Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 67 of 75
Found at i:21821269 original size:11 final size:11
Alignment explanation
Indices: 21821249--21821285 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
21821239 GGTCTAACCC
21821249 ATATTAAATAT
1 ATATTAAATAT
*
21821260 ATATTTAATAT
1 ATATTAAATAT
*
21821271 ATATAAAATAT
1 ATATTAAATAT
21821282 ATAT
1 ATAT
21821286 ATATTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:21821289 original size:26 final size:25
Alignment explanation
Indices: 21821256--21821325 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 25
21821246 CCCATATTAA
21821256 ATATATATTTAATATATATAAAATAT
1 ATATATATTTAATATATATAAAA-AT
* * *
21821282 ATATATATTTGATTAAAAATAAAAAT
1 ATATATATTT-AATATATATAAAAAT
21821308 ATATATATTTAATATATA
1 ATATATATTTAATATATA
21821326 ATTTAGGCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 5 0.14
26 22 0.59
27 10 0.27
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
ATATATATTTAATATATATAAAAAT
Found at i:21825943 original size:20 final size:20
Alignment explanation
Indices: 21825918--21825955 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21825908 TTTTTGTGTT
*
21825918 ATTTTTCTATTTGTTATTGA
1 ATTTTTCTATCTGTTATTGA
*
21825938 ATTTTTGTATCTGTTATT
1 ATTTTTCTATCTGTTATT
21825956 TCGGTGCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (20 bp):
ATTTTTCTATCTGTTATTGA
Found at i:21829700 original size:110 final size:110
Alignment explanation
Indices: 21829402--21829777 Score: 590
Period size: 110 Copynumber: 3.4 Consensus size: 110
21829392 GAAATTCAAG
* * *
21829402 AGGATATTTGGCTATTCGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
21829467 GAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAATTTTTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTT-TAAA--ATTTTTAAA
*
21829515 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
21829580 GAATTACCCAAATGCAAAACATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTTTAAAATTTTTAAA
* *
21829625 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGCCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* * *
21829690 AAATTTCCCAAACGCAAAACATTGTCTTATTTTAAAATTGTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTTTAAAATT-TTTAAA
* *
21829736 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCC
21829778 GCAAAACATT
Statistics
Matches: 246, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
110 105 0.43
111 46 0.19
112 3 0.01
113 92 0.37
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCCAAATGCAAAACATTGCCTTATTTTAAAATTTTTAAA
Found at i:21829794 original size:75 final size:75
Alignment explanation
Indices: 21829702--21829852 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
21829692 ATTTCCCAAA
*
21829702 CGCAAAACATTGTCTTATTTTAAAATTGTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAA
1 CGCAAAACATTGCCTTATTTTAAAATTGTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAA
21829767 AATCGACACC
66 AATCGACACC
* * *
21829777 CGCAAAACATTGCCTTATTTTAAATTTTTTTTAAAGGATATTAAGCCATTTGGTTGAACGAGAAA
1 CGCAAAACATTGCCTTATTTTAAAATTGTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAA
21829842 AATCGACACC
66 AATCGACACC
21829852 C
1 C
21829853 AGCACCTTAG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (75 bp):
CGCAAAACATTGCCTTATTTTAAAATTGTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAA
AATCGACACC
Found at i:21830184 original size:3 final size:3
Alignment explanation
Indices: 21830176--21830200 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21830166 NNNNNNNNNN
21830176 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
21830201 TAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:21831354 original size:22 final size:22
Alignment explanation
Indices: 21831322--21831363 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21831312 TTTAGGCTAG
21831322 TTGGGTCTGGTTCTGTTTGGAT
1 TTGGGTCTGGTTCTGTTTGGAT
* *
21831344 TTGGGTTTGGTTGTGTTTGG
1 TTGGGTCTGGTTCTGTTTGG
21831364 GTAGCTGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.05, G:0.40, T:0.52
Consensus pattern (22 bp):
TTGGGTCTGGTTCTGTTTGGAT
Found at i:21836370 original size:24 final size:24
Alignment explanation
Indices: 21836317--21836373 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
21836307 AATAACTATC
21836317 ATTTAATATCAAATGTTTTTAATA
1 ATTTAATATCAAATGTTTTTAATA
* * *
21836341 AGTTAATAT-AAATGTATTTTTATT
1 ATTTAATATCAAATGT-TTTTAATA
21836365 ATTTAATAT
1 ATTTAATAT
21836374 TTTTTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (24 bp):
ATTTAATATCAAATGTTTTTAATA
Found at i:21838166 original size:2 final size:2
Alignment explanation
Indices: 21838159--21838188 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21838149 TAGAATGCTT
21838159 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21838189 AAGTTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21840943 original size:16 final size:15
Alignment explanation
Indices: 21840923--21840954 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
21840913 TATTAATTTT
21840923 AATATCTATTGTTAA
1 AATATCTATTGTTAA
21840938 ANATATCTATTGTTAA
1 A-ATATCTATTGTTAA
21840954 A
1 A
21840955 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.44
Consensus pattern (15 bp):
AATATCTATTGTTAA
Found at i:21841013 original size:22 final size:21
Alignment explanation
Indices: 21840988--21841030 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
21840978 ATAAAATATA
*
21840988 AATTCTGAATATATAATAATTT
1 AATTCTAAATA-ATAATAATTT
* *
21841010 AATTTTAAATAATAATTATTT
1 AATTCTAAATAATAATAATTT
21841031 TAGTAACCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTCTAAATAATAATAATTT
Found at i:21844499 original size:3 final size:3
Alignment explanation
Indices: 21844491--21844524 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
21844481 TCCATTCAAA
21844491 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
21844525 GATCAAACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21849279 original size:222 final size:222
Alignment explanation
Indices: 21848889--21849315 Score: 782
Period size: 222 Copynumber: 1.9 Consensus size: 222
21848879 GTCAGGTATA
* *
21848889 ACACTTTCCCTCTATTCTTCTCTTCAATTAACAATTTCCTGCAACTTTTGGACAATAGTCTCAGA
1 ACACTTTCCCTCTATTCTCCTCTTCAATTAACAATTTCCTGCAACTTTCGGACAATAGTCTCAGA
21848954 ACATAAGTGCTTGGAATTGAAACAGCATTTCTTGCACCATCACCCGATAGCAGTAGGCATAGCAA
66 ACATAAGTGCTTGGAATTGAAACAGCATTTCTTGCACCATCACCCGATAGCAGTAGGCATAGCAA
*
21849019 TATTTGTGATAAGTTGTAGCTGATAAAATAGAAGTACTTACATCTCAAGGTGCAATGTATGTGAT
131 TATTTGTGATAAGTTGTAGCAGATAAAATAGAAGTACTTACATCTCAAGGTGCAATGTATGTGAT
*
21849084 AGACTCTGATAGCAGAAGGCATCAGAT
196 AAACTCTGATAGCAGAAGGCATCAGAT
21849111 ACACTTTCCCTCTATTCTCCTCTTCAATTAACAATTTCCTGCAACTTTCGGACAATAGTCTCAGA
1 ACACTTTCCCTCTATTCTCCTCTTCAATTAACAATTTCCTGCAACTTTCGGACAATAGTCTCAGA
*
21849176 TCATAAGTGCTTGGAATTGAAACAGCATTTCTTGCACCATCACCCGATAGCAGTAGGCATAGCAA
66 ACATAAGTGCTTGGAATTGAAACAGCATTTCTTGCACCATCACCCGATAGCAGTAGGCATAGCAA
** *
21849241 TATTTGTGATAAGTTGTAGCAGATGCAATAGTAGTACTTACATCTCAAGGTGCAATGTATGTGAT
131 TATTTGTGATAAGTTGTAGCAGATAAAATAGAAGTACTTACATCTCAAGGTGCAATGTATGTGAT
21849306 AAACTCTGAT
196 AAACTCTGAT
21849316 GAGCTATTAG
Statistics
Matches: 197, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
222 197 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (222 bp):
ACACTTTCCCTCTATTCTCCTCTTCAATTAACAATTTCCTGCAACTTTCGGACAATAGTCTCAGA
ACATAAGTGCTTGGAATTGAAACAGCATTTCTTGCACCATCACCCGATAGCAGTAGGCATAGCAA
TATTTGTGATAAGTTGTAGCAGATAAAATAGAAGTACTTACATCTCAAGGTGCAATGTATGTGAT
AAACTCTGATAGCAGAAGGCATCAGAT
Found at i:21853009 original size:20 final size:20
Alignment explanation
Indices: 21852986--21853030 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
21852976 ATTTATTTAT
*
21852986 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
*
21853006 TAAAATAATAATCTTATACA
1 TAAAATAATAATCTTATAAA
21853026 TAAAA
1 TAAAA
21853031 CAATTTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:21860757 original size:5 final size:5
Alignment explanation
Indices: 21860747--21860797 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
21860737 AAAATTACAC
* * *
21860747 ATTTT ATTTT ATTTT ATTTT ATTTT -TATTC CTTCT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT
21860797 A
1 A
21860798 CAGGTAGACC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
4 1 0.03
5 37 0.95
6 1 0.03
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:21861367 original size:9 final size:9
Alignment explanation
Indices: 21861356--21861440 Score: 89
Period size: 9 Copynumber: 9.4 Consensus size: 9
21861346 TTTGGTTAAA
*
21861356 AATTAACCA
1 AATTAACCG
*
21861365 AATTAACTG
1 AATTAACCG
21861374 AATTAACCG
1 AATTAACCG
* *
21861383 AATTACCCA
1 AATTAACCG
21861392 AATTAACCG
1 AATTAACCG
*
21861401 AATTAACTG
1 AATTAACCG
*
21861410 AATTACCCG
1 AATTAACCG
* *
21861419 AATTATCTG
1 AATTAACCG
*
21861428 AATTAACCA
1 AATTAACCG
21861437 AATT
1 AATT
21861441 GAATCACTAC
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:21861379 original size:18 final size:18
Alignment explanation
Indices: 21861356--21861440 Score: 107
Period size: 18 Copynumber: 4.7 Consensus size: 18
21861346 TTTGGTTAAA
*
21861356 AATTAACCAAATTAACTG
1 AATTAACCGAATTAACTG
* **
21861374 AATTAACCGAATTACCCA
1 AATTAACCGAATTAACTG
21861392 AATTAACCGAATTAACTG
1 AATTAACCGAATTAACTG
* *
21861410 AATTACCCGAATTATCTG
1 AATTAACCGAATTAACTG
*
21861428 AATTAACCAAATT
1 AATTAACCGAATT
21861441 GAATCACTAC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (18 bp):
AATTAACCGAATTAACTG
Found at i:21861392 original size:27 final size:27
Alignment explanation
Indices: 21861356--21861440 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
21861346 TTTGGTTAAA
*
21861356 AATTAACCAAATTAACTGAATTAACCG
1 AATTACCCAAATTAACTGAATTAACCG
* *
21861383 AATTACCCAAATTAACCGAATTAACTG
1 AATTACCCAAATTAACTGAATTAACCG
* * *
21861410 AATTACCCGAATTATCTGAATTAACCA
1 AATTACCCAAATTAACTGAATTAACCG
21861437 AATT
1 AATT
21861441 GAATCACTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCCAAATTAACTGAATTAACCG
Found at i:21861583 original size:18 final size:18
Alignment explanation
Indices: 21861543--21861586 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21861533 AATTTTTATG
**
21861543 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
21861561 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
21861579 CTTGGGTT
1 ATTGGGTT
21861587 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:21864180 original size:20 final size:20
Alignment explanation
Indices: 21864139--21864180 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21864129 TTATCAATGC
* *
21864139 ATTGTACCATGTTTTAACTA
1 ATTGTACCATATTTTAAATA
21864159 ATTGTACCA-ATTTTAATATA
1 ATTGTACCATATTTTAA-ATA
21864179 AT
1 AT
21864181 ACGGTTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (20 bp):
ATTGTACCATATTTTAAATA
Found at i:21868846 original size:19 final size:21
Alignment explanation
Indices: 21868801--21868847 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
21868791 CTTTTTTTTA
21868801 TTTTTATTACTTTTAAAATTT
1 TTTTTATTACTTTTAAAATTT
21868822 TATTTTATT-C-TTT-AAATTAT
1 T-TTTTATTACTTTTAAAATT-T
21868842 TTTTTA
1 TTTTTA
21868848 AAATAATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 10 0.42
20 5 0.21
21 2 0.08
22 7 0.29
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTATTACTTTTAAAATTT
Found at i:21869049 original size:246 final size:247
Alignment explanation
Indices: 21868615--21869107 Score: 979
Period size: 246 Copynumber: 2.0 Consensus size: 247
21868605 CTATTATTTG
21868615 ATTTTAATAATATTTACATAATTATGAACATGGTTTATTATTGTGTTGTGAAATATTATGCCAAA
1 ATTTTAATAATATTTACATAATTATGAACATGGTTTATTATTGTGTTGTGAAATATTATGCCAAA
21868680 TGTAATGAAATATTAAAATAATGATTCTTTGTAAGTAAACTTTTGATTCATATTGAAATGAAAAA
66 TGTAATGAAATATTAAAATAATGATTCTTTGTAAGTAAACTTTTGATTCATATTGAAATGAAAAA
21868745 TTTGTTTTATCTAATTATTTAACATTTTATTATAGATTCTTTCATACTTTTTTTTATTTTTATTA
131 TTTGTTTTATCTAATTATTTAACATTTTATTATAGATTCTTTCATACTTTTTTTTATTTTTATTA
21868810 CTTTTAAAATTTTATTTTATTCTTTAAATTATTTTTTAAAA-TAATACTTTT
196 CTTTTAAAATTTTATTTTATTCTTTAAATTATTTTTTAAAATTAATACTTTT
21868861 ATTTTAATAATATTTACATAATTATGAACATGGTTTATTATTGTGTTGTGAAATATTATGCCAAA
1 ATTTTAATAATATTTACATAATTATGAACATGGTTTATTATTGTGTTGTGAAATATTATGCCAAA
21868926 TGTAATGAAATATTAAAATAATGATTCTTTGTAAGTAAACTTTTGATTCATATTGAAATGAAAAA
66 TGTAATGAAATATTAAAATAATGATTCTTTGTAAGTAAACTTTTGATTCATATTGAAATGAAAAA
21868991 TTTGTTTTATCTAATTATTTAACATTTTATTATAGATTCTTTCATACTTTTTTTTATTTTTATTA
131 TTTGTTTTATCTAATTATTTAACATTTTATTATAGATTCTTTCATACTTTTTTTTATTTTTATTA
21869056 CTTTTAAAATTTTATTTTATTCTTTAAATTATTTTTTAAAATTAATACTTTT
196 CTTTTAAAATTTTATTTTATTCTTTAAATTATTTTTTAAAATTAATACTTTT
21869108 CTTATAAATT
Statistics
Matches: 246, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
246 236 0.96
247 10 0.04
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (247 bp):
ATTTTAATAATATTTACATAATTATGAACATGGTTTATTATTGTGTTGTGAAATATTATGCCAAA
TGTAATGAAATATTAAAATAATGATTCTTTGTAAGTAAACTTTTGATTCATATTGAAATGAAAAA
TTTGTTTTATCTAATTATTTAACATTTTATTATAGATTCTTTCATACTTTTTTTTATTTTTATTA
CTTTTAAAATTTTATTTTATTCTTTAAATTATTTTTTAAAATTAATACTTTT
Found at i:21869092 original size:19 final size:21
Alignment explanation
Indices: 21869047--21869093 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
21869037 CTTTTTTTTA
21869047 TTTTTATTACTTTTAAAATTT
1 TTTTTATTACTTTTAAAATTT
21869068 TATTTTATT-C-TTT-AAATTAT
1 T-TTTTATTACTTTTAAAATT-T
21869088 TTTTTA
1 TTTTTA
21869094 AAATTAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 10 0.42
20 5 0.21
21 2 0.08
22 7 0.29
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTATTACTTTTAAAATTT
Found at i:21870228 original size:70 final size:69
Alignment explanation
Indices: 21870139--21870272 Score: 205
Period size: 70 Copynumber: 1.9 Consensus size: 69
21870129 TAAACAATAT
* * *
21870139 AATGGTTTTCCTTTTAACTTTAGAAAAGTTAAACATTTATAAAAACGACGTAGTTTTGCCTTTTA
1 AATGGTTTTACTTTTAACTTTAGAAAAGTTAAACATTTATAAAAACGACATAGTTTTGACTTTTA
21870204 ACTG
66 ACTG
* * *
21870208 AATGGTTTTGACTTTTAACTTTAGAAAAGTTAAATATTTATCAAAACGGCATAGTTTTGACTTTT
1 AATGGTTTT-ACTTTTAACTTTAGAAAAGTTAAACATTTATAAAAACGACATAGTTTTGACTTTT
21870273 CTTATTCGGA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 9 0.16
70 49 0.84
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (69 bp):
AATGGTTTTACTTTTAACTTTAGAAAAGTTAAACATTTATAAAAACGACATAGTTTTGACTTTTA
ACTG
Found at i:21870743 original size:7 final size:7
Alignment explanation
Indices: 21870731--21870757 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21870721 AGTGATTTTA
21870731 ATTCTTG
1 ATTCTTG
21870738 ATTCTTG
1 ATTCTTG
21870745 ATTCTTG
1 ATTCTTG
21870752 ATTCTT
1 ATTCTT
21870758 TCAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (7 bp):
ATTCTTG
Found at i:21878024 original size:14 final size:14
Alignment explanation
Indices: 21878005--21878052 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
21877995 TTTTATATTA
21878005 TTATAAAATTATAT
1 TTATAAAATTATAT
21878019 TTATAATAATTAT-T
1 TTATAA-AATTATAT
21878033 TTATTATTAAATTATAT
1 TTA-TA--AAATTATAT
21878050 TTA
1 TTA
21878053 ATAATAATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.34
15 8 0.28
16 6 0.21
17 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATAAAATTATAT
Found at i:21878045 original size:31 final size:32
Alignment explanation
Indices: 21877997--21878060 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
21877987 TTATTAAATT
21877997 TTATATTATTATAAAATTATATTT-ATAATAA
1 TTATATTATTATAAAATTATATTTAATAATAA
* *
21878028 TTATTTTATTATTAAATTATATTTAATAATAA
1 TTATATTATTATAAAATTATATTTAATAATAA
21878060 T
1 T
21878061 CCAATTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TTATATTATTATAAAATTATATTTAATAATAA
Found at i:21878050 original size:18 final size:18
Alignment explanation
Indices: 21877987--21878051 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 18
21877977 ATTAAAAATG
* *
21877987 TTATTAAATTTTATATTA
1 TTATTAAATTATATTTTA
*
21878005 TTATAAAATTATA-TTTA
1 TTATTAAATTATATTTTA
*
21878022 -TAAT-AA-T-TATTTTA
1 TTATTAAATTATATTTTA
21878036 TTATTAAATTATATTT
1 TTATTAAATTATATTT
21878052 AATAATAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.06
14 5 0.14
15 5 0.14
16 4 0.11
17 4 0.11
18 16 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTAAATTATATTTTA
Found at i:21879112 original size:23 final size:23
Alignment explanation
Indices: 21879068--21879112 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
21879058 TTTATATTAC
* * *
21879068 TAAAATATTTTTATATACATTTT
1 TAAAATATTTTAAGATAAATTTT
*
21879091 TAAAATGTTTTAAGATAAATTT
1 TAAAATATTTTAAGATAAATTT
21879113 CCATCAACAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
TAAAATATTTTAAGATAAATTTT
Found at i:21880708 original size:21 final size:21
Alignment explanation
Indices: 21880664--21880708 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
21880654 GTATTGGTCT
*
21880664 AAAACATATTTAACTAGTAGA
1 AAAACATATTGAACTAGTAGA
*
21880685 AAAACCATATTGAATTAGTA-A
1 AAAA-CATATTGAACTAGTAGA
21880706 AAA
1 AAA
21880709 CGAATGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAACATATTGAACTAGTAGA
Found at i:21884162 original size:16 final size:16
Alignment explanation
Indices: 21884141--21884174 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
21884131 CTAAAATCGA
21884141 AATTGCCATAACTTTC
1 AATTGCCATAACTTTC
21884157 AATTGCCATAACTTTC
1 AATTGCCATAACTTTC
21884173 AA
1 AA
21884175 ATTTGAGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (16 bp):
AATTGCCATAACTTTC
Found at i:21888387 original size:21 final size:22
Alignment explanation
Indices: 21888342--21888392 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
21888332 TTGATTTCTA
* *
21888342 TTTTTGAGCATAGTTTTCGATT
1 TTTTTTAGAATAGTTTTCGATT
21888364 TTTTTTAGAATAGTTTTCGATT
1 TTTTTTAGAATAGTTTTCGATT
21888386 TTTTTTA
1 TTTTTTA
21888393 CTCTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.06, G:0.14, T:0.61
Consensus pattern (22 bp):
TTTTTTAGAATAGTTTTCGATT
Found at i:21888389 original size:20 final size:20
Alignment explanation
Indices: 21888336--21888389 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
21888326 CTTTAATTGA
* * *
21888336 TTTCTATTTTTGAGCATAGT
1 TTTCGATTTTTTAGAATAGT
21888356 TTTCGATTTTTTTTAGAATAGT
1 TTTCGA--TTTTTTAGAATAGT
21888378 TTTCGATTTTTT
1 TTTCGATTTTTT
21888390 TTACTCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 11 0.38
22 18 0.62
ACGTcount: A:0.19, C:0.07, G:0.13, T:0.61
Consensus pattern (20 bp):
TTTCGATTTTTTAGAATAGT
Found at i:21892679 original size:65 final size:67
Alignment explanation
Indices: 21892587--21892735 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 67
21892577 GATAGTTGCT
* * * *
21892587 TCCAAAAACAACATGAAGAGAGTCGAAGATTC-ACATATGAGACCCAAAATCAACATAGTAGTT-
1 TCCAAAAATAACATGAAAAGAGCCGAAGATCCAACATATGAGACCCAAAATCAACATAGTAGTTG
21892650 AA
66 AA
** * * * *
21892652 TTGAAAAATAACATGAAAAGAGCCGAAGCTCCATATATATGAGACCCACAATCAACATGGTAGTT
1 TCCAAAAATAACATGAAAAGAGCCGAAGATCCA-ACATATGAGACCCAAAATCAACATAGTAGTT
*
21892717 GCA
65 GAA
21892720 TCCAAAAATAACATGA
1 TCCAAAAATAACATGA
21892736 GAGCGAAAGG
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
65 25 0.37
67 28 0.41
68 15 0.22
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (67 bp):
TCCAAAAATAACATGAAAAGAGCCGAAGATCCAACATATGAGACCCAAAATCAACATAGTAGTTG
AA
Found at i:21905787 original size:97 final size:97
Alignment explanation
Indices: 21905665--21905859 Score: 286
Period size: 97 Copynumber: 2.0 Consensus size: 97
21905655 AAATATACAA
*
21905665 ATGTTAACAGCAACTCCATCATCTAATTCATGCAATATAATTGAT-GAGACAGTTTCTCTTCGGT
1 ATGTTAACAACAACTCCATCATCTAATTCATGCAATATAATTGATGGA-ACAGTTTCTCTTCGGT
* *
21905729 GACGTTAGAAGTTCTGTGA-CTTAAATTTTTATT
65 GACGTTAGAAATTCTGTGACCCT-AATTTTTATT
* * *
21905762 ATGTTAACAACAACTCTATTATCTAATTCATGCAATATAGTTGATGGAACAGTTTCTCTTCGGTG
1 ATGTTAACAACAACTCCATCATCTAATTCATGCAATATAATTGATGGAACAGTTTCTCTTCGGTG
* *
21905827 ATGTTAGAAATTGTGTGACCCTAATTTTTATT
66 ACGTTAGAAATTCTGTGACCCTAATTTTTATT
21905859 A
1 A
21905860 AAATAAAATA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
97 84 0.95
98 4 0.05
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (97 bp):
ATGTTAACAACAACTCCATCATCTAATTCATGCAATATAATTGATGGAACAGTTTCTCTTCGGTG
ACGTTAGAAATTCTGTGACCCTAATTTTTATT
Found at i:21922014 original size:17 final size:18
Alignment explanation
Indices: 21921986--21922025 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
21921976 TTATAGCCTA
21921986 AAGGTGTTGGTTGATTAC
1 AAGGTGTTGGTTGATTAC
21922004 AAGGT-TTGGTTGATTAC
1 AAGGTGTTGGTTGATTAC
21922021 AAGGT
1 AAGGT
21922026 CACCATATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.25, C:0.05, G:0.33, T:0.38
Consensus pattern (18 bp):
AAGGTGTTGGTTGATTAC
Found at i:21926780 original size:15 final size:18
Alignment explanation
Indices: 21926746--21926789 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 18
21926736 CTTTTGAGGT
21926746 CAACGCCAACGCCAAACC
1 CAACGCCAACGCCAAACC
21926764 CAACGCC-AC-CC-AACC
1 CAACGCCAACGCCAAACC
21926779 CAACG-CAACGC
1 CAACGCCAACGC
21926790 AACTAAGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 11 0.46
16 3 0.12
17 2 0.08
18 7 0.29
ACGTcount: A:0.36, C:0.52, G:0.11, T:0.00
Consensus pattern (18 bp):
CAACGCCAACGCCAAACC
Found at i:21927279 original size:90 final size:90
Alignment explanation
Indices: 21927179--21927365 Score: 347
Period size: 90 Copynumber: 2.1 Consensus size: 90
21927169 TTAAAATATA
* *
21927179 AAATGTACAAATATTAAAAATAATTAAATTAGTACATTGACTAAATCAACAACTTGCTCATAATA
1 AAATGTACAAATATCAAAAATAATTAAATTAGCACATTGACTAAATCAACAACTTGCTCATAATA
21927244 TTGAAGATAGAATTTAACCATTAAT
66 TTGAAGATAGAATTTAACCATTAAT
21927269 AAATGTACAAATATCAAAAATAATTAAATTAGCACATTGACTAAATCAACAACTTGCTCATAATA
1 AAATGTACAAATATCAAAAATAATTAAATTAGCACATTGACTAAATCAACAACTTGCTCATAATA
*
21927334 TTGACGATAGAATTTAACCATTAAT
66 TTGAAGATAGAATTTAACCATTAAT
21927359 AAATGTA
1 AAATGTA
21927366 TATTCCGGTA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 94 1.00
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (90 bp):
AAATGTACAAATATCAAAAATAATTAAATTAGCACATTGACTAAATCAACAACTTGCTCATAATA
TTGAAGATAGAATTTAACCATTAAT
Found at i:21936571 original size:15 final size:15
Alignment explanation
Indices: 21936553--21936583 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21936543 AGAATTTTTT
21936553 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
21936568 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
21936583 T
1 T
21936584 TCTAAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:21947483 original size:97 final size:98
Alignment explanation
Indices: 21947307--21947483 Score: 302
Period size: 97 Copynumber: 1.8 Consensus size: 98
21947297 ATTATAAAAA
*
21947307 TCTAACCTTCAACATTCAAAATTTGTGTAATTTAATCTTTTTTGCAATTCTTCTTTTCTTTGTAA
1 TCTAACCTTCAACATTCAAAATTTGTGTAATTGAATCTTTTTTGCAATTCTTCTTTTCTTTGTAA
*
21947372 TCTTTTCACTTAAAATCCCAAAAATAAAATTAT
66 TCCTTTCACTTAAAATCCCAAAAATAAAATTAT
* * *
21947405 TCTAACCTTCAACATTCAAAATTTGTGTAATTGGAT-TTTTTTGCAATTTTTCTTTTCTTTGTGA
1 TCTAACCTTCAACATTCAAAATTTGTGTAATTGAATCTTTTTTGCAATTCTTCTTTTCTTTGTAA
21947469 TCCTTTCACTTAAAA
66 TCCTTTCACTTAAAA
21947484 CCCCCTAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 40 0.54
98 34 0.46
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (98 bp):
TCTAACCTTCAACATTCAAAATTTGTGTAATTGAATCTTTTTTGCAATTCTTCTTTTCTTTGTAA
TCCTTTCACTTAAAATCCCAAAAATAAAATTAT
Found at i:21947978 original size:99 final size:100
Alignment explanation
Indices: 21947859--21948057 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 100
21947849 TTCATAATCA
21947859 GGTGACGAAAAAACACTAATATTTCGATGACTATTAATATAGTTTACTCAAAACAAAATCTACCT
1 GGTGACGAAAAAACACTAATATTTCGATGACTATTAATATAGTTTACTCAAAACAAAATCTACCT
21947924 AACCAAACTTATTAATAAATATT-AATTTAAAAAT
66 AACCAAACTTATTAATAAATATTAAATTTAAAAAT
21947958 GGTGACGAAAAAACACTAATATTTCGATGACTATTAATATAGTTTACTCAAAACAAAATCTACCT
1 GGTGACGAAAAAACACTAATATTTCGATGACTATTAATATAGTTTACTCAAAACAAAATCTACCT
21948023 AACCAAACTTATTAATAAATATTAAATTTAAAAAT
66 AACCAAACTTATTAATAAATATTAAATTTAAAAAT
21948058 ATAAATATTA
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 88 0.89
100 11 0.11
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (100 bp):
GGTGACGAAAAAACACTAATATTTCGATGACTATTAATATAGTTTACTCAAAACAAAATCTACCT
AACCAAACTTATTAATAAATATTAAATTTAAAAAT
Found at i:21948059 original size:15 final size:16
Alignment explanation
Indices: 21948032--21948083 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
21948022 TAACCAAACT
21948032 TATTAATAAATATTAAA
1 TATTAA-AAATATTAAA
21948049 T-TTAAAAATA-TAAA
1 TATTAAAAATATTAAA
* *
21948063 TATTACAAAT-TTAAT
1 TATTAAAAATATTAAA
21948078 TATTAA
1 TATTAA
21948084 TATTGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.17
15 20 0.67
16 4 0.13
17 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAAAAATATTAAA
Found at i:21949924 original size:16 final size:16
Alignment explanation
Indices: 21949903--21949935 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21949893 GTACACTTTT
21949903 TAATTTTGCTTATGTA
1 TAATTTTGCTTATGTA
21949919 TAATTTTGCTTATGTA
1 TAATTTTGCTTATGTA
21949935 T
1 T
21949936 GTAGTCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.58
Consensus pattern (16 bp):
TAATTTTGCTTATGTA
Found at i:21971900 original size:26 final size:28
Alignment explanation
Indices: 21971850--21971901 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
21971840 GAAACAATTT
* *
21971850 TTTAGAAAACAAAAATTTAGTAGTCGAC
1 TTTAAAAAACAAAAATTTAGGAGTCGAC
21971878 TTTAAAAAACAAAAA-TT-GGAGTCG
1 TTTAAAAAACAAAAATTTAGGAGTCG
21971902 TCACCGATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 2 0.09
28 14 0.64
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (28 bp):
TTTAAAAAACAAAAATTTAGGAGTCGAC
Found at i:21972818 original size:15 final size:14
Alignment explanation
Indices: 21972788--21972852 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
21972778 ATATGTAAGT
21972788 ATAATAATAATATA
1 ATAATAATAATATA
*
21972802 ATAATTATAATTATA
1 ATAATAATAA-TATA
*
21972817 ATTATAATAACTATA
1 ATAATAATAA-TATA
* * *
21972832 TTAACAAATAATACA
1 ATAA-TAATAATATA
21972847 ATAATA
1 ATAATA
21972853 GTGAAAAATA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
14 10 0.26
15 24 0.62
16 5 0.13
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:21976533 original size:15 final size:15
Alignment explanation
Indices: 21976513--21976545 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
21976503 GGACCATGGA
21976513 TTGACAAGGCGAGAT
1 TTGACAAGGCGAGAT
*
21976528 TTGACAAGGTGAGAT
1 TTGACAAGGCGAGAT
21976543 TTG
1 TTG
21976546 TGCCCCACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.27
Consensus pattern (15 bp):
TTGACAAGGCGAGAT
Found at i:21977251 original size:32 final size:32
Alignment explanation
Indices: 21977214--21977279 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
21977204 ATATTTTAAG
21977214 ATGGTTAAATCATGATGACCACAATATTTATA
1 ATGGTTAAATCATGATGACCACAATATTTATA
*
21977246 ATGGTTAAGTCATGATGACCACAATATTTATA
1 ATGGTTAAATCATGATGACCACAATATTTATA
21977278 AT
1 AT
21977280 ATACTGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (32 bp):
ATGGTTAAATCATGATGACCACAATATTTATA
Found at i:21977949 original size:4 final size:4
Alignment explanation
Indices: 21977940--21977988 Score: 66
Period size: 4 Copynumber: 12.2 Consensus size: 4
21977930 GGTTGATAAG
21977940 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-AT G-AGT GTAT GTTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-T GTAT G-TAT GTAT
21977988 G
1 G
21977989 ATGGTTGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 4 0.10
4 33 0.79
5 5 0.12
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:21977965 original size:20 final size:19
Alignment explanation
Indices: 21977940--21977991 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 19
21977930 GGTTGATAAG
21977940 GTATGTATGTATG-T-A-T
1 GTATGTATGTATGATGAGT
21977956 GTATGTATGTATGATGAGT
1 GTATGTATGTATGATGAGT
21977975 GTATGTTATGTATGATG
1 GTATG-TATGTATGATG
21977992 GTTGACAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.41
17 1 0.03
18 1 0.03
19 6 0.19
20 11 0.34
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (19 bp):
GTATGTATGTATGATGAGT
Found at i:21978521 original size:10 final size:9
Alignment explanation
Indices: 21978485--21978520 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
21978475 TTTTTCTTAT
21978485 TTAAAAAAA
1 TTAAAAAAA
**
21978494 ACAAAAAAA
1 TTAAAAAAA
21978503 TTAAAAAAA
1 TTAAAAAAA
21978512 TTAAAAAAA
1 TTAAAAAAA
21978521 AATATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:21985153 original size:18 final size:19
Alignment explanation
Indices: 21985130--21985178 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
21985120 GCAAATATAT
*
21985130 AATAAAAAG-AAATCAACA
1 AATAAAAAGTAAATAAACA
21985148 AAT-AAAAGTAAATAAACA
1 AATAAAAAGTAAATAAACA
*
21985166 AATAAAAATTAAA
1 AATAAAAAGTAAA
21985179 GCACTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 14 0.52
19 8 0.30
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (19 bp):
AATAAAAAGTAAATAAACA
Found at i:21989377 original size:28 final size:28
Alignment explanation
Indices: 21989335--21989389 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
21989325 TATTTATTTA
21989335 GGGTTTAAGAGTTTTAAAAAATAAATTG
1 GGGTTTAAGAGTTTTAAAAAATAAATTG
*
21989363 GGGTTTAA-AGTTTTTAAAAAATTAATT
1 GGGTTTAAGAG-TTTTAAAAAATAAATT
21989390 AAATTAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (28 bp):
GGGTTTAAGAGTTTTAAAAAATAAATTG
Found at i:21989403 original size:68 final size:67
Alignment explanation
Indices: 21989348--21989480 Score: 180
Period size: 67 Copynumber: 2.0 Consensus size: 67
21989338 TTTAAGAGTT
* *
21989348 TTAA-AAAATAAATTGGGGTTTAAAGTTTTTAA-AAAATTAATTAAATTAGGTTTTAGGGGTTTT
1 TTAATAAAATAAATTAGGGTTTAAAGTTTTTAAGAAAATTAATTAAATTAGGGTTTA-GGGTTTT
21989411 AAA
65 AAA
* * * **
21989414 TTAATTAATTAAATTAGGGTTTAGAGTTTTTAAGAAAATTAATTAAATTAGGGTTTAGTTTTTTA
1 TTAATAAAATAAATTAGGGTTTAAAGTTTTTAAGAAAATTAATTAAATTAGGGTTTAGGGTTTTA
21989479 AA
66 AA
21989481 AATAATTTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
66 4 0.07
67 32 0.55
68 22 0.38
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (67 bp):
TTAATAAAATAAATTAGGGTTTAAAGTTTTTAAGAAAATTAATTAAATTAGGGTTTAGGGTTTTA
AA
Found at i:21989420 original size:34 final size:33
Alignment explanation
Indices: 21989356--21989471 Score: 151
Period size: 34 Copynumber: 3.5 Consensus size: 33
21989346 TTTTAAAAAA
* * *
21989356 TAAATTGGGGTTTAAAGTTTTTAAAAAATTAAT
1 TAAATTAGGGTTTAGAGGTTTTAAAAAATTAAT
* * *
21989389 TAAATTAGGTTTTAGGGGTTTTAAATTAATTAAT
1 TAAATTAGGGTTTAGAGGTTTTAAA-AAATTAAT
*
21989423 TAAATTAGGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGAGGTTTTAA-AAAATTAAT
21989457 TAAATTAGGGTTTAG
1 TAAATTAGGGTTTAG
21989472 TTTTTTAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
33 20 0.28
34 50 0.70
35 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (33 bp):
TAAATTAGGGTTTAGAGGTTTTAAAAAATTAAT
Found at i:21992355 original size:23 final size:23
Alignment explanation
Indices: 21992316--21992609 Score: 345
Period size: 23 Copynumber: 12.7 Consensus size: 23
21992306 ATTGGGTATA
*
21992316 TATATATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * *
21992339 TATAAATGTTGTTCAATTTAGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
21992362 TATATATGCTTTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
21992385 TATAAATACTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
21992408 TATAAATGTTGTCCAATTTAGTG
1 TATAAATGCTGTCCAATTTGGTG
*
21992431 TATATATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
21992454 TATAAATGCTGTCTAATTTAGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
21992477 TATATATGCTGTCCGATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
21992500 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * * * *
21992523 TTTATATGTTGCCCAATTTGGTA
1 TATAAATGCTGTCCAATTTGGTG
* * *
21992546 TATATATATGTTGTCCAATTGGGTC
1 TATA-A-ATGCTGTCCAATTTGGTG
* *
21992571 TATAAATGCTGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
*
21992594 TATAAAAGCTGTCCAA
1 TATAAATGCTGTCCAA
21992610 ACAAGGTAGA
Statistics
Matches: 225, Mismatches: 44, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
23 205 0.91
24 1 0.00
25 19 0.08
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:21993144 original size:18 final size:18
Alignment explanation
Indices: 21993108--21993145 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21993098 GGAAAATGAA
*
21993108 ACATATAAGGGATATGAT
1 ACATATAAGGGATAGGAT
*
21993126 ACATATAAGGGCTAGGAT
1 ACATATAAGGGATAGGAT
21993144 AC
1 AC
21993146 GCACCTAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGATAGGAT
Found at i:21994615 original size:43 final size:42
Alignment explanation
Indices: 21994549--21994677 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 42
21994539 ATAGGATTTC
21994549 CGATATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
21994592 CGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * *
21994635 TGATATGTGATTACATATAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
21994678 TGTACGAGCT
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
42 3 0.04
43 66 0.88
44 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (42 bp):
CGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:22001785 original size:35 final size:35
Alignment explanation
Indices: 22001739--22001858 Score: 177
Period size: 35 Copynumber: 3.3 Consensus size: 35
22001729 CTCCTTTTTT
22001739 CTTGGGTTGGGAATGAAAGAGGAGAGTTTAGCTTG
1 CTTGGGTTGGGAATGAAAGAGGAGAGTTTAGCTTG
*
22001774 CTTGGGTTGGGAATGAAAGAGGAGAGTTCGGCTTGCTTG
1 CTTGGGTTGGGAATGAAAGAGGAGAGTT----TAGCTTG
* *
22001813 CTTGGGTTGGGAATGAAAGAGGAGAGTTCAACTTG
1 CTTGGGTTGGGAATGAAAGAGGAGAGTTTAGCTTG
22001848 CTTGGGTTGGG
1 CTTGGGTTGGG
22001859 GCCGGGAACA
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
35 43 0.56
39 34 0.44
ACGTcount: A:0.23, C:0.08, G:0.41, T:0.28
Consensus pattern (35 bp):
CTTGGGTTGGGAATGAAAGAGGAGAGTTTAGCTTG
Found at i:22002570 original size:22 final size:22
Alignment explanation
Indices: 22002544--22002597 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
22002534 ATGTTTTATA
* *
22002544 TTATTTTTAATTCTATTTA-TTT
1 TTATTTTTAAAT-AATTTAGTTT
*
22002566 TTATTTTAAAATAATTTAGTTT
1 TTATTTTTAAATAATTTAGTTT
22002588 TTATTTTTAA
1 TTATTTTTAA
22002598 GTTTTAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTTTAAATAATTTAGTTT
Found at i:22004800 original size:15 final size:17
Alignment explanation
Indices: 22004775--22004806 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22004765 ATTTATCCTT
22004775 TTTACTTTTTC-CTCCC
1 TTTACTTTTTCTCTCCC
22004791 TTTA-TTTTTCTCTCCC
1 TTTACTTTTTCTCTCCC
22004807 CTCGAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTACTTTTTCTCTCCC
Found at i:22005624 original size:54 final size:54
Alignment explanation
Indices: 22005542--22005653 Score: 224
Period size: 54 Copynumber: 2.1 Consensus size: 54
22005532 TCAACCATAT
22005542 TTTTTGGGGGGCGGGTGGGTCGCAAATGGACGTACACAGAAGGAATTAAATTCC
1 TTTTTGGGGGGCGGGTGGGTCGCAAATGGACGTACACAGAAGGAATTAAATTCC
22005596 TTTTTGGGGGGCGGGTGGGTCGCAAATGGACGTACACAGAAGGAATTAAATTCC
1 TTTTTGGGGGGCGGGTGGGTCGCAAATGGACGTACACAGAAGGAATTAAATTCC
22005650 TTTT
1 TTTT
22005654 GTATCTTAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (54 bp):
TTTTTGGGGGGCGGGTGGGTCGCAAATGGACGTACACAGAAGGAATTAAATTCC
Found at i:22009408 original size:24 final size:24
Alignment explanation
Indices: 22009353--22009410 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
22009343 CGGATTGCCC
*
22009353 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTATAATCTTCAAAGTTCAAT
* * *
22009377 CCGCTATAATCTTCAAGGTTCAGT
1 CCACTATAATCTTCAAAGTTCAAT
*
22009401 CCATTATAAT
1 CCACTATAAT
22009411 TTTAGGACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (24 bp):
CCACTATAATCTTCAAAGTTCAAT
Found at i:22010418 original size:1 final size:1
Alignment explanation
Indices: 22010327--22010411 Score: 62
Period size: 1 Copynumber: 85.0 Consensus size: 1
22010317 TGGCCTCTCC
* * * * * * * * * * *
22010327 TTTTTCTTTTTCTTTTATTTTTCTTTTTTTCTTTTCTTTTTTGTTATTTTTTCTTTTTTGTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
22010392 TTTTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
22010412 GGTTTTTGAA
Statistics
Matches: 60, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.86
Consensus pattern (1 bp):
T
Found at i:22010418 original size:17 final size:17
Alignment explanation
Indices: 22010327--22010411 Score: 91
Period size: 17 Copynumber: 4.9 Consensus size: 17
22010317 TGGCCTCTCC
* *
22010327 TTTTTCTTTTTCTTTTAT
1 TTTTTGTTTTT-TTTTCT
*
22010345 TTTTCTTTTTTTCTTTTCT
1 TTTT-TGTTTTT-TTTTCT
*
22010364 TTTTTGTTATTTTTTCT
1 TTTTTGTTTTTTTTTCT
*
22010381 TTTTTGTTCTTTTTTCT
1 TTTTTGTTTTTTTTTCT
22010398 TTTTT-TTTTTTTTT
1 TTTTTGTTTTTTTTT
22010412 GGTTTTTGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
16 8 0.13
17 27 0.45
18 9 0.15
19 16 0.27
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.86
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTCT
Found at i:22014877 original size:6 final size:6
Alignment explanation
Indices: 22014866--22014895 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
22014856 ATACAAAAGG
22014866 GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT
22014896 AAAGTATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:22014992 original size:29 final size:30
Alignment explanation
Indices: 22014960--22015026 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
22014950 GTATGTAAAG
* *
22014960 ATATGTAGA-TAAAAAAGATATAT-ATATAT
1 ATATGTAAATTAAAAAA-ATATATAAGATAT
*
22014989 ATATATAAATTAAAAAAATATATAAAGATAT
1 ATATGTAAATTAAAAAAATATAT-AAGATAT
22015020 ATATGTA
1 ATATGTA
22015027 CAGCCCAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 13 0.42
30 7 0.23
31 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.34
Consensus pattern (30 bp):
ATATGTAAATTAAAAAAATATATAAGATAT
Found at i:22017875 original size:3 final size:3
Alignment explanation
Indices: 22017867--22018215 Score: 689
Period size: 3 Copynumber: 116.0 Consensus size: 3
22017857 AAAATGTATG
22017867 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22017915 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22017963 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22018011 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22018059 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22018107 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22018155 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22018203 ATA ATA ATGA ATA
1 ATA ATA AT-A ATA
22018216 GACAAGGATA
Statistics
Matches: 345, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
3 342 0.99
4 3 0.01
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22020220 original size:51 final size:50
Alignment explanation
Indices: 22020160--22020320 Score: 219
Period size: 51 Copynumber: 3.3 Consensus size: 50
22020150 GTCAGTGACA
22020160 AGTGACAAGTGATAATAGATAAGTGGTAGCTTTAGCTAAACTTATCTGATC
1 AGTGACAAGTGATAAT-GATAAGTGGTAGCTTTAGCTAAACTTATCTGATC
*
22020211 AGTGACAA--G----TGATAAGTGGTAGCTTCAGC-AACACTTATCTGATC
1 AGTGACAAGTGATAATGATAAGTGGTAGCTTTAGCTAA-ACTTATCTGATC
* *
22020255 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAA-TGATAAGTGGTAGCTTTAGCTAAACTTATCTGATC
22020306 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
22020321 ATGTGATCCG
Statistics
Matches: 97, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
43 2 0.02
44 38 0.39
45 1 0.01
46 1 0.01
49 1 0.01
51 53 0.55
52 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAATGATAAGTGGTAGCTTTAGCTAAACTTATCTGATC
Found at i:22020225 original size:44 final size:44
Alignment explanation
Indices: 22020177--22020320 Score: 191
Period size: 44 Copynumber: 3.1 Consensus size: 44
22020167 AGTGATAATA
22020177 GATAAGTGGTAGCTTTAGCTAAACTTATCTGATCAGTGACAAGT
1 GATAAGTGGTAGCTTTAGCTAAACTTATCTGATCAGTGACAAGT
*
22020221 GATAAGTGGTAGCTTCAGC-AACACTTATCTGATCAGTGACAAGTGACAAGT
1 GATAAGTGGTAGCTTTAGCTAA-ACTTATCTG---A-T--C-AGTGACAAGT
*
22020272 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGT
1 GATAAGTGGTAGCTTTAGCTAAACTTATCTGATCAGTGACAAGT
22020316 GATAA
1 GATAA
22020321 ATGTGATCCG
Statistics
Matches: 88, Mismatches: 3, Indels: 18
0.81 0.03 0.17
Matches are distributed among these distances:
43 2 0.02
44 42 0.48
45 1 0.01
47 2 0.02
48 2 0.02
50 1 0.01
51 37 0.42
52 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (44 bp):
GATAAGTGGTAGCTTTAGCTAAACTTATCTGATCAGTGACAAGT
Found at i:22021613 original size:30 final size:30
Alignment explanation
Indices: 22021577--22021639 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
22021567 ATATATAGTT
*
22021577 TAATATATTAAAATTTAATATTATTTGATA
1 TAATATATTAAAATTTAATATGATTTGATA
* * * *
22021607 TAATATATTATAGTTTGATATGATTTTATA
1 TAATATATTAAAATTTAATATGATTTGATA
22021637 TAA
1 TAA
22021640 GTAATATGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (30 bp):
TAATATATTAAAATTTAATATGATTTGATA
Found at i:22023245 original size:69 final size:69
Alignment explanation
Indices: 22023133--22023263 Score: 208
Period size: 69 Copynumber: 1.9 Consensus size: 69
22023123 AGATTAAGCT
* *
22023133 GTTGCTGCCCAAACGTTGCTTTAAATTTCCGACAAAAGGTAGATTTGTCTTTGTCCAAAGAGCCT
1 GTTGCTGCCCAAACGTTGCTTTAAATTTCCGACAAAAGGTAGATTTGCCTTTGCCCAAAGAGCCT
22023198 AAAA
66 AAAA
* ** *
22023202 GTTGCTGCCCAAATGTTGCTTTGGATTTCCGACAAAAGTTAGATTTGCCTTTGCCCAAAGAG
1 GTTGCTGCCCAAACGTTGCTTTAAATTTCCGACAAAAGGTAGATTTGCCTTTGCCCAAAGAG
22023264 ACTTCCGCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 56 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (69 bp):
GTTGCTGCCCAAACGTTGCTTTAAATTTCCGACAAAAGGTAGATTTGCCTTTGCCCAAAGAGCCT
AAAA
Found at i:22024616 original size:15 final size:18
Alignment explanation
Indices: 22024579--22024614 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22024569 AATGTGCTCT
22024579 AAATAACATCATATATAA
1 AAATAACATCATATATAA
22024597 AAATAACAT-A-ATATAA
1 AAATAACATCATATATAA
22024613 AA
1 AA
22024615 TAGTATAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
AAATAACATCATATATAA
Found at i:22027680 original size:94 final size:94
Alignment explanation
Indices: 22027519--22027694 Score: 352
Period size: 94 Copynumber: 1.9 Consensus size: 94
22027509 AATGTTTTGT
22027519 TATTTTTAATTCATTCAAGATAAAAAGTTTTCTTTTAAAATCTTTTCAAATTTTCGGCACCAAGA
1 TATTTTTAATTCATTCAAGATAAAAAGTTTTCTTTTAAAATCTTTTCAAATTTTCGGCACCAAGA
22027584 TATTAAACAATCAATTTTGGGCACCAAGA
66 TATTAAACAATCAATTTTGGGCACCAAGA
22027613 TATTTTTAATTCATTCAAGATAAAAAGTTTTCTTTTAAAATCTTTTCAAATTTTCGGCACCAAGA
1 TATTTTTAATTCATTCAAGATAAAAAGTTTTCTTTTAAAATCTTTTCAAATTTTCGGCACCAAGA
22027678 TATTAAACAATCAATTT
66 TATTAAACAATCAATTT
22027695 GGTACCAATT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (94 bp):
TATTTTTAATTCATTCAAGATAAAAAGTTTTCTTTTAAAATCTTTTCAAATTTTCGGCACCAAGA
TATTAAACAATCAATTTTGGGCACCAAGA
Found at i:22028447 original size:19 final size:21
Alignment explanation
Indices: 22028425--22028464 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
22028415 ACTTCACATT
*
22028425 AATATTTTAA-TCA-TAATAA
1 AATATTTAAACTCACTAATAA
22028444 AATATTTAAACTCACTAATAA
1 AATATTTAAACTCACTAATAA
22028465 TATTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATTTAAACTCACTAATAA
Found at i:22029057 original size:13 final size:13
Alignment explanation
Indices: 22029039--22029080 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
22029029 TAACTCTTCA
22029039 ATATTACATCAAT
1 ATATTACATCAAT
22029052 ATATTA-AT--AT
1 ATATTACATCAAT
22029062 AATATTACATCAAT
1 -ATATTACATCAAT
22029076 ATATT
1 ATATT
22029081 CAAACATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 2 0.08
11 6 0.24
12 4 0.16
13 11 0.44
14 2 0.08
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTACATCAAT
Found at i:22032514 original size:40 final size:41
Alignment explanation
Indices: 22032373--22032572 Score: 249
Period size: 41 Copynumber: 4.9 Consensus size: 41
22032363 AGATTCATTA
*
22032373 GATGAAAAAGGGGTTGCTAAGTGCAAATTCCCCGAATCACT
1 GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
* *
22032414 GATGAAAAAGGAGTTGCTAAGTGCAGATTCCCAGAATCACT
1 GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
* * *
22032455 AATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCT
1 GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
* * * *
22032496 GAT-AAAAAGGGGTTGCTAAGTGCAGATTCTCTGAATTATT
1 GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
*** *
22032536 GATTCTAAAGGTGGTTGCTAAGTGCTGATTCCACCGA
1 GATGAAAAAGG-GGTTGCTAAGTGCAGATTCC-CCGA
22032573 GTAACGGTTA
Statistics
Matches: 136, Mismatches: 20, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 34 0.25
41 81 0.60
42 18 0.13
43 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (41 bp):
GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
Found at i:22034617 original size:40 final size:41
Alignment explanation
Indices: 22034482--22034681 Score: 233
Period size: 41 Copynumber: 4.9 Consensus size: 41
22034472 AGATTCATTA
*
22034482 GATGAAAAAGGGGTTGCTAAGTGCAAATTCCCCGAATCACT
1 GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
* *
22034523 GATGAAAAAGGAGTT-CTAAGTGCAGGATTCCCAGAATCACT
1 GATGAAAAAGGGGTTGCTAAGTGCA-GATTCCCCGAATCACT
* * *
22034564 AATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCT
1 GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
* * * *
22034605 GAT-AAAAAGGGGTTGCTAAGTGCAGATTCTCTGAATTATT
1 GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
*** *
22034645 GATTCTAAAGGTGGTTGCTAAGTGCTGATTCCACCGA
1 GATGAAAAAGG-GGTTGCTAAGTGCAGATTCC-CCGA
22034682 GTAACGGTTA
Statistics
Matches: 134, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
40 43 0.32
41 61 0.46
42 27 0.20
43 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (41 bp):
GATGAAAAAGGGGTTGCTAAGTGCAGATTCCCCGAATCACT
Found at i:22035702 original size:122 final size:122
Alignment explanation
Indices: 22035485--22035724 Score: 435
Period size: 122 Copynumber: 2.0 Consensus size: 122
22035475 AGGAAAATTA
22035485 TATATATATATATATGAATGATTTATGTATAATTGGTTATATGATCGATTATAATCGATAAACGT
1 TATATATATATATATGAATGATTTATGTATAATTGGTTATATGATCGATTATAATCGATAAACGT
*
22035550 GGAAATAGAAATGATGCTTACATTTGTATATTATTAATCATGGTTTAAGCTCACATT
66 GGAAATAGAAATGATGCTTACATTTATATATTATTAATCATGGTTTAAGCTCACATT
*
22035607 TATATATATATATATGAATGATTTGTGTATAATTGGTTATATGATCGATTATAATCGATAAACGT
1 TATATATATATATATGAATGATTTATGTATAATTGGTTATATGATCGATTATAATCGATAAACGT
* **
22035672 GGAAATAGAAATGATGCTTACATTTATATATTGTTGTTCATGGTTTAAGCTCA
66 GGAAATAGAAATGATGCTTACATTTATATATTATTAATCATGGTTTAAGCTCA
22035725 TATGGGAAAA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 113 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (122 bp):
TATATATATATATATGAATGATTTATGTATAATTGGTTATATGATCGATTATAATCGATAAACGT
GGAAATAGAAATGATGCTTACATTTATATATTATTAATCATGGTTTAAGCTCACATT
Found at i:22047181 original size:24 final size:22
Alignment explanation
Indices: 22047154--22047205 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
22047144 AGACACACCA
22047154 TAGCTCGAAAGACAGTCCCGTTAT
1 TAGCTCGAAAG--AGTCCCGTTAT
** *
22047178 TAGCTCTTATGAGTCCCGTTAT
1 TAGCTCGAAAGAGTCCCGTTAT
22047200 TAGCTC
1 TAGCTC
22047206 TTATGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.68
24 8 0.32
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (22 bp):
TAGCTCGAAAGAGTCCCGTTAT
Found at i:22047194 original size:22 final size:22
Alignment explanation
Indices: 22047167--22047211 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22047157 CTCGAAAGAC
22047167 AGTCCCGTTATTAGCTCTTATG
1 AGTCCCGTTATTAGCTCTTATG
22047189 AGTCCCGTTATTAGCTCTTATG
1 AGTCCCGTTATTAGCTCTTATG
22047211 A
1 A
22047212 ACTTTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (22 bp):
AGTCCCGTTATTAGCTCTTATG
Found at i:22048252 original size:31 final size:31
Alignment explanation
Indices: 22048209--22048268 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
22048199 TAAGACTTAG
*
22048209 TTTTTGGTTGGATTTAAGGGTTATGAATTAA
1 TTTTTGGCTGGATTTAAGGGTTATGAATTAA
22048240 TTTTTGGCTGGATTTAAGGGTTATGAATT
1 TTTTTGGCTGGATTTAAGGGTTATGAATT
22048269 GGCTTGTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (31 bp):
TTTTTGGCTGGATTTAAGGGTTATGAATTAA
Found at i:22050449 original size:58 final size:58
Alignment explanation
Indices: 22050379--22050495 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
22050369 TGGCTCATAA
22050379 AGATAAACATATATTATTTAATTGTCTTAAATATATTTGTAA-CTTAATTTTTTTTATC
1 AGATAAACATATATTATTTAATTGTCTTAAATATATTTGTAATCTT-ATTTTTTTTATC
22050437 AGATAAACATATATTATTTAATTGTCTTAAATATATTTGTAATCTTATTTTTTTTATC
1 AGATAAACATATATTATTTAATTGTCTTAAATATATTTGTAATCTTATTTTTTTTATC
22050495 A
1 A
22050496 TTTCATACGT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 55 0.95
59 3 0.05
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (58 bp):
AGATAAACATATATTATTTAATTGTCTTAAATATATTTGTAATCTTATTTTTTTTATC
Found at i:22050779 original size:6 final size:6
Alignment explanation
Indices: 22050768--22050797 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
22050758 CTTTTTGAAT
22050768 AACAAA AACAAA AACAAA AACAAA AA-AAA A
1 AACAAA AACAAA AACAAA AACAAA AACAAA A
22050798 CTTAATTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:22051672 original size:34 final size:34
Alignment explanation
Indices: 22051619--22051746 Score: 113
Period size: 34 Copynumber: 3.9 Consensus size: 34
22051609 GGTTTAAGAA
22051619 TTTTTAAAA--AA-TAAATTAGGGTTTAGAGTTT
1 TTTTTAAAATTAATTAAATTAGGGTTTAGAGTTT
* * *
22051650 TTTTTAAAATTAATTAAATTAGGTTTTAGCG--G
1 TTTTTAAAATTAATTAAATTAGGGTTTAGAGTTT
* * * *
22051682 TATTAAATTAATTAATTAAATTAAGGTTTAAAGTTT
1 TTTTTAA--AATTAATTAAATTAGGGTTTAGAGTTT
***
22051718 TTAAGAAAATTAATTAAATTAGGGTTTAG
1 TTTTTAAAATTAATTAAATTAGGGTTTAG
22051747 TTTTTAAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
31 9 0.12
32 5 0.07
33 2 0.03
34 55 0.74
36 3 0.04
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.45
Consensus pattern (34 bp):
TTTTTAAAATTAATTAAATTAGGGTTTAGAGTTT
Found at i:22051972 original size:10 final size:10
Alignment explanation
Indices: 22051957--22051982 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22051947 ATTTTATTAA
22051957 ATAAAACAAT
1 ATAAAACAAT
22051967 ATAAAACAAT
1 ATAAAACAAT
22051977 ATAAAA
1 ATAAAA
22051983 ATAGTTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (10 bp):
ATAAAACAAT
Found at i:22052889 original size:15 final size:15
Alignment explanation
Indices: 22052871--22052899 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22052861 GAAAATTGAC
22052871 AAGGAGACTATGGGA
1 AAGGAGACTATGGGA
22052886 AAGGAGACTATGGG
1 AAGGAGACTATGGG
22052900 GAGCTAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.41, T:0.14
Consensus pattern (15 bp):
AAGGAGACTATGGGA
Found at i:22054945 original size:18 final size:18
Alignment explanation
Indices: 22054919--22054958 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22054909 GACTGGGAAA
*
22054919 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
22054937 AGGACACATATAAGGGCT
1 AGGAAACATATAAGGGCT
22054955 AGGA
1 AGGA
22054959 TACGCACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.10, G:0.30, T:0.17
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:22059359 original size:34 final size:34
Alignment explanation
Indices: 22059313--22059383 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
22059303 AACATCAAAG
* *
22059313 AAATTAATGGGCAAACTTCACAAAAATAAGCCCA
1 AAATTAAAGGGCAAACTTCACAAAAAAAAGCCCA
22059347 AAATTAAAGGGCAAACTTCACAAAAAAAAGCCCA
1 AAATTAAAGGGCAAACTTCACAAAAAAAAGCCCA
22059381 AAA
1 AAA
22059384 AAAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.55, C:0.20, G:0.11, T:0.14
Consensus pattern (34 bp):
AAATTAAAGGGCAAACTTCACAAAAAAAAGCCCA
Found at i:22059384 original size:1 final size:1
Alignment explanation
Indices: 22059380--22059405 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
22059370 AAAAAAGCCC
22059380 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
22059406 GAATTACACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22062815 original size:26 final size:26
Alignment explanation
Indices: 22062764--22062816 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22062754 TACTTTATGC
*
22062764 TCATACAAAGTTAAACATTTCATTTG
1 TCATACAAAGTTAAACACTTCATTTG
* * *
22062790 TCATACAAAGTTGATCACTTCTTTTG
1 TCATACAAAGTTAAACACTTCATTTG
22062816 T
1 T
22062817 TTTTATCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (26 bp):
TCATACAAAGTTAAACACTTCATTTG
Found at i:22063766 original size:23 final size:23
Alignment explanation
Indices: 22063718--22063773 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
22063708 ATATAAATAT
* * *
22063718 TAAAATAATGTTAAGATATTATA
1 TAAAAAAATATTAAGATATTAAA
22063741 TAAAAAAATATTAA-ATATTAAAA
1 TAAAAAAATATTAAGATATT-AAA
22063764 TAAAATAAAT
1 TAAAA-AAAT
22063774 GTTTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.18
23 19 0.68
24 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
TAAAAAAATATTAAGATATTAAA
Found at i:22065039 original size:91 final size:94
Alignment explanation
Indices: 22064878--22065052 Score: 239
Period size: 91 Copynumber: 1.9 Consensus size: 94
22064868 CAATTCTTAA
* * ** * * *
22064878 TTTTTTTTAAAAAAAAGCAATTATGCTTCTGTTTTCTTTTTTACATTTAGTTAGCTACTTGAACT
1 TTTTTTTTAAAAAAAAGCAATTAAGCTCCTGTAATCTTTTTTACACTTAATTAGATACTTGAACT
*
22064943 TTCAAAATGCATCAAAAAGATCTTTAAAC
66 ATCAAAATGCATCAAAAAGATCTTTAAAC
* *
22064972 TTTTTTTTAAAAAAAA-CAATTAAGCTCCTG-AAT-TTTTTTGCACTTAATTGGATACTTGAACT
1 TTTTTTTTAAAAAAAAGCAATTAAGCTCCTGTAATCTTTTTTACACTTAATTAGATACTTGAACT
22065034 ATCAAAATGCATCAAAAAG
66 ATCAAAATGCATCAAAAAG
22065053 GCCATTTGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
91 42 0.59
92 1 0.01
93 12 0.17
94 16 0.23
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (94 bp):
TTTTTTTTAAAAAAAAGCAATTAAGCTCCTGTAATCTTTTTTACACTTAATTAGATACTTGAACT
ATCAAAATGCATCAAAAAGATCTTTAAAC
Found at i:22067796 original size:11 final size:11
Alignment explanation
Indices: 22067780--22067807 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22067770 GCATTCCCTT
22067780 CTAATTTTAAA
1 CTAATTTTAAA
22067791 CTAATTTTAAA
1 CTAATTTTAAA
22067802 CTAATT
1 CTAATT
22067808 ATCATTGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (11 bp):
CTAATTTTAAA
Found at i:22080269 original size:18 final size:17
Alignment explanation
Indices: 22080229--22080271 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
22080219 TGACAGAAAT
22080229 TAATTAAAAATATAAAA
1 TAATTAAAAATATAAAA
* * *
22080246 TTATTAAAAATTCTAATA
1 TAATTAAAAA-TATAAAA
22080264 TAATTAAA
1 TAATTAAA
22080272 GGGATTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATTAAAAATATAAAA
Found at i:22082136 original size:12 final size:11
Alignment explanation
Indices: 22082099--22082151 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
22082089 AATAAATTGT
22082099 ATTAAAAAATA
1 ATTAAAAAATA
*
22082110 GTTAAAAAAT-
1 ATTAAAAAATA
*
22082120 TTTAAAAAAATA
1 ATT-AAAAAATA
*
22082132 ATTAAAATATA
1 ATTAAAAAATA
22082143 ATCTAAAAA
1 AT-TAAAAA
22082152 TCTTAAAGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 2 0.06
11 25 0.74
12 7 0.21
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
ATTAAAAAATA
Found at i:22091369 original size:26 final size:27
Alignment explanation
Indices: 22091340--22091393 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
22091330 AAAAATAGTA
22091340 ACCATAAATTTCA-ATATTTTATATAT
1 ACCATAAATTTCAGATATTTTATATAT
*
22091366 ACCATAAATTTCAGTTATTTTATATAT
1 ACCATAAATTTCAGATATTTTATATAT
22091393 A
1 A
22091394 ATTCAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (27 bp):
ACCATAAATTTCAGATATTTTATATAT
Found at i:22091889 original size:21 final size:21
Alignment explanation
Indices: 22091865--22091915 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
22091855 CGAATCTTTA
*
22091865 AACCATGAACCCCAAACTCAT
1 AACCATGAACCCCAAACCCAT
*
22091886 AACC-CGTAACCCCAAACCCAT
1 AACCATG-AACCCCAAACCCAT
*
22091907 AACAATGAA
1 AACCATGAA
22091916 TCCTGAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.45, C:0.37, G:0.06, T:0.12
Consensus pattern (21 bp):
AACCATGAACCCCAAACCCAT
Found at i:22095496 original size:13 final size:13
Alignment explanation
Indices: 22095478--22095504 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22095468 TGGATAAGCC
22095478 TAGAATTCGCCGA
1 TAGAATTCGCCGA
22095491 TAGAATTCGCCGA
1 TAGAATTCGCCGA
22095504 T
1 T
22095505 TTGAACACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (13 bp):
TAGAATTCGCCGA
Found at i:22097555 original size:18 final size:18
Alignment explanation
Indices: 22097532--22097566 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22097522 GAATGTGCAT
22097532 CTGTGCACGAACACTTAA
1 CTGTGCACGAACACTTAA
22097550 CTGTGCACGAACACTTA
1 CTGTGCACGAACACTTA
22097567 CTTCGTTGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (18 bp):
CTGTGCACGAACACTTAA
Found at i:22105094 original size:5 final size:5
Alignment explanation
Indices: 22105084--22105116 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
22105074 TTAGTTTCTG
*
22105084 TGGGT TGGGT TGGGT TGGGT TGGGT TGAGT TGG
1 TGGGT TGGGT TGGGT TGGGT TGGGT TGGGT TGG
22105117 ATTGAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.58, T:0.39
Consensus pattern (5 bp):
TGGGT
Found at i:22105121 original size:10 final size:10
Alignment explanation
Indices: 22105084--22105124 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
22105074 TTAGTTTCTG
*
22105084 TGGGTTGGGT
1 TGGGTTGAGT
*
22105094 TGGGTTGGGT
1 TGGGTTGAGT
22105104 TGGGTTGAGT
1 TGGGTTGAGT
*
22105114 TGGATTGAGT
1 TGGGTTGAGT
22105124 T
1 T
22105125 TAAATTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.07, C:0.00, G:0.51, T:0.41
Consensus pattern (10 bp):
TGGGTTGAGT
Found at i:22105351 original size:18 final size:18
Alignment explanation
Indices: 22105317--22105366 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
22105307 ATTTATTTTT
*
22105317 AAAAAAATATAATACATC
1 AAAAAAATATAAAACATC
*
22105335 AAAAATAATA-AAAACATT
1 AAAAA-AATATAAAACATC
22105353 AAAATAAAT-TAAAA
1 AAAA-AAATATAAAA
22105367 AATATGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAAATATAAAACATC
Found at i:22106677 original size:2 final size:2
Alignment explanation
Indices: 22106628--22106658 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22106618 ATAAGGTTTT
22106628 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22106659 GATACCAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22107959 original size:2 final size:2
Alignment explanation
Indices: 22107915--22107940 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22107905 TAAGGTTTTA
22107915 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22107941 GATACCAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22117161 original size:21 final size:22
Alignment explanation
Indices: 22117135--22117186 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
22117125 AAATAATATA
22117135 TTTTTAATTATTTTAATT-AAT
1 TTTTTAATTATTTTAATTGAAT
*
22117156 TTTTTAATT-TTTTATTTGAAT
1 TTTTTAATTATTTTAATTGAAT
*
22117177 TATTT-ATTAT
1 TTTTTAATTAT
22117187 AATTGAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTAATTATTTTAATTGAAT
Found at i:22120727 original size:24 final size:24
Alignment explanation
Indices: 22120695--22120742 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22120685 AAGCAGGCTC
22120695 CTTAGTTAACAGCAAGTAAGTGAT
1 CTTAGTTAACAGCAAGTAAGTGAT
22120719 CTTAGTTAACAGCAAGTAAGTGAT
1 CTTAGTTAACAGCAAGTAAGTGAT
22120743 GGCACCTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (24 bp):
CTTAGTTAACAGCAAGTAAGTGAT
Found at i:22135818 original size:9 final size:10
Alignment explanation
Indices: 22135802--22135826 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22135792 TAAGAGAATG
22135802 GAAAAAAAAA
1 GAAAAAAAAA
22135812 GAAAAAAAAA
1 GAAAAAAAAA
22135822 GAAAA
1 GAAAA
22135827 GTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:22135821 original size:15 final size:15
Alignment explanation
Indices: 22135803--22135850 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
22135793 AAGAGAATGG
22135803 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
* *
22135818 AAAAGAAAAGTTAAAA
1 AAAAAAAAAG-AAAAA
* *
22135834 AATATAAAAGAAAAA
1 AAAAAAAAAGAAAAA
22135849 AA
1 AA
22135851 TTAAATTGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:22135851 original size:15 final size:15
Alignment explanation
Indices: 22135808--22135855 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
22135798 AATGGAAAAA
* *
22135808 AAAAGAAAAAAAAAG
1 AAAAGAAAAAAATAT
*
22135823 AAAAGTTAAAAAATAT
1 AAAAG-AAAAAAATAT
22135839 AAAAGAAAAAAAT-T
1 AAAAGAAAAAAATAT
22135853 AAA
1 AAA
22135856 TTGCTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 12 0.43
16 12 0.43
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.12
Consensus pattern (15 bp):
AAAAGAAAAAAATAT
Found at i:22141759 original size:28 final size:28
Alignment explanation
Indices: 22141689--22141759 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
22141679 TTAAATGAAA
* *
22141689 AAAAAAAAAGAGTAAATGACTATTACTTC
1 AAAATAAAAGA-TTAATGACTATTACTTC
*
22141718 AAAATAAAAGATTAATGACTATTATTTC
1 AAAATAAAAGATTAATGACTATTACTTC
*
22141746 AAAATAAAATATTA
1 AAAATAAAAGATTA
22141760 TCAATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
28 28 0.74
29 10 0.26
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (28 bp):
AAAATAAAAGATTAATGACTATTACTTC
Found at i:22146714 original size:18 final size:20
Alignment explanation
Indices: 22146693--22146733 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22146683 TAAAAAAATC
22146693 AAAATT-AAATAAAATT-TT
1 AAAATTAAAATAAAATTATT
22146711 AAAATTAAAAATAAAATTATT
1 AAAATT-AAAATAAAATTATT
22146732 AA
1 AA
22146734 TGTGACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
20 10 0.50
21 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTAAAATAAAATTATT
Found at i:22149024 original size:20 final size:19
Alignment explanation
Indices: 22148992--22149043 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
22148982 TTTTAGAAAA
*
22148992 TTTTAAAATTTTTA-ATTT
1 TTTTATAATTTTTAGATTT
22149010 TTTATATATATTTTTAGATTT
1 TTT-TATA-ATTTTTAGATTT
22149031 TTTTATAATTTTT
1 TTTTATAATTTTT
22149044 TTAAAACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 9 0.30
20 11 0.37
21 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTATAATTTTTAGATTT
Found at i:22149995 original size:141 final size:142
Alignment explanation
Indices: 22149792--22150060 Score: 348
Period size: 141 Copynumber: 1.9 Consensus size: 142
22149782 CCTCCATTCG
* * * *
22149792 TATCGATAATATATAAATAACTTCAAGCTATGAGCTCTTTCTCGTGAATTTCTTTAAAGGAAGAA
1 TATCAATAATATATAAATAACTTCAAACTATGAGCTCTCTCTCATGAATTTCTTTAAAGGAAGAA
* * * * *
22149857 ACTCGAAA-AGTTTATGAAAATA-CTGAGCATGGGATTGTTCTCTAGTTAAAATGGGATTAAAAA
66 ACTCGAAAGAGCTTATGAAAATAGC-GAGCATGCGAGTGTTCTCTAGCTAAAATGAGATTAAAAA
22149920 TCATCATCGTTCA
130 TCATCATCGTTCA
* * *
22149933 TATCAATAATATATAAATAACTTTAAACTA-GAAGTTCTCTCTCAT-AAGTTTCTTTAGAGGAAG
1 TATCAATAATATATAAATAACTTCAAACTATG-AGCTCTCTCTCATGAA-TTTCTTTAAAGGAAG
* * *
22149996 AAACTCTAAAGAGCTTATGAAAATAGCGAGTATGCGAGTGTTCTCTAGCTAATATGAGATTAAAA
64 AAACTCGAAAGAGCTTATGAAAATAGCGAGCATGCGAGTGTTCTCTAGCTAAAATGAGATTAAAA
22150061 TTATTTTTTA
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
140 3 0.03
141 60 0.55
142 45 0.41
143 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (142 bp):
TATCAATAATATATAAATAACTTCAAACTATGAGCTCTCTCTCATGAATTTCTTTAAAGGAAGAA
ACTCGAAAGAGCTTATGAAAATAGCGAGCATGCGAGTGTTCTCTAGCTAAAATGAGATTAAAAAT
CATCATCGTTCA
Found at i:22150386 original size:74 final size:74
Alignment explanation
Indices: 22150307--22150469 Score: 205
Period size: 69 Copynumber: 2.3 Consensus size: 74
22150297 ATCAATGTGG
* * *
22150307 GATTAAAATTAACTTTTTAATTTAATGAAAATAGTGAAGATTTTAGCTATATGAGT-ATTCTCTA
1 GATTAAAATTAACTTTTTAATTTAATGAAAATAGTGAAGATGTGAGCTATAAGAGTAATT-TCTA
22150371 GTCAACATG-
65 GTCAACATGA
*
22150380 GAATTAAAATTAA---TTT--TTTAATGAAAATAGTGAAGATGTGAGCTATAAGAGTAATTTTTA
1 G-ATTAAAATTAACTTTTTAATTTAATGAAAATAGTGAAGATGTGAGCTATAAGAGTAATTTCTA
* *
22150440 GTTAACGTGA
65 GTCAACATGA
22150450 GATTAAAATTAACTTTTTAA
1 GATTAAAATTAACTTTTTAA
22150470 CAAAAATAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 15
0.78 0.06 0.15
Matches are distributed among these distances:
69 54 0.71
70 4 0.05
71 3 0.04
72 3 0.04
73 1 0.01
74 11 0.14
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (74 bp):
GATTAAAATTAACTTTTTAATTTAATGAAAATAGTGAAGATGTGAGCTATAAGAGTAATTTCTAG
TCAACATGA
Found at i:22150549 original size:237 final size:238
Alignment explanation
Indices: 22150088--22150563 Score: 564
Period size: 237 Copynumber: 2.0 Consensus size: 238
22150078 AAAATTAGCT
* * * ** * *
22150088 TTTAATTAAAATAGTGAAGAATTAAGCTATACGAGTGTTCTCTAGTTAATTTGGGATTCTAAATA
1 TTTAATGAAAATAGTGAAGAATTAAGCTATACGAGTATTCTCTAGTCAACATGGAATTCAAAATA
* * * ** *
22150153 ACTTTTTTTAATGAAACTAGTAAAAAAAGTGAGTTATGAGAGTATTTTCTAGTCAATTTGGGATT
66 AC-TTTTTTAATGAAAATAGTAAAAAAAGTGAGCTATAAGAGTATTTTCTAGTCAACGTGAGATT
* * *
22150218 AGAATTAAAATCTAATAAAAATAGTGAAGAAATTGTCACTTATTTATAAGGTAAGTGTGAGATAT
130 AAAATTAAAATCTAACAAAAATAGTGAAGAAATTATCACTTATTTATAAGGTAAGTGTGAGATAT
* * *
22150283 GGGAGTGCTCTCTAATCAATGTGGGATTAAAATTAACTTTTTAA
195 GAGAGTACTCTCTAATCAATGTGGGATTAAAATGAACTTTTTAA
* * *
22150327 TTTAATGAAAATAGTGAAGATTTTAGCTATATGAGTATTCTCTAGTCAACATGGAATT-AAAATT
1 TTTAATGAAAATAGTGAAGAATTAAGCTATACGAGTATTCTCTAGTCAACATGGAATTCAAAA-T
* * * *
22150391 AA-TTTTTTAATGAAAATAGT-GAAGATGTGAGCTATAAGAGTAATTTT-TAGTTAACGTGAGAT
65 AACTTTTTTAATGAAAATAGTAAAAAAAGTGAGCTATAAGAGT-ATTTTCTAGTCAACGTGAGAT
** * * *
22150453 TAAAATTAACTTTTTAACAAAAATAGTGAAGAAATTATCACTTATTTATAAGGTAATTGTGATAT
129 TAAAATTAA-AATCTAACAAAAATAGTGAAGAAATTATCACTTATTTATAAGGTAAGTGTGAGAT
* * ** *
22150518 ATGAGAGTATTCTCTGATTGATGTTGGATTAAAATGAACTTTTTAA
193 ATGAGAGTACTCTCTAATCAATGTGGGATTAAAATGAACTTTTTAA
22150564 AGAAAATAGT
Statistics
Matches: 198, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
236 35 0.18
237 108 0.55
238 3 0.02
239 52 0.26
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.38
Consensus pattern (238 bp):
TTTAATGAAAATAGTGAAGAATTAAGCTATACGAGTATTCTCTAGTCAACATGGAATTCAAAATA
ACTTTTTTAATGAAAATAGTAAAAAAAGTGAGCTATAAGAGTATTTTCTAGTCAACGTGAGATTA
AAATTAAAATCTAACAAAAATAGTGAAGAAATTATCACTTATTTATAAGGTAAGTGTGAGATATG
AGAGTACTCTCTAATCAATGTGGGATTAAAATGAACTTTTTAA
Found at i:22151072 original size:39 final size:38
Alignment explanation
Indices: 22151038--22151117 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 38
22151028 AAAAAATTAA
* *
22151038 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATT
1 AAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAA-T
22151077 AAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAAT
1 AAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAAT
22151115 AAA
1 AAA
22151118 TATATTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 4 0.10
39 35 0.90
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (38 bp):
AAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAAT
Found at i:22152111 original size:23 final size:23
Alignment explanation
Indices: 22152084--22152129 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22152074 TATTGCTGGT
*
22152084 TTTGAGCATCGTTTTATGATAAA
1 TTTGAGCATCGCTTTATGATAAA
* *
22152107 TTTGAGCTTTGCTTTATGATAAA
1 TTTGAGCATCGCTTTATGATAAA
22152130 AGTTGCAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (23 bp):
TTTGAGCATCGCTTTATGATAAA
Found at i:22154977 original size:13 final size:13
Alignment explanation
Indices: 22154929--22154977 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
22154919 ATTAAAATTA
22154929 AAAAACC-TAAA-
1 AAAAACCTTAAAC
*
22154940 AAAAACCTAAAAC
1 AAAAACCTTAAAC
*
22154953 AAAAACCCTAAAC
1 AAAAACCTTAAAC
*
22154966 AAAAATCTTAAA
1 AAAAACCTTAAA
22154978 AACCCTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 7 0.23
12 3 0.10
13 21 0.68
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAACCTTAAAC
Found at i:22157113 original size:30 final size:32
Alignment explanation
Indices: 22157045--22157126 Score: 123
Period size: 33 Copynumber: 2.6 Consensus size: 32
22157035 ATATCCCATT
22157045 AAAGAATAGATACTAAATTTCTTTAAAAAAAGA
1 AAAGAATAGATACTAAATTTC-TTAAAAAAAGA
*
22157078 AAAGAATAGATACTAAATTTC-TCAAAAAA-A
1 AAAGAATAGATACTAAATTTCTTAAAAAAAGA
*
22157108 CAAGAATAGATACTAAATT
1 AAAGAATAGATACTAAATT
22157127 CTAAATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 19 0.40
31 7 0.15
33 21 0.45
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.26
Consensus pattern (32 bp):
AAAGAATAGATACTAAATTTCTTAAAAAAAGA
Found at i:22157532 original size:14 final size:14
Alignment explanation
Indices: 22157513--22157543 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22157503 ATACAAACAA
22157513 TAACAACATAATAG
1 TAACAACATAATAG
22157527 TAACAACATAATAG
1 TAACAACATAATAG
22157541 TAA
1 TAA
22157544 AATGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (14 bp):
TAACAACATAATAG
Done.