Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold85
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: 1711616
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 47147 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:355679 original size:42 final size:40
Alignment explanation
Indices: 355631--355862 Score: 157
Period size: 41 Copynumber: 5.6 Consensus size: 40
355621 GCTAAAAATA
* * *
355631 GAGCATTCGCGGAGCTTTATCAAAATCATCACTAAAAGCCCT
1 GAGCATTAGCGGAGCTTTCTCAAAAT-ACCACT-AAAGCCCT
* *
355673 GAGCATTAGCGGCGCTTTCTCAAAAATACCGCTAAAGCCCT
1 GAGCATTAGCGGAGCTTTCTC-AAAATACCACTAAAGCCCT
* * **
355714 GAGCATTAGCGGTGCTTTCTCAAAA-ACGCCGCTAAATTCCT
1 GAGCATTAGCGGAGCTTTCTCAAAATA--CCACTAAAGCCCT
* * * *
355755 GAGCATTAGCGGCGCTTTCCCAACAA-ACGCCGCTAAATCCCT
1 GAGCATTAGCGGAGCTTTCTCAA-AATA--CCACTAAAGCCCT
* * * * *
355797 GAGCATTCGCTGCGCTTTCTCAAAA-ACGCCGCTAAATCCCT
1 GAGCATTAGCGGAGCTTTCTCAAAATA--CCACTAAAGCCCT
* *
355838 TAGCATTAGC-GACGCTTTCTTAAAA
1 GAGCATTAGCGGA-GCTTTCTCAAAA
355863 ATGACGTTAA
Statistics
Matches: 167, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 97 0.58
42 59 0.35
43 5 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (40 bp):
GAGCATTAGCGGAGCTTTCTCAAAATACCACTAAAGCCCT
Found at i:355721 original size:41 final size:41
Alignment explanation
Indices: 355669--355863 Score: 282
Period size: 41 Copynumber: 4.7 Consensus size: 41
355659 TCACTAAAAG
** *
355669 CCCTGAGCATTAGCGGCGCTTTCTCAAAAATACCGCTAAAG
1 CCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAT
*
355710 CCCTGAGCATTAGCGGTGCTTTCTCAAAAACGCCGCTAAAT
1 CCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAT
* *
355751 TCCTGAGCATTAGCGGCGCTTTCCCAACAAACGCCGCTAAAT
1 CCCTGAGCATTAGCGGCGCTTTCTCAA-AAACGCCGCTAAAT
* *
355793 CCCTGAGCATTCGCTGCGCTTTCTCAAAAACGCCGCTAAAT
1 CCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAT
* * *
355834 CCCTTAGCATTAGCGACGCTTTCTTAAAAA
1 CCCTGAGCATTAGCGGCGCTTTCTCAAAAA
355864 TGACGTTAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
41 100 0.73
42 37 0.27
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (41 bp):
CCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAT
Found at i:355790 original size:83 final size:82
Alignment explanation
Indices: 355669--355856 Score: 277
Period size: 83 Copynumber: 2.3 Consensus size: 82
355659 TCACTAAAAG
* * *
355669 CCCTGAGCATTAGCGGCGCTTTCTCAAAAATACCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCT
1 CCCTGAGCATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
355734 CAAAAACGCCGCTAAAT
66 CAAAAACGCCGCTAAAT
* * * * *
355751 TCCTGAGCATTAGCGGCGCTTTCCCAACAAACGCCGCTAAATCCCTGAGCATTCGCTGCGCTTTC
1 CCCTGAGCATTAGCGGCGCTTTCCCAA-AAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
355816 TCAAAAACGCCGCTAAAT
65 TCAAAAACGCCGCTAAAT
* *
355834 CCCTTAGCATTAGCGACGCTTTC
1 CCCTGAGCATTAGCGGCGCTTTC
355857 TTAAAAATGA
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 25 0.27
83 69 0.73
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (82 bp):
CCCTGAGCATTAGCGGCGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
CAAAAACGCCGCTAAAT
Found at i:356015 original size:39 final size:40
Alignment explanation
Indices: 355943--356056 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
355933 CGCTTTTTGG
* * *
355943 AAAGCGCCGCTAATGCT-TATTTTTAGCTGCGTTTTCC-A
1 AAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTCCAA
*
355981 AAAGTGCCGCTAATGCTCAATCTTTAGCGGCGTTTTCCAA
1 AAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTCCAA
* *
356021 AAAGCACCGCTAATGCTCGATCTTTAGCGGCGTTTT
1 AAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTT
356057 TTATCCAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 16 0.24
39 17 0.25
40 34 0.51
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCAATCTTTAGCGGCGTTTTCCAA
Found at i:358181 original size:13 final size:13
Alignment explanation
Indices: 358163--358187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
358153 AGTCAAAAAA
358163 TTGAATTTGAAAC
1 TTGAATTTGAAAC
358176 TTGAATTTGAAA
1 TTGAATTTGAAA
358188 ATTGGACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGAATTTGAAAC
Found at i:358564 original size:8 final size:8
Alignment explanation
Indices: 358551--358578 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
358541 AAAATAATAT
358551 TATTTTAA
1 TATTTTAA
358559 TATTTTAA
1 TATTTTAA
358567 TATTTTAA
1 TATTTTAA
358575 TATT
1 TATT
358579 AAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTTAA
Found at i:365296 original size:15 final size:15
Alignment explanation
Indices: 365276--365305 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
365266 ATCCTAGACA
365276 TGCACTTCTCATTAC
1 TGCACTTCTCATTAC
365291 TGCACTTCTCATTAC
1 TGCACTTCTCATTAC
365306 CACACTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
TGCACTTCTCATTAC
Found at i:365311 original size:15 final size:15
Alignment explanation
Indices: 365278--365312 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
365268 CCTAGACATG
**
365278 CACTTCTCATTACTG
1 CACTTCTCATTACCA
365293 CACTTCTCATTACCA
1 CACTTCTCATTACCA
365308 CACTT
1 CACTT
365313 TTTACGGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.37, G:0.03, T:0.37
Consensus pattern (15 bp):
CACTTCTCATTACCA
Found at i:388232 original size:17 final size:17
Alignment explanation
Indices: 388192--388226 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
388182 ATGACTTATT
*
388192 TTATATTAATTTGAATA
1 TTATATTATTTTGAATA
388209 TTATATTATTTTGAATA
1 TTATATTATTTTGAATA
388226 T
1 T
388227 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
TTATATTATTTTGAATA
Found at i:394212 original size:12 final size:13
Alignment explanation
Indices: 394182--394213 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
394172 TTATTTCAAA
394182 AATATTTAATATT
1 AATATTTAATATT
394195 AA-ATTTAATA-T
1 AATATTTAATATT
394206 AATATTTA
1 AATATTTA
394214 GCTTGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTTAATATT
Found at i:396131 original size:18 final size:18
Alignment explanation
Indices: 396104--396139 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
396094 AATAGTATAG
* *
396104 CAATTCGGTATTGTTTTA
1 CAATTAGGTATCGTTTTA
396122 CAATTAGGTATCGTTTTA
1 CAATTAGGTATCGTTTTA
396140 GTATCGATAC
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:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (18 bp):
CAATTAGGTATCGTTTTA
Found at i:398426 original size:16 final size:16
Alignment explanation
Indices: 398405--398439 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
398395 AGTCCTTGTA
398405 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
398421 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
398437 ATT
1 ATT
398440 AAAATTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:404194 original size:17 final size:18
Alignment explanation
Indices: 404172--404205 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
404162 TTTTTCTTTT
404172 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
404189 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
404206 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:404202 original size:6 final size:6
Alignment explanation
Indices: 404193--404288 Score: 50
Period size: 6 Copynumber: 15.5 Consensus size: 6
404183 TCAATCTCAA
* * ** **
404193 TTTCTT TTTCAAT TTTC-T TTTCTT CACTTTCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTCTT TTTCTT ---TTTCTT TTTCTT TTTCTT TTTCTT
* ** * *
404244 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTGCGT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
404289 TGATTTCATT
Statistics
Matches: 64, Mismatches: 21, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
5 5 0.08
6 48 0.75
7 5 0.08
9 6 0.09
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.69
Consensus pattern (6 bp):
TTTCTT
Found at i:404223 original size:27 final size:28
Alignment explanation
Indices: 404164--404229 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
404154 TCAACATCTT
404164 TTTCTTTTTCAATTTTTTCTCAATCTCAA
1 TTTCTTTTTCAATTTTTTCTC-ATCTCAA
* *
404193 TTTCTTTTTCAATTTTCTTTTC-T-TCAC
1 TTTCTTTTTCAATTTT-TTCTCATCTCAA
404220 TTTCTTTTTC
1 TTTCTTTTTC
404230 TCTCACTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 13 0.38
28 1 0.03
29 16 0.47
30 4 0.12
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTCTTTTTCAATTTTTTCTCATCTCAA
Found at i:404225 original size:14 final size:16
Alignment explanation
Indices: 404206--404238 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
404196 CTTTTTCAAT
404206 TTTC-TTTTCT-TCAC
1 TTTCTTTTTCTCTCAC
404220 TTTCTTTTTCTCTCAC
1 TTTCTTTTTCTCTCAC
404236 TTT
1 TTT
404239 TTCGATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCTTTTTCTCTCAC
Found at i:404256 original size:18 final size:18
Alignment explanation
Indices: 404235--404288 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
404225 TTTTCTCTCA
*
404235 CTTTTTCGATTTCTTTTT
1 CTTTTGCGATTTCTTTTT
*
404253 CTTTTGCAATTTCTTTTT
1 CTTTTGCGATTTCTTTTT
*
404271 CTTTTGCGTTTTCTTTTT
1 CTTTTGCGATTTCTTTTT
404289 TGATTTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.06, C:0.17, G:0.07, T:0.70
Consensus pattern (18 bp):
CTTTTGCGATTTCTTTTT
Found at i:407398 original size:28 final size:27
Alignment explanation
Indices: 407353--407419 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
407343 TTTTGTGATA
* * *
407353 AATGTGTTTTATTCTATTACATGTTATT
1 AATGTGTCTAATTCTATTACATGCT-TT
*
407381 AATGTGTCTAATTTTATTACATGCTTT
1 AATGTGTCTAATTCTATTACATGCTTT
407408 AATGATGTCTAA
1 AATG-TGTCTAA
407420 GTCATAGCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (27 bp):
AATGTGTCTAATTCTATTACATGCTTT
Found at i:409252 original size:28 final size:28
Alignment explanation
Indices: 409211--409407 Score: 304
Period size: 28 Copynumber: 7.0 Consensus size: 28
409201 TTCAGTAACA
* * *
409211 AACAGTGTGGGCCTTAGCCCAATATAGC
1 AACAATGTGGGCCTTAGCCCAATACAGT
* *
409239 AACAATATAGGCCTTAGCCCAATACAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
*
409267 AACAATGTGGGCCTTAGCCCAATACAAT
1 AACAATGTGGGCCTTAGCCCAATACAGT
*
409295 AACAATGTGGGCCTTAGCCCAATATAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
*
409323 AACAATGTGGGCCTTAGCCCAATACAAT
1 AACAATGTGGGCCTTAGCCCAATACAGT
* *
409351 AACAATGTGCGCTTTAGCCCAATACAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
409379 AACAATGTGGGCCTTAGCCCAATACAGT
1 AACAATGTGGGCCTTAGCCCAATACAGT
409407 A
1 A
409408 TCGGTACAGT
Statistics
Matches: 152, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 152 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (28 bp):
AACAATGTGGGCCTTAGCCCAATACAGT
Found at i:409924 original size:27 final size:27
Alignment explanation
Indices: 409770--409935 Score: 215
Period size: 27 Copynumber: 6.1 Consensus size: 27
409760 TATAACTGTT
* *
409770 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTAATTCGGTC
*
409797 ATTTTACCCTATGGGGGTAATTCAGTC
1 ATTTTACCCTATGGGGGTAATTCGGTC
* * *
409824 ATTTTACCTTGTGGGGGTAATTCGATC
1 ATTTTACCCTATGGGGGTAATTCGGTC
* * *
409851 ATTTTACCTTATGGGGGTAATTCAGTT
1 ATTTTACCCTATGGGGGTAATTCGGTC
*
409878 ATTTTACCCTGTGGGGGTAATTCGGTC
1 ATTTTACCCTATGGGGGTAATTCGGTC
* * *
409905 ATTTTACCCTGTGAGGGTAATTTGGTC
1 ATTTTACCCTATGGGGGTAATTCGGTC
409932 ATTT
1 ATTT
409936 ATTGACCTCT
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTAATTCGGTC
Found at i:413119 original size:14 final size:14
Alignment explanation
Indices: 413100--413127 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
413090 TTTTTAATAT
413100 GATTGATATGTTGA
1 GATTGATATGTTGA
413114 GATTGATATGTTGA
1 GATTGATATGTTGA
413128 TATGTATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GATTGATATGTTGA
Found at i:420716 original size:422 final size:422
Alignment explanation
Indices: 419918--420765 Score: 1491
Period size: 422 Copynumber: 2.0 Consensus size: 422
419908 ACATGTCATT
*
419918 ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTTATAGACAGAGA
1 ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTAATAGACAGAGA
*
419983 TGTTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTCGAATATCTGATTAAAATGCT
66 TGGTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTCGAATATCTGATTAAAATGCT
*
420048 GCTAATGATGAGCTAAATTTCATAAAGGTTAGATTAGAGGTTCATAATCTTATATTAATAATGAA
131 GCTAATGATGAGCTAAATTTCATAAAGGTTAGAGTAGAGGTTCATAATCTTATATTAATAATGAA
420113 TGTTATGTTTGATGTGTTAACATGAGAATTAAATTTTGTGGCATTACAATCTCCACCCCCTCGTT
196 TGTTATGTTTGATGTGTTAACATGAGAATTAAATTTTGTGGCATTACAATCTCCACCCCCTCGTT
* *
420178 CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTGAAGAGTTTAG
261 CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTAAAGAGTTGAG
* *
420243 CGGATGAATGAGTAATAATGTGGCCATAGTTGAGATATAGTTAGAAAATAAACAGATTTCTGAGT
326 CAGATGAATGAGTAATAATGTGGCCATAGTCGAGATATAGTTAGAAAATAAACAGATTTCTGAGT
* *
420308 TAGATATTAGATCTTTCTGAAGATTATCTAAG
391 TAGATATTAGATCTTTCTAAAAATTATCTAAG
420340 ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTAATAGACAGAGA
1 ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTAATAGACAGAGA
* *
420405 TGGTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTTGAATATCTGATTAAAATGTT
66 TGGTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTCGAATATCTGATTAAAATGCT
* * *
420470 GCTAATGATGAGCTAAATTTCATAAAGGTTAGAGTAGAGTTTCATAATGTTATGTTAATAATGAA
131 GCTAATGATGAGCTAAATTTCATAAAGGTTAGAGTAGAGGTTCATAATCTTATATTAATAATGAA
* *
420535 TGTTATGTTTGATGTGTTCACATGAGAATTAAATTTTGTGGCATTACGATCTCCACCCCCTCGTT
196 TGTTATGTTTGATGTGTTAACATGAGAATTAAATTTTGTGGCATTACAATCTCCACCCCCTCGTT
420600 CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTAAAGAGTTGAG
261 CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTAAAGAGTTGAG
* * * *
420665 TAGATGAATGAGTAATAATGTGGTCATAGTCGAGAGT-TGGTTAGCAAATAAACAGATTTCTGAG
326 CAGATGAATGAGTAATAATGTGGCCATAGTCGAGA-TATAGTTAGAAAATAAACAGATTTCTGAG
*
420729 TTAGATATTAGATCTTTCTAAAAATTATCTGAG
390 TTAGATATTAGATCTTTCTAAAAATTATCTAAG
420762 ATAT
1 ATAT
420766 GCAATGTCAA
Statistics
Matches: 404, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
422 403 1.00
423 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (422 bp):
ATATAACCTGTGATAGCGTGATGCCTCTTGACTCTGATGGGATTTGTTTCACTAATAGACAGAGA
TGGTTTCCAACTGAGTTAATTCCGATAATGTTGAAAGCAATACTCGAATATCTGATTAAAATGCT
GCTAATGATGAGCTAAATTTCATAAAGGTTAGAGTAGAGGTTCATAATCTTATATTAATAATGAA
TGTTATGTTTGATGTGTTAACATGAGAATTAAATTTTGTGGCATTACAATCTCCACCCCCTCGTT
CTCAAAATTTTATATAACAGAATTCTATTGTGAAAAGTCCACAAGTGTTAAGCTAAAGAGTTGAG
CAGATGAATGAGTAATAATGTGGCCATAGTCGAGATATAGTTAGAAAATAAACAGATTTCTGAGT
TAGATATTAGATCTTTCTAAAAATTATCTAAG
Found at i:423539 original size:6 final size:6
Alignment explanation
Indices: 423525--423576 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
423515 ATCAAAAAGC
*
423525 ATAAAA ATAACA ATAAAA ATAAAA AT-AAA AT-AAA ATAAAA A-ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA-AAA
423571 ATAAAA
1 ATAAAA
423577 TGAATAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 11 0.27
6 29 0.71
7 1 0.02
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:423548 original size:17 final size:16
Alignment explanation
Indices: 423525--423577 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 16
423515 ATCAAAAAGC
423525 ATAAAAATAACAATAAAA
1 ATAAAAATAA-AAT-AAA
423543 ATAAAAATAAAATAAA
1 ATAAAAATAAAATAAA
423559 ATAAAAAATAAAATAAA
1 AT-AAAAATAAAATAAA
423576 AT
1 AT
423578 GAATAGATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
16 5 0.15
17 19 0.56
18 10 0.29
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAAATAAAATAAA
Found at i:423554 original size:5 final size:5
Alignment explanation
Indices: 423528--423577 Score: 55
Period size: 5 Copynumber: 9.0 Consensus size: 5
423518 AAAAAGCATA
423528 AAAAT AACAAT AAAAAT AAAAAT AAAAT AAAAT AAAAAAT AAAAT AAAAT
1 AAAAT AA-AAT -AAAAT -AAAAT AAAAT AAAAT --AAAAT AAAAT AAAAT
423578 GAATAGATTC
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 22 0.54
6 12 0.29
7 7 0.17
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:425303 original size:21 final size:21
Alignment explanation
Indices: 425279--425321 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
425269 ATAAGTAACA
425279 AATAAAAATAAT-AAGAATAAG
1 AATAAAAATAATAAAGAA-AAG
**
425300 AATAATGATAATAAAGAAAAG
1 AATAAAAATAATAAAGAAAAG
425321 A
1 A
425322 GAGGGGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.19
Consensus pattern (21 bp):
AATAAAAATAATAAAGAAAAG
Found at i:429043 original size:19 final size:19
Alignment explanation
Indices: 429011--429049 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
429001 AGAATATTTT
429011 AGAGAATGATGGATGAGTG
1 AGAGAATGATGGATGAGTG
429030 AGAG-ATGATGGGATGAGTG
1 AGAGAATGAT-GGATGAGTG
429049 A
1 A
429050 TGATTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.21
Consensus pattern (19 bp):
AGAGAATGATGGATGAGTG
Found at i:432637 original size:26 final size:27
Alignment explanation
Indices: 432554--432667 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 27
432544 AATGGGCCAC
* * *
432554 AAATGACCGAATTACCCCCAAATGATA
1 AAATGACCGAATTACCCGCAAAGGGTA
* ***
432581 AAATGACTGAATTACCCTTGAAGGGTA
1 AAATGACCGAATTACCCGCAAAGGGTA
*
432608 AAATAACCGAATTACCC-CAAAGGGTA
1 AAATGACCGAATTACCCGCAAAGGGTA
* * *
432634 AAATGACCCAATTACCCGTATAGGGTA
1 AAATGACCGAATTACCCGCAAAGGGTA
432661 AAATGAC
1 AAATGAC
432668 TATTATACCC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.31
27 50 0.69
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACCGAATTACCCGCAAAGGGTA
Found at i:432640 original size:53 final size:54
Alignment explanation
Indices: 432554--432664 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 54
432544 AATGGGCCAC
* * ** *
432554 AAATGACCGAATTACCCCCAAATGATAAAATGACTGAATTACCCTTGA-AGGGTA
1 AAATAACCGAATTACCCCCAAAGGATAAAATGACCCAATTACCCGT-ATAGGGTA
*
432608 AAATAACCGAATTA-CCCCAAAGGGTAAAATGACCCAATTACCCGTATAGGGTA
1 AAATAACCGAATTACCCCCAAAGGATAAAATGACCCAATTACCCGTATAGGGTA
432661 AAAT
1 AAAT
432665 GACTATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.02
53 36 0.72
54 13 0.26
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (54 bp):
AAATAACCGAATTACCCCCAAAGGATAAAATGACCCAATTACCCGTATAGGGTA
Found at i:432885 original size:40 final size:40
Alignment explanation
Indices: 432827--432904 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
432817 TACTATACTA
* *
432827 GTGGCTTTGCCACTTATACTGTTACTGGCAGCTTTACTGT
1 GTGGCCTTGCCACATATACTGTTACTGGCAGCTTTACTGT
432867 GTGGCCTTGCCACATATACTGTTACTGGCAGCTTTACT
1 GTGGCCTTGCCACATATACTGTTACTGGCAGCTTTACT
432905 TCGTTATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (40 bp):
GTGGCCTTGCCACATATACTGTTACTGGCAGCTTTACTGT
Found at i:433766 original size:27 final size:26
Alignment explanation
Indices: 433728--433871 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 26
433718 AATGGGTTAC
433728 AAATGA-TCGAATTACCCCCGAAAGGTA
1 AAATGACT-GAATTACCCCC-AAAGGTA
*
433755 AAATGACTGAATTACCCCAAAAGAGTA
1 AAATGACTGAATTACCCCCAAAG-GTA
* ** * *
433782 AAGTGACCAAATTACCCCTGAAGGGTA
1 AAATGACTGAATTACCCC-CAAAGGTA
* *
433809 AAATGACTAAAATACCCCCAAAGGGTA
1 AAATGACTGAATTACCCCCAAA-GGTA
* *
433836 AAATGACCGAATTACCCCCATAGGGTA
1 AAATGACTGAATTACCCCCA-AAGGTA
433863 AAATGACTG
1 AAATGACTG
433872 TTATACCCCT
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.06
27 85 0.89
28 5 0.05
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
AAATGACTGAATTACCCCCAAAGGTA
Found at i:433809 original size:54 final size:53
Alignment explanation
Indices: 433728--433880 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 53
433718 AATGGGTTAC
* * * *
433728 AAATGATCGAATTACCCCCGAAAGGTAAAATGACTGAATTACCCCAAAAGAGTA
1 AAATGACCAAATTA-CCCCGAAGGGTAAAATGACTGAAATACCCCAAAAGAGTA
* * * *
433782 AAGTGACCAAATTACCCCTGAAGGGTAAAATGACTAAAATACCCCCAAAGGGTA
1 AAATGACCAAATTACCCC-GAAGGGTAAAATGACTGAAATACCCCAAAAGAGTA
* * **
433836 AAATGACCGAATTACCCCCATAGGGTAAAATGACTGTTATACCCC
1 AAATGACCAAATTACCCCGA-AGGGTAAAATGACTGAAATACCCC
433881 TAGGACTTGA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (53 bp):
AAATGACCAAATTACCCCGAAGGGTAAAATGACTGAAATACCCCAAAAGAGTA
Found at i:442132 original size:14 final size:14
Alignment explanation
Indices: 442113--442140 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
442103 CGAATTTATC
442113 AATGAATTATTAAA
1 AATGAATTATTAAA
442127 AATGAATTATTAAA
1 AATGAATTATTAAA
442141 CATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:453332 original size:13 final size:13
Alignment explanation
Indices: 453301--453325 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
453291 TTTTTTATTT
453301 GATTTTTTTGAAA
1 GATTTTTTTGAAA
453314 GATTTTTTTGAA
1 GATTTTTTTGAA
453326 TATTTTTCCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (13 bp):
GATTTTTTTGAAA
Found at i:454776 original size:20 final size:20
Alignment explanation
Indices: 454753--454806 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
454743 AGCTAAAGTA
454753 AGCTAAATTGAGCTCAAACG
1 AGCTAAATTGAGCTCAAACG
* * *
454773 AGCTAAATTAAGCTCATATG
1 AGCTAAATTGAGCTCAAACG
*
454793 AGCTAAATCGAGCT
1 AGCTAAATTGAGCT
454807 GGGAAAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (20 bp):
AGCTAAATTGAGCTCAAACG
Found at i:463763 original size:20 final size:20
Alignment explanation
Indices: 463649--463775 Score: 110
Period size: 20 Copynumber: 6.3 Consensus size: 20
463639 TTGTACGGGA
** *
463649 TTTGCACTTTAGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTG
*
463669 TTTGCACTTAGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
**
463689 TTTGCACTTCGGTATCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
463709 TTTGCACTACGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * ** *
463729 CTTGTAGATCCGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * *
463749 TATGCACTTTGGTGCCCCTG
1 TTTGCACTTCGGTGCCTCTG
463769 TTATGCA
1 TT-TGCA
463776 TCTATGATGC
Statistics
Matches: 82, Mismatches: 24, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
20 78 0.95
21 4 0.05
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:466225 original size:30 final size:30
Alignment explanation
Indices: 466182--466258 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
466172 TCGACACGGG
* *
466182 ATGGCACATGCCCGTGTGGCTCACACTGGCTT
1 ATGGC-CA-GCCCGTGTGGCTCACACGGGCAT
466214 ATGGCCAGCCCGTGTGGCTCACACGGGCAT
1 ATGGCCAGCCCGTGTGGCTCACACGGGCAT
* *
466244 ATGGCTAGCCTGTGT
1 ATGGCCAGCCCGTGT
466259 AGGAATGCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 34 0.83
31 2 0.05
32 5 0.12
ACGTcount: A:0.16, C:0.30, G:0.31, T:0.23
Consensus pattern (30 bp):
ATGGCCAGCCCGTGTGGCTCACACGGGCAT
Found at i:468129 original size:17 final size:16
Alignment explanation
Indices: 468091--468134 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
468081 ATAAGTCTAA
468091 GAAAATAAAAAATAAAT
1 GAAAAT-AAAAATAAAT
468108 GAAAACTAAAAATAAAAT
1 GAAAA-TAAAAAT-AAAT
468126 -AAAATAAAA
1 GAAAATAAAA
468135 TAGACTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (16 bp):
GAAAATAAAAATAAAT
Found at i:488705 original size:35 final size:35
Alignment explanation
Indices: 488663--488735 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
488653 TTGAAGTTAG
488663 TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
1 TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
488698 TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
1 TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
488733 TTT
1 TTT
488736 ATTTTGTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.53
Consensus pattern (35 bp):
TTTTTGGGATAAATGTTGATTGTGTTGTTGTGTGA
Found at i:496630 original size:128 final size:128
Alignment explanation
Indices: 496398--496922 Score: 874
Period size: 128 Copynumber: 4.1 Consensus size: 128
496388 CACGATTCAT
*
496398 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTTTGAGTGTAAGTTTGCTC
1 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCTGAGTGTAAGTTTGCTC
* *
496463 ATACTTATGTTTAAATTCTAAAATATGTGCTTATGTGTTGCAGAAATGAAAACTAAGATGTGA
66 ATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
* *
496526 TGCCTAAATTGGGTAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCCT-AGTGTAAGTTTGCT
1 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATT-CTGAGTGTAAGTTTGCT
496590 CATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
65 CATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
* **
496654 TGCTTAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCCAAGTGTAAGTTTGCTC
1 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCTGAGTGTAAGTTTGCTC
*
496719 ATACTTATGTTTAAATTCTGAAATATATGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
66 ATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
* * *
496782 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTGTTCAAAATTTTGAGTGTAAGTTTGCTC
1 TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCTGAGTGTAAGTTTGCTC
* *
496847 ATACTTAGGTTTAAATTCTGAAATATGTGGTTATGTGTTGC-GAGAATGAAAACTAAGATGTGA
66 ATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGA-AATGAAAACTAAGATGTGA
496910 TGCTATGAAATTG
1 TGC-AT-AAATTG
496923 TTATATGCTT
Statistics
Matches: 374, Mismatches: 18, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
127 3 0.01
128 362 0.97
129 3 0.01
130 6 0.02
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (128 bp):
TGCATAAATTGGGAAGTTAGTAGTAGCCTAAACCCCTATTCTAAATTCTGAGTGTAAGTTTGCTC
ATACTTATGTTTAAATTCTGAAATATGTGCTTATGTGTTGCGGAAATGAAAACTAAGATGTGA
Found at i:505257 original size:17 final size:17
Alignment explanation
Indices: 505224--505257 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
505214 GTTGTTGTAA
*
505224 ATTATTTATTTTAAATT
1 ATTATTTACTTTAAATT
*
505241 ATTATTTACTTTGAATT
1 ATTATTTACTTTAAATT
505258 GATTTGCATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTATTTACTTTAAATT
Found at i:530213 original size:25 final size:25
Alignment explanation
Indices: 530153--530213 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
530143 TGTATGCCCT
* *
530153 CACGAGCTGTAAATCAGAATGCTCA
1 CACGAGCTGTGAATCAGAATACTCA
*
530178 CACGAGCTGTGAATTAGAATACTCA
1 CACGAGCTGTGAATCAGAATACTCA
*
530203 CATGAGCTGTG
1 CACGAGCTGTG
530214 GAGTATCCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
CACGAGCTGTGAATCAGAATACTCA
Found at i:549019 original size:28 final size:30
Alignment explanation
Indices: 548974--549029 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
548964 ATTTATATTA
* *
548974 ATTTTAATTTTTATAAT-ATAAAAATAAAT
1 ATTTTAATATTTACAATAATAAAAATAAAT
549003 ATTTT-ATATTTACAATAATAAAAATAA
1 ATTTTAATATTTACAATAATAAAAATAA
549030 CTTAAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTTTAATATTTACAATAATAAAAATAAAT
Found at i:551562 original size:13 final size:13
Alignment explanation
Indices: 551544--551584 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
551534 GTTATAAAAA
551544 TATATATATTAAT
1 TATATATATTAAT
*
551557 TATATATATTAAA
1 TATATATATTAAT
551570 TA-AT-TA-TAAT
1 TATATATATTAAT
551580 TATAT
1 TATAT
551585 TTATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 5 0.20
11 4 0.16
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATATATATTAAT
Found at i:553922 original size:31 final size:31
Alignment explanation
Indices: 553884--553945 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
553874 TCATAGATTC
553884 TTTTACGGTAAAGTTGACATGATTTTAACAG
1 TTTTACGGTAAAGTTGACATGATTTTAACAG
*
553915 TTTTACGGTAAAGTTGTCATGATTTTAACAG
1 TTTTACGGTAAAGTTGACATGATTTTAACAG
553946 AATCAGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (31 bp):
TTTTACGGTAAAGTTGACATGATTTTAACAG
Found at i:555737 original size:21 final size:22
Alignment explanation
Indices: 555704--555744 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
555694 TATATGTGTT
555704 TTAAATTGTTAA-TTAATAAGA
1 TTAAATTGTTAATTTAATAAGA
555725 TTAAACTTG-TAATTTAATAA
1 TTAAA-TTGTTAATTTAATAA
555745 ATAACTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
TTAAATTGTTAATTTAATAAGA
Found at i:562650 original size:29 final size:29
Alignment explanation
Indices: 562612--562671 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
562602 CAGATCAATT
562612 ATATCATAAATAAAACCTTCCAATAATCA
1 ATATCATAAATAAAACCTTCCAATAATCA
562641 ATATCATAAATAAAACCTTCCAATAATCA
1 ATATCATAAATAAAACCTTCCAATAATCA
562670 AT
1 AT
562672 CATGTCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (29 bp):
ATATCATAAATAAAACCTTCCAATAATCA
Found at i:564542 original size:25 final size:25
Alignment explanation
Indices: 564514--564584 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
564504 TAACTATAAT
564514 TGCTCACACGAGCTATGAAAACAAA
1 TGCTCACACGAGCTATGAAAACAAA
* **
564539 TGCTCACATGAGCTATGAAAGTAAA
1 TGCTCACACGAGCTATGAAAACAAA
* *
564564 TGTTCACACGATCTATGAAAA
1 TGCTCACACGAGCTATGAAAA
564585 TCAGTCTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (25 bp):
TGCTCACACGAGCTATGAAAACAAA
Found at i:565679 original size:27 final size:28
Alignment explanation
Indices: 565619--565679 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
565609 CCATAGATCA
565619 CCACAAAGGCTTCCATTTCATAGATTGT
1 CCACAAAGGCTTCCATTTCATAGATTGT
** * *
565647 -TGCAAAGTCTTCCATTTCTTAGATT-T
1 CCACAAAGGCTTCCATTTCATAGATTGT
565673 CCACAAA
1 CCACAAA
565680 TATTTCCATT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (28 bp):
CCACAAAGGCTTCCATTTCATAGATTGT
Found at i:568642 original size:16 final size:16
Alignment explanation
Indices: 568621--568651 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
568611 AAAACTACTG
568621 ACTTTAGGGTTAAACC
1 ACTTTAGGGTTAAACC
568637 ACTTTAGGGTTAAAC
1 ACTTTAGGGTTAAAC
568652 TGCCTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (16 bp):
ACTTTAGGGTTAAACC
Found at i:573790 original size:35 final size:35
Alignment explanation
Indices: 573726--573792 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
573716 GGAAATACCA
* *
573726 TGTAAATGGTATATAGGTCATTCGAGGTGACATAG
1 TGTAAACGGTATATAGGTCACTCGAGGTGACATAG
*
573761 TGTAAACGGTATATCGGTCACTC-AGGGTGACA
1 TGTAAACGGTATATAGGTCACTCGA-GGTGACA
573793 CCTTGAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (35 bp):
TGTAAACGGTATATAGGTCACTCGAGGTGACATAG
Found at i:578469 original size:23 final size:22
Alignment explanation
Indices: 578403--578470 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
578393 GATATTTGTG
* *
578403 AAGCCTTTGTGGTGTATCTAGT
1 AAGCCTTTGTGGCGTATCTATT
*
578425 AGAGCCTTTGTGGCATAATCTATT
1 A-AGCCTTTGTGGCGT-ATCTATT
578449 AAGCCTTTGTGGCGTATTCTAT
1 AAGCCTTTGTGGCGTA-TCTAT
578471 AACGCCTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 2 0.05
23 30 0.77
24 7 0.18
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.40
Consensus pattern (22 bp):
AAGCCTTTGTGGCGTATCTATT
Found at i:580125 original size:7 final size:7
Alignment explanation
Indices: 580095--580128 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
580085 AATATAATTG
580095 AAATTTA
1 AAATTTA
*
580102 AAGTTTA
1 AAATTTA
*
580109 AAGTTTA
1 AAATTTA
580116 AAATTTA
1 AAATTTA
580123 AAATTT
1 AAATTT
580129 GTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:580753 original size:14 final size:14
Alignment explanation
Indices: 580734--580771 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
580724 TGTTTTATAG
580734 AAAATGACTTCTGA
1 AAAATGACTTCTGA
* *
580748 AAAATGATTTCTGG
1 AAAATGACTTCTGA
580762 AAAATGACTT
1 AAAATGACTT
580772 ACTTTCCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (14 bp):
AAAATGACTTCTGA
Found at i:581237 original size:19 final size:19
Alignment explanation
Indices: 581201--581239 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
581191 TATTATTAAT
**
581201 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
581220 ATATTTATCATTAAAATAA
1 ATATTTATAATTAAAATAA
581239 A
1 A
581240 ACTGAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:582862 original size:21 final size:21
Alignment explanation
Indices: 582838--582888 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
582828 TAAGTGTGCA
* *
582838 ATTTCTCACTGCAGAGAAAGC
1 ATTTCTCACTACAGAAAAAGC
582859 ATTTCTCACTACAGAAAAAGC
1 ATTTCTCACTACAGAAAAAGC
582880 ATTT-TCACT
1 ATTTCTCACT
582889 TAGATAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (21 bp):
ATTTCTCACTACAGAAAAAGC
Found at i:583666 original size:38 final size:38
Alignment explanation
Indices: 583615--583687 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
583605 TTTTTTAAAT
583615 GAAAATAAAACATTCATTCATTAATATATTTGTATTAA
1 GAAAATAAAACATTCATTCATTAATATATTTGTATTAA
*
583653 GAAAATAAAACATTCATTCATTAATATCTTTGTAT
1 GAAAATAAAACATTCATTCATTAATATATTTGTAT
583688 ATTTAATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (38 bp):
GAAAATAAAACATTCATTCATTAATATATTTGTATTAA
Found at i:589019 original size:6 final size:6
Alignment explanation
Indices: 589008--589035 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
588998 TATCTTAACA
589008 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
589036 CTCTCTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:589702 original size:17 final size:18
Alignment explanation
Indices: 589677--589711 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
589667 CAATTTTGGT
*
589677 GTGTGGGCC-ACACGGGC
1 GTGTCGGCCAACACGGGC
589694 GTGTCGGCCAACACGGGC
1 GTGTCGGCCAACACGGGC
589712 ATGTGGACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.31, G:0.43, T:0.11
Consensus pattern (18 bp):
GTGTCGGCCAACACGGGC
Found at i:601607 original size:39 final size:39
Alignment explanation
Indices: 601556--601700 Score: 182
Period size: 39 Copynumber: 3.7 Consensus size: 39
601546 GTCTATAAAA
*
601556 TGATTATATGAGTATTGGGATATATGCTTGAATGTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * **
601595 TGATCATATGAGTATTGTGATATGTGCTTGAACATTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * * * *
601634 TAATTATATGAGTATTATGATATATGCTTAAATGCTAAG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* *
601673 TGATTATATGTGTAATGTGATATATGCT
1 TGATTATATGAGTATTGTGATATATGCT
601701 CAAAAGTGAA
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (39 bp):
TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
Found at i:604375 original size:18 final size:17
Alignment explanation
Indices: 604338--604390 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
604328 CCTTCTTTTC
* *
604338 TTTTCTTTTTATTATAT
1 TTTTCATTTTATTATTT
604355 TTTTCATTTTATTAATTT
1 TTTTCATTTTATT-ATTT
604373 TTTTCA-TTTATTATTT
1 TTTTCATTTTATTATTT
604389 TT
1 TT
604391 ACTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 6 0.18
17 18 0.55
18 9 0.27
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCATTTTATTATTT
Found at i:605614 original size:43 final size:43
Alignment explanation
Indices: 605559--606187 Score: 1069
Period size: 43 Copynumber: 14.6 Consensus size: 43
605549 TTTTTATAAT
* *
605559 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
*
605602 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
* *
605645 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
*
605688 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
* *
605731 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
*
605774 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
* *
605817 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
*
605860 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
* *
605903 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
*
605946 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
* *
605989 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
*
606032 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
* *
606075 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
*
606118 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
606161 AAACGCCGCTATAGACCATGGTCTTTA
1 AAACGCCGCTATAGACCATGGTCTTTA
606188 ATAATTATAA
Statistics
Matches: 546, Mismatches: 40, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 546 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
Found at i:605658 original size:86 final size:86
Alignment explanation
Indices: 605559--606187 Score: 1258
Period size: 86 Copynumber: 7.3 Consensus size: 86
605549 TTTTTATAAT
605559 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
605624 CTTTAGCAGCGCTTATCCATA
66 CTTTAGCAGCGCTTATCCATA
605645 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
605710 CTTTAGCAGCGCTTATCCATA
66 CTTTAGCAGCGCTTATCCATA
605731 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
605796 CTTTAGCAGCGCTTATCCATA
66 CTTTAGCAGCGCTTATCCATA
605817 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
605882 CTTTAGCAGCGCTTATCCATA
66 CTTTAGCAGCGCTTATCCATA
605903 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
605968 CTTTAGCAGCGCTTATCCATA
66 CTTTAGCAGCGCTTATCCATA
605989 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
606054 CTTTAGCAGCGCTTATCCATA
66 CTTTAGCAGCGCTTATCCATA
606075 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
606140 CTTTAGCAGCGCTTATCCATA
66 CTTTAGCAGCGCTTATCCATA
606161 AAACGCCGCTATAGACCATGGTCTTTA
1 AAACGCCGCTATAGACCATGGTCTTTA
606188 ATAATTATAA
Statistics
Matches: 543, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 543 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
CTTTAGCAGCGCTTATCCATA
Found at i:606887 original size:44 final size:43
Alignment explanation
Indices: 606837--606958 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
606827 GCGTCGGTAA
*
606837 CTTTAGCGGCACTTTTTAT-AAT-AAACGCCGCTATAGACCATGGT
1 CTTTAGCGGCAC---TTATCAATCAAACGCCACTATAGACCATGGT
* *
606881 CTTTAGCGGCGCTTATCCATCAAACGCCACTATAGACCATGGT
1 CTTTAGCGGCACTTATCAATCAAACGCCACTATAGACCATGGT
* * * * *
606924 CTTTAGCAGCGCTTATCCATAAAACGCCGCTATAG
1 CTTTAGCGGCACTTATCAATCAAACGCCACTATAG
606959 CCCTAAAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
41 4 0.06
42 2 0.03
43 53 0.76
44 11 0.16
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCACTTATCAATCAAACGCCACTATAGACCATGGT
Found at i:606914 original size:43 final size:43
Alignment explanation
Indices: 606859--606958 Score: 173
Period size: 43 Copynumber: 2.3 Consensus size: 43
606849 TTTTTATAAT
* *
606859 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
*
606902 AAACGCCACTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
606945 AAACGCCGCTATAG
1 AAACGCCGCTATAG
606959 CCCTAAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTATCCATA
Found at i:607026 original size:43 final size:43
Alignment explanation
Indices: 606965--607065 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
606955 ATAGCCCTAA
606965 AAAAGCGCCGCTAAAGACCATGGGCTATAGCGGCGTTTGATGC
1 AAAAGCGCCGCTAAAGACCATGGGCTATAGCGGCGTTTGATGC
* *
607008 AAAAGCGCCGCTAAAGACCATGGGCTATAGCGGCGTTTTATGG
1 AAAAGCGCCGCTAAAGACCATGGGCTATAGCGGCGTTTGATGC
**
607051 GTAAGCGCCGCTAAA
1 AAAAGCGCCGCTAAA
607066 AATATTTGCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.19
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGACCATGGGCTATAGCGGCGTTTGATGC
Found at i:607145 original size:43 final size:43
Alignment explanation
Indices: 607084--607465 Score: 455
Period size: 43 Copynumber: 8.9 Consensus size: 43
607074 CGGCGCTAAA
607084 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
* **
607127 AAACGCCGCTATAGACCATGGTCTTTAGAGGATCTTTTGCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
* **
607170 AAACGCCGCTATAGACCATGGTCTTTAGAGGATCTTTTGCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
* **
607213 AAACGCCGCTATAGACCATGGTCTTTAGAGGATCTTTTGCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
* ***
607256 AAACGCCGCTATAGACCATGGTCTTTAGAGGCGCTTACCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
* * *** *
607299 AAACGTCGCTATAGCCCATGGTCTTTAGCGGCGCTTACCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
* * **
607342 AAACGCCGCTATAGACCATGATCTTTCGCGGCGC-TTACCAATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGC-ATC
* * ** *
607385 AAATGCCGCTATAGACCTTGGTCTTTAGCGGCGC-TTAACAAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGC-ATC
*
607428 AAACGCCGCTATAG-CTCATGGTTTTTAGCGGCGCTTTT
1 AAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTTTT
607466 AGAAAAACGC
Statistics
Matches: 307, Mismatches: 29, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
42 4 0.01
43 301 0.98
44 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
Found at i:607896 original size:21 final size:21
Alignment explanation
Indices: 607872--607938 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
607862 TTGAACCTCA
* *
607872 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCAGCATCT
607893 GCTTCTCTCGCTGCAGCATCT
1 GCTTCTCTCGCTGCAGCATCT
607914 GCTTCTCTCGCTGCAGCATCT
1 GCTTCTCTCGCTGCAGCATCT
607935 GCTT
1 GCTT
607939 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.06, C:0.39, G:0.19, T:0.36
Consensus pattern (21 bp):
GCTTCTCTCGCTGCAGCATCT
Found at i:607974 original size:108 final size:108
Alignment explanation
Indices: 607782--607999 Score: 332
Period size: 108 Copynumber: 2.0 Consensus size: 108
607772 TTTAAGCTGT
* * *
607782 TCTGCTTCCCTCGCTGCAGCCTCTGCTTCTCTTGCTGTCGCATCTGCTTTAAGTTGTTGCTGGAG
1 TCTGCTTCCCTCGCTGCAGCATCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGTTGTAGCTGGAG
* *
607847 TTGTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCC
66 TTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCC
*
607890 TCTGCTTCTCTCGCTGCAGCATCTGCTTCTCTCGCTG-CAGCATCTGCTTTAAGTTGTAGCTGGA
1 TCTGCTTCCCTCGCTGCAGCATCTGCTTCTCTCGCTGTC-GCATCTGCTTTAAGTTGTAGCTGGA
* *
607954 GTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCC
65 GTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCC
607998 TC
1 TC
608000 CACTTTAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 95 0.95
109 4 0.04
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.39
Consensus pattern (108 bp):
TCTGCTTCCCTCGCTGCAGCATCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGTTGTAGCTGGAG
TTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCC
Found at i:615138 original size:23 final size:23
Alignment explanation
Indices: 615095--615139 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
615085 NNCTTTTGTA
*
615095 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
615118 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
615140 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:616070 original size:41 final size:41
Alignment explanation
Indices: 616025--616182 Score: 131
Period size: 41 Copynumber: 3.9 Consensus size: 41
616015 TAGATTTTCT
* *
616025 AATTAGCGGCGTTTTTACACAAACGCTGCTATAGACCGAAG
1 AATTAGCGGCGATTTTACACAAACGCCGCTATAGACCGAAG
* * * *
616066 AATTACCGACGCTGTTACACAAACGCCGCTATAGACCGGAA-
1 AATTAGCGGCGATTTTACACAAACGCCGCTATAGACC-GAAG
* * * * * * *
616107 CATTAGCGGCGATTCTCCATAAACGCCGCTTTAGAGCGGAG
1 AATTAGCGGCGATTTTACACAAACGCCGCTATAGACCGAAG
* * * *
616148 CATTAGCGGCGGTTTGTA-AAAAATGCCGCTATAGA
1 AATTAGCGGCGATTT-TACACAAACGCCGCTATAGA
616183 TCGGATTATT
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
40 2 0.02
41 86 0.93
42 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
AATTAGCGGCGATTTTACACAAACGCCGCTATAGACCGAAG
Found at i:616492 original size:40 final size:38
Alignment explanation
Indices: 616387--616519 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 38
616377 TGTTACTCTA
*
616387 TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTTGGTTT
1 TTGCGGCG-TTTTTGTAAAACGCCGCTAATGCTTGATTT
* * *
616426 TCGCGGCGTTTTTTTATGTAACGCCGCTAATGCTTGATATT
1 TTGCGGCGTTTTTGTA--AAACGCCGCTAATGCTTGAT-TT
* *
616467 TTGCGGCGTTTTTCGTAAAATGCCGCTAATGCTCGATTT
1 TTGCGGCGTTTTT-GTAAAACGCCGCTAATGCTTGATTT
*
616506 TTAGTGGCGTTTTT
1 TT-GCGGCGTTTTT
616520 TATCCAAACA
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
38 7 0.09
39 11 0.14
40 45 0.57
41 14 0.18
42 2 0.03
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (38 bp):
TTGCGGCGTTTTTGTAAAACGCCGCTAATGCTTGATTT
Found at i:617837 original size:19 final size:19
Alignment explanation
Indices: 617813--617863 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
617803 TCACATTAAC
617813 AATTAATTATTTAAAAAAA
1 AATTAATTATTTAAAAAAA
*
617832 AATTAA-AATATT-AAAAAA
1 AATTAATTAT-TTAAAAAAA
617850 AATT-ATT-TTTAAAA
1 AATTAATTATTTAAAA
617864 TAATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
16 2 0.07
17 5 0.19
18 12 0.44
19 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTAATTATTTAAAAAAA
Found at i:617894 original size:20 final size:20
Alignment explanation
Indices: 617867--617910 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
617857 TTTAAAATAA
617867 TTTTAATAAGTTTTA-AATT
1 TTTTAATAAGTTTTATAATT
*
617886 TTTTAAATAATTTTTATAATT
1 TTTT-AATAAGTTTTATAATT
617907 TTTT
1 TTTT
617911 GAATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAATAAGTTTTATAATT
Found at i:617917 original size:29 final size:28
Alignment explanation
Indices: 617854--617924 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
617844 AAAAAAAATT
617854 ATTTTTAAAATAATTTTAATAAGTTTTAA
1 ATTTTT-AAATAATTTTAATAAGTTTTAA
* * *
617883 ATTTTTTAAATAATTTTTATAATTTTTTGA
1 A-TTTTTAAATAATTTTAATAA-GTTTTAA
617913 A-TTTTAAATAAT
1 ATTTTTAAATAAT
617925 AAATTAATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.30
29 15 0.41
30 11 0.30
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
ATTTTTAAATAATTTTAATAAGTTTTAA
Found at i:617917 original size:30 final size:29
Alignment explanation
Indices: 617854--617909 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
617844 AAAAAAAATT
*
617854 ATTTTTAAAATAATTTTAATAAGTTTTAA
1 ATTTTTTAAATAATTTTAATAAGTTTTAA
* *
617883 ATTTTTTAAATAATTTTTATAATTTTT
1 ATTTTTTAAATAATTTTAATAAGTTTT
617910 TGAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
ATTTTTTAAATAATTTTAATAAGTTTTAA
Found at i:625900 original size:172 final size:171
Alignment explanation
Indices: 625578--625908 Score: 454
Period size: 172 Copynumber: 1.9 Consensus size: 171
625568 GACTAACGGA
* *
625578 AAATGAAAACACTCTAAAATCTAATATAGTTTAGTGACTAGAATAATATAAATTTGAATAATTAA
1 AAATGAAAACACTCTAAAATCTAATATAGTTTAGTGACTAGAATAATACAAAATTGAATAATTAA
* * * * * *
625643 ATGATTATATTGTAAATTTTCATAATTGAATGATAAAATAATTATGATTGAATGACTACTAATAT
66 ATAATCATATTGTAAATTTTCATAATTGAATGATAAAAAAATCATGATTAAATAACTACTAATAT
625708 AATCTAGTTTTTTTCATAATCTTATCATAGCATGTTATATAG
131 AATCTA-TTTTTTTCATAATCTTATCATAGCATGTTATATAG
* * * * *
625750 AAATGGAAGCACTCTAAAATTTAATATAG-TTACGTGGCTAGAATAATACAAAATTGAATAGTTA
1 AAATGAAAACACTCTAAAATCTAATATAGTTTA-GTGACTAGAATAATACAAAATTGAATAATTA
*
625814 AATAATCATATTGTAACTTTTCATAATTTG-ATGATAAAAAAAACTCATGATTAAATAACTACTA
65 AATAATCATATTGTAAATTTTCATAA-TTGAATGAT-AAAAAAA-TCATGATTAAATAACTACTA
625878 ATATAAT-T-TTTTTTTGCATAATCTTATCATA
127 ATATAATCTATTTTTTT-CATAATCTTATCATA
625909 CCTTGTTTTA
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
171 10 0.07
172 96 0.69
173 10 0.07
174 24 0.17
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (171 bp):
AAATGAAAACACTCTAAAATCTAATATAGTTTAGTGACTAGAATAATACAAAATTGAATAATTAA
ATAATCATATTGTAAATTTTCATAATTGAATGATAAAAAAATCATGATTAAATAACTACTAATAT
AATCTATTTTTTTCATAATCTTATCATAGCATGTTATATAG
Found at i:635372 original size:24 final size:24
Alignment explanation
Indices: 635345--635391 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
635335 TTACACGATC
*
635345 TAGCACACGGCCTGCGACACGGTT
1 TAGCACACGACCTGCGACACGGTT
*
635369 TAGCACACGACCTGCGATACGGT
1 TAGCACACGACCTGCGACACGGT
635392 CGTGTGACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (24 bp):
TAGCACACGACCTGCGACACGGTT
Found at i:635451 original size:54 final size:54
Alignment explanation
Indices: 635361--635473 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
635351 ACGGCCTGCG
* * * * *
635361 ACACGGTTTAGCACACGACCTGCGATACGGTCGTGTGACACAAGTCAGAGAGTT
1 ACACGGTCTAGCACACGACCTACAACACGATCGTGTGACACAAGTCAGAGAGTT
* * * *
635415 ACACGGTCTGGCACACGACCTACAACACGATTGTGTGACCCAAGTCAGTGAGTT
1 ACACGGTCTAGCACACGACCTACAACACGATCGTGTGACACAAGTCAGAGAGTT
635469 ACACG
1 ACACG
635474 ATTTAGGACA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (54 bp):
ACACGGTCTAGCACACGACCTACAACACGATCGTGTGACACAAGTCAGAGAGTT
Found at i:644759 original size:12 final size:12
Alignment explanation
Indices: 644744--644770 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
644734 TTAAATTTTC
644744 TATTAATATACA
1 TATTAATATACA
644756 TATTAATATACA
1 TATTAATATACA
644768 TAT
1 TAT
644771 ATGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTAATATACA
Found at i:644799 original size:73 final size:73
Alignment explanation
Indices: 644716--644966 Score: 502
Period size: 73 Copynumber: 3.4 Consensus size: 73
644706 ATAAATTTTC
644716 TATTAAGCACCTTTCTCTTTAAATTTTCTATTAATATACATATTAATATACATATATGATTTATT
1 TATTAAGCACCTTTCTCTTTAAATTTTCTATTAATATACATATTAATATACATATATGATTTATT
644781 TTTACATA
66 TTTACATA
644789 TATTAAGCACCTTTCTCTTTAAATTTTCTATTAATATACATATTAATATACATATATGATTTATT
1 TATTAAGCACCTTTCTCTTTAAATTTTCTATTAATATACATATTAATATACATATATGATTTATT
644854 TTTACATA
66 TTTACATA
644862 TATTAAGCACCTTTCTCTTTAAATTTTCTATTAATATACATATTAATATACATATATGATTTATT
1 TATTAAGCACCTTTCTCTTTAAATTTTCTATTAATATACATATTAATATACATATATGATTTATT
644927 TTTACATA
66 TTTACATA
644935 TATTAAGCACCTTTCTCTTTAAATTTTCTATT
1 TATTAAGCACCTTTCTCTTTAAATTTTCTATT
644967 TGTACCTACC
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 178 1.00
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (73 bp):
TATTAAGCACCTTTCTCTTTAAATTTTCTATTAATATACATATTAATATACATATATGATTTATT
TTTACATA
Found at i:644832 original size:12 final size:12
Alignment explanation
Indices: 644817--644843 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
644807 TTAAATTTTC
644817 TATTAATATACA
1 TATTAATATACA
644829 TATTAATATACA
1 TATTAATATACA
644841 TAT
1 TAT
644844 ATGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTAATATACA
Found at i:644905 original size:12 final size:12
Alignment explanation
Indices: 644890--644916 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
644880 TTAAATTTTC
644890 TATTAATATACA
1 TATTAATATACA
644902 TATTAATATACA
1 TATTAATATACA
644914 TAT
1 TAT
644917 ATGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTAATATACA
Found at i:645685 original size:43 final size:43
Alignment explanation
Indices: 645638--645724 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
645628 TTTCCATCGA
*
645638 TTCCCCTCTTCCACCATGCCTTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCATGCCCTCCTCCCATTTCCCATTCCCAT
*
645681 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCATGCCCTCCTCCCATTTCCCATTCCCAT
645724 T
1 T
645725 CCCATTTCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.10, C:0.52, G:0.03, T:0.34
Consensus pattern (43 bp):
TTCCCCTCTTCCACCATGCCCTCCTCCCATTTCCCATTCCCAT
Found at i:645722 original size:6 final size:6
Alignment explanation
Indices: 645705--645743 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
645695 CGTGCCCTCC
645705 TCCCATT TCCCAT TCCCAT TCCCATT TCCCAT TCCCAT T
1 TCCCA-T TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT T
645744 TACGGTTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCAT
Found at i:645723 original size:13 final size:13
Alignment explanation
Indices: 645705--645744 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
645695 CGTGCCCTCC
645705 TCCCATTTCCCA-T
1 TCCCA-TTCCCATT
645718 TCCCATTCCCATT
1 TCCCATTCCCATT
645731 TCCCATTCCCATT
1 TCCCATTCCCATT
645744 T
1 T
645745 ACGGTTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.15, C:0.45, G:0.00, T:0.40
Consensus pattern (13 bp):
TCCCATTCCCATT
Found at i:645729 original size:19 final size:19
Alignment explanation
Indices: 645705--645743 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
645695 CGTGCCCTCC
645705 TCCCATTTCCCATTCCCAT
1 TCCCATTTCCCATTCCCAT
645724 TCCCATTTCCCATTCCCAT
1 TCCCATTTCCCATTCCCAT
645743 T
1 T
645744 TACGGTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.38
Consensus pattern (19 bp):
TCCCATTTCCCATTCCCAT
Found at i:647283 original size:217 final size:218
Alignment explanation
Indices: 646860--647283 Score: 665
Period size: 217 Copynumber: 1.9 Consensus size: 218
646850 TCATATAATG
* **
646860 GTCTTCGCATATATTCCCCGACAGGCTTCCTTATTCATGGCTTCGATGAACTTCATTTTTGCCAT
1 GTCTTCGCATATATTCCCCGACAGGCTTCCTTATTCATGGCTCCGACAAACTTCATTTTTGCCAT
* *
646925 AAGGCGTACCTATCCTCCACTGGATCATGCCATAGTTTGCTATGGACTTTTTACTCAGAGAAGTC
66 AAGACGTACCTATCCTCCACTGGATCATGCCATAGTTTGCCATGGACTTTTTACTCAGAGAAGTC
* * *
646990 AGTGAACCTCTTTCGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACATGGTGTCACTCTGTA
131 AGTGAACCCCTTACGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACACGGTGTCACTCTGTA
647055 GAACCTGTAGACTGTTTCCTCAA
196 GAACCTGTAGACTGTTTCCTCAA
* * * *
647078 GTCTTCTCATATATTCCCCGAC-GGCTT-CTCTATTTATTGCTCCGACAAACTTCATTTTTTCCA
1 GTCTTCGCATATATTCCCCGACAGGCTTCCT-TATTCATGGCTCCGACAAACTTCATTTTTGCCA
* *
647141 TAAGACGTACCTATCCTCCACTGGATCATGCCATGGTTTGCCATGGACTTTTTACTTC-GAGGAG
65 TAAGACGTACCTATCCTCCACTGGATCATGCCATAGTTTGCCATGGACTTTTTAC-TCAGAGAAG
**
647205 TCAGTGAACCCCTTACGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACACGGTGTTGCTCTG
129 TCAGTGAACCCCTTACGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACACGGTGTCACTCTG
647270 TAGAACCTGTAGAC
194 TAGAACCTGTAGAC
647284 CATTTCCATG
Statistics
Matches: 188, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
216 2 0.01
217 163 0.87
218 23 0.12
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (218 bp):
GTCTTCGCATATATTCCCCGACAGGCTTCCTTATTCATGGCTCCGACAAACTTCATTTTTGCCAT
AAGACGTACCTATCCTCCACTGGATCATGCCATAGTTTGCCATGGACTTTTTACTCAGAGAAGTC
AGTGAACCCCTTACGAGGTGTCGCTTTGAAGTGCCTATAAACCATTTACACGGTGTCACTCTGTA
GAACCTGTAGACTGTTTCCTCAA
Found at i:647321 original size:35 final size:35
Alignment explanation
Indices: 647239--647324 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
647229 GCTTTGAAGT
**
647239 GCCTATAAACCATTTACACGGTGTTGCTCTGTAGA
1 GCCTATAAACCATTTACACGGTGTTGCTCCATAGA
* * * * *
647274 ACCTGTAGACCATTTCCATGGTGTTGCTCCATAGA
1 GCCTATAAACCATTTACACGGTGTTGCTCCATAGA
647309 GCCTATAAACCATTTA
1 GCCTATAAACCATTTA
647325 TCTTGCTAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (35 bp):
GCCTATAAACCATTTACACGGTGTTGCTCCATAGA
Found at i:650767 original size:24 final size:24
Alignment explanation
Indices: 650740--650790 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
650730 GTATAACTAG
650740 CATTTTGTGGAGCACTTTTCAAAA
1 CATTTTGTGGAGCACTTTTCAAAA
650764 CATTTTGTGGAGCACTTTTCAAAA
1 CATTTTGTGGAGCACTTTTCAAAA
650788 CAT
1 CAT
650791 CTTCAACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (24 bp):
CATTTTGTGGAGCACTTTTCAAAA
Found at i:659061 original size:50 final size:50
Alignment explanation
Indices: 658996--659175 Score: 288
Period size: 50 Copynumber: 3.6 Consensus size: 50
658986 AGGTCCCATG
658996 TAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGGTCCCCCA
1 TAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGGTCCCCCA
659046 TAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGGTCCCCCA
1 TAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGGTCCCCCA
* * ** ***
659096 TAAGACCATGTTTGGGACATTGCGTTGGCATTGAGATGAGAGGTCCCATG
1 TAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGGTCCCCCA
*
659146 TAAGACCATGTCTGGGACATGGCTTTGGCA
1 TAAGACCATGTTTGGGACATGGCTTTGGCA
659176 TGTTATTATC
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 120 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGGTCCCCCA
Found at i:659176 original size:50 final size:50
Alignment explanation
Indices: 658933--659176 Score: 281
Period size: 50 Copynumber: 4.8 Consensus size: 50
658923 GGTAAAGATA
** ** *
658933 TCCCATGTAAGACCATGTCAGGGACATGGAATTGGCATCATTGAGGTTATGAAAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATC---GA-G--ATGAGAGG
*
658989 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATCGAGATGAGAGG
*** *
659039 TCCCCCATAAGACCATGTTTGGGACATGGCTTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATCGAGATGAGAGG
*** * * *
659089 TCCCCCATAAGACCATGTTTGGGACATTGCGTTGGCATTGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATCGAGATGAGAGG
*
659139 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCAT
659177 GTTATTATCA
Statistics
Matches: 169, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 132 0.78
52 1 0.01
53 2 0.01
56 34 0.20
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATCGAGATGAGAGG
Found at i:659914 original size:18 final size:18
Alignment explanation
Indices: 659891--659927 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
659881 TTTGAGAGTG
*
659891 AATGATATATAGAATTAA
1 AATGATATATAAAATTAA
659909 AATGATATATAAAATTAA
1 AATGATATATAAAATTAA
659927 A
1 A
659928 TCTTATGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AATGATATATAAAATTAA
Found at i:666602 original size:50 final size:50
Alignment explanation
Indices: 666527--666650 Score: 167
Period size: 50 Copynumber: 2.5 Consensus size: 50
666517 CATTGAGGTT
* * * *
666527 ATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAG
** *
666577 ATGAGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAG
**
666627 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
666651 ATATGGGATA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATGGGCACCGAG
Found at i:667458 original size:18 final size:18
Alignment explanation
Indices: 667435--667471 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
667425 TTTGAGAGTG
*
667435 AATGATATATAGAATTAA
1 AATGATATATAAAATTAA
667453 AATGATATATAAAATTAA
1 AATGATATATAAAATTAA
667471 A
1 A
667472 TCTTATGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AATGATATATAAAATTAA
Found at i:669194 original size:48 final size:48
Alignment explanation
Indices: 669138--669232 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
669128 GTTTATATGG
*
669138 TAAGTTTTATTAATTCAACCGTTGAACTTACTAGGCTCTATTAAAGCA
1 TAAGTTTTATTAATTCAACCGTTGAACTTACTAAGCTCTATTAAAGCA
*
669186 TAAGTTTTATTGATTCAACCGTTGAACTTACTAAGCTCTATTAAAGC
1 TAAGTTTTATTAATTCAACCGTTGAACTTACTAAGCTCTATTAAAGC
669233 TTACTCATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (48 bp):
TAAGTTTTATTAATTCAACCGTTGAACTTACTAAGCTCTATTAAAGCA
Found at i:671705 original size:20 final size:20
Alignment explanation
Indices: 671680--671718 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
671670 TGAGTTATTT
671680 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
671700 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
671719 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:678111 original size:41 final size:42
Alignment explanation
Indices: 678061--678144 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 42
678051 AAATAGAATA
* * * *
678061 ACAACAGATCACTGAGCCAGAGATTGAATAATAATAGATTCC
1 ACAACAGATCACTAAACCAGAGATTGAACAACAATAGATTCC
* * *
678103 ACAA-AGATCATTAAACCAGATATTGAACAACAATATATTCC
1 ACAACAGATCACTAAACCAGAGATTGAACAACAATAGATTCC
678144 A
1 A
678145 TAATTTTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
41 31 0.89
42 4 0.11
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (42 bp):
ACAACAGATCACTAAACCAGAGATTGAACAACAATAGATTCC
Found at i:681544 original size:156 final size:156
Alignment explanation
Indices: 681260--681572 Score: 608
Period size: 156 Copynumber: 2.0 Consensus size: 156
681250 CATCACTAAT
*
681260 CCACTGACGAAGCCTCTGACGCAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
1 CCACTGACGAAGCCTCTGACACAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
681325 TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
66 TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
*
681390 TGATTGTAATCACATATTTGTTTTAC
131 TGATTGTAATCACATATTCGTTTTAC
681416 CCACTGACGAAGCCTCTGACACAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
1 CCACTGACGAAGCCTCTGACACAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
681481 TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
66 TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
681546 TGATTGTAATCACATATTCGTTTTAC
131 TGATTGTAATCACATATTCGTTTTAC
681572 C
1 C
681573 TTGTTTGTTA
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 155 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (156 bp):
CCACTGACGAAGCCTCTGACACAATAGAAGCATGATCATCACACTAAGCCACTTGGTATTAGATA
TATGATTGATTGGTCGTAGTGCTAGTAGGAGATTGTTAGAGTATGCCCAAAGACCAATCATGATA
TGATTGTAATCACATATTCGTTTTAC
Found at i:688907 original size:13 final size:13
Alignment explanation
Indices: 688889--688924 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
688879 CGCTTCTCGC
688889 CTTTTTCTTCTTT
1 CTTTTTCTTCTTT
688902 CTTTTTCTTTCTTT
1 CTTTTTC-TTCTTT
688916 -TTTTTCTTC
1 CTTTTTCTTC
688925 AATTTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 13 0.59
14 6 0.27
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
CTTTTTCTTCTTT
Found at i:689637 original size:19 final size:19
Alignment explanation
Indices: 689613--689649 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
689603 ACATTTTTAA
*
689613 TTTTAATTTTGAAAATAAT
1 TTTTAATTTTAAAAATAAT
689632 TTTTAATTTTAAAAATAA
1 TTTTAATTTTAAAAATAA
689650 CATATATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTTAATTTTAAAAATAAT
Found at i:690795 original size:122 final size:122
Alignment explanation
Indices: 690578--690824 Score: 478
Period size: 122 Copynumber: 2.0 Consensus size: 122
690568 GCTCGTCTGA
690578 CACCTGCAAAAATTGAATGCAACAACAAAAAAGGCATGCCAAGCAATAAAAACAACAGAGAAAAA
1 CACCTGCAAAAATTGAATGCAACAACAAAAAAGGCATGCCAAGCAATAAAAACAACAGAGAAAAA
690643 GACAAAAAAAAAATAGAAAACAAACAGTTTGTAATGGTCTATAAAAACAACAATAGG
66 GACAAAAAAAAAATAGAAAACAAACAGTTTGTAATGGTCTATAAAAACAACAATAGG
690700 CACCTGCAAAAATTGAATGCAACAACAAAAAAGGCATGCCAAGCAATAAAAACAACAGAGAAAAA
1 CACCTGCAAAAATTGAATGCAACAACAAAAAAGGCATGCCAAGCAATAAAAACAACAGAGAAAAA
690765 GACAAAAAAAAAAATAGAAAA-AAACAGTTTGTAATGGTCTATAAAAACAACAATAGG
66 GAC-AAAAAAAAAATAGAAAACAAACAGTTTGTAATGGTCTATAAAAACAACAATAGG
690822 CAC
1 CAC
690825 TTTGTATTTT
Statistics
Matches: 124, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
122 107 0.86
123 17 0.14
ACGTcount: A:0.57, C:0.16, G:0.14, T:0.13
Consensus pattern (122 bp):
CACCTGCAAAAATTGAATGCAACAACAAAAAAGGCATGCCAAGCAATAAAAACAACAGAGAAAAA
GACAAAAAAAAAATAGAAAACAAACAGTTTGTAATGGTCTATAAAAACAACAATAGG
Found at i:691835 original size:26 final size:25
Alignment explanation
Indices: 691741--692087 Score: 161
Period size: 26 Copynumber: 13.4 Consensus size: 25
691731 GTTTATTTAT
* *
691741 TTATTTTAAAATCTTTTCATATATTA
1 TTATTTTAAACTATTTT-ATATATTA
* *
691767 CTTATTTTTAACTATTTTAT-TACTA
1 -TTATTTTAAACTATTTTATATATTA
* * *
691792 CTTATTTTACATTTTTTTCATATATTA
1 -TTATTTTAAACTATTTT-ATATATTA
691819 TTATTTTAAACTATTTTATACT-TTA
1 TTATTTTAAACTATTTTATA-TATTA
* * * **
691844 TTAATGTTAAATTTTTTTATATGGTA
1 TT-ATTTTAAACTATTTTATATATTA
* * *
691870 TTCATTTCAAACTGTTTTAT-TGTATA
1 TT-ATTTTAAACTATTTTATATAT-TA
*
691896 TTATTTTAAACTATTATATATATTA
1 TTATTTTAAACTATTTTATATATTA
* *
691921 TTTATTTTAAATTGCTTTATATATATATA
1 -TTATTTTAAACT-ATTT-TATATAT-TA
* *
691950 TT-TTTTCGAACTATTTTATATTTTA
1 TTATTTT-AAACTATTTTATATATTA
* * * * **
691975 TT-TATGATAAGTTTTTTCATATGGT-
1 TTATTTTA-AACTATTTT-ATATATTA
* * *
692000 TTATTTTGAACCATTTTGTATATTA
1 TTATTTTAAACTATTTTATATATTA
* *
692025 TTTATTTTAAATTTGTTTTCATATATTA
1 -TTATTTTAAA-CTATTTT-ATATATTA
*
692053 TTTATTTTAAAC-CTTTT-TATATTA
1 -TTATTTTAAACTATTTTATATATTA
*
692077 TATACTTTAAA
1 T-TATTTTAAA
692088 TTGTTTTTTA
Statistics
Matches: 243, Mismatches: 57, Indels: 43
0.71 0.17 0.13
Matches are distributed among these distances:
23 1 0.00
24 19 0.08
25 66 0.27
26 94 0.39
27 31 0.13
28 30 0.12
29 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATTTTAAACTATTTTATATATTA
Found at i:692054 original size:50 final size:49
Alignment explanation
Indices: 691892--692055 Score: 152
Period size: 50 Copynumber: 3.2 Consensus size: 49
691882 TGTTTTATTG
* *
691892 TATATTATTTTAAACTATTATATATATTATTTATTTTAAATTGCTTTAT-A
1 TATATTATTTTGAACTATTTTATATATTATTTATTTTAAATTG-TTT-TCA
* ** *
691942 TATATATATTTTTTCGAACTATTTTATATTTTATTTATGATAAGTT-TTTTCA
1 TATAT-TA--TTTT-GAACTATTTTATATATTATTTATTTTAAATTGTTTTCA
* * *
691994 TATGGTTTATTTTGAACCATTTTGTATATTATTTATTTTAAATTTGTTTTCA
1 TAT--ATTATTTTGAACTATTTTATATATTATTTATTTTAAA-TTGTTTTCA
692046 TATATTATTT
1 TATATTATTT
692056 ATTTTAAACC
Statistics
Matches: 91, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
50 34 0.37
51 9 0.10
52 16 0.18
53 6 0.07
54 26 0.29
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (49 bp):
TATATTATTTTGAACTATTTTATATATTATTTATTTTAAATTGTTTTCA
Found at i:692057 original size:54 final size:53
Alignment explanation
Indices: 691896--692094 Score: 178
Period size: 54 Copynumber: 3.8 Consensus size: 53
691886 TTATTGTATA
* *
691896 TTATTTTAAACTATTATATATATTATTTATTTTAAATTGCTTTAT-ATATATATAT
1 TTATTTTAAACCATTTTATATATTATTTATTTTAAATTG-TTT-TCATATAT-TAT
** * * ** * **
691951 TT-TTTCGAACTATTTTATATTTTATTTATGATAAGTT-TTTTC--ATATGGT
1 TTATTTTAAACCATTTTATATATTATTTATTTTAAATTGTTTTCATATATTAT
* *
692000 TTATTTTGAACCATTTTGTATATTATTTATTTTAAATTTGTTTTCATATATTAT
1 TTATTTTAAACCATTTTATATATTATTTATTTTAAA-TTGTTTTCATATATTAT
* *
692054 TTATTTTAAACC-TTTT-TATATTATATACTTTAAATTGTTTT
1 TTATTTTAAACCATTTTATATATTATTTATTTTAAATTGTTTT
692095 TTACATATTA
Statistics
Matches: 117, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
49 3 0.03
50 30 0.26
51 10 0.09
52 24 0.21
53 4 0.03
54 44 0.38
55 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (53 bp):
TTATTTTAAACCATTTTATATATTATTTATTTTAAATTGTTTTCATATATTAT
Found at i:692103 original size:52 final size:54
Alignment explanation
Indices: 691985--692107 Score: 146
Period size: 52 Copynumber: 2.3 Consensus size: 54
691975 TTTATGATAA
** * * *
691985 GTTTTTT-CATATGGTTTATTTTGAACCATTTTGTATATTATTTATTTTAAATT
1 GTTTTTTACATATTATTTATTTTAAACCATTTTGTATATTATATACTTTAAATT
* *
692038 -TGTTTTCATATATTATTTATTTTAAACC-TTTT-TATATTATATACTTTAAATT
1 GT-TTTTTACATATTATTTATTTTAAACCATTTTGTATATTATATACTTTAAATT
692090 GTTTTTTACATATTATTT
1 GTTTTTTACATATTATTT
692108 TGTTTCGTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
52 33 0.57
53 9 0.16
54 16 0.28
ACGTcount: A:0.27, C:0.07, G:0.06, T:0.61
Consensus pattern (54 bp):
GTTTTTTACATATTATTTATTTTAAACCATTTTGTATATTATATACTTTAAATT
Found at i:693536 original size:26 final size:27
Alignment explanation
Indices: 693450--693544 Score: 115
Period size: 25 Copynumber: 3.6 Consensus size: 27
693440 GTTTATTTAT
* *
693450 TTATTTTAAAATCTTTTCATATATTAC
1 TTATTTTAAACTGTTTTCATATATTAC
693477 TTATTTTAAACTGTTTT-AT-TATTAC
1 TTATTTTAAACTGTTTTCATATATTAC
** *
693502 TTATTTTAAGTTTTTTTCATATATTA-
1 TTATTTTAAACTGTTTTCATATATTAC
*
693528 TTATTTTAAACTATTTT
1 TTATTTTAAACTGTTTT
693545 ATACTTTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
25 20 0.34
26 18 0.31
27 20 0.34
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (27 bp):
TTATTTTAAACTGTTTTCATATATTAC
Found at i:693657 original size:52 final size:51
Alignment explanation
Indices: 693450--693813 Score: 173
Period size: 52 Copynumber: 7.1 Consensus size: 51
693440 GTTTATTTAT
* * * *
693450 TTATTTTAAAATCTTTTCATATATTACTTATTTTAAACTGTTTTAT-TAT-TA
1 TTATTTTAAACTATTTT-ATATATTATTTATTTTAAA-TTTTTTATATATATA
** * *
693501 CTTATTTTAAGTTTTTTTCATATATTA-TTATTTTAAACTATTTTATACT-T-TA
1 -TTATTTTAAACTATTTT-ATATATTATTTATTTTAAA-TTTTTTATA-TATATA
* ** * ** ** * * *
693553 TTAATGTTAATTTTTTTTATATGGTATTCGTTTCAAACTGTTTTAT-TGTATA
1 TT-ATTTTAAACTATTTTATATATTATTTATTTTAAA-TTTTTTATATATATA
*
693605 TTATTTTAAACTATTATATATATTATTTATTTTAAATTTCTTTATATATATA
1 TTATTTTAAACTATTTTATATATTATTTATTTTAAATTT-TTTATATATATA
** * ** * **
693657 -T-TTTCGAACTATTTTATATTTTATTTATGATAAGTTTTTTCATAT-GGT-
1 TTATTTTAAACTATTTTATATATTATTTATTTTAAATTTTTT-ATATATATA
* * *
693705 TTATTTTGAACCATTTTGTATATTATTTATTTTAAATTTGTTT-TCATATATTA
1 TTATTTTAAACTATTTTATATATTATTTATTTTAAATTT-TTTAT-ATATA-TA
* * * *
693758 TTTATTTTAAAC-CTTTT-TATATTATATACTTTAAATTGTTTT-T-TACATA
1 -TTATTTTAAACTATTTTATATATTATTTATTTTAAATT-TTTTATATATATA
693807 TTATTTT
1 TTATTTT
693814 GTTTCGTTTT
Statistics
Matches: 247, Mismatches: 47, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
48 7 0.03
49 8 0.03
50 70 0.28
51 60 0.24
52 86 0.35
53 6 0.02
54 10 0.04
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (51 bp):
TTATTTTAAACTATTTTATATATTATTTATTTTAAATTTTTTATATATATA
Found at i:693669 original size:50 final size:48
Alignment explanation
Indices: 693601--693814 Score: 155
Period size: 50 Copynumber: 4.3 Consensus size: 48
693591 TGTTTTATTG
* *
693601 TATAT-TATTTTAAACTATTATATATATTATTTATTTTAAATTTCTTTA
1 TATATATATTTTGAACTATTTTATATATTATTTATTTTAAATTT-TTTA
* ** *
693649 TATATATATTTTCGAACTATTTTATATTTTATTTATGATAAGTTTTTTCA
1 TATATATATTTT-GAACTATTTTATATATTATTTATTTTAAATTTTTT-A
* * * *
693699 TATGGTTTATTTTGAACCATTTTGTATATTATTTATTTTAAATTTGTTTTCA
1 TAT-ATATATTTTGAACTATTTTATATATTATTTATTTTAAA-TT-TTTT-A
* * * * *
693751 TATATTATTTATTTTAAAC-CTTTT-TATATTATATACTTTAAATTGTTTTT
1 TATA-TA--TATTTTGAACTATTTTATATATTATTTATTTTAAATT-TTTTA
*
693801 TACATATTATTTTG
1 TATATA-TATTTTG
693815 TTTCGTTTTC
Statistics
Matches: 134, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
48 12 0.09
49 11 0.08
50 56 0.42
51 16 0.12
52 26 0.19
53 4 0.03
54 9 0.07
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (48 bp):
TATATATATTTTGAACTATTTTATATATTATTTATTTTAAATTTTTTA
Found at i:693799 original size:24 final size:25
Alignment explanation
Indices: 693441--693799 Score: 117
Period size: 26 Copynumber: 14.1 Consensus size: 25
693431 AAATTTGTTG
693441 TTTAT-TTATTTATTTTAAAATCTT-T
1 TTTATATTATTTATTTT-AAA-CTTGT
* *
693466 TCATATATTACTTATTTTAAAC-TGT
1 T-TTATATTATTTATTTTAAACTTGT
* ** *
693491 TTTATTATTACTTATTTTAAGTTTTT
1 TTTA-TATTATTTATTTTAAACTTGT
*
693517 TTCATATATTA-TTATTTTAAAC-TAT
1 TT--TATATTATTTATTTTAAACTTGT
* * * *
693542 TTTATACTTTATTAATGTT-AATTTTT
1 TTTATA--TTATTTATTTTAAACTTGT
** *
693568 TTTATATGGTATTCGTTTCAAAC-TGT
1 TTTATAT--TATTTATTTTAAACTTGT
693594 TTTAT-TGTATATTATTTTAAACTAT-T
1 TTTATAT-TAT-TTATTTTAAACT-TGT
*
693620 ATATATATTATTTATTTTAAA-TT-T
1 -TTTATATTATTTATTTTAAACTTGT
* * *
693644 CTTTATA-TATATATTTTCGAAC-TAT
1 -TTTATATTATTTATTTT-AAACTTGT
*
693669 TTTATA-T-TTTATTTATGATAAGTT-T
1 TTTATATTATTTATTT-T-A-AACTTGT
** *
693694 TTTCATATGGTTTATTTTGAACCATT-T
1 TTT-ATATTATTTATTTT-AAAC-TTGT
* *
693721 TGTATATTATTTATTTTAAATTTGTT
1 TTTATATTATTTATTTTAAACTTG-T
*
693747 TTCATATATTATTTATTTTAAACCT-T
1 TT--TATATTATTTATTTTAAACTTGT
* *
693773 TTTATATTATATACTTTAAA-TTGT
1 TTTATATTATTTATTTTAAACTTGT
693797 TTT
1 TTT
693800 TTACATATTA
Statistics
Matches: 255, Mismatches: 45, Indels: 69
0.69 0.12 0.19
Matches are distributed among these distances:
23 20 0.08
24 48 0.19
25 47 0.18
26 78 0.31
27 33 0.13
28 29 0.11
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (25 bp):
TTTATATTATTTATTTTAAACTTGT
Found at i:695160 original size:11 final size:11
Alignment explanation
Indices: 695137--695172 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
695127 AACTAATTCT
695137 CTCTCATATTTC
1 CTCTCA-ATTTC
695149 CTCTCAATTTC
1 CTCTCAATTTC
695160 CTCTCAATTTC
1 CTCTCAATTTC
695171 CT
1 CT
695173 TCCAAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.17, C:0.36, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:697454 original size:25 final size:24
Alignment explanation
Indices: 697426--697680 Score: 140
Period size: 25 Copynumber: 10.8 Consensus size: 24
697416 TATTTTGATA
*
697426 TTATTTGATGTTATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAA-T
* *
697451 TTATTTGATGTAATAAACTTGAAT
1 TTATTTGATGTAATAAAATAGAAT
* * * ** *
697475 TT-TTT--TTTAGTTATTTTG-AT
1 TTATTTGATGTAATAAAATAGAAT
*
697495 ATTATTTGATGTAATGAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAA-T
697521 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAG-AAT
* ** *
697546 TT-TTTTA-GT--T-ATTTTG-AT
1 TTATTTGATGTAATAAAATAGAAT
*
697564 ATTATTTGATGTGATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAA-T
697590 TTATTTGATGTAATAAAATAGAAT
1 TTATTTGATGTAATAAAATAGAAT
* * * * ** *
697614 TT-TTT-TTTTAGTTATGTTG-AT
1 TTATTTGATGTAATAAAATAGAAT
697635 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAA-T
*
697661 TTATTTAATGTAATAAAATA
1 TTATTTGATGTAATAAAATA
697681 TAAATTTTTG
Statistics
Matches: 171, Mismatches: 39, Indels: 40
0.68 0.16 0.16
Matches are distributed among these distances:
18 2 0.01
19 2 0.01
20 9 0.05
21 15 0.09
22 12 0.07
23 12 0.07
24 27 0.16
25 87 0.51
26 5 0.03
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (24 bp):
TTATTTGATGTAATAAAATAGAAT
Found at i:697584 original size:69 final size:70
Alignment explanation
Indices: 697416--697689 Score: 435
Period size: 69 Copynumber: 3.9 Consensus size: 70
697406 ATATTTTGAA
* * * *
697416 TATTTTGATATTATTTGATGTTATAAAATAGAAGTTTATTTGATGTAATAAACTTGAATTTTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATATTTTT
697481 TTAGT
66 TTAGT
*
697486 TATTTTGATATTATTTGATGTAATGAAATAGAAGTTTATTTGATGTAATAAAATAGAA-ATTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATATTTTT
697550 TTAGT
66 TTAGT
* *
697555 TATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAA-TATTTT
697620 TTTAGT
65 TTTAGT
* * *
697626 TATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGTAATAAAATATAA-ATTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATATTTTT
697690 GAATATTTTG
Statistics
Matches: 189, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
69 71 0.38
70 54 0.29
71 64 0.34
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (70 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATATTTTT
TTAGT
Found at i:697679 original size:140 final size:139
Alignment explanation
Indices: 697416--697689 Score: 476
Period size: 140 Copynumber: 2.0 Consensus size: 139
697406 ATATTTTGAA
* * *
697416 TATTTTGATATTATTTGATGTTATAAAATAGAAGTTTATTTGATGTAATAAACTTGAATTTTTTT
1 TATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
* * *
697481 TTAGTTATTTTGATATTATTTGATGTAATGAAATAGAAGTTTATTTGATGTAATAAAATAGAAAT
66 TTAGTTATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGTAATAAAATAGAAAT
697546 TTTTTTAGT
131 TTTTTTAGT
697555 TATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
1 TATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAAATAGAA-TTTTTT
*
697620 TTTAGTTATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGTAATAAAATATAAA
65 TTTAGTTATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGTAATAAAATAGAAA
697685 TTTTT
130 TTTTT
697690 GAATATTTTG
Statistics
Matches: 127, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
139 55 0.43
140 72 0.57
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (139 bp):
TATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAAATAGAATTTTTTT
TTAGTTATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGTAATAAAATAGAAAT
TTTTTTAGT
Found at i:697705 original size:139 final size:137
Alignment explanation
Indices: 697404--697705 Score: 478
Period size: 139 Copynumber: 2.2 Consensus size: 137
697394 TTATTTGTAC
* *
697404 AAATATTTTGAATATTTTGATATTATTTGATGTTATAAAATAGAAGTTTATTTGATGTAATAAAC
1 AAAT-TTTTGAATATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAAA
* * * *
697469 TTGAATTTTTTTTTAGTTATTTTGATATTATTTGATGTAATGAAATAGAAGTTTATTTGATGTAA
65 TAGAATTTTTTTTTAGTTATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGTAA
697534 TAAAATAG
130 TAAAATAG
* *
697542 AAATTTTTTTAGTTATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAA
1 AAA-TTTTTGA-ATATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAA
697607 ATAGAATTTTTTTTTTAGTTATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGT
64 ATAGAA-TTTTTTTTTAGTTATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGT
*
697672 AATAAAATAT
128 AATAAAATAG
697682 AAATTTTTGAATATTTTGAATATT
1 AAATTTTTGAATATTTTG-ATATT
697706 TTGATATTAT
Statistics
Matches: 149, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
138 15 0.10
139 67 0.45
140 67 0.45
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.49
Consensus pattern (137 bp):
AAATTTTTGAATATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGATGTAATAAAAT
AGAATTTTTTTTTAGTTATGTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTAATGTAAT
AAAATAG
Found at i:697779 original size:23 final size:23
Alignment explanation
Indices: 697744--697938 Score: 208
Period size: 23 Copynumber: 8.7 Consensus size: 23
697734 ATTAATACTC
*
697744 TTAACTTAAAAACCCTACCCTAAT
1 TTAA-TTAAAAACCCTAACCTAAT
*
697768 TTAATTAAAAACCCTAACC--CT
1 TTAATTAAAAACCCTAACCTAAT
*
697789 TTAACCCT-AAAACCCTAACCTAAT
1 TTAA--TTAAAAACCCTAACCTAAT
697813 TTAATTAAAAA-CCTAACCTAAT
1 TTAATTAAAAACCCTAACCTAAT
697835 TTAATTAAAAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACCTAAT
* *
697858 TAAATTAAAAATCCTAACCTAAT
1 TTAATTAAAAACCCTAACCTAAT
*
697881 TTAATTAAAAACTC-AACCTAA-
1 TTAATTAAAAACCCTAACCTAAT
**
697902 -TACCCT-AAAACCCTAACCTAAT
1 TTA-ATTAAAAACCCTAACCTAAT
* *
697924 TAAATAAAAAACCCT
1 TTAATTAAAAACCCT
697939 TTAATTAAAA
Statistics
Matches: 143, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
20 8 0.06
21 13 0.09
22 42 0.29
23 71 0.50
24 9 0.06
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (23 bp):
TTAATTAAAAACCCTAACCTAAT
Found at i:697811 original size:45 final size:44
Alignment explanation
Indices: 697744--698065 Score: 232
Period size: 45 Copynumber: 7.5 Consensus size: 44
697734 ATTAATACTC
* *
697744 TTAACTTAAAAACCCTACCCTAATTTAATTAAAAACCCTAACC-CT
1 TTAAC-TAAAAACCCTAACCTAATTTAATTAAAAA-CCTAACCAAT
697789 TTAACCCT-AAAACCCTAACCTAATTTAATTAAAAACCTAACCTAAT
1 TTAA--CTAAAAACCCTAACCTAATTTAATTAAAAACCTAACC-AAT
* *
697835 TTAATTAAAAACCCTAACCTAATTAAATTAAAAATCCTAACCTAAT
1 TTAACTAAAAACCCTAACCTAATTTAATTAAAAA-CCTAACC-AAT
* * ** *
697881 TTAATTAAAAACTC-AACCTAA--TACCCTAAAACCCTAACCTAA-
1 TTAACTAAAAACCCTAACCTAATTTA-ATTAAAAACCTAACC-AAT
* *
697923 TTAAAT-AAAA----AACC--CTTTAATTAAAAACCCTAACCTAAT
1 TTAACTAAAAACCCTAACCTAATTTAATTAAAAA-CCTAACC-AAT
* * * *
697962 TAAATTAAAAACCCTAACCTAA-TTAAAT-AAAA---AACC-CT
1 TTAACTAAAAACCCTAACCTAATTTAATTAAAAACCTAACCAAT
* *
698000 TTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAAT
1 TTAACTAAAAACCCTAACCTAATTTAATTAAAAA-CCTAACC-AAT
*
698046 TTAATTAAAAACCCTAACCT
1 TTAACTAAAAACCCTAACCT
698066 TTAACCCTAA
Statistics
Matches: 228, Mismatches: 23, Indels: 51
0.75 0.08 0.17
Matches are distributed among these distances:
37 5 0.02
38 38 0.17
39 8 0.04
40 12 0.05
41 4 0.02
42 5 0.02
43 11 0.05
44 25 0.11
45 68 0.30
46 51 0.22
47 1 0.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (44 bp):
TTAACTAAAAACCCTAACCTAATTTAATTAAAAACCTAACCAAT
Found at i:697966 original size:104 final size:110
Alignment explanation
Indices: 697744--698065 Score: 352
Period size: 104 Copynumber: 3.0 Consensus size: 110
697734 ATTAATACTC
* * *
697744 TTAACTTAAAAACCCTACCCTAATTTAATTAAAAACCCTAACCCTTTAACCCTAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTATAACCCTAAAACCCTAACC
*
697809 TAATTTAATTAAAAACCTAACCTAATTTAATTAAAAACCCTAACCTAA
66 TAATTTAAATAAAAA-C-AACC-AATTTAATTAAAAACCCTAACCTAA
* *
697857 TTAAATTAAAAATCCTAACCTAATTTAATTAAAAACTC-AA-CCTA-ATACCCTAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTATA-ACCCTAAAACCCTAAC
*
697919 CTAA-TTAAAT-AAAA-AACC-CTTTAATTAAAAACCCTAACCTAA
65 CTAATTTAAATAAAAACAACCAATTTAATTAAAAACCCTAACCTAA
* * *
697961 TTAAATTAAAAACCCTAACCTAA-TTAAAT-AAAA----AACCCTTTAA--TTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTATAACCCT-AAAACCCTAAC
698018 CTAA-TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
65 CTAATTTAAA-TAAAAA--C-AACC-AATTTAATTAAAAACCCTAACCT
698066 TTAACCCTAA
Statistics
Matches: 185, Mismatches: 12, Indels: 30
0.81 0.05 0.13
Matches are distributed among these distances:
98 1 0.01
99 22 0.12
100 5 0.03
101 5 0.03
102 4 0.02
103 5 0.03
104 45 0.24
105 4 0.02
106 4 0.02
107 21 0.11
109 4 0.02
110 6 0.03
111 23 0.12
112 2 0.01
113 34 0.18
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (110 bp):
TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTATAACCCTAAAACCCTAACC
TAATTTAAATAAAAACAACCAATTTAATTAAAAACCCTAACCTAA
Found at i:697967 original size:23 final size:23
Alignment explanation
Indices: 697941--698275 Score: 188
Period size: 23 Copynumber: 15.0 Consensus size: 23
697931 AAAACCCTTT
697941 AATTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTA
697964 AATTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTA
* *
697987 AATAAAAAACCCT---TTAATT-
1 AATTAAAAACCCTAACCTAATTA
698006 -A--AAA-ACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTA
*
698025 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTA
*
698048 AATTAAAAACCCTAACCTTTAACCCTAA
1 AATTAAAAACCCTAACC--TAA---TTA
**** *
698076 AACCCTAAAACCTTAACCTAATTA
1 AATTAAAAACCCT-AACCTAATTA
**
698100 AATTAAAAACCCTAACC-CGTT-
1 AATTAAAAACCCTAACCTAATTA
* *
698121 ACTTAAAAACCCTAACC--CTTA
1 AATTAAAAACCCTAACCTAATTA
* ***
698142 ACTT-AAAACCCTAACCCCCTTA
1 AATTAAAAACCCTAACCTAATTA
* *
698164 ACTTAAAAACCCTAACC--CTTA
1 AATTAAAAACCCTAACCTAATTA
* *
698185 ACTTAAAAACCCTAAACC--CTTA
1 AATTAAAAACCCT-AACCTAATTA
* * * *
698207 ACTTAAAAACACTTACC--CTTA
1 AATTAAAAACCCTAACCTAATTA
* * *
698228 ACTTTAAAACCCTAAACTAAGTT-
1 AATTAAAAACCCTAACCTAA-TTA
*
698251 AATTAAAAACCCTAAACTAAGTTA
1 AATTAAAAACCCTAACCTAA-TTA
698275 A
1 A
698276 TAATTTTACT
Statistics
Matches: 259, Mismatches: 30, Indels: 45
0.78 0.09 0.13
Matches are distributed among these distances:
15 5 0.02
16 3 0.01
18 6 0.02
20 20 0.08
21 57 0.22
22 33 0.13
23 103 0.40
24 13 0.05
25 3 0.01
27 3 0.01
28 9 0.03
29 4 0.02
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.26
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTA
Found at i:697976 original size:61 final size:61
Alignment explanation
Indices: 697812--698060 Score: 326
Period size: 61 Copynumber: 4.0 Consensus size: 61
697802 CCTAACCTAA
*
697812 TTTAATTAAAAA-CCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAATCCTAAC
1 TTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA-T-AAAA----AAC
*
697876 CTAA
60 C--C
* ***
697880 TTTAATTAAAAACTC-AACCTAA-TACCCT-AAAACCCTAACCTAATTAAATAAAAAACCC
1 TTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATAAAAAACCC
697938 TTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATAAAAAACCC
1 TTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATAAAAAACCC
* *
697999 TTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCC
1 TTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATAAAAAACCC
698060 T
1 T
698061 AACCTTTAAC
Statistics
Matches: 165, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
58 14 0.08
59 7 0.04
60 7 0.04
61 90 0.55
64 4 0.02
65 1 0.01
66 20 0.12
67 2 0.01
68 19 0.12
69 1 0.01
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (61 bp):
TTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATAAAAAACCC
Done.