Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 156 of 186
Found at i:51905462 original size:198 final size:198
Alignment explanation
Indices: 51905124--51905522 Score: 798
Period size: 198 Copynumber: 2.0 Consensus size: 198
51905114 TGTTATAGGA
51905124 TTATTTTTTATAAGTATAAATTTCATATTTGAAATTGATTAGTATGACTAAATTTTATACGAGCT
1 TTATTTTTTATAAGTATAAATTTCATATTTGAAATTGATTAGTATGACTAAATTTTATACGAGCT
51905189 TACTAAGCATTTACTGCTTATGTAGTTATCTTTCTTTTACTTTACATATTATTGGAAGCTCGAGC
66 TACTAAGCATTTACTGCTTATGTAGTTATCTTTCTTTTACTTTACATATTATTGGAAGCTCGAGC
51905254 AGGTTGGAAGCTCGTCGAAGATCTATCGCACTATCCAGCGATTATATCGGTAGATTCTGATGTCT
131 AGGTTGGAAGCTCGTCGAAGATCTATCGCACTATCCAGCGATTATATCGGTAGATTCTGATGTCT
51905319 TGG
196 TGG
51905322 TTATTTTTTATAAGTATAAATTTCATATTTGAAATTGATTAGTATGACTAAATTTTATACGAGCT
1 TTATTTTTTATAAGTATAAATTTCATATTTGAAATTGATTAGTATGACTAAATTTTATACGAGCT
51905387 TACTAAGCATTTACTGCTTATGTAGTTATCTTTCTTTTACTTTACATATTATTGGAAGCTCGAGC
66 TACTAAGCATTTACTGCTTATGTAGTTATCTTTCTTTTACTTTACATATTATTGGAAGCTCGAGC
51905452 AGGTTGGAAGCTCGTCGAAGATCTATCGCACTATCCAGCGATTATATCGGTAGATTCTGATGTCT
131 AGGTTGGAAGCTCGTCGAAGATCTATCGCACTATCCAGCGATTATATCGGTAGATTCTGATGTCT
51905517 TGG
196 TGG
51905520 TTA
1 TTA
51905523 AGGTTATTAT
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 201 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (198 bp):
TTATTTTTTATAAGTATAAATTTCATATTTGAAATTGATTAGTATGACTAAATTTTATACGAGCT
TACTAAGCATTTACTGCTTATGTAGTTATCTTTCTTTTACTTTACATATTATTGGAAGCTCGAGC
AGGTTGGAAGCTCGTCGAAGATCTATCGCACTATCCAGCGATTATATCGGTAGATTCTGATGTCT
TGG
Found at i:51919623 original size:40 final size:40
Alignment explanation
Indices: 51919568--51919647 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
51919558 AAAAAAAAGA
51919568 AAGATTTCTGGCTTAGAACATCCGAGACTATAATCATTTG
1 AAGATTTCTGGCTTAGAACATCCGAGACTATAATCATTTG
*
51919608 AAGATTTCTGGCTTAGAACATCCGAGACTATTATCATTTG
1 AAGATTTCTGGCTTAGAACATCCGAGACTATAATCATTTG
51919648 CCTAGAGTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (40 bp):
AAGATTTCTGGCTTAGAACATCCGAGACTATAATCATTTG
Found at i:51924435 original size:19 final size:19
Alignment explanation
Indices: 51924411--51924448 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
51924401 GTGAAAAGTC
51924411 TGATAAATTTCAAGAGTTT
1 TGATAAATTTCAAGAGTTT
51924430 TGATAAATTTCAAGAGTTT
1 TGATAAATTTCAAGAGTTT
51924449 CGTGCAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (19 bp):
TGATAAATTTCAAGAGTTT
Found at i:51927162 original size:13 final size:13
Alignment explanation
Indices: 51927144--51927168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51927134 CGGTAGGGTT
51927144 ACGCCCGTGTGAC
1 ACGCCCGTGTGAC
51927157 ACGCCCGTGTGA
1 ACGCCCGTGTGA
51927169 GTCGTGCTTC
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:0.16, C:0.36, G:0.32, T:0.16
Consensus pattern (13 bp):
ACGCCCGTGTGAC
Found at i:51932236 original size:40 final size:40
Alignment explanation
Indices: 51932206--51932455 Score: 385
Period size: 40 Copynumber: 6.3 Consensus size: 40
51932196 GGACTAAGAT
* * * *
51932206 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
51932246 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
51932286 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
51932326 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
51932366 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
51932406 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
51932445 CCGAAGGCATT
1 CCGAAGGCATT
51932456 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 33 0.17
40 166 0.83
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:51932366 original size:120 final size:119
Alignment explanation
Indices: 51932153--51932455 Score: 383
Period size: 120 Copynumber: 2.5 Consensus size: 119
51932143 TTGAATGCTG
* * * ** * * * * *
51932153 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
51932217 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
** * *
51932273 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* ** *
51932338 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
51932393 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
51932456 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
119 34 0.21
120 121 0.76
121 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:51940348 original size:39 final size:40
Alignment explanation
Indices: 51940144--51940366 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
51940134 TTGAATGCTG
* * * * * *
51940144 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
51940184 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
51940224 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
51940264 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
51940304 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
51940343 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
51940367 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:51940386 original size:79 final size:80
Alignment explanation
Indices: 51940219--51940401 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
51940209 GTGCGAGATA
* * *
51940219 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
51940284 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
51940299 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
51940363 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
51940378 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
51940402 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:51945502 original size:47 final size:47
Alignment explanation
Indices: 51945435--51945729 Score: 446
Period size: 47 Copynumber: 6.3 Consensus size: 47
51945425 CCCTTCGGGA
* * * *
51945435 CTTATCACGTTTATACACTTTCACATCCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
51945482 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
51945529 CTTATCTCATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** *
51945576 CTTATCACATATATGTACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
51945623 CTTATCACATATATACACTTTTACATTCATCACATTGGCCATTCGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
51945670 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
51945717 CTTATCACATATA
1 CTTATCACATATA
51945730 CATATCTTGT
Statistics
Matches: 222, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 222 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:51951244 original size:7 final size:7
Alignment explanation
Indices: 51951232--51951293 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
51951222 TCATAATTTC
51951232 TAAACCT
1 TAAACCT
51951239 TAAACCT
1 TAAACCT
*
51951246 TAAACCC
1 TAAACCT
51951253 TAAACCT
1 TAAACCT
51951260 TAAACC-
1 TAAACCT
* *
51951266 TAATCAT
1 TAAACCT
51951273 TAAACCT
1 TAAACCT
*
51951280 CAAA-CT
1 TAAACCT
51951286 CTAAACCT
1 -TAAACCT
51951294 AATCTTTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
6 6 0.14
7 36 0.82
8 2 0.05
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:51951278 original size:27 final size:26
Alignment explanation
Indices: 51951245--51951320 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
51951235 ACCTTAAACC
51951245 TTAAACCCTAAACCTTAAACCTAATCA
1 TTAAA-CCTAAACCTTAAACCTAATCA
*
51951272 TTAAACCTCAAA-CTCTAAACCTAATCT
1 TTAAACCT-AAACCT-TAAACCTAATCA
*
51951299 TTGAATCCTAAATCC-TAAACCT
1 TT-AAACCTAAA-CCTTAAACCT
51951321 TAAACTTGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
26 5 0.12
27 31 0.74
28 5 0.12
29 1 0.02
ACGTcount: A:0.41, C:0.29, G:0.01, T:0.29
Consensus pattern (26 bp):
TTAAACCTAAACCTTAAACCTAATCA
Found at i:51957694 original size:46 final size:45
Alignment explanation
Indices: 51957622--51957717 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 45
51957612 AAAGATACCC
* *
51957622 CTTCCAGATTAAAACCCAATATTGGATTGATAATCTTTCCACTCT
1 CTTCCAGATTAAAACCCAATACTGGATCGATAATCTTTCCACTCT
*
51957667 NCTTCTAGATTAAAACCCAATACTGGATCGATAATCTTTCCACTCT
1 -CTTCCAGATTAAAACCCAATACTGGATCGATAATCTTTCCACTCT
51957713 -TTCCA
1 CTTCCA
51957718 TTGTTATCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 4 0.09
46 42 0.91
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.34
Consensus pattern (45 bp):
CTTCCAGATTAAAACCCAATACTGGATCGATAATCTTTCCACTCT
Found at i:51964541 original size:14 final size:14
Alignment explanation
Indices: 51964519--51964549 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
51964509 CTGTGTGTCT
51964519 CACACGGCCAAAGA
1 CACACGGCCAAAGA
*
51964533 CACATGGCCAAAGA
1 CACACGGCCAAAGA
51964547 CAC
1 CAC
51964550 GCTTGTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.35, G:0.19, T:0.03
Consensus pattern (14 bp):
CACACGGCCAAAGA
Found at i:51965316 original size:242 final size:242
Alignment explanation
Indices: 51964882--51965371 Score: 854
Period size: 242 Copynumber: 2.0 Consensus size: 242
51964872 ATAGGCTATT
* *
51964882 TACCATGCCATCTTTCTCACCCAAATTGCAATCACCTACACCCAACCAAAAGGCATATAATATGG
1 TACCAAGCCATCTTTCTCACCCAAATTGCAATCACCTACACCCAACCAAAAGGCATAGAATATGG
*
51964947 CATAAGTAGGCATTTCAACCAATCTCAACCAAGCCTAATTCATACTAAATCCATACTATCATCTA
66 CATAAGTAGGCATTCCAACCAATCTCAACCAAGCCTAATTCATACTAAATCCATACTATCATCTA
** *
51965012 TATGACATACAAGTATTGCAAATAGTCATTCAATTTCATACCAAATTTACATTCTCAAATCACCT
131 TATGACATACAAGTATCACAAATAGTCATTCAATTTCATACCAAATTCACATTCTCAAATCACCT
51965077 AAATGGTCAATTTCATTTATGCATCACATTGCCTAAAATCACAAGCA
196 AAATGGTCAATTTCATTTATGCATCACATTGCCTAAAATCACAAGCA
* * *
51965124 TACCAAGCGATCTTTCTCACCCAAATTGCAATCACCTACACCTAACCAAAAGGCATAGAATGTGG
1 TACCAAGCCATCTTTCTCACCCAAATTGCAATCACCTACACCCAACCAAAAGGCATAGAATATGG
* * *
51965189 CATAAGTAGGCATTCCAACCAATCTCAACCATGCCTAATTCATGCTAAATCCATACTATCATTTA
66 CATAAGTAGGCATTCCAACCAATCTCAACCAAGCCTAATTCATACTAAATCCATACTATCATCTA
*
51965254 TATGACATACAAGTATCACAAATAGTCATTCAATTTCATACCAAATTCATATTCTCAAATCACCT
131 TATGACATACAAGTATCACAAATAGTCATTCAATTTCATACCAAATTCACATTCTCAAATCACCT
*
51965319 AAATGGTCACTTTCATTTATGCATCACATTGCCTAAAATCACAAGCA
196 AAATGGTCAATTTCATTTATGCATCACATTGCCTAAAATCACAAGCA
51965366 TACCAA
1 TACCAA
51965372 TTCTCAATTT
Statistics
Matches: 234, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
242 234 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.28
Consensus pattern (242 bp):
TACCAAGCCATCTTTCTCACCCAAATTGCAATCACCTACACCCAACCAAAAGGCATAGAATATGG
CATAAGTAGGCATTCCAACCAATCTCAACCAAGCCTAATTCATACTAAATCCATACTATCATCTA
TATGACATACAAGTATCACAAATAGTCATTCAATTTCATACCAAATTCACATTCTCAAATCACCT
AAATGGTCAATTTCATTTATGCATCACATTGCCTAAAATCACAAGCA
Found at i:51967300 original size:49 final size:49
Alignment explanation
Indices: 51967234--51967477 Score: 290
Period size: 49 Copynumber: 4.9 Consensus size: 49
51967224 TAGCCAAAGC
* * * * *
51967234 TATCTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
51967283 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
51967332 TATCCGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * * * *
51967382 CATCTGATACAGGTAGCAACCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * * *
51967433 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGAC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
51967478 TTCACAATAG
Statistics
Matches: 166, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 89 0.54
50 40 0.24
51 36 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:51967466 original size:101 final size:98
Alignment explanation
Indices: 51967234--51967477 Score: 308
Period size: 101 Copynumber: 2.5 Consensus size: 98
51967224 TAGCCAAAGC
* * * ** *
51967234 TATCTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAACCATCCGATACACGTAG
* *
51967299 TAGCCTGCACTTAGTACTACACACGTGACCAAT
66 CAACCTGCACTTAGTACTACACACGTGACCAAT
* * * * *
51967332 TATCCGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACAGGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AACCATCCGATACACGTA
*
51967397 GCAACCTGCACTTAGTACTACACACGTGATCACAGT
65 GCAACCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
51967433 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
51967478 TTCACAATAG
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 40 0.33
99 40 0.33
100 1 0.01
101 42 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAACCATCCGATACACGTAG
CAACCTGCACTTAGTACTACACACGTGACCAAT
Found at i:51975452 original size:40 final size:40
Alignment explanation
Indices: 51975404--51975611 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
51975394 GGGATTTAAT
* *
51975404 CGGATATAGCT-ACTCACTCAAATGCCTTCGGGACATAGCC
1 CGGATATAG-TAACTCACACAAATGCCTTCGGGACTTAGCC
* * *
51975444 CGGATATAGTAACTCGCACCAATGCCTTCGAGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCC
*
51975484 CGGATATAGTAACTCACACAAATGCCTTCAGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCC
*
51975524 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCC
* *
51975564 CGGA-ACTAGTCACT-AGCGCAAATGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCA-CACAAATGCCTTCGGGACTTAGCC
*
51975604 CGGTTATA
1 CGGATATA
51975612 ATCCAAATAT
Statistics
Matches: 149, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
39 2 0.01
40 146 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCC
Found at i:51977820 original size:31 final size:32
Alignment explanation
Indices: 51977759--51977820 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
51977749 TCAACTAACA
*
51977759 CAACTAACACAACAAATTTTTTCATGCTCTAC
1 CAACTAACACAACAAATTTTTTCATACTCTAC
51977791 CAACTAACACAACAAATTTTTTCA-ACTCTA
1 CAACTAACACAACAAATTTTTTCATACTCTA
51977821 GAATCCTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 5 0.17
32 24 0.83
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (32 bp):
CAACTAACACAACAAATTTTTTCATACTCTAC
Found at i:51979312 original size:21 final size:21
Alignment explanation
Indices: 51979286--51979341 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
51979276 AACAACGATG
*
51979286 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
51979307 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
51979328 ACGGTGAGATTAGA
1 GCGGTGAGATTAGA
51979342 AATAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:51985423 original size:175 final size:175
Alignment explanation
Indices: 51985207--51985553 Score: 511
Period size: 175 Copynumber: 2.0 Consensus size: 175
51985197 CACGGCCAAG
* * * * *
51985207 GCACACGCCCGTGTGCTAGGCCTTGCACTTCACACGGCTGAGACACATGGTCGTGTCTCTACCTG
1 GCACACGCCCGTGTACTAGGCCGTGCACTTCACACGGCTGAGACACACGGCCGTGTCTCTACCCG
*
51985272 TGTGTTTACTACCATGCATACTAACTTACAATTCTTACGTGCTA-GGGACACAC-GACCATATCA
66 TGTGTTTACTACCATGCATACTAACTTACAATTCTTACGT-CCAGGGGACACACAG-CCATATCA
* *
51985335 CACGCCGATGTGGTAAACCGTGTGTCACACACGGCCTAGGCACACTA
129 CACGCCCATGTGGTAAACCGTGTGTCACACACGGCCTAGACACACTA
* * *
51985382 GCACACGCCCGTGTACTAGGCCGTG-ACCTTCATAGGGCTGAGACACACGGCCGTGTCTCTTCCC
1 GCACACGCCCGTGTACTAGGCCGTGCA-CTTCACACGGCTGAGACACACGGCCGTGTCTCTACCC
* *
51985446 GTGTGTTTACTACCATGCATATTGACTTACAATTCTTACGTCCAGGGGACACACAGCCATATCAC
65 GTGTGTTTACTACCATGCATACTAACTTACAATTCTTACGTCCAGGGGACACACAGCCATATCAC
**
51985511 ACGCCCATGTGGTAAATTGTGTGTCACACACGGCCTAGACACA
130 ACGCCCATGTGGTAAACCGTGTGTCACACACGGCCTAGACACA
51985554 TGCCGCTGTG
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
174 3 0.02
175 150 0.97
176 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (175 bp):
GCACACGCCCGTGTACTAGGCCGTGCACTTCACACGGCTGAGACACACGGCCGTGTCTCTACCCG
TGTGTTTACTACCATGCATACTAACTTACAATTCTTACGTCCAGGGGACACACAGCCATATCACA
CGCCCATGTGGTAAACCGTGTGTCACACACGGCCTAGACACACTA
Found at i:51998315 original size:41 final size:42
Alignment explanation
Indices: 51998198--51998315 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 42
51998188 ACCGTTATAA
* * * * * *
51998198 AACATGATCTTTAGTGGCACTTTTTCTACAAATGCCGCTATAG
1 AACATGATCTTTAGCGACGCTTTTT-TACAAACGCCACTAAAG
* * *
51998241 AACGTGATCTTTAGCGATGCTTTTATTACAAACGCCACTAAAT
1 AACATGATCTTTAGCGACGCTTTT-TTACAAACGCCACTAAAG
*
51998284 AACATGATTTTTAGCGACG-TTTTTTACAAACG
1 AACATGATCTTTAGCGACGCTTTTTTACAAACG
51998316 TCGCAAGAGA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 9 0.15
42 4 0.06
43 48 0.77
44 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (42 bp):
AACATGATCTTTAGCGACGCTTTTTTACAAACGCCACTAAAG
Found at i:52001415 original size:16 final size:16
Alignment explanation
Indices: 52001394--52001425 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52001384 TGTGTAACGC
*
52001394 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
52001410 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
52001426 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:52002945 original size:29 final size:29
Alignment explanation
Indices: 52002895--52003009 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
52002885 GTAAGCATGA
* **
52002895 ATATGAATGTGAC-TGGGCCTAACAGGCC
1 ATATAAATGTGACTTGGGCCTAATGGGCC
* *
52002923 ATATAAATGTTATTTGGGCCTAATGGGCC
1 ATATAAATGTGACTTGGGCCTAATGGGCC
*
52002952 ATATACATGTGACTTGGGCCTAATGGGCC
1 ATATAAATGTGACTTGGGCCTAATGGGCC
* * * *
52002981 ATATGAATATGA-ATGGGCTTAATGGGCC
1 ATATAAATGTGACTTGGGCCTAATGGGCC
52003009 A
1 A
52003010 AATCCAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 25 0.34
29 48 0.66
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGACTTGGGCCTAATGGGCC
Found at i:52003004 original size:57 final size:57
Alignment explanation
Indices: 52002901--52003009 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
52002891 ATGAATATGA
* * *
52002901 ATGTGACTGGGCCTAACAGGCCATATAAATGTTATTTGGGCCTAATGGGCCATATAC
1 ATGTGACTGGGCCTAACAGGCCATATAAATATGATATGGGCCTAATGGGCCATATAC
** * *
52002958 ATGTGACTTGGGCCTAATGGGCCATATGAATATGA-ATGGGCTTAATGGGCCA
1 ATGTGAC-TGGGCCTAACAGGCCATATAAATATGATATGGGCCTAATGGGCCA
52003010 AATCCAGGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 22 0.50
58 22 0.50
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (57 bp):
ATGTGACTGGGCCTAACAGGCCATATAAATATGATATGGGCCTAATGGGCCATATAC
Found at i:52007114 original size:24 final size:24
Alignment explanation
Indices: 52007064--52007114 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
52007054 ATGAATTGGC
* * * *
52007064 AAAAGCCGAAATACCGAAATGATG
1 AAAAGCCAAAATACCAAAAAGACG
*
52007088 AAAAGCCAAAATGCCAAAAAGACG
1 AAAAGCCAAAATACCAAAAAGACG
52007112 AAA
1 AAA
52007115 GTTTGGCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.18, G:0.18, T:0.08
Consensus pattern (24 bp):
AAAAGCCAAAATACCAAAAAGACG
Found at i:52007265 original size:17 final size:18
Alignment explanation
Indices: 52007233--52007267 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52007223 ACGAGCCAGA
52007233 ATGGGCTAAATGGGCCCG
1 ATGGGCTAAATGGGCCCG
*
52007251 ATGGGCT-ATTGGGCCCG
1 ATGGGCTAAATGGGCCCG
52007268 TAATAGGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.20
Consensus pattern (18 bp):
ATGGGCTAAATGGGCCCG
Found at i:52007380 original size:29 final size:28
Alignment explanation
Indices: 52007325--52007437 Score: 109
Period size: 29 Copynumber: 4.0 Consensus size: 28
52007315 GTGAGGATGA
* * * *
52007325 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
52007353 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
52007382 ATATATAGGTGACTTGGGCCTAATGGGTC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
52007411 ATATGAATATGAATGGGCTTAATGGGC
1 ATATAAATGTGATTGGGCCTAATGGGC
52007438 TAGATACAAG
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
28 23 0.33
29 46 0.67
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:52011312 original size:7 final size:7
Alignment explanation
Indices: 52011302--52011333 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
52011292 ATAATATATA
52011302 TATCAAG
1 TATCAAG
52011309 TATCAAG
1 TATCAAG
52011316 TATCAAG
1 TATCAAG
*
52011323 CATCAAG
1 TATCAAG
52011330 TATC
1 TATC
52011334 TAATTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (7 bp):
TATCAAG
Found at i:52011660 original size:35 final size:34
Alignment explanation
Indices: 52011614--52011711 Score: 139
Period size: 31 Copynumber: 2.9 Consensus size: 34
52011604 TTTTTATATT
*
52011614 CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
1 CTTTAAATGTTTAT-TAAGTTATGATTATCATAAA
52011649 CTTTAAATG--T-TTAAGTTATGATTATCATAAA
1 CTTTAAATGTTTATTAAGTTATGATTATCATAAA
*
52011680 CTTTGAATGTTTATATAAGTTATGATTATCAT
1 CTTTAAATGTTTAT-TAAGTTATGATTATCAT
52011712 CTTTAAATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
31 27 0.47
32 1 0.02
33 2 0.04
34 1 0.02
35 26 0.46
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (34 bp):
CTTTAAATGTTTATTAAGTTATGATTATCATAAA
Found at i:52018599 original size:41 final size:41
Alignment explanation
Indices: 52018510--52018599 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
52018500 TAAATTCGCG
*
52018510 GCGTTTATGGCAAAAATGCCGCTATTACTTTACCTTTTACA
1 GCGTTTATGGCAAAAACGCCGCTATTACTTTACCTTTTACA
* *
52018551 GCATTTATGGGC-AAAACGCCGCTATTACTTTACCTTTTGCA
1 GCGTTTAT-GGCAAAAACGCCGCTATTACTTTACCTTTTACA
*
52018592 GTGTTTAT
1 GCGTTTAT
52018600 TGTAACACCC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 40 0.93
42 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (41 bp):
GCGTTTATGGCAAAAACGCCGCTATTACTTTACCTTTTACA
Found at i:52022441 original size:27 final size:27
Alignment explanation
Indices: 52022319--52022512 Score: 169
Period size: 27 Copynumber: 7.2 Consensus size: 27
52022309 GGGCAAATCA
* * *
52022319 ATCATTTTACCTTACAGGGGTATTACG
1 ATCATTTTACCCTATAGGGGTATTTCG
* * *
52022346 AACATTTTACCCTACAGGGGTATTACAG
1 ATCATTTTACCCTATAGGGGTATTTC-G
** * *
52022374 A-CATTTTACCCTACCGAGGTATTTAG
1 ATCATTTTACCCTATAGGGGTATTTCG
* * *
52022400 GTCATTTTAACCTATAAGGGTATTTCG
1 ATCATTTTACCCTATAGGGGTATTTCG
* *
52022427 ATCATTTTACCCTAT-GTGCTATTTCG
1 ATCATTTTACCCTATAGGGGTATTTCG
* * *
52022453 GTCATTTTACCCTATGGGGGTATTTTG
1 ATCATTTTACCCTATAGGGGTATTTCG
* *
52022480 GTCATTTTACCCTAT-GAGGGAATTTCG
1 ATCATTTTACCCTATAG-GGGTATTTCG
52022507 ATCATT
1 ATCATT
52022513 ACATCAGCAC
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
26 24 0.17
27 112 0.81
28 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (27 bp):
ATCATTTTACCCTATAGGGGTATTTCG
Found at i:52022467 original size:53 final size:53
Alignment explanation
Indices: 52022348--52022497 Score: 176
Period size: 53 Copynumber: 2.8 Consensus size: 53
52022338 GTATTACGAA
* * * *
52022348 CATTTTACCCTACAGGGGTATTACAGA-CATTTTACCCTACCGAGGTATTTAGGT
1 CATTTTACCCTATAGGGGTATTTC-GATCATTTTACCCTA-TGAGCTATTTAGGT
* * * *
52022402 CATTTTAACCTATAAGGGTATTTCGATCATTTTACCCTATGTGCTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGCTATTTAGGT
* * *
52022455 CATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGAG
1 CATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAG
52022498 GGAATTTCGA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
53 49 0.60
54 32 0.40
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (53 bp):
CATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGCTATTTAGGT
Found at i:52022562 original size:12 final size:12
Alignment explanation
Indices: 52022545--52022575 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52022535 AATAGCCTAA
52022545 GCCCATGAGGTC
1 GCCCATGAGGTC
52022557 GCCCATGAGGTC
1 GCCCATGAGGTC
52022569 GCCCATG
1 GCCCATG
52022576 GTGGCCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (12 bp):
GCCCATGAGGTC
Found at i:52030064 original size:18 final size:18
Alignment explanation
Indices: 52030041--52030078 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
52030031 TTTTTTTTCT
*
52030041 CTTTGCTAAGTTCT-TCAA
1 CTTTGC-AAGCTCTGTCAA
52030059 CTTTGCAAGCTCTGTCAA
1 CTTTGCAAGCTCTGTCAA
52030077 CT
1 CT
52030079 AGAACAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (18 bp):
CTTTGCAAGCTCTGTCAA
Found at i:52034311 original size:42 final size:42
Alignment explanation
Indices: 52034264--52034345 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
52034254 AAGCAATTTG
* *
52034264 AAGTTGGAGATCTTGTCCTGTTATATAACGCGAGGCTCAATA
1 AAGTTGGAGATCTTGTCCTATTACATAACGCGAGGCTCAATA
* *
52034306 AAGTTGGAGATCTTTTCCTATTACATAACTCGAGGCTCAA
1 AAGTTGGAGATCTTGTCCTATTACATAACGCGAGGCTCAA
52034346 ATTGTTTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (42 bp):
AAGTTGGAGATCTTGTCCTATTACATAACGCGAGGCTCAATA
Found at i:52037266 original size:13 final size:13
Alignment explanation
Indices: 52037248--52037273 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52037238 CTAAGCCATC
52037248 CCACACGGGCGTG
1 CCACACGGGCGTG
52037261 CCACACGGGCGTG
1 CCACACGGGCGTG
52037274 TCCCTGTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.38, T:0.08
Consensus pattern (13 bp):
CCACACGGGCGTG
Found at i:52038414 original size:14 final size:14
Alignment explanation
Indices: 52038395--52038422 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52038385 CCTATACACC
52038395 AACATTCATCAATA
1 AACATTCATCAATA
52038409 AACATTCATCAATA
1 AACATTCATCAATA
52038423 TGTTAGTCTC
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:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (14 bp):
AACATTCATCAATA
Found at i:52043542 original size:18 final size:17
Alignment explanation
Indices: 52043510--52043543 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52043500 AACTGAATGG
52043510 ACTTTTAATTAAATTTT
1 ACTTTTAATTAAATTTT
*
52043527 ACTTTATAATTTAATTT
1 ACTTT-TAATTAAATTT
52043544 GGGTATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
ACTTTTAATTAAATTTT
Found at i:52046737 original size:28 final size:28
Alignment explanation
Indices: 52046674--52046771 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
52046664 ATATTAAGTC
*
52046674 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
52046701 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
52046729 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
52046758 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52046772 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52051727 original size:40 final size:40
Alignment explanation
Indices: 52051627--52051732 Score: 95
Period size: 40 Copynumber: 2.6 Consensus size: 40
52051617 GGGCTTCGGG
* * *
52051627 CCTAGTAGGCTATAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTA-AATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * **
52051669 TCTAGCAGGCTTCGTGCCGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
*
52051709 CCTAGCAGGCTAAATGCCGATGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
52051733 TTGATAAAAG
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
40 32 0.65
41 8 0.16
42 9 0.18
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:52057977 original size:50 final size:49
Alignment explanation
Indices: 52057738--52058042 Score: 154
Period size: 46 Copynumber: 6.4 Consensus size: 49
52057728 TAGTGTATGA
* * ** * **
52057738 CATGTCTGGGACAT-GCATCGACCAC-ATTATGAGATCCAGGGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCTCGAAGATGAGAGCCAGTATAAGAC
* * * * * * *
52057785 CATGTCTGGGACATGGCATCAGCATTG-AGACGAGTGCTAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGGCCTCGAAGATGAGAGCCAGTATAAGAC
* * * * **
52057832 CATGTTTGGGACAT-GCATCAGCCTCG-GGACGTA-AGCCAAAATAAGA-
1 CATGTCTGGGACATGGCATCGGCCTCGAAGATG-AGAGCCAGTATAAGAC
* * * * * *
52057878 CATCTCTGGGACAT-GCTTTGG-CTACG-AGAT--GTGTCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCT-CGAAGATGAGAGCCAGTATAAGAC
* * *
52057923 CATGTCTGGGACATGGCATCGGCACGGT-TATG-TGAGAGCTAGTATAAGAC
1 CATGTCTGGGACATGGCATCGGC-C--TCGAAGATGAGAGCCAGTATAAGAC
* * * * *
52057973 CATGTTTGGGACATGGCATTGGCCTCGAAGATGATAGCCAGTGTAAGAT
1 CATGTCTGGGACATGGCATCGGCCTCGAAGATGAGAGCCAGTATAAGAC
52058022 CATGTCTGGGACATGGCATCG
1 CATGTCTGGGACATGGCATCG
52058043 ACACTTTACC
Statistics
Matches: 190, Mismatches: 52, Indels: 30
0.70 0.19 0.11
Matches are distributed among these distances:
44 8 0.04
45 15 0.08
46 47 0.25
47 29 0.15
48 23 0.12
49 35 0.18
50 33 0.17
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
CATGTCTGGGACATGGCATCGGCCTCGAAGATGAGAGCCAGTATAAGAC
Found at i:52064846 original size:27 final size:27
Alignment explanation
Indices: 52064815--52064992 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
52064805 TAAATTGTAC
52064815 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52064842 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52064868 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52064896 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
52064924 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52064951 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
52064978 AGCACTGAGTATGCG
1 AGCACTAAGTGTGCG
52064993 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52064929 original size:82 final size:81
Alignment explanation
Indices: 52064816--52064971 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52064806 AAATTGTACA
* *
52064816 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
52064880 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52064897 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
52064962 TGCGAGTTGA
65 TGCGAATTGA
52064972 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52067581 original size:20 final size:20
Alignment explanation
Indices: 52067556--52067596 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
52067546 CTTAAGGGGC
*
52067556 AGATTCAGCTTGCCTTTGCG
1 AGATTCAACTTGCCTTTGCG
52067576 AGATTCAACTTGCCTTTGCG
1 AGATTCAACTTGCCTTTGCG
52067596 A
1 A
52067597 CCAAATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (20 bp):
AGATTCAACTTGCCTTTGCG
Found at i:52067675 original size:62 final size:62
Alignment explanation
Indices: 52067586--52067802 Score: 434
Period size: 62 Copynumber: 3.5 Consensus size: 62
52067576 AGATTCAACT
52067586 TGCCTTTGCGACCAAATCTAAGAATTTTCTTTGTGAGTACCCAATAACGCGCAAATTCAGCC
1 TGCCTTTGCGACCAAATCTAAGAATTTTCTTTGTGAGTACCCAATAACGCGCAAATTCAGCC
52067648 TGCCTTTGCGACCAAATCTAAGAATTTTCTTTGTGAGTACCCAATAACGCGCAAATTCAGCC
1 TGCCTTTGCGACCAAATCTAAGAATTTTCTTTGTGAGTACCCAATAACGCGCAAATTCAGCC
52067710 TGCCTTTGCGACCAAATCTAAGAATTTTCTTTGTGAGTACCCAATAACGCGCAAATTCAGCC
1 TGCCTTTGCGACCAAATCTAAGAATTTTCTTTGTGAGTACCCAATAACGCGCAAATTCAGCC
52067772 TGCCTTTGCGACCAAATCTAAGAATTTTCTT
1 TGCCTTTGCGACCAAATCTAAGAATTTTCTT
52067803 CCACGAAGAC
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 155 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (62 bp):
TGCCTTTGCGACCAAATCTAAGAATTTTCTTTGTGAGTACCCAATAACGCGCAAATTCAGCC
Found at i:52070245 original size:46 final size:44
Alignment explanation
Indices: 52070161--52070280 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 44
52070151 GTATAATGCC
*
52070161 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-GTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGGCT
* *
52070207 GATGCATGTCCCAGAAATGTCTTACACTGGCTTACATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGGCT
52070253 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
52070281 AGCACACACA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 12 0.18
45 14 0.21
46 41 0.61
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGGCT
Found at i:52075909 original size:42 final size:42
Alignment explanation
Indices: 52075850--52075932 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
52075840 TAACTGTGAA
52075850 TCGGCAAGAGTTGAAAAGTTAAAATATCGGAACCTCGGCATT
1 TCGGCAAGAGTTGAAAAGTTAAAATATCGGAACCTCGGCATT
*
52075892 TCGGCAAGAGTTGAAAAGTTAAAATATCGGACCCTCGGCAT
1 TCGGCAAGAGTTGAAAAGTTAAAATATCGGAACCTCGGCAT
52075933 GCGAAGCCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (42 bp):
TCGGCAAGAGTTGAAAAGTTAAAATATCGGAACCTCGGCATT
Found at i:52078665 original size:37 final size:37
Alignment explanation
Indices: 52078606--52078712 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
52078596 AGCTCAGACG
* *
52078606 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52078643 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52078680 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
52078713 AAATATATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52078991 original size:48 final size:48
Alignment explanation
Indices: 52078839--52078992 Score: 238
Period size: 48 Copynumber: 3.2 Consensus size: 48
52078829 GGTCGTTCGG
*
52078839 CCACAATATACGTATCTCATACATATTTCACATT-GACCATTCAGCTTTA
1 CCAC-ATATACATATCTCATACATATTTCACATTAG-CCATTCAGCTTTA
** *
52078888 CCACATACGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTA
*
52078936 CCACATATACATATCTCATACATATTTCACATTAGCCATTCCGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTA
52078984 CCACATATA
1 CCACATATA
52078993 TGCATTTTCA
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
48 92 0.95
49 5 0.05
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTA
Found at i:52079055 original size:47 final size:47
Alignment explanation
Indices: 52078963--52079061 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 47
52078953 ATACATATTT
* * ** *
52078963 CACATTAGCCATTCCGCTTTACCACATATATGCATTTTCATATTCAC
1 CACATTAGCCATTCCGCCTTACCACACATATGCATGCTCACATTCAC
* * * *
52079010 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTAGCCATTCCGCCTTACCACACATATGCATGCTCACATTCAC
52079057 CACAT
1 CACAT
52079062 AAAATCCTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CACATTAGCCATTCCGCCTTACCACACATATGCATGCTCACATTCAC
Found at i:52082925 original size:40 final size:40
Alignment explanation
Indices: 52082893--52083084 Score: 312
Period size: 40 Copynumber: 4.8 Consensus size: 40
52082883 CCAGCATGAT
* * * *
52082893 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52082933 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
52082973 TGCTCTTTGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
52083013 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
52083053 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
52083085 CTCAATTCTC
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:52083239 original size:13 final size:13
Alignment explanation
Indices: 52083221--52083249 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52083211 AGATTTATAG
52083221 TCATAACACTCTT
1 TCATAACACTCTT
52083234 TCATAACACTCTT
1 TCATAACACTCTT
52083247 TCA
1 TCA
52083250 AAATTGCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
TCATAACACTCTT
Found at i:52084417 original size:37 final size:37
Alignment explanation
Indices: 52084358--52084466 Score: 175
Period size: 37 Copynumber: 2.9 Consensus size: 37
52084348 AGCACAGACG
*
52084358 AAATCTCCACACGA-AGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACA
52084395 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* *
52084432 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGA
52084467 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 1 0.01
37 67 0.99
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:52084660 original size:48 final size:48
Alignment explanation
Indices: 52084603--52084694 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
52084593 ACAATATACG
*
52084603 TATCTCATACATATTTCACATT-GACCATTCAGCTTTACCACATACGCA
1 TATCTCATACATATTTCACATTAG-CCATTCAGCTTTACAACATACGCA
*
52084651 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACAACATA
1 TATCTCATACATATTTCACATTAGCCATTCAGCTTTACAACATA
52084695 TATGCATGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TATCTCATACATATTTCACATTAGCCATTCAGCTTTACAACATACGCA
Found at i:52084728 original size:47 final size:47
Alignment explanation
Indices: 52084667--52084765 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
52084657 ATACATATTT
* * * *
52084667 CACATTAGCCATTCGGCTTTA-CAACATATATGCATGTTCATATTCAC
1 CACATTAGCCATTCGGCCTTATC-ACACATATGCATGCTCACATTCAC
* *
52084714 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTAGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAC
52084761 CACAT
1 CACAT
52084766 AAAATCCTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 44 0.98
48 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.31
Consensus pattern (47 bp):
CACATTAGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAC
Found at i:52088350 original size:8 final size:8
Alignment explanation
Indices: 52088317--52088371 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
52088307 ATAAGATATT
52088317 TAATATATA
1 TAATATA-A
*
52088326 TAATATAT
1 TAATATAA
*
52088334 TATTATAA
1 TAATATAA
*
52088342 TAATTTAA
1 TAATATAA
52088350 TAATATAA
1 TAATATAA
*
52088358 TAAGAT-A
1 TAATATAA
52088365 TAATATA
1 TAATATA
52088372 TTAAGTAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
7 6 0.16
8 24 0.65
9 7 0.19
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (8 bp):
TAATATAA
Found at i:52098772 original size:21 final size:20
Alignment explanation
Indices: 52098740--52098778 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
52098730 GCCATTCAGC
*
52098740 CGTGTACAATAATACACGGG
1 CGTGTACAATAACACACGGG
*
52098760 CGTGCTACCATAACACACG
1 CGTG-TACAATAACACACG
52098779 AGTGTGGGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (20 bp):
CGTGTACAATAACACACGGG
Found at i:52100726 original size:6 final size:6
Alignment explanation
Indices: 52100701--52100761 Score: 72
Period size: 6 Copynumber: 10.2 Consensus size: 6
52100691 TGAATCCTCC
* *
52100701 TATTTT TTTTATT TAGTTT TATTTTT TATTTT TA-TTT TATTTT TA-TTT
1 TATTTT TATT-TT TATTTT TA-TTTT TATTTT TATTTT TATTTT TATTTT
52100749 TATTTT TATTTT T
1 TATTTT TATTTT T
52100762 TTTCATTTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
5 10 0.21
6 28 0.60
7 9 0.19
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:52100727 original size:17 final size:17
Alignment explanation
Indices: 52100705--52100788 Score: 77
Period size: 17 Copynumber: 4.9 Consensus size: 17
52100695 TCCTCCTATT
52100705 TTTTTTA-TTTAGTTTTA
1 TTTTTTATTTTA-TTTTA
52100722 TTTTTTATTTTTATTTTA
1 TTTTTTA-TTTTATTTTA
52100740 -TTTTTATTTTATTTT-
1 TTTTTTATTTTATTTTA
* *
52100755 TATTTTT-TTTCATTTCAA
1 T-TTTTTATTTTATTT-TA
*
52100773 TTTATTATTTTATTTT
1 TTTTTTATTTTATTTT
52100789 GAAAGACAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
16 16 0.29
17 22 0.40
18 13 0.24
19 4 0.07
ACGTcount: A:0.18, C:0.02, G:0.01, T:0.79
Consensus pattern (17 bp):
TTTTTTATTTTATTTTA
Found at i:52100732 original size:5 final size:5
Alignment explanation
Indices: 52100701--52100788 Score: 64
Period size: 5 Copynumber: 18.2 Consensus size: 5
52100691 TGAATCCTCC
*
52100701 TATTT T-TTT TA-TT TAGTTT TATTT T-TTA T-TTT TATTT TATTTT TATTT
1 TATTT TATTT TATTT TA-TTT TATTT TATTT TATTT TATTT TA-TTT TATTT
* *
52100749 TATTTT TATTT T-TTT TCATTT CAATT TA--T TATTT TATTT T
1 TA-TTT TATTT TATTT T-ATTT TATTT TATTT TATTT TATTT T
52100789 GAAAGACAGA
Statistics
Matches: 68, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
3 3 0.04
4 18 0.26
5 30 0.44
6 17 0.25
ACGTcount: A:0.18, C:0.02, G:0.01, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:52105185 original size:15 final size:16
Alignment explanation
Indices: 52105151--52105189 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
52105141 TAAGAACAGA
* *
52105151 GAAAGAAACTAAATAG
1 GAAAGAAACGAAAAAG
52105167 GAAAGAAA-GAAAAAG
1 GAAAGAAACGAAAAAG
52105182 GAAAGAAA
1 GAAAGAAA
52105190 AAGAAAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (16 bp):
GAAAGAAACGAAAAAG
Found at i:52105993 original size:6 final size:6
Alignment explanation
Indices: 52105982--52106015 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
52105972 TATGTGTCGA
* *
52105982 TTACTG TTACTG TTACTG TTACTG CTATTG TTAC
1 TTACTG TTACTG TTACTG TTACTG TTACTG TTAC
52106016 CCTTACGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (6 bp):
TTACTG
Found at i:52107007 original size:22 final size:22
Alignment explanation
Indices: 52106976--52107030 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
52106966 GGGTTGATGG
* * *
52106976 CACGGGCGTGTCATATCAGACA
1 CACGGACGTGTCACATAAGACA
*
52106998 CACGGACGTGTCACATAAGCCA
1 CACGGACGTGTCACATAAGACA
52107020 CACGGACGTGT
1 CACGGACGTGT
52107031 GGTACCTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.16
Consensus pattern (22 bp):
CACGGACGTGTCACATAAGACA
Found at i:52107190 original size:15 final size:15
Alignment explanation
Indices: 52107170--52107200 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52107160 CATGTAAATG
52107170 TGTTGCATTTATTCC
1 TGTTGCATTTATTCC
52107185 TGTTGCATTTATTCC
1 TGTTGCATTTATTCC
52107200 T
1 T
52107201 AGTTAGGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.13, T:0.55
Consensus pattern (15 bp):
TGTTGCATTTATTCC
Found at i:52107506 original size:26 final size:26
Alignment explanation
Indices: 52107471--52107545 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
52107461 GAAGACTTTC
*
52107471 CAGATGATATGCCACAAAGGTTTTTT
1 CAGATAATATGCCACAAAGGTTTTTT
* ***
52107497 CAGATAATATGGCACAAAACCTTTTT
1 CAGATAATATGCCACAAAGGTTTTTT
* *
52107523 -AGAGAATTTGCCACAAAGGTTTT
1 CAGATAATATGCCACAAAGGTTTT
52107546 CCAAAGGGCT
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (26 bp):
CAGATAATATGCCACAAAGGTTTTTT
Found at i:52107558 original size:25 final size:25
Alignment explanation
Indices: 52107530--52107648 Score: 100
Period size: 25 Copynumber: 4.8 Consensus size: 25
52107520 TTTAGAGAAT
* *
52107530 TTGCCACAAAGGTTTTCCAAAGGGC
1 TTGCCACAAAGGCTTTCCAAAGAGC
* * *
52107555 TTGCCACAAAGGCTTTCTAGAGAGT
1 TTGCCACAAAGGCTTTCCAAAGAGC
* **
52107580 TTTCCACAAAGGCTTTCCAAA-AAA
1 TTGCCACAAAGGCTTTCCAAAGAGC
* *
52107604 TTCACCACAAAGGCTTTCCAAAGA-A
1 TT-GCCACAAAGGCTTTCCAAAGAGC
52107629 TT-CACTACAAAGGCTTTCCA
1 TTGC-C-ACAAAGGCTTTCCA
52107649 GATAGTTCAC
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.01
24 4 0.05
25 73 0.92
26 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (25 bp):
TTGCCACAAAGGCTTTCCAAAGAGC
Found at i:52107598 original size:13 final size:13
Alignment explanation
Indices: 52107533--52107598 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
52107523 AGAGAATTTG
*
52107533 CCACAAAGGTTTT
1 CCACAAAGGCTTT
* *
52107546 CCA-AAGGGCTTG
1 CCACAAAGGCTTT
52107558 CCACAAAGGCTTT
1 CCACAAAGGCTTT
* * * *
52107571 CTAGAGA-GTTTT
1 CCACAAAGGCTTT
52107583 CCACAAAGGCTTT
1 CCACAAAGGCTTT
52107596 CCA
1 CCA
52107599 AAAAATTCAC
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
12 17 0.45
13 21 0.55
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (13 bp):
CCACAAAGGCTTT
Found at i:52107657 original size:25 final size:25
Alignment explanation
Indices: 52107558--52107744 Score: 180
Period size: 25 Copynumber: 7.5 Consensus size: 25
52107548 AAAGGGCTTG
* * **
52107558 CCACAAAGGCTTTCTAGAGAGTTTT
1 CCACAAAGGCTTTCCAGAGAATTCA
* *
52107583 CCACAAAGGCTTTCCAAAAAATTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
*
52107608 CCACAAAGGCTTTCCAAAGAATTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
* * *
52107633 CTACAAAGGCTTTCCAGATAGTTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
* * *
52107658 CTA-AAAGGCTTTCTAGAGAATTCT
1 CCACAAAGGCTTTCCAGAGAATTCA
* * *
52107682 CCACAAAAGCTTTCTAGAGAATTCG
1 CCACAAAGGCTTTCCAGAGAATTCA
* * *
52107707 CAATAAAGGCTTTCCAGAGAAATT-G
1 CCACAAAGGCTTTCCAGAG-AATTCA
52107732 CCACAAAGGCTTT
1 CCACAAAGGCTTT
52107745 TCAGGTAATT
Statistics
Matches: 136, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
24 19 0.14
25 113 0.83
26 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (25 bp):
CCACAAAGGCTTTCCAGAGAATTCA
Found at i:52107694 original size:74 final size:75
Alignment explanation
Indices: 52107560--52107744 Score: 194
Period size: 74 Copynumber: 2.5 Consensus size: 75
52107550 AGGGCTTGCC
* ** *
52107560 ACAAAGGCTTTCTAGAGAGTTTTCCACAAAGGCTTTCCAAAAAATTCACCACAAAGGCTTTCCAA
1 ACAAAGGCTTTCCAGAGAGTTCACCACAAAGGCTTTCCAAAAAATTCACCACAAAAGCTTTCCAA
*
52107625 AGAATTCACT
66 AGAATTCACA
* * * * * * * *
52107635 ACAAAGGCTTTCCAGATAGTTCACTA-AAAGGCTTTCTAGAGAATTCTCCACAAAAGCTTTCTAG
1 ACAAAGGCTTTCCAGAGAGTTCACCACAAAGGCTTTCCAAAAAATTCACCACAAAAGCTTTCCAA
*
52107699 AGAATTCGCA
66 AGAATTCACA
* * *
52107709 ATAAAGGCTTTCCAGAGAAATT-GCCACAAAGGCTTT
1 ACAAAGGCTTTCCAGAG-AGTTCACCACAAAGGCTTT
52107745 TCAGGTAATT
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
74 56 0.63
75 33 0.37
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (75 bp):
ACAAAGGCTTTCCAGAGAGTTCACCACAAAGGCTTTCCAAAAAATTCACCACAAAAGCTTTCCAA
AGAATTCACA
Found at i:52107694 original size:99 final size:99
Alignment explanation
Indices: 52107562--52107744 Score: 244
Period size: 99 Copynumber: 1.8 Consensus size: 99
52107552 GGCTTGCCAC
* * * *
52107562 AAAGGCTTTCTAGAGAGTTTTCCACAAAGGCTTTCCAAAAAATTCACCACAAAGGCTTTCCAAAG
1 AAAGGCTTTCTAGAGAATTCTCCACAAAAGCTTTCCAAAAAATTCACAACAAAGGCTTTCCAAAG
52107627 -AATT-CACTACAAAGGCTTTCCAGATAGTTCACTA
66 AAATTGC-C-ACAAAGGCTTTCCAGATAGTTCACTA
* * * * * *
52107661 AAAGGCTTTCTAGAGAATTCTCCACAAAAGCTTTCTAGAGAATTCGCAATAAAGGCTTTCCAGAG
1 AAAGGCTTTCTAGAGAATTCTCCACAAAAGCTTTCCAAAAAATTCACAACAAAGGCTTTCCAAAG
52107726 AAATTGCCACAAAGGCTTT
66 AAATTGCCACAAAGGCTTT
52107745 TCAGGTAATT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
99 66 0.92
100 5 0.07
101 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (99 bp):
AAAGGCTTTCTAGAGAATTCTCCACAAAAGCTTTCCAAAAAATTCACAACAAAGGCTTTCCAAAG
AAATTGCCACAAAGGCTTTCCAGATAGTTCACTA
Found at i:52120091 original size:42 final size:42
Alignment explanation
Indices: 52120013--52120092 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
52120003 GTGCAGGTTT
*
52120013 CACACAGCCAAGACACACGCCCGTGTTCTAGGCCGTGTACAA
1 CACACAGCCAAGACACACGCCCGTGTTCTAGCCCGTGTACAA
** * *
52120055 CACACAGCTGAGATACACGCCTGTGTCTCT-GCCCGTGT
1 CACACAGCCAAGACACACGCCCGTGT-TCTAGCCCGTGT
52120093 GCTCAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.91
43 3 0.09
ACGTcount: A:0.24, C:0.35, G:0.23, T:0.19
Consensus pattern (42 bp):
CACACAGCCAAGACACACGCCCGTGTTCTAGCCCGTGTACAA
Found at i:52134216 original size:73 final size:73
Alignment explanation
Indices: 52134127--52134305 Score: 286
Period size: 73 Copynumber: 2.5 Consensus size: 73
52134117 GAGTCACATG
*
52134127 GCCAAGTCACACGCCCGTGTGCTAGGCCGTGTGAGCATACTGACTTGCAATATTAAGGTGCAAGG
1 GCCAAGTCACACGCCCGTGTGCTAGGCCGTGTGAGCATACTAACTTGCAATATTAAGGTGCAAGG
52134192 GTTATACT
66 GTTATACT
* * *
52134200 GCCAAGTCACACGCCCGTGTCCTAGGCCGTGTAAGCATACTAACTTGCAATATTAAGTTGCAAGG
1 GCCAAGTCACACGCCCGTGTGCTAGGCCGTGTGAGCATACTAACTTGCAATATTAAGGTGCAAGG
*
52134265 GTTATATT
66 GTTATACT
** *
52134273 GCCAAGTCACATACCTGTGTGCTAGGCCGTGTG
1 GCCAAGTCACACGCCCGTGTGCTAGGCCGTGTG
52134306 TCATACACGG
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 96 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (73 bp):
GCCAAGTCACACGCCCGTGTGCTAGGCCGTGTGAGCATACTAACTTGCAATATTAAGGTGCAAGG
GTTATACT
Found at i:52135119 original size:14 final size:15
Alignment explanation
Indices: 52135100--52135130 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
52135090 AATTAATCAG
52135100 TTCATAACA-ATTCA
1 TTCATAACATATTCA
52135114 TTCATAACATATTCA
1 TTCATAACATATTCA
52135129 TT
1 TT
52135131 TCTTATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCATAACATATTCA
Found at i:52135419 original size:41 final size:39
Alignment explanation
Indices: 52135297--52135431 Score: 125
Period size: 41 Copynumber: 3.4 Consensus size: 39
52135287 CCAGTTTGGT
*
52135297 ACCCAGTACCTCATCGAA-TAATTCGAAGTAATAAGTTGAC
1 ACCCAGTGCCTCATCGAATTAA-TCGAAGTAATAA-TTGAC
* * * * * *
52135337 ACCCAGTGTCTCATC-AGCTAAATCAAAGT-A-AATGGGC
1 ACCCAGTGCCTCATCGA-ATTAATCGAAGTAATAATTGAC
52135374 ACCCAGTGCCTCATCGAATTAATCCGAAGTAATAGATTGAC
1 ACCCAGTGCCTCATCGAATTAAT-CGAAGTAATA-ATTGAC
*
52135415 ACCCAGTGTCTCATCGA
1 ACCCAGTGCCTCATCGA
52135432 CTCGAGGTCA
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 8 0.11
39 3 0.04
40 20 0.27
41 22 0.30
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (39 bp):
ACCCAGTGCCTCATCGAATTAATCGAAGTAATAATTGAC
Found at i:52136273 original size:11 final size:12
Alignment explanation
Indices: 52136244--52136279 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
52136234 AAACCCTAAT
*
52136244 TCTTCTTCTTTC
1 TCTTTTTCTTTC
52136256 TCTTTTTCTTTC
1 TCTTTTTCTTTC
52136268 -CTTTTTCTTTC
1 TCTTTTTCTTTC
52136279 T
1 T
52136280 TTCTTCTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:52136360 original size:28 final size:30
Alignment explanation
Indices: 52136346--52136416 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
52136336 ATTTAGTTAT
52136346 TATAATATAATTTTAGTTATTATAATATAA
1 TATAATATAATTTTAGTTATTATAATATAA
* * *
52136376 TATAATATAA-TATAATATAATATAATATAA
1 TATAATATAATTTTAGT-TATTATAATATAA
52136406 TATAATATAAT
1 TATAATATAAT
52136417 ATATACTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.11
30 32 0.89
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (30 bp):
TATAATATAATTTTAGTTATTATAATATAA
Found at i:52136362 original size:20 final size:20
Alignment explanation
Indices: 52136337--52136376 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
52136327 CTTTTATTTA
52136337 TTTAGTTATTATAATATAAT
1 TTTAGTTATTATAATATAAT
52136357 TTTAGTTATTATAATATAAT
1 TTTAGTTATTATAATATAAT
52136377 ATAATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAGTTATTATAATATAAT
Found at i:52136374 original size:5 final size:5
Alignment explanation
Indices: 52136366--52136419 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
52136356 TTTTAGTTAT
52136366 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
52136416 TATA
1 TATA
52136420 TACTTAACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:52137019 original size:10 final size:8
Alignment explanation
Indices: 52136961--52137028 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 8
52136951 TATAATGTAC
52136961 ATATATT-
1 ATATATTA
52136968 ATATACTTA
1 ATATA-TTA
*
52136977 GTAT-TTA
1 ATATATTA
* *
52136984 AGAAATTA
1 ATATATTA
52136992 ATATATTA
1 ATATATTA
52137000 ATATATTA
1 ATATATTA
52137008 ATATAATATA
1 ATAT-AT-TA
*
52137018 ATATAATA
1 ATATATTA
52137026 ATA
1 ATA
52137029 AAATAAAGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 9 0.18
8 28 0.57
9 6 0.12
10 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (8 bp):
ATATATTA
Found at i:52138011 original size:44 final size:44
Alignment explanation
Indices: 52137930--52138021 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
52137920 TGTACAGGGA
*
52137930 TACTTCGACCTTGAGTCGATGAGGCACTAATAATGTCGTA-TCGT
1 TACTTCAACCTTGAGTCGATGAGGCACTAATAATGTCGTACT-GT
* * * *
52137974 TACTTCAACTTTGTGTCGATGAGGCACT-TTATGTGTCGTACTGT
1 TACTTCAACCTTGAGTCGATGAGGCACTAATA-ATGTCGTACTGT
52138018 TACT
1 TACT
52138022 GATATTTCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.05
44 38 0.93
45 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (44 bp):
TACTTCAACCTTGAGTCGATGAGGCACTAATAATGTCGTACTGT
Found at i:52152294 original size:26 final size:26
Alignment explanation
Indices: 52152258--52152311 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
52152248 ACAATGACTT
52152258 AGCCAAATACATGCCAAAATAATATC
1 AGCCAAATACATGCCAAAATAATATC
52152284 AGCCAAATACATGCCAAAATAATATC
1 AGCCAAATACATGCCAAAATAATATC
52152310 AG
1 AG
52152312 ACAATATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (26 bp):
AGCCAAATACATGCCAAAATAATATC
Found at i:52155881 original size:50 final size:50
Alignment explanation
Indices: 52155799--52155944 Score: 197
Period size: 48 Copynumber: 3.0 Consensus size: 50
52155789 AAAAGGGTAA
* * *
52155799 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC
* * * * *
52155849 GGTGCCAATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC
*
52155897 GAAGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA
52155945 AATGTCGTGC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 40 0.50
49 2 0.03
50 38 0.47
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC
Found at i:52156927 original size:12 final size:12
Alignment explanation
Indices: 52156910--52156934 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52156900 AAAACCCTAA
52156910 ACTCGCAACCAT
1 ACTCGCAACCAT
52156922 ACTCGCAACCAT
1 ACTCGCAACCAT
52156934 A
1 A
52156935 TTGCAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.40, G:0.08, T:0.16
Consensus pattern (12 bp):
ACTCGCAACCAT
Found at i:52164876 original size:50 final size:50
Alignment explanation
Indices: 52164801--52165195 Score: 364
Period size: 50 Copynumber: 7.9 Consensus size: 50
52164791 TCCGTTGTGA
* * *
52164801 GTCACTTGTGTAGTACTAAGTGCAGGCTACTGTGTGTACCAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * * *
52164851 GTCACATATGTAGTATTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * ** * * *
52164902 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* ** *
52164952 GTCACATGTATAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * *
52165002 GTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCT-TACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATG-TGTACCAGATTGA--TAG
* * * * * * *
52165053 ATCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* *
52165103 GTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
*** * *
52165153 GTTGTATGTGTAGTACTAAGTCCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
52165196 GAGCTTCTAT
Statistics
Matches: 271, Mismatches: 66, Indels: 16
0.77 0.19 0.05
Matches are distributed among these distances:
49 6 0.02
50 193 0.71
51 70 0.26
52 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Found at i:52164982 original size:101 final size:101
Alignment explanation
Indices: 52164802--52164983 Score: 256
Period size: 101 Copynumber: 1.8 Consensus size: 101
52164792 CCGTTGTGAG
* ** * * * *
52164802 TCACTTGTGTAGTACTAAGTGCAGGCTACTGTGTGTACCAAATTGATAGGTCACATATGTAGTAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGATAAGTCACATATATAGTAC
52164867 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
** * * *
52164903 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAAGTCACATGTATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGATAAGTCACATATATAGTAC
52164968 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
52164984 CATGTACCAG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGATAAGTCACATATATAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
Found at i:52165067 original size:101 final size:101
Alignment explanation
Indices: 52164953--52165142 Score: 272
Period size: 101 Copynumber: 1.9 Consensus size: 101
52164943 GATGGTTAAG
* * * *
52164953 TCACATGTATAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAAGTCGCATGTGTAGTTC
1 TCACATGTATAGTACTAAGTGCAAGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
*
52165018 TAAGTGCAGGCTACTATGCTTACCCGTTAACTTTGA
66 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGA
* * ** * *
52165054 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATGGTTAAGTCACATGTGTAGTAC
1 TCACATGTATAGTACTAAGTGCAAGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
*
52165119 TAAGTGTAGGCTACTATGCGTACC
66 TAAGTGCAGGCTACTATGCGTACC
52165143 AGATTGATAG
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (101 bp):
TCACATGTATAGTACTAAGTGCAAGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGA
Found at i:52165074 original size:151 final size:151
Alignment explanation
Indices: 52164800--52165192 Score: 590
Period size: 151 Copynumber: 2.6 Consensus size: 151
52164790 ATCCGTTGTG
* * * * *
52164800 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTGTGTGTACCAAATTGATAGGTCACATATGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
52164865 AT-TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGC
66 -TCTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAAGC
*
52164929 TACTACGTGTATTAGATGGTTA
130 TACTACGTGTATCAGATGGTTA
* ** *
52164951 AGTCACATGTATAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAAGTCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
52165016 TCTAAGTGCAGGCTACTATGCTTACCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGCAAGCT
66 TCTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAAGCT
*
52165081 ACTATGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * * *
52165102 AGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATTGATAGGTTGTATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
52165167 ACTAAGTCCAGGCTACTATGCGTACC
66 TCTAAGTGCAGGCTACTATGCGTACC
52165193 AGAGAGCTTC
Statistics
Matches: 216, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
150 1 0.00
151 215 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (151 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGT
TCTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAAGCT
ACTACGTGTATCAGATGGTTA
Found at i:52165416 original size:16 final size:16
Alignment explanation
Indices: 52165395--52165426 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52165385 AGAATGGAGT
52165395 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
52165411 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
52165427 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:52167617 original size:48 final size:49
Alignment explanation
Indices: 52167507--52167973 Score: 450
Period size: 48 Copynumber: 9.6 Consensus size: 49
52167497 AGGGTAAGAT
* * * * * *
52167507 GCCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATATATC-AG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-ACATATCAAG
*
52167556 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC-CTACATGTCAAG
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTACATATCAAG
* * *
52167605 GCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCT-CATATAAAT
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTACATATCAAG
* * *
52167653 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATC-GG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-ACATATCAAG
* * * * *
52167702 TGTCGATGCCATGTACCAAACATGGTCTTACACTAGC-CCACATGTCGAG
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTACATATCAAG
* * *
52167751 TCCGATGCCATG-TCCTAAACATGGTCTTACACTAGCTCT-CATATAAAT
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTACATATCAAG
** * * * * *
52167799 GTTGATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATATATCGAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-ACATATCAAG
* * * * *
52167849 ACTGATGCCATGTTCCAAACATGGTCTTACACTAGC-CCACATGTCGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTACATATCAAG
* * * * * *
52167897 GCCAATGCCATGTCCCAGACATGGTCTTGCACTAGCTCT-CATATAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTACATATCAAG
52167945 GCCGATGCCATGTTCCAAACATGGTCTTA
1 GCCGATGCCATGTTCCAAACATGGTCTTA
52167974 TGCCGATGCC
Statistics
Matches: 340, Mismatches: 63, Indels: 30
0.79 0.15 0.07
Matches are distributed among these distances:
47 5 0.01
48 212 0.62
49 17 0.05
50 106 0.31
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTACATATCAAG
Found at i:52167709 original size:98 final size:95
Alignment explanation
Indices: 52167507--52167973 Score: 494
Period size: 98 Copynumber: 4.8 Consensus size: 95
52167497 AGGGTAAGAT
* * * *
52167507 GCCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATATATCAGTGCCGATGCCATGTTC
1 GCCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTC
*
52167572 CAAACATGGTCTTACACTAGCCT-ACATGTCAAG
63 CAAACATGGTCTTACACTAGCCTCACATATC-AG
52167605 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
* * *
52167670 AACATGGTCTTACACTGGCTCTCATATATCGG
65 AACATGGTCTTACACTAGC-CTCACATATCAG
* * * * * **
52167702 TGTCGATGCCATGTACCAAACATGGTCTTACACTAGCCCACATGTCGA-GTCCGATGCCATG-TC
1 -GCCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCATATAAATG-CCGATGCCATGTTC
* * *
52167765 CTAAACATGGTCTTACACTAG-CTCTCATATAAAT
63 C-AAACATGGTCTTACACTAGCCTCACATAT-CAG
** * * * * * *
52167799 GTTGATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATATATCGATACTGATGCCATGTTC
1 GCCGATGCCATG-TCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTC
*
52167864 CAAACATGGTCTTACACTAGCC-CACATGTCGAG
63 CAAACATGGTCTTACACTAGCCTCACATATC-AG
* *
52167897 GCCAATGCCATGTCCCAGACATGGTCTTGCACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
52167962 AACATGGTCTTA
65 AACATGGTCTTA
52167974 TGCCGATGCC
Statistics
Matches: 309, Mismatches: 44, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
96 109 0.35
97 11 0.04
98 183 0.59
99 6 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (95 bp):
GCCGATGCCATGTCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAA
ACATGGTCTTACACTAGCCTCACATATCAG
Found at i:52167773 original size:146 final size:146
Alignment explanation
Indices: 52167505--52167973 Score: 751
Period size: 146 Copynumber: 3.2 Consensus size: 146
52167495 AAAGGGTAAG
* * * * * *
52167505 ATGCCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATATATCAGTGCCGATGCCATGT
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGACGATGCCATGT
* *
52167570 TCCAAACATGGTCTTACACTAGCCTACATGTCAAGGCCGATGCCATGTCCTAGACATGGTCTTAC
66 TCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCCTAGACATGGTCTTAC
52167635 ACTAGCTCTCATATAA
131 ACTAGCTCTCATATAA
*
52167651 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGTCGATGCCATGT
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGACGATGCCATGT
* * *
52167716 ACCAAACATGGTCTTACACTAGCCCACATGTCGAGTCCGATGCCATGTCCTAAACATGGTCTTAC
66 TCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCCTAGACATGGTCTTAC
52167781 ACTAGCTCTCATATAA
131 ACTAGCTCTCATATAA
** * *
52167797 ATGTTGATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATATATCGAT-ACTGATGCCATG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGAC-GATGCCATG
* * *
52167861 TTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCAATGCCATGTCCCAGACATGGTCTTG
65 TTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCCTAGACATGGTCTTA
52167926 CACTAGCTCTCATATAA
130 CACTAGCTCTCATATAA
52167943 ATGCCGATGCCATGTTCCAAACATGGTCTTA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTA
52167974 TGCCGATGCC
Statistics
Matches: 297, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
145 1 0.00
146 296 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (146 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGACGATGCCATGT
TCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCCTAGACATGGTCTTAC
ACTAGCTCTCATATAA
Found at i:52167979 original size:30 final size:30
Alignment explanation
Indices: 52167943--52168003 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
52167933 TCTCATATAA
52167943 ATGCCGATGCCATGTTCCAAACATGGTCTT
1 ATGCCGATGCCATGTTCCAAACATGGTCTT
52167973 ATGCCGATGCCATGTTCCAAACATGGTCTT
1 ATGCCGATGCCATGTTCCAAACATGGTCTT
52168003 A
1 A
52168004 CACTGGCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (30 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTT
Found at i:52172613 original size:18 final size:18
Alignment explanation
Indices: 52172590--52172644 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
52172580 ACCATGTTAA
52172590 AAATGTTAGATTAATTTG
1 AAATGTTAGATTAATTTG
**
52172608 AAATGTTA-AGTT-GCTTG
1 AAATGTTAGA-TTAATTTG
52172625 AAATGTTAGATTAATTTG
1 AAATGTTAGATTAATTTG
52172643 AA
1 AA
52172645 CTCATCACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (18 bp):
AAATGTTAGATTAATTTG
Found at i:52174288 original size:48 final size:48
Alignment explanation
Indices: 52174055--52174286 Score: 392
Period size: 48 Copynumber: 4.8 Consensus size: 48
52174045 TATATATGTG
*
52174055 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
52174103 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
52174151 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
52174199 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGTAAA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
52174247 TATGGTAAAGCCGAATGGCTAGTGTGAAATGTGAATGAGA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGA
52174287 CAAGTGTGAA
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 174 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:52174293 original size:22 final size:22
Alignment explanation
Indices: 52174267--52174310 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
52174257 CCGAATGGCT
*
52174267 AGTGTGAAATGTGAATGAGACA
1 AGTGTGAAATATGAATGAGACA
52174289 AGTGTGAAATATGAATGAGACA
1 AGTGTGAAATATGAATGAGACA
52174311 TGTATATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.30, T:0.23
Consensus pattern (22 bp):
AGTGTGAAATATGAATGAGACA
Found at i:52174301 original size:70 final size:70
Alignment explanation
Indices: 52174219--52174356 Score: 240
Period size: 70 Copynumber: 2.0 Consensus size: 70
52174209 CCGAATGGCT
* *
52174219 AGTGTGAAATATGTATGAGACATGTAAATATGGTAAAGCCGAATGGCTAGTGTGAAATGTGAATG
1 AGTGTGAAATATGAATGAGACATGTAAATATGGTAAAGCCGAATGGCTAGTGTGAAATATGAATG
52174284 AGACA
66 AGACA
* *
52174289 AGTGTGAAATATGAATGAGACATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATG
1 AGTGTGAAATATGAATGAGACATGTAAATATGGTAAAGCCGAATGGCTAGTGTGAAATATGAATG
52174354 AGA
66 AGA
52174357 TATGTATATG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.38, C:0.07, G:0.29, T:0.26
Consensus pattern (70 bp):
AGTGTGAAATATGAATGAGACATGTAAATATGGTAAAGCCGAATGGCTAGTGTGAAATATGAATG
AGACA
Found at i:52174320 original size:144 final size:144
Alignment explanation
Indices: 52174055--52174445 Score: 383
Period size: 166 Copynumber: 2.6 Consensus size: 144
52174045 TATATATGTG
* * *
52174055 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTAAATATGGTAAAGCCGAATG
* * * * *
52174120 GCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATAT
66 GCTAGTGTGAAATATGAATGAGAAATGTAAATATGGTAAAGCAGAATGGCTAATGTGAAATATAT
52174185 ATGAGATATGTATA
131 ATGAGATATGTATA
*
52174199 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGTAAATATGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTAAATATGGTAAAGCCGAATG
*
52174264 GCTAGTGTGAAATGTGAATGAGACAAGTGTGAAATAT-G-AATGAGACATGTATATGTGGTAAAG
66 GCTAGTGTGAAATATGAATGAGA-AA-TGT-AAATATGGTAA--AG-CA-G-A-A--T-G----G
*
52174327 CCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
115 -C-TA-----A-TGTGAAATAT-ATATGAGATATGTATA
* * * * * *
52174365 TGTGGTAAAGCCGAATGGTTAGTGTGAAATATGTACGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTAAATATGGTAAAGCCGAATG
52174430 GCTAGTGTGAAATATG
66 GCTAGTGTGAAATATG
52174446 TAGGAGATGT
Statistics
Matches: 205, Mismatches: 17, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
144 82 0.40
145 3 0.01
146 4 0.02
147 6 0.03
148 1 0.00
149 1 0.00
150 1 0.00
151 1 0.00
153 1 0.00
154 1 0.00
158 1 0.00
159 1 0.00
160 1 0.00
165 1 0.00
166 99 0.48
167 1 0.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (144 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTAAATATGGTAAAGCCGAATG
GCTAGTGTGAAATATGAATGAGAAATGTAAATATGGTAAAGCAGAATGGCTAATGTGAAATATAT
ATGAGATATGTATA
Found at i:52174381 original size:118 final size:118
Alignment explanation
Indices: 52174173--52174394 Score: 374
Period size: 118 Copynumber: 1.9 Consensus size: 118
52174163 GAATGGCTAA
* *
52174173 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 TGTGAAATATATATGAGACATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
52174238 ACATGTAAATATGGTAAAGCCGAATGGCTAGTGTGAAATGTGAATGAGACAAG
66 ACATGTAAATATGGTAAAGCCGAATGGCTAGTGTGAAATGTGAATGAGACAAG
52174291 TGTGAAATATGA-ATGAGACATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGA
1 TGTGAAATAT-ATATGAGACATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGA
* * * *
52174355 GATATGTATATGTGGTAAAGCCGAATGGTTAGTGTGAAAT
65 GACATGTAAATATGGTAAAGCCGAATGGCTAGTGTGAAAT
52174395 ATGTACGAGA
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 96 0.99
119 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.29
Consensus pattern (118 bp):
TGTGAAATATATATGAGACATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
ACATGTAAATATGGTAAAGCCGAATGGCTAGTGTGAAATGTGAATGAGACAAG
Found at i:52174397 original size:166 final size:166
Alignment explanation
Indices: 52174123--52174442 Score: 552
Period size: 166 Copynumber: 1.9 Consensus size: 166
52174113 CCGAATGGCT
* *
52174123 AGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
1 AGTGTGAAATATGAATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
*
52174188 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGACATGTAAATATGGT
66 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTACGAGACATGTAAATATGGT
52174253 AAAGCCGAATGGCTAGTGTGAAATGTGAATGAGACA
131 AAAGCCGAATGGCTAGTGTGAAATGTGAATGAGACA
*
52174289 AGTGTGAAATATGAATGAGACATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-AT
1 AGTGTGAAATATGAATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATAT
* * * *
52174353 GAGATATGTATATGTGGTAAAGCCGAATGGTTAGTGTGAAATATGTACGAGATATGTATATGTGG
65 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTACGAGACATGTAAATATGG
52174418 TAAAGCCGAATGGCTAGTGTGAAAT
130 TAAAGCCGAATGGCTAGTGTGAAAT
52174443 ATGTAGGAGA
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
166 144 0.99
167 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (166 bp):
AGTGTGAAATATGAATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTACGAGACATGTAAATATGGT
AAAGCCGAATGGCTAGTGTGAAATGTGAATGAGACA
Found at i:52174453 original size:48 final size:48
Alignment explanation
Indices: 52174289--52174445 Score: 278
Period size: 48 Copynumber: 3.3 Consensus size: 48
52174279 GAATGAGACA
*
52174289 AGTGTGAAATATGAATGAGACATGTATATGTGGTAAAGCCGAATGGCT
1 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCT
*
52174337 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGTT
1 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCT
* *
52174385 AGTGTGAAATATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCT
1 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCT
52174433 AGTGTGAAATATG
1 AGTGTGAAATATG
52174446 TAGGAGATGT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 104 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (48 bp):
AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:52174648 original size:37 final size:37
Alignment explanation
Indices: 52174598--52174696 Score: 162
Period size: 37 Copynumber: 2.7 Consensus size: 37
52174588 ATATATTCCG
52174598 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* * *
52174635 GGTAAGACCCGATGACTATGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
*
52174672 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
52174697 GGACTATTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
Found at i:52179827 original size:50 final size:50
Alignment explanation
Indices: 52179710--52180104 Score: 461
Period size: 50 Copynumber: 7.8 Consensus size: 50
52179700 ATTGTGAGAA
* * * *
52179710 CACATGTGTAGTACTACGTGTAGGCTACTATGTGTTTAAGACA-ATT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGT
*
52179762 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
52179812 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * ** *
52179863 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
52179913 CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAAATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * *
52179963 CGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* *
52180013 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
52180063 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
52180105 AGGTTCGGTT
Statistics
Matches: 295, Mismatches: 45, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
48 2 0.01
49 4 0.01
50 219 0.74
51 40 0.14
52 30 0.10
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:52180137 original size:150 final size:150
Alignment explanation
Indices: 52179757--52180101 Score: 375
Period size: 151 Copynumber: 2.3 Consensus size: 150
52179747 AAGACAATTT
* * * * * * * *
52179757 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGACTACTACGCGTACCAAATGGATAGGTCACAAGGGTA
** * * * * * * **
52179822 GTACTAAGTGCAGGCTACTATGCGTACCTGATAGTTTCGATCACGTGTGTAGTACTAAGTGAAGG
66 GTACTAAGCACAGGCTACTACGTGTATCAGATGGATAAG-TCACGTGTGTAGTACTAAGTGAAGG
** *
52179887 CTACTACGTGTATTAGATGGT
130 CTACTACGTGTACCAGATGGA
* * * * * *
52179908 TAGGTCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAAATTGATAGGTCGCATGTGTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGACTACTACGCGTACCAAATGGATAGGTCACAAGGGTA
** *
52179973 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGCAGGC
66 GTACTAAGCACAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGAAGGC
*
52180038 TACTACGTGTACCAGATTGA
131 TACTACGTGTACCAGATGGA
* * *
52180058 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TAGGTCACATGTGTAGTACTAAGTGCAGACTACTACGCGTACCA
52180102 GATAGGTTCG
Statistics
Matches: 172, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
150 80 0.47
151 92 0.53
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (150 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGACTACTACGCGTACCAAATGGATAGGTCACAAGGGTA
GTACTAAGCACAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGAAGGC
TACTACGTGTACCAGATGGA
Found at i:52181043 original size:179 final size:178
Alignment explanation
Indices: 52180708--52181044 Score: 450
Period size: 179 Copynumber: 1.9 Consensus size: 178
52180698 ACTATCAGAT
* * * * *
52180708 AGTGAAATAGGGGTATCTTTAATGAATAAATTTTACTAATTTGCTAAATAAAAAATTCTAAAAAT
1 AGTGAAATAGGGGTAACTTTAATGAATAAACTGTACTAATTGGCTAAACAAAAAATTCTAAAAAT
* *
52180773 TTTATGATAAGAATATATGTGAGTTCAGTTTCTGGGAAAATTATCAGTTCTTAATTTGGAGTCCC
66 TTTATGATAAGAATATATGTGAGTTCAGTTTCTAGGAAAATTATCAGATCTTAATTTGGAGTCCC
* *
52180838 GTACAATGAGATAAATAACTTTTAGTAAAGAGAGGTCGGAACTGTTGGAC
131 ATAC-ATCAGATAAATAAC-TTTAGTAAAGAGAGGTCGGAACTGTTGGAC
* *
52180888 AGTGAAATAGGGGTAACTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAA-
1 AGTGAAATAGGGGTAACTTTAATGAATAAACTGTACTAATTGGCTAAACAAAAAATTCTAAAAAT
* *
52180952 TTTATGGTAAGAATATATGTGAG-TCTAGTTTCTAGGAAAATTAAT-AGATCTTAATTTGGAGTT
66 TTTATGATAAGAATATATGTGAGTTC-AGTTTCTAGGAAAATT-ATCAGATCTTAATTTGGAGTC
52181015 CCATAGC-TCCAGCTATAAATAA-TTTAGTAA
129 CCATA-CAT-CAG--ATAAATAACTTTAGTAA
52181045 CTGTGACTCA
Statistics
Matches: 138, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
178 3 0.02
179 67 0.49
180 60 0.43
181 8 0.06
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (178 bp):
AGTGAAATAGGGGTAACTTTAATGAATAAACTGTACTAATTGGCTAAACAAAAAATTCTAAAAAT
TTTATGATAAGAATATATGTGAGTTCAGTTTCTAGGAAAATTATCAGATCTTAATTTGGAGTCCC
ATACATCAGATAAATAACTTTAGTAAAGAGAGGTCGGAACTGTTGGAC
Found at i:52189598 original size:27 final size:27
Alignment explanation
Indices: 52189560--52189616 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
52189550 AACACGTCAA
*
52189560 GAAAGGAATGCCTATGTGGCGCAAT-AT
1 GAAAGGAATGCCTATGTAGCG-AATCAT
*
52189587 GAAAGGAATGCCTTTGTAGCGAATCAT
1 GAAAGGAATGCCTATGTAGCGAATCAT
52189614 GAA
1 GAA
52189617 GGGATAGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (27 bp):
GAAAGGAATGCCTATGTAGCGAATCAT
Found at i:52195876 original size:43 final size:42
Alignment explanation
Indices: 52195753--52195882 Score: 138
Period size: 43 Copynumber: 3.1 Consensus size: 42
52195743 CTATTCTAGA
* *
52195753 AAGGAAAGAAATCAACTGAAATAAAATTGCAAT-TGAAACCT
1 AAGGAAAGAAATGAACTGAAATAAAATTGCAATCAGAAACCT
* * ** *
52195794 AA-AAAATGAATTGAACTGAAATAAAATCCCAACTGAGAAACCT
1 AAGGAAA-GAAATGAACTGAAATAAAATTGCAA-TCAGAAACCT
* *
52195837 AAGGAAAGAAATGAACTGAAATAAGATTGCAATCAAGAAAACT
1 AAGGAAAGAAATGAACTGAAATAAAATTGCAATC-AGAAACCT
52195880 AAG
1 AAG
52195883 TCTTAAGTAG
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
40 3 0.04
41 23 0.32
42 2 0.03
43 40 0.56
44 3 0.04
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (42 bp):
AAGGAAAGAAATGAACTGAAATAAAATTGCAATCAGAAACCT
Found at i:52199823 original size:13 final size:14
Alignment explanation
Indices: 52199790--52199827 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
52199780 ATACATCTAT
52199790 TATTATTAATTTGTA
1 TATTATT-ATTTGTA
52199805 TA-TATTATTT-TA
1 TATTATTATTTGTA
52199817 TATTATTATTT
1 TATTATTATTT
52199828 AAACATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.18
13 12 0.55
14 4 0.18
15 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TATTATTATTTGTA
Found at i:52204063 original size:27 final size:29
Alignment explanation
Indices: 52203999--52204063 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
52203989 TATGGATCCA
* *
52203999 CATGTATGAGTCTATCATATATGAGTTTG
1 CATGTATGAATCTATCATATATGAATTTG
**
52204028 CATCCATGAATCT-TC-TATATGAATTTG
1 CATGTATGAATCTATCATATATGAATTTG
*
52204055 TATGTATGA
1 CATGTATGA
52204064 TAGTCCACTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 17 0.59
28 2 0.07
29 10 0.34
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (29 bp):
CATGTATGAATCTATCATATATGAATTTG
Found at i:52207165 original size:28 final size:28
Alignment explanation
Indices: 52207131--52207257 Score: 155
Period size: 28 Copynumber: 4.5 Consensus size: 28
52207121 ATAGTAAGTC
52207131 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* *
52207159 CACACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
52207188 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* * ** * *
52207216 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGTTATATAA-TCAAACT
52207245 CGCACACTTAGTG
1 CGCACACTTAGTG
52207258 CCAATCTCAT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 43 0.50
29 43 0.50
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:52207187 original size:29 final size:29
Alignment explanation
Indices: 52207131--52207258 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
52207121 ATAGTAAGTC
52207131 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* *
52207159 CACACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
52207188 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* ** * *
52207216 TGCACACTTAGTGC-TATGCAATTTAAACC
1 CGCACACTTAGTGCTTATATAA-TCAAACT
52207245 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52207259 CAATCTCATG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 43 0.49
29 45 0.51
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:52207222 original size:57 final size:57
Alignment explanation
Indices: 52207130--52207258 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
52207120 TATAGTAAGT
*
52207130 CCGCACACTTAGTGTTATATAATCAAACTCACACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCACACACTTAGTGCTATACA-AATCAAAC
* ** * * *
52207187 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCACACACTTAGTGCTATACAAATCAAAC
52207244 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
52207259 CAATCTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCACACACTTAGTGCTATACAAATCAAAC
Found at i:52211709 original size:40 final size:40
Alignment explanation
Indices: 52211661--52212214 Score: 964
Period size: 40 Copynumber: 13.8 Consensus size: 40
52211651 AGTTATATAG
52211661 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52211701 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52211741 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52211781 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52211821 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52211861 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52211901 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52211941 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52211981 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52212021 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
52212061 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* * * * * *
52212101 CCGGGCTAAGTCTCGGAGAGCATTCGTGTTAGAGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
** * * *
52212141 TAGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* * * * *
52212181 CCAGGCTAGGTCCCAAAGAGCAATCATGCTGGTG
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
52212215 ATGTGTATTC
Statistics
Matches: 491, Mismatches: 23, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 491 1.00
ACGTcount: A:0.19, C:0.22, G:0.32, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
Found at i:52212428 original size:25 final size:25
Alignment explanation
Indices: 52212378--52212428 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
52212368 TGTGTAACAA
* *
52212378 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
52212403 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
52212428 C
1 C
52212429 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:52215852 original size:48 final size:48
Alignment explanation
Indices: 52215781--52216269 Score: 837
Period size: 48 Copynumber: 10.3 Consensus size: 48
52215771 TGTACAAGAT
52215781 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
52215829 AAATATATATGAGATAGGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
52215877 AAATATGTATGAGATATGTATATGTGGT--A----AATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
52215919 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
52215967 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
52216015 ATATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
52216063 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
52216111 AAATATATATGAGATATGTATATGTGGTAAAGACGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
52216159 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
52216207 AACTATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
52216255 AAATATGTAGGAGAT
1 AAATATATATGAGAT
52216270 GTGTGTATAT
Statistics
Matches: 420, Mismatches: 15, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
42 40 0.10
44 1 0.00
46 1 0.00
48 378 0.90
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:52216465 original size:37 final size:37
Alignment explanation
Indices: 52216410--52216508 Score: 144
Period size: 37 Copynumber: 2.7 Consensus size: 37
52216400 GGAAATATAT
52216410 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
52216447 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
** * *
52216484 TCCGTTTAAGACCCGGTAACTACGT
1 TCCGGGTAAGACCCGATGACTACGT
52216509 ATGGGGACTA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52221032 original size:9 final size:9
Alignment explanation
Indices: 52221018--52221047 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
52221008 CTAACATAAG
52221018 AATAATTGA
1 AATAATTGA
52221027 AATAATTGA
1 AATAATTGA
*
52221036 AATAATAGA
1 AATAATTGA
52221045 AAT
1 AAT
52221048 TTATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (9 bp):
AATAATTGA
Found at i:52224170 original size:21 final size:20
Alignment explanation
Indices: 52224144--52224186 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
52224134 CAAAGTATGC
*
52224144 ACTACAAATTAATAATAGCAA
1 ACTACAAATTAACAATAG-AA
52224165 ACTACAAATTAACAATAGAA
1 ACTACAAATTAACAATAGAA
52224185 AC
1 AC
52224187 AAGAAACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.58, C:0.16, G:0.05, T:0.21
Consensus pattern (20 bp):
ACTACAAATTAACAATAGAA
Found at i:52224850 original size:2 final size:2
Alignment explanation
Indices: 52224843--52224871 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52224833 CAAACAAAAG
52224843 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
52224872 CTCTCAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:52234080 original size:17 final size:17
Alignment explanation
Indices: 52234045--52234082 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
52234035 TATTGACGGC
*
52234045 AAGGAAGGTTCGGTAGT
1 AAGGAAGGTTCGGCAGT
*
52234062 AAGGAAGGTTCGGCGGT
1 AAGGAAGGTTCGGCAGT
52234079 AAGG
1 AAGG
52234083 TGTGGTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.08, G:0.45, T:0.18
Consensus pattern (17 bp):
AAGGAAGGTTCGGCAGT
Found at i:52246092 original size:30 final size:28
Alignment explanation
Indices: 52246029--52246091 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
52246019 ACGCACGGGC
*
52246029 GTGTGTGACACACGGCCATGTGGTTAGG
1 GTGTGTGACACACGGCCATGCGGTTAGG
52246057 GTGTGTGACACACGGCCATGCGGTTAGG
1 GTGTGTGACACACGGCCATGCGGTTAGG
*
52246085 CTGTGTG
1 GTGTGTG
52246092 TACCATGCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.16, C:0.19, G:0.40, T:0.25
Consensus pattern (28 bp):
GTGTGTGACACACGGCCATGCGGTTAGG
Done.