Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 94 of 373
Found at i:30220394 original size:162 final size:161
Alignment explanation
Indices: 30220107--30220399 Score: 426
Period size: 162 Copynumber: 1.8 Consensus size: 161
30220097 TTTGAATTTT
* * * * *
30220107 TATCCGGGCTAAGTCCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
* * * * *
30220172 TTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCT
66 TCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGATATATCC-GGCT
30220237 AAGACCCGCAGGCATTTGTGCGAGTTGATATA
130 AAGACCCGCAGGCATTTGTGCGAGTTGATATA
30220269 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
* * * **
30220334 TCGTGCGAGTTGCTATGCCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGG-TAATATCCGGCT
66 TCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGAT-ATATCCGGCT
30220398 AA
130 AA
30220400 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
161 7 0.06
162 108 0.94
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (161 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGATATATCCGGCTA
AGACCCGCAGGCATTTGTGCGAGTTGATATA
Found at i:30222650 original size:30 final size:30
Alignment explanation
Indices: 30222614--30222674 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
30222604 ACGATGGATG
30222614 ATAGCTTCCTTTTGCCACTGCATGCCTTGA
1 ATAGCTTCCTTTTGCCACTGCATGCCTTGA
30222644 ATAGCTTCCTTTTGCCACTGCATGCCTTGA
1 ATAGCTTCCTTTTGCCACTGCATGCCTTGA
30222674 A
1 A
30222675 GGTTGGGTTC
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:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (30 bp):
ATAGCTTCCTTTTGCCACTGCATGCCTTGA
Found at i:30224888 original size:58 final size:58
Alignment explanation
Indices: 30224789--30224966 Score: 216
Period size: 58 Copynumber: 3.1 Consensus size: 58
30224779 AGCCGTCTAA
* * *
30224789 TACTTAGAGATTTTTCTCGAAATTATAAGCTAGGAACATGAATTCGCGATCTGTTTTC
1 TACTTAGTGATTTTTCTCAAAATTATAAGCTAGGAATATGAATTCGCGATCTGTTTTC
* * * *
30224847 TATTTAGTGATTTTTCTCAAAATTATAAGCT-GAGAATATGAATTCGCGTTCTATTTTT
1 TACTTAGTGATTTTTCTCAAAATTATAAGCTAG-GAATATGAATTCGCGATCTGTTTTC
* * * * *
30224905 TACATAGAT-ATTTTTCTCAAAATTATAAGCTAGGAATATCAATTCTCGGTCTGTTTTA
1 TACTTAG-TGATTTTTCTCAAAATTATAAGCTAGGAATATGAATTCGCGATCTGTTTTC
30224963 TACT
1 TACT
30224967 GATATTACAG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.01
58 99 0.97
59 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (58 bp):
TACTTAGTGATTTTTCTCAAAATTATAAGCTAGGAATATGAATTCGCGATCTGTTTTC
Found at i:30225117 original size:69 final size:69
Alignment explanation
Indices: 30224991--30225239 Score: 212
Period size: 69 Copynumber: 3.6 Consensus size: 69
30224981 GAACTTTGCG
* * * * * * * * *
30224991 CTTGATATTACAGTTGGGAGATTTGCTCTCGCTAGCTATTTTGAAGGCTGTGGCTCTTCACCTAC
1 CTTGATCTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGCTGAGACTCTTCGCCTAC
30225056 GAGC
66 GAGC
*** * * * **
30225060 CTTGATCTTTTTGCTGGGAGCTTTGCTCTCGCTAATTATTCTGGAGGCCGCGACTCTTCGCCTGT
1 CTTGATCTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGCTGAGACTCTTCGCCTAC
*
30225125 GAGT
66 GAGC
** * * * * * * * *
30225129 CTTGAGATTACAACTGGGAGCTTTGCTCTCTCTAATTGTTTTAGG-GACTGAAACTTTTCGCCTA
1 CTTGATCTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTCT-GGAGGCTGAGACTCTTCGCCTA
30225193 CGAGC
65 CGAGC
**
30225198 CTTGATCTTACAGCTAAGAGCTTTGCTCTCGCTAACTATTCT
1 CTTGATCTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTCT
30225240 AGGGCAGTGG
Statistics
Matches: 136, Mismatches: 43, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
69 134 0.99
70 2 0.01
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (69 bp):
CTTGATCTTACAGCTGGGAGCTTTGCTCTCGCTAACTATTCTGGAGGCTGAGACTCTTCGCCTAC
GAGC
Found at i:30234634 original size:42 final size:42
Alignment explanation
Indices: 30234588--30234793 Score: 234
Period size: 42 Copynumber: 4.9 Consensus size: 42
30234578 TACCGTACCA
* * *
30234588 ATGCCATATCCCAAATATGGTCTTACATGAAATCCCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * * *
30234630 ATGCCAGTAGCCCAGCTATGGTCTTACACGAAGTCTCATATTG
1 ATGCCA-TATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * *
30234673 ATACTATATCCCAGATATGGTCTTACACT-AAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-TGAAATCTCATATCG
* * * **
30234715 ATGACATATCCCAGATATAGTTTTACACAAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
30234757 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCA
30234794 GTAACCCTAA
Statistics
Matches: 134, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
42 102 0.76
43 32 0.24
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:30243362 original size:20 final size:20
Alignment explanation
Indices: 30243337--30243380 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
30243327 AACACAACAA
30243337 CAAACTTGTCCAAATATGGC
1 CAAACTTGTCCAAATATGGC
30243357 CAAACTTGTCCAAATATGGC
1 CAAACTTGTCCAAATATGGC
30243377 CAAA
1 CAAA
30243381 ATATTCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.23
Consensus pattern (20 bp):
CAAACTTGTCCAAATATGGC
Found at i:30248444 original size:40 final size:40
Alignment explanation
Indices: 30248414--30248636 Score: 235
Period size: 40 Copynumber: 5.6 Consensus size: 40
30248404 GCTACTCGTT
* *
30248414 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
30248454 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
30248494 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
30248533 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
30248572 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
30248613 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
30248637 ACATCATTCA
Statistics
Matches: 160, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 70 0.44
40 74 0.46
41 14 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:30248525 original size:79 final size:78
Alignment explanation
Indices: 30248414--30248637 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 78
30248404 GCTACTCGTT
* * * *
30248414 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGG
*
30248479 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
30248494 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGG
*
30248557 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
30248572 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
30248637 A
64 A
30248638 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 36 0.29
79 56 0.45
80 32 0.26
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:30248531 original size:39 final size:40
Alignment explanation
Indices: 30248414--30248637 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
30248404 GCTACTCGTT
* * *
30248414 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
30248454 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
30248494 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
30248533 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
30248572 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
30248613 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30248638 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 74 0.45
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:30268421 original size:47 final size:47
Alignment explanation
Indices: 30268367--30268560 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
30268357 TTAGGATTTT
** * * * *
30268367 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGACTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30268414 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
30268461 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
30268508 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
30268555 ATGTGA
1 ATGTGA
30268561 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:30268516 original size:25 final size:25
Alignment explanation
Indices: 30268441--30268516 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
30268431 ATGCATATAT
30268441 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
30268466 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
30268488 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
30268513 GTGA
1 GTGA
30268517 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:30268593 original size:48 final size:48
Alignment explanation
Indices: 30268530--30268868 Score: 509
Period size: 48 Copynumber: 6.8 Consensus size: 48
30268520 TGAACATGCA
30268530 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
30268578 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
30268626 TATATCTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
30268674 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
30268726 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
30268774 TATATGTGGTAGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
1 TATA-----T-GTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
*
30268830 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
30268869 GGCTATGTGC
Statistics
Matches: 268, Mismatches: 9, Indels: 28
0.88 0.03 0.09
Matches are distributed among these distances:
47 1 0.00
48 146 0.54
49 3 0.01
50 26 0.10
51 2 0.01
52 42 0.16
53 2 0.01
54 25 0.09
55 2 0.01
56 19 0.07
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:30268747 original size:148 final size:152
Alignment explanation
Indices: 30268531--30268865 Score: 517
Period size: 148 Copynumber: 2.2 Consensus size: 152
30268521 GAACATGCAT
*
30268531 ATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATATGTGGTAAAG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAG
30268592 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATA-T-CTGGTAAAGCCGAATGGCTAATGT
66 CCGAATGGCTAATGTGAAATATGTATGAGATATGTATAGTACTGGTAAAGCCGAATGGCTAATGT
*
30268655 G-AA-ATATGTATGAGATATGC
131 GAAATATATATATGAGATATGC
30268675 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
*
30268739 GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAGTGGTAAAGCCGAATGGCT
65 GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA----GTACTGGTAAAGCCGAATGGCT
*
30268804 AATGTGAAATATATATATGAGATATGT
126 AATGTGAAATATATATATGAGATATGC
*
30268831 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
30268866 GTAGGCTATG
Statistics
Matches: 172, Mismatches: 5, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
143 1 0.01
144 27 0.16
146 1 0.01
147 1 0.01
148 67 0.39
153 1 0.01
154 24 0.14
155 2 0.01
156 47 0.27
157 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (152 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAG
CCGAATGGCTAATGTGAAATATGTATGAGATATGTATAGTACTGGTAAAGCCGAATGGCTAATGT
GAAATATATATATGAGATATGC
Found at i:30268884 original size:106 final size:107
Alignment explanation
Indices: 30268679--30268870 Score: 329
Period size: 104 Copynumber: 1.8 Consensus size: 107
30268669 ATATGCATAT
30268679 GTGGTAAAGCCGAATGGTCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGA
1 GTGGTAAAGCCGAATGGTCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGA
*
30268744 ATGGCTAATGTGAAATATGTATGAGATATGTATA-TGTGGTA
66 ATGGCTAATGTGAAATATGTAGGAGATATGTATATTGTGGTA
30268785 GTGGTAAAGCCGAATGG-CTAATGTG-AA-ATATATATATGAGATATGTATATGTGGTAAAGCCG
1 GTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCG
*
30268847 AATGGCTAGTGTGAAATATGTAGG
65 AATGGCTAATGTGAAATATGTAGG
30268871 CTATGTGCGT
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
104 57 0.69
105 3 0.04
106 23 0.28
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (107 bp):
GTGGTAAAGCCGAATGGTCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTAGGAGATATGTATATTGTGGTA
Found at i:30269066 original size:37 final size:37
Alignment explanation
Indices: 30269016--30269125 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
30269006 AATACATTCG
*
30269016 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
30269053 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* *
30269090 GGGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
30269126 TGAGCTAAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:30272656 original size:42 final size:44
Alignment explanation
Indices: 30272580--30272662 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
30272570 CTCGATTGAG
*
30272580 ATTTACGTATAAGACCATGTCTGGGACACCGGCATC-ATATCTA
1 ATTTACGTATAAGACCATGTCTGGGACACAGGCATCGATATCTA
* * *
30272623 ATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATAT
1 ATTTACGTATAAGACCATGTCTGGGACACAGGCATCGATAT
30272663 TGAGTTACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 27 0.77
43 8 0.23
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
ATTTACGTATAAGACCATGTCTGGGACACAGGCATCGATATCTA
Found at i:30282692 original size:47 final size:47
Alignment explanation
Indices: 30282614--30283020 Score: 661
Period size: 47 Copynumber: 8.6 Consensus size: 47
30282604 CCCTTCGGGA
* * * * * *
30282614 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30282661 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30282708 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30282755 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30282802 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30282849 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30282896 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30282945 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30282992 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
30283021 TATTCAAATA
Statistics
Matches: 336, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
47 272 0.81
49 64 0.19
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30307752 original size:93 final size:97
Alignment explanation
Indices: 30307552--30307769 Score: 227
Period size: 93 Copynumber: 2.3 Consensus size: 97
30307542 ACATGCGTGC
30307552 TAGTGTAAGACCTGTCTGGGACATGGCAACAACATTGATAGATGAGAGCCTGTGTAAGACCTGTC
1 TAGTGTAAGACCTGTCTGGGACATGGCAACAACATTGA-AGATGAGAGCCTGTGTAAGACCTGTC
* * *
30307617 AGGGACATGGAATCGGCCTCAAGATATGCAAGC
65 AGGGACATGGAATCGGACACAAGATATGCAAGA
* * * * * * *
30307650 TAGTGTAAGACCTGTCTGGGACATGGCATCAGC-TTG-AGGTGTG-TCC-GTGTAAGACCTTTCT
1 TAGTGTAAGACCTGTCTGGGACATGGCAACAACATTGAAGATGAGAGCCTGTGTAAGACCTGTCA
*
30307711 GGGACATGGCATC-GACAC-AGATAAGTG-AGAGA
66 GGGACATGGAATCGGACACAAGAT-A-TGCA-AGA
*
30307743 TAGTGTAAGACCTAT-TAGGGACATGGC
1 TAGTGTAAGACCTGTCT-GGGACATGGC
30307770 TCGGCCTCAA
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
91 4 0.04
92 6 0.06
93 53 0.51
94 2 0.02
95 5 0.05
97 3 0.03
98 31 0.30
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (97 bp):
TAGTGTAAGACCTGTCTGGGACATGGCAACAACATTGAAGATGAGAGCCTGTGTAAGACCTGTCA
GGGACATGGAATCGGACACAAGATATGCAAGA
Found at i:30328473 original size:27 final size:27
Alignment explanation
Indices: 30328435--30328488 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
30328425 AAGTTGTCAA
*
30328435 AGTTAGGTGAGTTTTTGTGACTAAATT
1 AGTTAGGTGAGTTTTGGTGACTAAATT
30328462 AGTTAGGTGAGTTTTGGTGACTAAATT
1 AGTTAGGTGAGTTTTGGTGACTAAATT
30328489 GACTAGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.28, T:0.43
Consensus pattern (27 bp):
AGTTAGGTGAGTTTTGGTGACTAAATT
Found at i:30330665 original size:40 final size:40
Alignment explanation
Indices: 30330614--30330965 Score: 485
Period size: 40 Copynumber: 8.8 Consensus size: 40
30330604 ATTTGAATTT
* * *
30330614 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGA-TA
* *
30330654 TATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
*
30330694 TATCCGGGCTAAGACCCGCAGGC-ATTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
* *
30330733 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
* *
30330773 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
* *
30330813 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG--ATA
*
30330855 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
* *
30330895 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATGCTA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGATA
** *
30330935 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
30330966 TTGTGGTAAT
Statistics
Matches: 288, Mismatches: 18, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
39 40 0.14
40 205 0.71
41 6 0.02
42 37 0.13
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
Found at i:30330909 original size:122 final size:119
Alignment explanation
Indices: 30330614--30330965 Score: 517
Period size: 122 Copynumber: 2.9 Consensus size: 119
30330604 ATTTGAATTT
* * *
30330614 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGA-TATATCCGGGCTAAGACCCGAAGGCA
*
30330678 TTTGTGTGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTGTGCGAGTTGATA
65 TTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTGTGCGAGTTGATA
* * * *
30330733 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
30330798 TTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
66 TTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCA-TTGTGCGAGTTG--ATA
30330855 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
* * * ** * *
30330920 TCGTGCGAGATGCTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
66 TTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGC-ATTGTGC
30330966 TTGTGGTAAT
Statistics
Matches: 210, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
119 93 0.44
120 15 0.07
122 101 0.48
123 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (119 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTGTGCGAGTTGATA
Found at i:30351958 original size:97 final size:97
Alignment explanation
Indices: 30351754--30351984 Score: 272
Period size: 97 Copynumber: 2.4 Consensus size: 97
30351744 GGTGTAATTT
* *
30351754 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAGTTGATGCCATGTCCCAGAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTACATCAAGTTGATGCCATGTCCCAGAC
* *
30351819 ATAGTCTTACACTGGCTCTCACAAATTTGTAC
66 ATAGTCTTACACTGACTCTCACAAATTAGTAC
* ** *
30351851 CGATGCCATGTCCTAGACATGGTCTCACACTGGCTCTTACATCTCTGTGTCGATGCCATGTCCTA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTACATC-AAGT-T-GATGCCATGTCCCA
* ** *
30351916 GACATGGTCTTACACTGACT-T-ACATCTTAAG-GC
63 GACATAGTCTTACACTGACTCTCACAAATT-AGTAC
* *
30351949 CGATG-CATGTCCCAAACATGGTCTTACACTGGCTCT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT
30351985 CATAATGTGG
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
97 68 0.59
98 13 0.11
99 3 0.03
100 31 0.27
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (97 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTACATCAAGTTGATGCCATGTCCCAGAC
ATAGTCTTACACTGACTCTCACAAATTAGTAC
Found at i:30352005 original size:47 final size:49
Alignment explanation
Indices: 30351754--30352024 Score: 231
Period size: 47 Copynumber: 5.6 Consensus size: 49
30351744 GGTGTAATTT
*
30351754 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAA-GT---
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TACAT-AATGTGGC
* * * * *
30351801 TGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACA-AATTTGTAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-ACATAATGTG-GC
* * * *
30351851 CGATGCCATGTCCTAGACATGGTCTCACACTGGCTCTTACAT-CTCTGTGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TACATAATGTG-GC
* ** **
30351901 CGATGCCATGTCCTAGACATGGTCTTACACTGACT-TACATCTTAAGGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATAATGTGGC
* *
30351949 CGATG-CATGTCCCAAACATGGTCTTACACTGGCTCT-CATAATGTGGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATAATGTGGC
* * *
30351996 TGAT-ACATGTCCGAGACAT-GTCTTACACT
1 CGATGCCATGTCCTAGACATGGTCTTACACT
30352025 AGCGCACAAA
Statistics
Matches: 184, Mismatches: 29, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 12 0.07
47 83 0.45
48 12 0.07
49 2 0.01
50 72 0.39
51 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATAATGTGGC
Found at i:30352705 original size:13 final size:13
Alignment explanation
Indices: 30352687--30352711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30352677 CTAAAAGTAC
30352687 AAAAATCATCAAG
1 AAAAATCATCAAG
30352700 AAAAATCATCAA
1 AAAAATCATCAA
30352712 AACCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:30355744 original size:13 final size:13
Alignment explanation
Indices: 30355726--30355751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30355716 TTGTGCATTC
30355726 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
30355739 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
30355752 AACAAATCCC
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:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:30357842 original size:36 final size:36
Alignment explanation
Indices: 30357796--30357874 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
30357786 ACTTCACAAC
* *
30357796 TTAGCCGTTCCTTCTATTTCTTCTTTCTGTTTCAGT
1 TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
*
30357832 TTAGCTGTTCCTTCTGTTTCTTCCTTCTGTTTCAGT
1 TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
30357868 TTAGCTG
1 TTAGCTG
30357875 CTTCACAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.08, C:0.24, G:0.14, T:0.54
Consensus pattern (36 bp):
TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
Found at i:30357857 original size:13 final size:13
Alignment explanation
Indices: 30357839--30357864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30357829 AGTTTAGCTG
30357839 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
30357852 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
30357865 AGTTTAGCTG
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:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:30361416 original size:29 final size:28
Alignment explanation
Indices: 30361384--30361470 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
30361374 TCATAAGAAC
30361384 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
30361413 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
30361437 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
30361467 ATTT
1 ATTT
30361471 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:30361643 original size:67 final size:66
Alignment explanation
Indices: 30361568--30361780 Score: 145
Period size: 67 Copynumber: 3.2 Consensus size: 66
30361558 ATTATAATGT
30361568 ATTT-AATAATAATTATGTTCAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTCAAATATGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
30361632 AA
65 AA
* * * * * * *
30361634 ATTTAAATAACAA-TA---ACAAATTTCTGCTAATTATAAGAATT-TTATT-AAATT-ATATATT
1 ATTTAAATAATAATTATGTTCAAA--TATG---ATTA-AATATTTATTATTGATATTAATA-ATC
30361692 TTAATTAAAA
59 TT-ATT-AAA
* * * * *
30361702 TATATTTAGTAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTCAAATATGATT-AAATATTTATTATTGATATTAATAATCTTAT
30361767 TAAA
63 TAAA
30361771 ATTTAAATAA
1 ATTTAAATAA
30361781 CATTAACAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 39
0.64 0.13 0.23
Matches are distributed among these distances:
63 4 0.04
65 6 0.06
66 14 0.13
67 21 0.20
68 12 0.11
69 15 0.14
70 16 0.15
71 9 0.08
72 6 0.06
74 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTCAAATATGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:30361675 original size:137 final size:138
Alignment explanation
Indices: 30361524--30361789 Score: 417
Period size: 137 Copynumber: 1.9 Consensus size: 138
30361514 TAAGAATATG
* *
30361524 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTCA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTCA
* * *
30361589 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
30361654 TTTCTGCT
131 TTTCTGCT
**** * *
30361662 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAGTAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTCA
*
30361726 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
30361790 TAATCATTTA
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
137 111 0.96
138 5 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTCA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:30361700 original size:18 final size:17
Alignment explanation
Indices: 30361672--30361706 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30361662 AATTATAAGA
*
30361672 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30361689 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30361707 TTAGTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30361822 original size:137 final size:145
Alignment explanation
Indices: 30361557--30361975 Score: 473
Period size: 156 Copynumber: 2.9 Consensus size: 145
30361547 TATATACCAA
* * * * * *
30361557 AATTATAATGTATTTAATAATAATTATGTTCAAATATGATTAAATTATTTATTATTGATATTAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* * ** * *
30361622 AATCTTATTAAAATTTAAATAACAATAACAA-ATTTC-TGCTAATTATAAGAATTTTAT--TAA-
66 AATCTTATTAAAATTTAAATAACAATAACAATA-ATCAT--TTACCAAAACAATTTTATGCTAAT
*
30361682 -ATTA-TA-T-ATT-T-T
128 TATAATTATTAATTATAT
*
30361694 AATTAAAATATATTTAGTAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* *
30361759 AATCTTATTAAAATTTAAATAACATTAACAATAATCATTTACCAAAACAATTTTCTGCTAATTAT
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
30361824 AAGAATTTTATTAAATTATATATTTT
131 ---AA--TTATT-AA-T-TATA---T
*
30361850 AATTAAAATATATTTAATTATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
*
30361915 AATCTTATTAAAATTTAAATAATAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
30361976 GGGTATTCTA
Statistics
Matches: 239, Mismatches: 21, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
136 12 0.05
137 90 0.38
138 5 0.02
140 2 0.01
143 1 0.00
146 2 0.01
147 1 0.00
149 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
156 122 0.51
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (145 bp):
AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
AATTATTAATTATAT
Found at i:30361825 original size:156 final size:156
Alignment explanation
Indices: 30361648--30361975 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
30361638 AAATAACAAT
* *
30361648 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAGTA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
30361713 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
30361778 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
30361804 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
30361869 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
30361934 TAATAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
30361960 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
30361976 GGGTATTCTA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:30361856 original size:18 final size:18
Alignment explanation
Indices: 30361828--30361876 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
30361818 AATTATAAGA
30361828 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
30361845 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
30361861 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
30361877 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:30361862 original size:16 final size:16
Alignment explanation
Indices: 30361828--30361882 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
30361818 AATTATAAGA
30361828 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
30361845 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
30361861 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
30361875 ATGTTTAA
1 AT-TTTAA
30361883 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:30362119 original size:16 final size:16
Alignment explanation
Indices: 30362098--30362166 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
30362088 GATTAGCTAT
*
30362098 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
30362114 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
30362131 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30362147 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30362163 TACA
1 TACA
30362167 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 36 0.71
17 15 0.29
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30362140 original size:33 final size:32
Alignment explanation
Indices: 30362098--30362166 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
30362088 GATTAGCTAT
*
30362098 TACACCTCTAATCTAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
30362131 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
30362163 TACA
1 TACA
30362167 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:30367507 original size:24 final size:23
Alignment explanation
Indices: 30367463--30367507 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
30367453 TTTATCAGTG
30367463 AAAGATTTATTGATTAGAAGCGT
1 AAAGATTTATTGATTAGAAGCGT
*
30367486 AAAGAGTTTCTTGAATTA-AAGC
1 AAAGA-TTTATTG-ATTAGAAGC
30367508 AGGGGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 10 0.53
25 4 0.21
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (23 bp):
AAAGATTTATTGATTAGAAGCGT
Found at i:30368061 original size:21 final size:21
Alignment explanation
Indices: 30368035--30368080 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
30368025 GAGAGTTGAG
*
30368035 AAAGAAAAATTTTAGAATGTA
1 AAAGAAAAATTTCAGAATGTA
30368056 AAAGAAAAATTTCAGAATGTA
1 AAAGAAAAATTTCAGAATGTA
30368077 AAAG
1 AAAG
30368081 CTAGTGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (21 bp):
AAAGAAAAATTTCAGAATGTA
Found at i:30372451 original size:30 final size:30
Alignment explanation
Indices: 30372415--30372472 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
30372405 CCCGAGCCTA
*
30372415 GGGGCAAAAGTGTAATTATGCAAAAGTTTC
1 GGGGCAAAAATGTAATTATGCAAAAGTTTC
* *
30372445 GGGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGGCAAAAATGTAATTATGCAAAAGTT
30372473 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGCAAAAGTTTC
Found at i:30375730 original size:18 final size:18
Alignment explanation
Indices: 30375707--30375743 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30375697 CATAACCAAA
30375707 ATATGCATACTCCATTCT
1 ATATGCATACTCCATTCT
* *
30375725 ATATGCGTACTCTATTCT
1 ATATGCATACTCCATTCT
30375743 A
1 A
30375744 ACTTTAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (18 bp):
ATATGCATACTCCATTCT
Found at i:30378331 original size:22 final size:22
Alignment explanation
Indices: 30378290--30378331 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30378280 AACAACATGG
*
30378290 AGGCCCAAAATTATTTCATTGA
1 AGGCCCAAAATTATTCCATTGA
*
30378312 AGGCCCAAAATTGTTCCATT
1 AGGCCCAAAATTATTCCATT
30378332 TACCGACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (22 bp):
AGGCCCAAAATTATTCCATTGA
Found at i:30383130 original size:179 final size:178
Alignment explanation
Indices: 30382825--30383184 Score: 562
Period size: 179 Copynumber: 2.0 Consensus size: 178
30382815 TCAATTTGTG
* *
30382825 TTAAAGAAGGGAGGTGTTACAGTTGCAAAGAATGAGAATAATGAGTTGATTCTAACTAGGATGGT
1 TTAAAAAAGGGAGGTGTTACAGTTGCAAAGAATGAGAATAATGAGTTGATTCTAACTAGGATAGT
*
30382890 TAAGGTTGAAGGATTTGTATTGACTATTGTAAGTTATATAAGGCAACTCAGAAAGATCATTTTTC
66 TAAGGTTGAAGGATTTGTATTGACTATCGTAAGTTATATAAGGCAACTCAGAAAGATCATTTTTC
* * *
30382955 GTTGCCATTTTTGGATCAAATTTTAGATAGACTTTTAGGACACAATTA
131 GTTGCCATTTTTGGATCAAATGTTAGATAGACTTGTAGAACACAATTA
* * *
30383003 TTAAAAAAGGGAGGTGTTATAGTTGTAATGAATGAGAATAATGAGTTGATTAC-AACTAGGATAG
1 TTAAAAAAGGGAGGTGTTACAGTTGCAAAGAATGAGAATAATGAGTTGATT-CTAACTAGGATAG
* * *
30383067 TTACATGTTGAAGGATTTGTATTTATTATCGTAAGTTATATAAGGCAACTCA-AAATGATCATTT
65 TTA-AGGTTGAAGGATTTGTATTGACTATCGTAAGTTATATAAGGCAACTCAGAAA-GATCATTT
*
30383131 TTTGTTGCCATTTTTGGATCAAATGTTAGATAGACTTGTAGAACACAATTA
128 TTCGTTGCCATTTTTGGATCAAATGTTAGATAGACTTGTAGAACACAATTA
30383182 TTA
1 TTA
30383185 CTATTTCCTA
Statistics
Matches: 166, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
178 63 0.38
179 103 0.62
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (178 bp):
TTAAAAAAGGGAGGTGTTACAGTTGCAAAGAATGAGAATAATGAGTTGATTCTAACTAGGATAGT
TAAGGTTGAAGGATTTGTATTGACTATCGTAAGTTATATAAGGCAACTCAGAAAGATCATTTTTC
GTTGCCATTTTTGGATCAAATGTTAGATAGACTTGTAGAACACAATTA
Found at i:30393651 original size:17 final size:18
Alignment explanation
Indices: 30393629--30393663 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30393619 ATGTGGGCTG
*
30393629 TGTGGG-CCACATGGGCA
1 TGTGGGCCCACAAGGGCA
30393646 TGTGGGCCCACAAGGGCA
1 TGTGGGCCCACAAGGGCA
30393664 GGCCACATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.26, G:0.40, T:0.14
Consensus pattern (18 bp):
TGTGGGCCCACAAGGGCA
Found at i:30403001 original size:28 final size:28
Alignment explanation
Indices: 30402966--30403021 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
30402956 CACGGGTTGA
30402966 GACACGGGCG-TGTCGAGGCCGTGTGAGG
1 GACACGGGCGATGTCGA-GCCGTGTGAGG
*
30402994 GACACGGGCGTATGTCTAGCCGTGTGAG
1 GACACGGGCG-ATGTCGAGCCGTGTGAG
30403022 AACCCCTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 10 0.40
30 5 0.20
ACGTcount: A:0.16, C:0.21, G:0.45, T:0.18
Consensus pattern (28 bp):
GACACGGGCGATGTCGAGCCGTGTGAGG
Found at i:30408342 original size:40 final size:39
Alignment explanation
Indices: 30408283--30408406 Score: 113
Period size: 40 Copynumber: 3.1 Consensus size: 39
30408273 GCGTTTGGAT
* * * *
30408283 AAAAAAGCCGCTATTGATCGAGCATTAGTAGCGCTTTTTG
1 AAAAACGCCACTATAGATCGAACATTAGT-GCGCTTTTTG
* * * *
30408323 AGAAACGCCACTGTAGATCGAACATTAGCGGCGCTTTTTA
1 AAAAACGCCACTATAGATCGAACATTAG-TGCGCTTTTTG
* * * *
30408363 AAAAATGCCGCTATAGGTCGATCATTAGCTGCGCTTTTTG
1 AAAAACGCCACTATAGATCGAACATTAG-TGCGCTTTTTG
30408403 AAAA
1 AAAA
30408407 TGCCGAAAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (39 bp):
AAAAACGCCACTATAGATCGAACATTAGTGCGCTTTTTG
Found at i:30408511 original size:40 final size:40
Alignment explanation
Indices: 30408456--30408599 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
30408446 AGCTTTAGTG
*
30408456 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATTGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGA
*
30408496 GCATTAGCAGCGCTTTTTG-AAAACGCCACTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGA
* * ** *
30408535 GCGTTAGCGGCGCTTTTTAAAAAAAACCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGA
* * *
30408575 GCTTTAGCGGCGCTTTATCAAAAAC
1 GCATTAGCGGCGCTTTTTGAAAAAC
30408600 ACCGCAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 35 0.38
40 56 0.62
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGA
Found at i:30408926 original size:7 final size:7
Alignment explanation
Indices: 30408910--30409080 Score: 63
Period size: 7 Copynumber: 24.1 Consensus size: 7
30408900 TATCATTTTA
*
30408910 GTTTAGG
1 GTTTATG
30408917 GTTTATG
1 GTTTATG
*
30408924 GTTTAGG
1 GTTTATG
* *
30408931 GTATGTG
1 GTTTATG
*
30408938 GTTTAAG
1 GTTTATG
**
30408945 GTTTAAA
1 GTTTATG
*
30408952 GTTTAAG
1 GTTTATG
* *
30408959 AGTTAATA
1 -GTTTATG
* *
30408967 TTTTAAG
1 GTTTATG
*
30408974 GTTTAGG
1 GTTTATG
*
30408981 GATTATGG
1 GTTTAT-G
*
30408989 GTTTAGG
1 GTTTATG
*
30408996 GATTATG
1 GTTTATG
30409003 GTTTATG
1 GTTTATG
* *
30409010 TTTTAAG
1 GTTTATG
* **
30409017 GGTTGGG
1 GTTTATG
*
30409024 GTTTAAG
1 GTTTATG
*
30409031 GTTTAGG
1 GTTTATG
* *
30409038 GGTTAGG
1 GTTTATG
*
30409045 GTTTAGG
1 GTTTATG
30409052 GTTTATG
1 GTTTATG
*
30409059 TTTTATG
1 GTTTATG
* *
30409066 ATTTACG
1 GTTTATG
30409073 GTTTATG
1 GTTTATG
30409080 G
1 G
30409081 GGATAAGGGT
Statistics
Matches: 118, Mismatches: 44, Indels: 4
0.71 0.27 0.02
Matches are distributed among these distances:
7 109 0.92
8 9 0.08
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.46
Consensus pattern (7 bp):
GTTTATG
Found at i:30408929 original size:14 final size:14
Alignment explanation
Indices: 30408910--30409080 Score: 74
Period size: 14 Copynumber: 12.1 Consensus size: 14
30408900 TATCATTTTA
30408910 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
* *
30408924 GTTTAGGGTATGTG
1 GTTTAGGGTTTATG
* **
30408938 GTTTAAGGTTTAAA
1 GTTTAGGGTTTATG
* * *
30408952 GTTTAAGAGTTAATA
1 GTTT-AGGGTTTATG
* * *
30408967 TTTTAAGGTTTAGG
1 GTTTAGGGTTTATG
* *
30408981 GATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* *
30408996 GATTATGGTTTATG
1 GTTTAGGGTTTATG
* **
30409010 TTTTAAGGG-TTGGG
1 GTTT-AGGGTTTATG
* *
30409024 GTTTAAGGTTTAGG
1 GTTTAGGGTTTATG
* *
30409038 GGTTAGGGTTTAGG
1 GTTTAGGGTTTATG
* *
30409052 GTTTATGTTTTATG
1 GTTTAGGGTTTATG
* *
30409066 ATTTACGGTTTATG
1 GTTTAGGGTTTATG
30409080 G
1 G
30409081 GGATAAGGGT
Statistics
Matches: 113, Mismatches: 40, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
13 3 0.03
14 85 0.75
15 25 0.22
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:30409026 original size:21 final size:21
Alignment explanation
Indices: 30408968--30409056 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
30408958 GAGTTAATAT
* * *
30408968 TTTAAGGTTTAGGGATTATGGG
1 TTTAAGGGTTAGGGTTTA-AGG
* * * * *
30408990 TTTAGGGATTATGGTTTATGT
1 TTTAAGGGTTAGGGTTTAAGG
*
30409011 TTTAAGGGTTGGGGTTTAAGG
1 TTTAAGGGTTAGGGTTTAAGG
* *
30409032 TTTAGGGGTTAGGGTTTAGGG
1 TTTAAGGGTTAGGGTTTAAGG
30409053 TTTA
1 TTTA
30409057 TGTTTTATGA
Statistics
Matches: 52, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
21 38 0.73
22 14 0.27
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (21 bp):
TTTAAGGGTTAGGGTTTAAGG
Found at i:30409513 original size:21 final size:21
Alignment explanation
Indices: 30409467--30409513 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
30409457 TTAAGGTGTA
30409467 GTTTATGGTCTAGGATTTTAG
1 GTTTATGGTCTAGGATTTTAG
*
30409488 ATTTATGGTCTAGGA-TTTAGG
1 GTTTATGGTCTAGGATTTTA-G
30409509 GTTTA
1 GTTTA
30409514 GTGTTTGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.21, C:0.04, G:0.28, T:0.47
Consensus pattern (21 bp):
GTTTATGGTCTAGGATTTTAG
Found at i:30409547 original size:21 final size:21
Alignment explanation
Indices: 30409498--30409551 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
30409488 ATTTATGGTC
* *
30409498 TAGGATTTAGGGTTTAGTGTT
1 TAGGGTTTAGGGTTTAATGTT
* *
30409519 TGGGGTTTAGGGTTTAATTTT
1 TAGGGTTTAGGGTTTAATGTT
*
30409540 TAGTGTTTAGGG
1 TAGGGTTTAGGG
30409552 GTAAATACGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (21 bp):
TAGGGTTTAGGGTTTAATGTT
Found at i:30415687 original size:43 final size:42
Alignment explanation
Indices: 30415606--30415750 Score: 175
Period size: 43 Copynumber: 3.4 Consensus size: 42
30415596 TTAGTTTTTT
* *
30415606 TAAAGGTCATATTCTTTAGCGGCATTTGAGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCATTTG-GAGAAAAGCGCCGC
* * * *
30415649 TAAAGGTCATGTTCTTTAACGACGTTTGTGAGAGAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCATTTG-GAGAAAAGCGCCGC
* *
30415692 TAAAGGTCATGGTT-TTTAGCGGCATTTGCAGGAAAAGCGCTGC
1 TAAAGGTCAT-GTTCTTTAGCGGCATTTGGA-GAAAAGCGCCGC
30415735 TAAAGGTCATGTTCTT
1 TAAAGGTCATGTTCTT
30415751 GCGGGAAAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 4 0.05
43 79 0.92
44 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCATTTGGAGAAAAGCGCCGC
Found at i:30415771 original size:32 final size:32
Alignment explanation
Indices: 30415717--30415782 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
30415707 TTAGCGGCAT
30415717 TTGCAGGAAAAGCGCTGCTAAAGGTCATGTTC
1 TTGCAGGAAAAGCGCTGCTAAAGGTCATGTTC
* *
30415749 TTGCGGGAAAAGCG-TCGTTAAAGGTCATGTTC
1 TTGCAGGAAAAGCGCT-GCTAAAGGTCATGTTC
30415781 TT
1 TT
30415783 TAGCAGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (32 bp):
TTGCAGGAAAAGCGCTGCTAAAGGTCATGTTC
Found at i:30417125 original size:94 final size:92
Alignment explanation
Indices: 30417006--30417176 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 92
30416996 TCATTTGTGC
30417006 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AT-TATGAGAACCAATGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATAT-A-AACCAATGTAAGA-CATG
30417069 TCTGGGACATGGCATCAACATTGAGACGAGA
63 TCTGGGACAT-GCATCAACATTGAGACGAGA
* * * *
30417100 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATATATAAGCCAGTGTAAGACATGTTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATATAAACCAATGTAAGACATGTCT
30417165 GGGACATGCATC
66 GGGACATGCATC
30417177 GGCTACGAGA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.18
94 47 0.66
95 3 0.04
96 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATATAAACCAATGTAAGACATGTCT
GGGACATGCATCAACATTGAGACGAGA
Found at i:30417156 original size:46 final size:46
Alignment explanation
Indices: 30417009--30417222 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 46
30416999 TTTGTGCGCT
* * *
30417009 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-A-AGCC
* ** * * * * *
30417055 AATGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGA-GAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA-TATAAGCC
*
30417103 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCC
* * *
30417149 AGTGTAAGACATGTTTGGGACATGCATCGG-CTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATATAAGCC
30417193 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
30417223 TGTAATAGTC
Statistics
Matches: 134, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 61 0.46
47 28 0.21
48 16 0.12
49 1 0.01
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCC
Found at i:30419142 original size:46 final size:45
Alignment explanation
Indices: 30419074--30419210 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 45
30419064 TATATATACA
* * *
30419074 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACAT-TCGCATTAGCCATTCGGCTTTACCACATATC
*
30419120 CATCTCATACACGATTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACAC-ATTCGCATTAGCCATTCGGCTTTACCACATATC
* *
30419166 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACA-TTCGCATTAGCCATTCGGCTTTACCACATAT
30419211 ATACATGTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.01
46 79 0.96
47 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (45 bp):
CATCTCATACACATTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:30419245 original size:47 final size:47
Alignment explanation
Indices: 30419184--30419469 Score: 385
Period size: 47 Copynumber: 6.0 Consensus size: 47
30419174 ACACATTTCG
* * **
30419184 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
* *
30419231 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
* *
30419278 CATTGGCCATTCAGCCTTATCA-TTCATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAT-ATACGCATGTTCACATTCATCA
* *
30419325 CATTGGCCATTCGGCCTTATCTCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
* ** *
30419372 CATTGGCCATTCGGCTTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATACGCATGTTCACATTCATCA
*
30419423 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
30419470 TATAAAATCC
Statistics
Matches: 210, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
46 1 0.00
47 166 0.79
49 2 0.01
51 41 0.20
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
Found at i:30419504 original size:145 final size:141
Alignment explanation
Indices: 30419214--30419474 Score: 324
Period size: 145 Copynumber: 1.8 Consensus size: 141
30419204 CACATATATA
* * *
30419214 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCAC
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCGCATATATACAGGTTCACATTCATCAC
** ** *** ***
30419279 ATTGGCCATTCAGCCTTATCATTCATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
66 ATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACATAAGCCATAAAGCAAAA
* *
30419344 TCTCACATACG
131 TATCAAATACG
*
30419355 CATGTTCACATTCATCACATTGGCCATTCGGCTTTATCACGCATATATATACAGGTTCACATTCA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTAT--CGC--ATATATACAGGTTCACATTCA
* *
30419420 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCATATAA
62 TCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACATAA
30419475 AATCCTAAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
141 36 0.34
143 2 0.02
145 68 0.64
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (141 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCGCATATATACAGGTTCACATTCATCAC
ATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACATAAGCCATAAAGCAAAA
TATCAAATACG
Found at i:30430307 original size:85 final size:85
Alignment explanation
Indices: 30430149--30430311 Score: 195
Period size: 85 Copynumber: 1.9 Consensus size: 85
30430139 GTCTGAGACA
* * * * **
30430149 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCCAGGA
*
30430214 CATCGGCATTGTATCTGATT
66 CATAGGCATTGTATCTGATT
* * *
30430234 TCGTGTAAGACCCTGTTTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCCAG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACGTCCAG
*
30430297 GACGTAGGCATTGTA
64 GACATAGGCATTGTA
30430312 CTTGTTTATG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 59 0.91
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCCAGGA
CATAGGCATTGTATCTGATT
Found at i:30432379 original size:100 final size:100
Alignment explanation
Indices: 30432206--30432398 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
30432196 TATTGTGAGG
* * *
30432206 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGTATGTGTAGTATT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
* *
30432271 AAGTGCAGGCTACTATGTGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
30432306 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
30432371 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
30432399 GTTTTGGCTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:30432393 original size:49 final size:49
Alignment explanation
Indices: 30432211--30432385 Score: 260
Period size: 49 Copynumber: 3.5 Consensus size: 49
30432201 TGAGGTCACG
* *
30432211 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * *
30432260 TGTGTAGTATTAAGTGCAGGCTACTATGTGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
30432311 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
30432360 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
30432386 TGCGTACCAG
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 66 0.60
50 4 0.04
51 40 0.36
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:30434473 original size:21 final size:21
Alignment explanation
Indices: 30434449--30434507 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
30434439 AATAGCGGTG
**
30434449 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGAAACTGTA
30434470 GCGGTGAGATTAGAAACTGTA
1 GCGGTGAGATTAGAAACTGTA
30434491 GCGGTGAGATTAGAAAC
1 GCGGTGAGATTAGAAAC
30434508 AATGGTGGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.10, G:0.34, T:0.25
Consensus pattern (21 bp):
GCGGTGAGATTAGAAACTGTA
Found at i:30434784 original size:19 final size:19
Alignment explanation
Indices: 30434762--30434800 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30434752 TAAAATGATA
30434762 ATTATTTTAAATTTTTTAT
1 ATTATTTTAAATTTTTTAT
30434781 ATTATTTTAAATTTTTTAT
1 ATTATTTTAAATTTTTTAT
30434800 A
1 A
30434801 GTTAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTATTTTAAATTTTTTAT
Found at i:30434797 original size:9 final size:10
Alignment explanation
Indices: 30434761--30434798 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
30434751 ATAAAATGAT
30434761 AATTATTTTA
1 AATTATTTTA
30434771 AATT-TTTTA
1 AATTATTTTA
*
30434780 TATTATTTTA
1 AATTATTTTA
30434790 AATT-TTTTA
1 AATTATTTTA
30434799 TAGTTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.52
10 12 0.48
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
AATTATTTTA
Found at i:30438793 original size:33 final size:33
Alignment explanation
Indices: 30438744--30438823 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
30438734 CCCTAAATCA
30438744 TGTTT-TC-ATCAA-AAATCACTTTGTAAAAGT
1 TGTTTATCTATCAATAAATCACTTTGTAAAAGT
30438774 TGTTTATCTATCAATAAATCACTTTGTAAAAGT
1 TGTTTATCTATCAATAAATCACTTTGTAAAAGT
30438807 TGTTTATCTATCAATAA
1 TGTTTATCTATCAATAA
30438824 TCTTTCATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
30 5 0.11
31 2 0.04
32 5 0.11
33 35 0.74
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (33 bp):
TGTTTATCTATCAATAAATCACTTTGTAAAAGT
Found at i:30440431 original size:50 final size:50
Alignment explanation
Indices: 30440377--30440473 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
30440367 GGTACAAGTA
*
30440377 TGTATGTAAAACCCATGAGTATGAACTTTGGTATGAGATGAATTCTTACC
1 TGTATGTAAAACCCATGAGTATGAACTTTGGTATGAGATGAACTCTTACC
30440427 TGTATGTAAAACCCATGAGTATGAACTTTGGTATGAGATGAACTCTT
1 TGTATGTAAAACCCATGAGTATGAACTTTGGTATGAGATGAACTCTT
30440474 TGTAATAATG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (50 bp):
TGTATGTAAAACCCATGAGTATGAACTTTGGTATGAGATGAACTCTTACC
Found at i:30455516 original size:342 final size:343
Alignment explanation
Indices: 30454720--30455747 Score: 1864
Period size: 342 Copynumber: 3.0 Consensus size: 343
30454710 TGAAACCCAG
*
30454720 AAATGTGACAATGATTTGTAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
1 AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
* *
30454785 TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACC-GAAAATGATGAACTTA
66 TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
* * *
30454849 TTCAGAAAATTCTTCATGAAGCATATAATGGTTATTTATCTATACATCCGGGTAGTACAAAAATG
131 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
*
30454914 TATAATGACTTGAAG-AAATGTATTGGTAGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
196 TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
* * *
30454978 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTAACTTTGGGTTTACTTCAGCCAC
261 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
30455043 TGATGGTACCCGAGTGGA
326 TGATGGTACCCGAGTGGA
*
30455061 AAATTTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
1 AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
*
30455126 TGTCGGATTCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
66 TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
30455191 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
131 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
30455256 TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
196 TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
* *
30455321 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCGAGTACCTTCGGGTTTACTTCAGCTAG
261 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
*
30455386 TGATGGTACCCGAGTAGA
326 TGATGGTACCCGAGTGGA
30455404 AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
1 AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
* * *
30455469 TGTCGGATCCGTTGATTGTTTGAT-ATTTGAGGTAGAATTTATGTACCAAAAAATGATGAACTCA
66 TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
30455533 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
131 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
*
30455598 TATAATGACTTGAAGAAAATGTATTGGTGGTCAGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
196 TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
30455663 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
261 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
30455728 TGATGGTACCCGAGTGGA
326 TGATGGTACCCGAGTGGA
30455746 AA
1 AA
30455748 TGGGATAGGA
Statistics
Matches: 661, Mismatches: 24, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
341 110 0.17
342 340 0.51
343 211 0.32
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (343 bp):
AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
TGATGGTACCCGAGTGGA
Found at i:30461247 original size:43 final size:42
Alignment explanation
Indices: 30461150--30461271 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 42
30461140 TAGGGTTAGT
*
30461150 TGAGATTACC-TGTAACACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
30461192 TGAGACTT-CGTGTAAGACCATAGCTGGGCTATTTGCATCGATA
1 TGAGA-TTCCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
30461235 TGAGATTCCGTGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTCCGTGTAAGACCATATCTGGGATATGGCAT
30461272 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.43
43 38 0.55
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTCCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:30461382 original size:20 final size:20
Alignment explanation
Indices: 30461354--30461400 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
30461344 TGGCAATGTT
30461354 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
30461374 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
30461394 TAAGTTG
1 TAAGTTG
30461401 CAAGTTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:30466954 original size:27 final size:27
Alignment explanation
Indices: 30466924--30467101 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30466914 ATATTGAGTC
* * * *
30466924 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30466951 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30466978 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30467006 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30467033 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30467060 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30467087 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30467102 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30467063 original size:82 final size:81
Alignment explanation
Indices: 30466945--30467100 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30466935 TGCTATATAA
* *
30466945 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30467010 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30467027 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30467091 CACTTAGTGC
65 CACTTAGTGC
30467101 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30469608 original size:27 final size:27
Alignment explanation
Indices: 30469569--30469687 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
30469559 TGGATAAGTT
*
30469569 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
30469596 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
30469623 GTAGAAATATCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
30469650 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
30469677 GTAAAATTACC
1 GTAGAATTACC
30469688 ATTTTGCCCC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:30493318 original size:342 final size:343
Alignment explanation
Indices: 30492358--30493387 Score: 1882
Period size: 343 Copynumber: 3.0 Consensus size: 343
30492348 TGAAACCCAG
*
30492358 AAATGTGACAATGATTTGTAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
1 AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
* *
30492423 TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCGAAAAATGATGAACTTA
66 TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
* * *
30492488 TTCAGAAAATTCTTCATGAAGCATATAATGGTTATTTATCTATACATCCGGGTAGTACAAAAATG
131 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
*
30492553 TATAATGACTTGAAGAAAATGTATTGGTAGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
196 TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
* * *
30492618 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTAACTTTGGGTTTACTTCAGCCAC
261 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
30492683 TGATGGTACCCGAGTGGA
326 TGATGGTACCCGAGTGGA
*
30492701 AAATTTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
1 AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
*
30492766 TGTCGGATTCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
66 TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
30492831 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
131 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
30492896 TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
196 TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
* *
30492961 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCGAGTACCTTCGGGTTTACTTCAGCTAG
261 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
*
30493026 TGATGGTACCCGAGTAGA
326 TGATGGTACCCGAGTGGA
30493044 AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
1 AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
* * *
30493109 TGTCGGATCCGTTGATTGTTTGAT-ATTTGAGGTAGAATTTATGTACCAAAAAATGATGAACTCA
66 TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
30493173 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
131 TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
*
30493238 TATAATGACTTGAAGAAAATGTATTGGTGGTCAGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
196 TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
30493303 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
261 GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
30493368 TGATGGTACCCGAGTGGA
326 TGATGGTACCCGAGTGGA
30493386 AA
1 AA
30493388 TGGGATAGGA
Statistics
Matches: 663, Mismatches: 24, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
342 249 0.38
343 414 0.62
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (343 bp):
AAATGTGACAATGATTTGCAAGCCAAGAGAGCTTATTGTGAATCGGTTAGTGATTCAGATTTTCA
TGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTACCAAAAAATGATGAACTCA
TTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACATCCGGGTAGTACAAAAATG
TATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAGATATCTCCGAGTTTGTTTC
GAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCTTCGGGTTTACTTCAGCCAG
TGATGGTACCCGAGTGGA
Found at i:30498899 original size:43 final size:42
Alignment explanation
Indices: 30498802--30498923 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 42
30498792 TAGGGTTAGT
*
30498802 TGAGATTACC-TGTAACACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
30498844 TGAGACTT-CGTGTAAGACCATAGCTGGGCTATTTGCATCGATA
1 TGAGA-TTCCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
30498887 TGAGATTCCGTGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTCCGTGTAAGACCATATCTGGGATATGGCAT
30498924 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.43
43 38 0.55
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTCCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:30499034 original size:20 final size:20
Alignment explanation
Indices: 30499006--30499052 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
30498996 TGGCAATGTT
30499006 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
30499026 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
30499046 TAAGTTG
1 TAAGTTG
30499053 CAAGTTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:30504999 original size:28 final size:28
Alignment explanation
Indices: 30504936--30505061 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
30504926 ATATTAAGTC
* *
30504936 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
30504963 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
30504991 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
30505019 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
30505047 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30505062 GTACAATTTA
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.23
28 72 0.77
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:30507978 original size:24 final size:25
Alignment explanation
Indices: 30507944--30508076 Score: 109
Period size: 24 Copynumber: 5.5 Consensus size: 25
30507934 TCCCAGCTAT
*
30507944 ATAAT-GGGAAGCTCA-TAAGAGCC
1 ATAATCGGGAAGCTCACAAAGAGCC
* *
30507967 ATAATCGGGAAGTTCACAAAGAACC
1 ATAATCGGGAAGCTCACAAAGAGCC
* *
30507992 AT-ATCGGGAAGGTCACAAAAAGCC
1 ATAATCGGGAAGCTCACAAAGAGCC
*
30508016 -T-ATCAGGAAGCTCACAAAGAGCC
1 ATAATCGGGAAGCTCACAAAGAGCC
* * *
30508039 ATGTAA-GGGGAAGCTC-CGAATAGCC
1 A--TAATCGGGAAGCTCACAAAGAGCC
30508064 ATATATCGGGAAG
1 ATA-ATCGGGAAG
30508077 TTCAAGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
23 27 0.31
24 29 0.33
25 22 0.25
26 9 0.10
27 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.16
Consensus pattern (25 bp):
ATAATCGGGAAGCTCACAAAGAGCC
Found at i:30511309 original size:9 final size:9
Alignment explanation
Indices: 30511277--30511303 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
30511267 GTCCGTCTAA
30511277 GTATGAAAT
1 GTATGAAAT
30511286 GTATGAAAT
1 GTATGAAAT
30511295 GTATGAAAT
1 GTATGAAAT
30511304 TAATGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (9 bp):
GTATGAAAT
Found at i:30512182 original size:25 final size:25
Alignment explanation
Indices: 30512154--30512203 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
30512144 ATAAACAAGA
30512154 TTGGTAAGTTTAGTTTCTGTTATAC
1 TTGGTAAGTTTAGTTTCTGTTATAC
30512179 TTGGTAAGTTTAGTTTCTGTTATAC
1 TTGGTAAGTTTAGTTTCTGTTATAC
30512204 GAACTTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (25 bp):
TTGGTAAGTTTAGTTTCTGTTATAC
Found at i:30515744 original size:30 final size:30
Alignment explanation
Indices: 30515710--30515772 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
30515700 ATGATATGTG
30515710 ATTGCCAAATGTGATTGTTAAGTGAATAAT
1 ATTGCCAAATGTGATTGTTAAGTGAATAAT
30515740 ATTGCCAAATGTGATTGTTAAGTGAATAAT
1 ATTGCCAAATGTGATTGTTAAGTGAATAAT
30515770 ATT
1 ATT
30515773 AGTTAAGTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (30 bp):
ATTGCCAAATGTGATTGTTAAGTGAATAAT
Found at i:30516765 original size:48 final size:48
Alignment explanation
Indices: 30516694--30516897 Score: 318
Period size: 48 Copynumber: 4.2 Consensus size: 48
30516684 CAAGATAAAT
* * *
30516694 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
30516742 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
30516790 ATAAATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 AT--ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
30516840 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
30516888 ATGTGTATAT
1 ATATGTATAT
30516898 ATTGTGGCCG
Statistics
Matches: 142, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
48 98 0.69
50 44 0.31
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:30516899 original size:98 final size:98
Alignment explanation
Indices: 30516696--30516889 Score: 343
Period size: 98 Copynumber: 2.0 Consensus size: 98
30516686 AGATAAATAT
* *
30516696 ATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
30516761 CCGAATGGCTAACATGAAATATGTATGAGATAA
66 CCGAATGGCTAACATGAAATATGTATGAGATAA
*
30516794 ATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
**
30516859 CCGAATGGCTAATGTGAAATATGTATGAGAT
66 CCGAATGGCTAACATGAAATATGTATGAGAT
30516890 GTGTATATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (98 bp):
ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
CCGAATGGCTAACATGAAATATGTATGAGATAA
Found at i:30517122 original size:36 final size:37
Alignment explanation
Indices: 30517030--30517138 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
30517020 GGAAATATAT
30517030 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
30517067 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30517104 TCCGGGT-AGACCCGATGACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
30517139 TCGAGCTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 26 0.39
37 41 0.61
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:30524047 original size:15 final size:15
Alignment explanation
Indices: 30524027--30524056 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30524017 ATTTATTTGC
30524027 ATTATTATTACTATT
1 ATTATTATTACTATT
*
30524042 ATTATTATTTCTATT
1 ATTATTATTACTATT
30524057 TTTTTAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTACTATT
Found at i:30524636 original size:27 final size:26
Alignment explanation
Indices: 30524594--30524664 Score: 65
Period size: 28 Copynumber: 2.6 Consensus size: 26
30524584 TACTTTGTGA
30524594 ATTATTTATCTT-AATTT-ATTTAACAT
1 ATTATTTAT-TTAAATTTGATTT-ACAT
* *
30524620 ATTATTTATTTGAAATTTGCTTTATAT
1 ATTATTTATTT-AAATTTGATTTACAT
30524647 ATTATGTTATTTCAAATT
1 ATTAT-TTATTT-AAATT
30524665 GTTTTATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
25 2 0.05
26 9 0.24
27 13 0.34
28 14 0.37
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTATTTATTTAAATTTGATTTACAT
Found at i:30524670 original size:27 final size:27
Alignment explanation
Indices: 30524618--30524679 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
30524608 TTTATTTAAC
*
30524618 ATATTATTTATTTGAAATTTGCTTTAT
1 ATATTATTTATTTCAAATTTGCTTTAT
*
30524645 ATATTATGTTATTTCAAA-TTGTTTTAT
1 ATATTAT-TTATTTCAAATTTGCTTTAT
*
30524672 ATTTTATT
1 ATATTATT
30524680 CATGTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 21 0.68
28 9 0.29
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (27 bp):
ATATTATTTATTTCAAATTTGCTTTAT
Found at i:30526048 original size:20 final size:20
Alignment explanation
Indices: 30526023--30526067 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30526013 AGGGACTAAA
* *
30526023 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
30526043 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
30526063 ATGAA
1 ATGAA
30526068 TACAAGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:30533574 original size:3 final size:3
Alignment explanation
Indices: 30533520--30533560 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
30533510 TATACATTTA
30533520 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30533561 GTTTTGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:30534118 original size:3 final size:3
Alignment explanation
Indices: 30534110--30534148 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
30534100 CATTGTTTGC
*
30534110 ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT AAT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30534149 ATATACTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:30534131 original size:14 final size:14
Alignment explanation
Indices: 30534112--30534148 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
30534102 TTGTTTGCAT
30534112 TATTATTATTATTA
1 TATTATTATTATTA
30534126 TATTATTATTATTA
1 TATTATTATTATTA
30534140 -ATATATTAT
1 TAT-TATTAT
30534149 ATATACTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:30534132 original size:17 final size:17
Alignment explanation
Indices: 30534110--30534148 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
30534100 CATTGTTTGC
*
30534110 ATTATTATTATTATTAT
1 ATTATTATTATTAATAT
30534127 ATTATTATTATTAATAT
1 ATTATTATTATTAATAT
30534144 ATTAT
1 ATTAT
30534149 ATATACTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTATTATTAATAT
Found at i:30538121 original size:9 final size:9
Alignment explanation
Indices: 30538107--30538138 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
30538097 CAACGCTTTT
30538107 TTGCATTCA
1 TTGCATTCA
30538116 TTGCATTCA
1 TTGCATTCA
30538125 TTGCATTCA
1 TTGCATTCA
30538134 -TGCAT
1 TTGCAT
30538139 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:30546251 original size:43 final size:44
Alignment explanation
Indices: 30546171--30546281 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 44
30546161 ATCCTGTCTT
* * * * * *
30546171 CCTGAAGCCTCAGCGAAGCAGATTGAAGTCACTAGTCTTATCTC
1 CCTGAAGCCGCAGTGGAGCAGACTGAAGTCACAAGTCTCATCTC
* * *
30546215 CCTGAAG-TGCAGTGGAGTAGACTGAAGTTACAAGTCTCATCTC
1 CCTGAAGCCGCAGTGGAGCAGACTGAAGTCACAAGTCTCATCTC
*
30546258 CTTGAAGCCGCAGTGGAGCAGACT
1 CCTGAAGCCGCAGTGGAGCAGACT
30546282 AAATGTACAG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 33 0.61
44 21 0.39
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (44 bp):
CCTGAAGCCGCAGTGGAGCAGACTGAAGTCACAAGTCTCATCTC
Found at i:30548566 original size:3 final size:3
Alignment explanation
Indices: 30548503--30548552 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
30548493 TATACATTTA
30548503 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30548551 TA
1 TA
30548553 GTTTTGATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:30553562 original size:2 final size:2
Alignment explanation
Indices: 30553555--30553584 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30553545 AACGCCTTAA
30553555 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
30553585 TCCCCAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:30560681 original size:23 final size:23
Alignment explanation
Indices: 30560647--30560701 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
30560637 ATTTGATTTT
* *
30560647 TAAT-TTTTGAATTACTTAGTGA
1 TAATATTTAGAATTACTTAATGA
*
30560669 TAATATTTAGAATTATTTAATGA
1 TAATATTTAGAATTACTTAATGA
30560692 TAATATTTAG
1 TAATATTTAG
30560702 GAAAAATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (23 bp):
TAATATTTAGAATTACTTAATGA
Found at i:30563403 original size:34 final size:34
Alignment explanation
Indices: 30563359--30563433 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
30563349 ATAAATGTAT
* *
30563359 ATATATATTCA-TCTTCGGTTATATCAAACCATAC
1 ATATATATTCACT-TTCGATTATACCAAACCATAC
* * *
30563393 ATATGTATTCACTTTCTATTATACCAAACTATAC
1 ATATATATTCACTTTCGATTATACCAAACCATAC
30563427 ATATATA
1 ATATATA
30563434 ATTATGTACT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (34 bp):
ATATATATTCACTTTCGATTATACCAAACCATAC
Found at i:30581866 original size:41 final size:41
Alignment explanation
Indices: 30581767--30581859 Score: 159
Period size: 41 Copynumber: 2.3 Consensus size: 41
30581757 TTATAGCTAA
*
30581767 CTAATGCTCTGGTTTTTAACGGCGTTTTACCAAAAGCGCCG
1 CTAATGCTCTGGTTTTTAACGGCGTTTTACCAAAAACGCCG
*
30581808 CTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAACGCCG
1 CTAATGCTCTGGTTTTTAACGGCGTTTTACCAAAAACGCCG
*
30581849 CTATTGCTCTG
1 CTAATGCTCTG
30581860 TATTTTATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (41 bp):
CTAATGCTCTGGTTTTTAACGGCGTTTTACCAAAAACGCCG
Found at i:30582547 original size:6 final size:6
Alignment explanation
Indices: 30582536--30582565 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
30582526 ACTGCATTTG
30582536 AAAATA AAAATA AAAATA AAAATA ATAAAT
1 AAAATA AAAATA AAAATA AAAATA A-AAAT
30582566 TGATAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:30590952 original size:54 final size:54
Alignment explanation
Indices: 30590768--30590964 Score: 229
Period size: 55 Copynumber: 3.6 Consensus size: 54
30590758 AACATACCAT
* * *
30590768 TGCCATGTCTTGACATGGTCTTA-AGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACA-TGATATCCTTGCCTTATAGAACTCATCAA
* **
30590821 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCATTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * * * *
30590876 TGCCATGTCTTGAAATGGTCTTACATGATTTCCTTGCCTTTTAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* *
30590930 TTCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
30590965 ATCTTACCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 34 0.28
54 41 0.34
55 43 0.35
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:30591134 original size:45 final size:45
Alignment explanation
Indices: 30590922--30591152 Score: 185
Period size: 47 Copynumber: 5.0 Consensus size: 45
30590912 CCTTTTAGAA
* * * * * *
30590922 CTTATCAATTCCATGCCTTGGCATGGTCTTACATGATATCCTTAT
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTAC
*** **
30590967 CTTACCGAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGT
1 CTTACC-AATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTAC
* ** ** *
30591014 CTTAGTGCCAATTCCACATCTTGATGTGGTCTTATATGG-AGTCCTTAATC
1 CTTA---CCAATGCCATGTCTTGACATGGTCTTACATGGTA-TCCTT-A-C
** * * *
30591064 AATACCGATGCCATGTCTTGACATGGTCTTATATGGGATCCTTAC
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTAC
30591109 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
30591153 ACTGTCACAA
Statistics
Matches: 144, Mismatches: 33, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
45 45 0.31
46 9 0.06
47 59 0.41
48 21 0.15
49 6 0.04
50 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (45 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTAC
Found at i:30593443 original size:44 final size:44
Alignment explanation
Indices: 30593393--30593477 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
30593383 TACATTAACT
* *
30593393 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCC
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCC
* *
30593437 GTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
30593478 GAGATATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCC
Found at i:30599806 original size:55 final size:54
Alignment explanation
Indices: 30599660--30599854 Score: 182
Period size: 55 Copynumber: 3.6 Consensus size: 54
30599650 CATACCATTG
* * * * *
30599660 CCATGTCTTAACATGGTCTCACGTGGTATCCTTGCCTTAT-GAACTCA-CTAATT
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATC-AATT
* * ** * *
30599713 CCATGCCTTGGCATGCTCTTACATGGGA-CCTTTACCTTATAGTAAGTCATCAATT
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATT
* * * *
30599768 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGAACTTATCAATT
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATT
*
30599822 CCATGCCTTTG-CATGATCTTACATGATATCCTT
1 CCATGCC-TTGACATGGTCTTACATGATATCCTT
30599855 ATCTTACCAA
Statistics
Matches: 114, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 29 0.25
54 37 0.32
55 43 0.38
56 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATT
Found at i:30600095 original size:44 final size:44
Alignment explanation
Indices: 30600044--30600130 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
30600034 GTATCCTTAA
* *
30600044 CCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTT
* *
30600088 CCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
30600131 GAGATATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
Found at i:30605594 original size:55 final size:55
Alignment explanation
Indices: 30605528--30605638 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
30605518 AACCCTAATC
* *
30605528 TGGTGTTGGATATGGGTTAGGGGTGTTACATTTAGTTAGTATCAGAGTTATGGTT
1 TGGTGTTGGATATGGGTTAGGGGTGTTACATTTAGTTAGTATCAAAGCTATGGTT
30605583 TGGTGTTGGATATGGGTTAGGGGTGTTACATTTAGTTAGTATCAAAGCTATGGTT
1 TGGTGTTGGATATGGGTTAGGGGTGTTACATTTAGTTAGTATCAAAGCTATGGTT
30605638 T
1 T
30605639 AGTTAGTTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.41
Consensus pattern (55 bp):
TGGTGTTGGATATGGGTTAGGGGTGTTACATTTAGTTAGTATCAAAGCTATGGTT
Found at i:30613518 original size:40 final size:40
Alignment explanation
Indices: 30613483--30613634 Score: 261
Period size: 40 Copynumber: 3.8 Consensus size: 40
30613473 GGATATAGCC
*
30613483 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
30613523 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
30613563 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
30613603 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
30613635 TTATCATCCG
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
40 106 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:30627944 original size:12 final size:12
Alignment explanation
Indices: 30627927--30627964 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
30627917 TTATTATAGT
30627927 AAATGATAATTA
1 AAATGATAATTA
30627939 AAATGATAATT-
1 AAATGATAATTA
*
30627950 AAATGA-AAATA
1 AAATGATAATTA
30627961 AAAT
1 AAAT
30627965 ACAAAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 3 0.12
11 10 0.42
12 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (12 bp):
AAATGATAATTA
Found at i:30628246 original size:20 final size:20
Alignment explanation
Indices: 30628197--30628246 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
30628187 ATGTGTATTT
*
30628197 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTGTTGATAGATTA
*
30628217 TGAATATTTGTTGATAG-TTA
1 TGAA-GTTTGTTGATAGATTA
30628237 TGTAAGTTTG
1 TG-AAGTTTG
30628247 GTAAAGTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (20 bp):
TGAAGTTTGTTGATAGATTA
Found at i:30632851 original size:25 final size:26
Alignment explanation
Indices: 30632793--30632852 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 26
30632783 TAGAGCGTAT
30632793 TTAGA-TAGATTTGTTGTTGTGTTTA
1 TTAGACTAGATTTGTTGTTGTGTTTA
30632818 TTGACGACTAGATTTGTTGTTGTGTTTA
1 TT-A-GACTAGATTTGTTGTTGTGTTTA
30632846 TT-GACTA
1 TTAGACTA
30632853 CATTCTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
25 7 0.22
26 1 0.03
27 2 0.06
28 22 0.69
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.52
Consensus pattern (26 bp):
TTAGACTAGATTTGTTGTTGTGTTTA
Found at i:30638821 original size:14 final size:14
Alignment explanation
Indices: 30638804--30638842 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
30638794 TCAAAACAAG
30638804 AATTTAGAACACAT
1 AATTTAGAACACAT
30638818 AATTTAGAACACAT
1 AATTTAGAACACAT
*
30638832 AATTAAGAACA
1 AATTTAGAACA
30638843 AGTCAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.54, C:0.13, G:0.08, T:0.26
Consensus pattern (14 bp):
AATTTAGAACACAT
Found at i:30641191 original size:43 final size:43
Alignment explanation
Indices: 30641043--30641200 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
30641033 TATGTGTTTT
30641043 CATGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGA-TATATGA-TTA
** * ** ** * *
30641087 TGTGTAA-ACCATGTCTGGGATATCAGCATCG-TATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
**
30641128 TGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATATGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATATGATTA
*
30641171 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
30641201 TGTATGAGCG
Statistics
Matches: 88, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
41 10 0.11
42 22 0.25
43 50 0.57
44 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
Found at i:30642723 original size:12 final size:12
Alignment explanation
Indices: 30642706--30642743 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
30642696 TTATTATAGT
30642706 AAATGATAATTA
1 AAATGATAATTA
30642718 AAATGATAATT-
1 AAATGATAATTA
*
30642729 AAATGA-AAATA
1 AAATGATAATTA
30642740 AAAT
1 AAAT
30642744 ACAAAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 3 0.12
11 10 0.42
12 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (12 bp):
AAATGATAATTA
Found at i:30649868 original size:40 final size:40
Alignment explanation
Indices: 30649801--30650073 Score: 350
Period size: 40 Copynumber: 6.8 Consensus size: 40
30649791 ATTACCACAA
* * * ** *
30649801 GCACAATTGCCTTCAGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30649841 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
30649881 GCACAATTGCCTTCGGGTCTTAGCCTTGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCC-CG-GATATATCAACTC
* *
30649923 GCACAAATGCCTGCGGGTCTTAGCCCGGATAAATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30649963 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30650003 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
30650043 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
30650074 AAATTCAAAT
Statistics
Matches: 206, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.00
40 165 0.80
41 6 0.03
42 34 0.17
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:30650018 original size:122 final size:120
Alignment explanation
Indices: 30649835--30650075 Score: 365
Period size: 122 Copynumber: 2.0 Consensus size: 120
30649825 CCGGGCATAG
* * * *
30649835 CAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGCCTTCGGGTC
1 CAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
** * * *
30649900 TTAGCCTTGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATAAAT
66 TTAGCCCGGATA-AAATC-ACTAGCACAAATGCCTGCGGGACTTAGCCCGGATAAAT
30649957 CAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 CAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* *
30650022 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAAA
66 TTAGCCCGGATAAAATCACTAGCACAAATGCCTGCGGGACTTAGCCCGGATAAA
30650076 ATTCAAATGC
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
120 33 0.31
121 4 0.04
122 71 0.66
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
CAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
TTAGCCCGGATAAAATCACTAGCACAAATGCCTGCGGGACTTAGCCCGGATAAAT
Found at i:30652661 original size:18 final size:21
Alignment explanation
Indices: 30652623--30652661 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
30652613 AGTATGTCAG
30652623 TTGTGGAATATGAACGTAAGT
1 TTGTGGAATATGAACGTAAGT
30652644 TTGT-GAATAT-AA-GTAAGT
1 TTGTGGAATATGAACGTAAGT
30652662 ATGCTCGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 6 0.33
21 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (21 bp):
TTGTGGAATATGAACGTAAGT
Found at i:30662439 original size:16 final size:16
Alignment explanation
Indices: 30662418--30662449 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30662408 CGTGTGACCC
30662418 ACATGGCCGGGACACA
1 ACATGGCCGGGACACA
*
30662434 ACATGGCCTGGACACA
1 ACATGGCCGGGACACA
30662450 TAGGTGTGTC
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:0.31, C:0.31, G:0.28, T:0.09
Consensus pattern (16 bp):
ACATGGCCGGGACACA
Found at i:30662505 original size:5 final size:5
Alignment explanation
Indices: 30662495--30662570 Score: 59
Period size: 5 Copynumber: 14.6 Consensus size: 5
30662485 TCACCCCCAT
* *
30662495 TTTTA TTTTA TTTTA TTTTA -TTTA TTATTTG TTTTA TTATT- TATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA -T-TTTA TTTTA TT-TTA TTTTA
30662541 -TTTA TTTTA CTAATTTA TTTTA TTTTA TTT
1 TTTTA TTTTA -T--TTTA TTTTA TTTTA TTT
30662571 ATTATTCTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
4 9 0.16
5 37 0.64
6 4 0.07
7 4 0.07
8 4 0.07
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:30664465 original size:55 final size:55
Alignment explanation
Indices: 30664277--30664531 Score: 262
Period size: 55 Copynumber: 4.8 Consensus size: 55
30664267 ACACGGGTAC
* * * * *
30664277 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA----T-CCTT-TCGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * * *
30664326 CTTACCATTGCCATGTCTCGACAAGGTCTTACATGGTATCCTTGCCTTAT-G-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * *
30664379 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAA
* * *
30664434 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCC-T-TAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
*
30664487 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30664532 AAATCCTAAT
Statistics
Matches: 172, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
49 33 0.19
52 2 0.01
53 49 0.28
54 14 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (55 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
Found at i:30664468 original size:108 final size:110
Alignment explanation
Indices: 30664322--30664524 Score: 322
Period size: 108 Copynumber: 1.9 Consensus size: 110
30664312 GTATCCTTTC
* *
30664322 GAAACTTACCATTGCCATGTCTCGACAAGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACAAGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACC
30664385 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * * *
30664430 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATGTCTCGACAAGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
30664495 ATTGCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
30664525 TATCCTTAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACAAGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Done.