGCTCACAT-GTCGAGGCTAATGCCATGTCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATAAT-GTGGCCGATGCCATGTCCAGA
* * *
48688501 CATGGTCTTACACTAGCTCTTGTCTCAATG
64 CATGGTCTTACACTAGCTCTTATATCAGTG
*
48688531 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATAATGTGGTCGATGCCATGTCCCAGA
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATAATGTGGCCGATGCCATGT-CCAGA
* **
48688596 CATGGTCATACACTAG-TGCACATATCAGTG
64 CATGGTCTTACACTAGCT-CTTATATCAGTG
* * *
48688626 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTACAT-T-GCCGGTGCGAGGTTCC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CA-TA-ATGTGGCCGATGCCATG-TCC
* *
48688689 AAACATGGTCTTACACTGGCTCTTATATC-GTGG
61 AGACATGGTCTTACACTAGCTCTTATATCAGT-G
48688722 CCGATGCCATGTCCCAGACATGGTCTTAC
1 -CGATGCCATGTCCCAGACATGGTCTTAC
48688751 CCTAACACAC
Statistics
Matches: 185, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
94 17 0.09
95 98 0.53
96 62 0.34
97 6 0.03
98 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATAATGTGGCCGATGCCATGTCCAGACA
TGGTCTTACACTAGCTCTTATATCAGTG
Found at i:48688765 original size:48 final size:48
Alignment explanation
Indices: 48688435--48688750 Score: 286
Period size: 48 Copynumber: 6.6 Consensus size: 48
48688425 AGGGTGAATT
* * * * *
48688435 GCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGTG
** * *** * *
48688483 GCTAATGCCATGT-CCAGACATGGTCTTACACTAGCTCTTGTCTCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-GTG
*
48688530 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGTG
* * *
48688577 GTCGATGCCATGTCCCAGACATGGTCATACACTAG-TGCACATATCAGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATC-GTG
* * * *
48688625 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAT-CGTG
* * * * * **
48688673 GCCGGTGCGAGGTTCCAAACATGGTCTTACACTGGCTCTTATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGTG
48688721 GCCGATGCCATGTCCCAGACATGGTCTTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTAC
48688751 CCTAACACAC
Statistics
Matches: 215, Mismatches: 41, Indels: 24
0.77 0.15 0.09
Matches are distributed among these distances:
46 2 0.01
47 74 0.34
48 135 0.63
49 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGTG
Found at i:48690281 original size:20 final size:20
Alignment explanation
Indices: 48690256--48690300 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
48690246 TGCACATGTA
*
48690256 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAGAAATT
48690276 TTCATAAAATTTTAGAAATT
1 TTCATAAAATTTTAGAAATT
48690296 TTCAT
1 TTCAT
48690301 TTTATTCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAGAAATT
Found at i:48693098 original size:48 final size:48
Alignment explanation
Indices: 48693022--48693249 Score: 185
Period size: 48 Copynumber: 4.8 Consensus size: 48
48693012 GATATGTGCA
* * * * *
48693022 CTAGTGTAAGACCATGCCTGGCATATGGCTTCGGCCA-CGATATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGG-CATTGATATGAGAG
* * * * *
48693070 CTAGTGTAAAACCATGTTTGGAACATGGCATCGGTATTGAGATGAAAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAGAG
* * * * * *
48693118 CCAGTGTAAGACCATGTCCGGGACATGGCATCGACATTGATATGTGCG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAGAG
* *
48693166 CTAGTGTAAGATCATGTTTGGAACATGGCATCGGGCACATT-ATA-G-GAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATC-GG--CATTGATATGAGAG
* * ** *
48693214 CCAGTATAAGACCATCCCTGGGACATGGCATCGGCA
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCA
48693250 ATTCACTCTC
Statistics
Matches: 141, Mismatches: 35, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
45 2 0.01
47 3 0.02
48 127 0.90
49 2 0.01
50 3 0.02
51 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAGAG
Found at i:48693216 original size:96 final size:96
Alignment explanation
Indices: 48693060--48693246 Score: 229
Period size: 96 Copynumber: 1.9 Consensus size: 96
48693050 CTTCGGCCAC
* *
48693060 GATATGAGAGCTAGTGTAAAACCATGTTTGGAACATGGCATCGGTATTGAGATGAAAGCCAGTGT
1 GATATGAGAGCTAGTGTAAAACCATGTTTGGAACATGGCATCGGCATTGAGATGAAAGCCAGTAT
*
48693125 AAGACCATGTCC-GGGACATGGCATCGACATT
66 AAGACCAT-CCCTGGGACATGGCATCGACATT
* * * * * *
48693156 GATATGTGCGCTAGTGTAAGATCATGTTTGGAACATGGCATCGGGCACATT-ATA-G-GAGCCAG
1 GATATGAGAGCTAGTGTAAAACCATGTTTGGAACATGGCATC-GG--CATTGAGATGAAAGCCAG
48693218 TATAAGACCATCCCTGGGACATGGCATCG
63 TATAAGACCATCCCTGGGACATGGCATCG
48693247 GCAATTCACT
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
95 2 0.03
96 68 0.87
97 3 0.04
98 2 0.03
99 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (96 bp):
GATATGAGAGCTAGTGTAAAACCATGTTTGGAACATGGCATCGGCATTGAGATGAAAGCCAGTAT
AAGACCATCCCTGGGACATGGCATCGACATT
Found at i:48695911 original size:30 final size:29
Alignment explanation
Indices: 48695877--48695935 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
48695867 AAATTAGATC
48695877 AAATCAAAATTTCATGTATAAAATTATACA
1 AAATCAAAATTT-ATGTATAAAATTATACA
* * *
48695907 AAATCGAAGTTTATGTATATAATTATACA
1 AAATCAAAATTTATGTATAAAATTATACA
48695936 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (29 bp):
AAATCAAAATTTATGTATAAAATTATACA
Found at i:48697238 original size:60 final size:60
Alignment explanation
Indices: 48697171--48697295 Score: 187
Period size: 60 Copynumber: 2.1 Consensus size: 60
48697161 TTCATCTGGT
* * *
48697171 GGGTCTGGTGCAGGTTCTGAAGCTGGTTCATCCGCAGGTTCTTACGCTGGGTCTCGAGCC
1 GGGTCTGGTGCAGGTTCGGAAGCTGGTTCATCCGCAGGTTCCTACGCTGGCTCTCGAGCC
* * * *
48697231 GGGTCTGGTGCAGGTTCGGAAGCTGGTTCATCTGCCGGTTCCTATGCTGGCTCTCGAGCT
1 GGGTCTGGTGCAGGTTCGGAAGCTGGTTCATCCGCAGGTTCCTACGCTGGCTCTCGAGCC
48697291 GGGTC
1 GGGTC
48697296 AGGACGAGGC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.10, C:0.25, G:0.36, T:0.29
Consensus pattern (60 bp):
GGGTCTGGTGCAGGTTCGGAAGCTGGTTCATCCGCAGGTTCCTACGCTGGCTCTCGAGCC
Found at i:48701405 original size:18 final size:18
Alignment explanation
Indices: 48701378--48701413 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48701368 TGGTGAAGGT
*
48701378 TATGGCGAGGGACATGGC
1 TATGGAGAGGGACATGGC
*
48701396 TATGGAGAGGGTCATGGC
1 TATGGAGAGGGACATGGC
48701414 AGCGGTGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.44, T:0.19
Consensus pattern (18 bp):
TATGGAGAGGGACATGGC
Found at i:48704020 original size:26 final size:27
Alignment explanation
Indices: 48703960--48704023 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
48703950 ATGGAGGAAG
* *
48703960 TACTG-TACTGGTGACTATGTCACATT
1 TACTGTTACTGGTGACTATGCCACACT
* * *
48703986 TATTATTACTGGTGGCT-TGCCACACT
1 TACTGTTACTGGTGACTATGCCACACT
48704012 TACTGTTACTGG
1 TACTGTTACTGG
48704024 AAGCTACACT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (27 bp):
TACTGTTACTGGTGACTATGCCACACT
Found at i:48712583 original size:40 final size:40
Alignment explanation
Indices: 48712235--48712583 Score: 563
Period size: 40 Copynumber: 8.7 Consensus size: 40
48712225 GCAAACACAT
* * * *
48712235 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
48712275 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* * *
48712315 TTGCCTTCGGGTCATAGCCCGGACATATTAACCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
48712355 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
48712395 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* *
48712435 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
48712475 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
48712515 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
48712555 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
48712584 CCAATGCTCA
Statistics
Matches: 285, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 285 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:48720909 original size:80 final size:80
Alignment explanation
Indices: 48720768--48721032 Score: 455
Period size: 80 Copynumber: 3.4 Consensus size: 80
48720758 GCAAACACAT
* *
48720768 TTGCCTTCGGGTCTTAACCCGGACATATCAACT-GCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
48720832 TATCATCTCGCATAA
66 TATCAACTCGCATAA
** *
48720847 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
48720912 TATCAACTCGCATAA
66 TATCAACTCGCATAA
48720927 TTGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
48720991 TAT-AACTCGCATAA
66 TATCAACTCGCATAA
48721005 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
48721033 ATCCAATGCT
Statistics
Matches: 176, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
78 39 0.22
79 67 0.38
80 70 0.40
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (80 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAA
Found at i:48721033 original size:39 final size:40
Alignment explanation
Indices: 48720768--48721032 Score: 455
Period size: 39 Copynumber: 6.7 Consensus size: 40
48720758 GCAAACACAT
* *
48720768 TTGCCTTCGGGTCTTAACCCGGACATATCAACT-GCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48720807 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
48720847 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48720887 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48720927 TTGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48720966 TTGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48721005 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
48721033 ATCCAATGCT
Statistics
Matches: 215, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 108 0.50
40 107 0.50
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:48737785 original size:46 final size:46
Alignment explanation
Indices: 48737592--48737843 Score: 154
Period size: 46 Copynumber: 5.4 Consensus size: 46
48737582 GTCGTGTACT
* * * * *
48737592 AGACAAGTCTTACACTGGCTCTCATCTATCAGTGTCAATGCCATGTCCC
1 AGACATGTCTTACACTAGCTCTCAT-AATCA-AGCCAATG-CATGTCCC
* * * * * ** *
48737641 AGATAGGTCTTACACTA--ACACACAAT-AAGCTGATGCCATGTCCT
1 AGACATGTCTTACACTAGCTCTCATAATCAAGCCAATG-CATGTCCC
* * * * * *
48737685 AGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCCGATGCATGTCCT
1 AGACATGTCTTACACTAGCTCT-CATA-ATC-AAGCCAATGCATGTCCC
* * *
48737733 AGACATGTCTTACACTATCTCTCGT-CTCAATGCCAATGCATGTCCC
1 AGACATGTCTTACACTAGCTCTCATAATCAA-GCCAATGCATGTCCC
* ** *
48737779 AGACATGTCTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCC
1 AGACATGTCTTACACTAGCTCTCATAATCAAGCCAATGCATGTCCC
*
48737825 AGACATGTCTTACTCTAGC
1 AGACATGTCTTACACTAGC
48737844 ACACATATCA
Statistics
Matches: 158, Mismatches: 36, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
44 28 0.18
45 2 0.01
46 73 0.46
47 6 0.04
48 27 0.17
49 22 0.14
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (46 bp):
AGACATGTCTTACACTAGCTCTCATAATCAAGCCAATGCATGTCCC
Found at i:48762400 original size:23 final size:23
Alignment explanation
Indices: 48762374--48762430 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
48762364 TGTTCTTGAA
48762374 TGTATGAAAATTTAGATATTCAT
1 TGTATGAAAATTTAGATATTCAT
48762397 TGTATGAAAATTTAGATATTCAT
1 TGTATGAAAATTTAGATATTCAT
*
48762420 TGCATGAAAAT
1 TGTATGAAAAT
48762431 CCATGAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (23 bp):
TGTATGAAAATTTAGATATTCAT
Found at i:48777555 original size:6 final size:6
Alignment explanation
Indices: 48777537--48777602 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
48777527 AAGAAACATT
* * *
48777537 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATTAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
48777586 ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
48777603 GTAACATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
5 3 0.06
6 43 0.84
7 3 0.06
8 2 0.04
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (6 bp):
ATCAGA
Done.