Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 113 of 325
Found at i:33659450 original size:3 final size:3
Alignment explanation
Indices: 33659307--33659432 Score: 62
Period size: 3 Copynumber: 41.3 Consensus size: 3
33659297 TAAAAAAATG
* * *
33659307 ATA ATA GTA ATA A-A ATA ATA GAAA ATA GTA ATA CATTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -A-TA ATA ATA ATA
* * * * *
33659354 TATG CTA ATA ACA ATA ATA ATA TATAA ATA ATA AT- ATG GTA A-A ATA
1 -ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA
* * * *
33659400 ATA ATA AT- GTA TTA ATA AGA ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33659433 AATGAGGTTA
Statistics
Matches: 91, Mismatches: 22, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
2 7 0.08
3 71 0.78
4 10 0.11
5 3 0.03
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33659546 original size:3 final size:3
Alignment explanation
Indices: 33659538--33659735 Score: 64
Period size: 3 Copynumber: 64.0 Consensus size: 3
33659528 ATATATGCAT
* * * *
33659538 ATA ATA ATA ATA ATA ATAA ATA GTA ATA ATG TTA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * * * * *
33659584 AAA ATA GGA ATA A-A GATA GTA ATA ACA GTA ATG GTA ACGTA AAA AGA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA
* * * * *
33659631 ATA ATA ATC AT- GTAA ATT CTA ATA ATA ACA ATA ATA ATGA ATAA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A AT-A ATA
* * *
33659678 ATA ATA ATA AT- GTA TTT ATA ATGGA A-A A-A ATA ATA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA AT-A ATA
33659723 ATA ATAA ATA ATA
1 ATA AT-A ATA ATA
33659736 GTAAAGGAAA
Statistics
Matches: 139, Mismatches: 42, Indels: 28
0.67 0.20 0.13
Matches are distributed among these distances:
2 7 0.05
3 110 0.79
4 17 0.12
5 5 0.04
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:33659683 original size:20 final size:20
Alignment explanation
Indices: 33659654--33659734 Score: 65
Period size: 20 Copynumber: 3.8 Consensus size: 20
33659644 AAATTCTAAT
*
33659654 AATAACAATAATAATGAATA
1 AATAATAATAATAATGAATA
*
33659674 AATAATAATAATAATGTATTTA
1 AATAATAATAATAATG-A-ATA
*
33659696 TAATGGAAAAAATAATAAT-AATA
1 -AAT---AATAATAATAATGAATA
33659719 AATAATAATAAATAAT
1 AATAATAAT-AATAAT
33659735 AGTAAAGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
19 5 0.10
20 21 0.43
21 1 0.02
22 5 0.10
23 5 0.10
24 1 0.02
26 11 0.22
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAATAATAATAATGAATA
Found at i:33659731 original size:23 final size:23
Alignment explanation
Indices: 33659651--33659735 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
33659641 TGTAAATTCT
*
33659651 AATAATAA-CAATAATAATGAATA
1 AATAATAATAAATAATAAT-AATA
* *
33659674 AATAATAAT-AATAAT-GT-ATT
1 AATAATAATAAATAATAATAATA
* *
33659694 TATAATGGAAAAAATAATAATAATA
1 AATAAT--AATAAATAATAATAATA
33659719 AATAATAATAAATAATA
1 AATAATAATAAATAATA
33659736 GTAAAGGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
20 7 0.15
22 3 0.06
23 30 0.62
24 1 0.02
25 7 0.15
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (23 bp):
AATAATAATAAATAATAATAATA
Found at i:33659859 original size:14 final size:15
Alignment explanation
Indices: 33659840--33659868 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33659830 ATTTAGATGG
33659840 TATAGTAA-AATAAT
1 TATAGTAATAATAAT
33659854 TATAGTAATAATAAT
1 TATAGTAATAATAAT
33659869 AAGTAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TATAGTAATAATAAT
Found at i:33659930 original size:14 final size:14
Alignment explanation
Indices: 33659911--33659940 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33659901 ATGTATGTTA
*
33659911 ATAAAAATGATAAT
1 ATAAAAATAATAAT
33659925 ATAAAAATAATAAT
1 ATAAAAATAATAAT
33659939 AT
1 AT
33659941 GGTAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAAAAATAATAAT
Found at i:33659988 original size:15 final size:16
Alignment explanation
Indices: 33659885--33659991 Score: 56
Period size: 19 Copynumber: 6.1 Consensus size: 16
33659875 AAAATATTAG
33659885 TATGTTAATAAAAATAA
1 TATG-TAATAAAAATAA
*
33659902 TGTATGTTAATAAAAATGA
1 --TATG-TAATAAAAATAA
*
33659921 TAATATAA-AAATAATAA
1 T-ATGTAATAAA-AATAA
*
33659938 TATGGTAAAAATTAGTAATAA
1 TAT-GTAATAA--A--AATAA
*
33659959 TATGTATTAAAAATAA
1 TATGTAATAAAAATAA
*
33659975 TA-GTAATGAAAATAA
1 TATGTAATAAAAATAA
33659990 TA
1 TA
33659992 CTAACGGTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
15 13 0.18
16 12 0.16
17 12 0.16
18 5 0.07
19 16 0.22
20 6 0.08
21 9 0.12
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
TATGTAATAAAAATAA
Found at i:33661554 original size:24 final size:24
Alignment explanation
Indices: 33661526--33661574 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
33661516 TTTTAATATG
33661526 TTCCATTAGTTATTTTAGCAATGT
1 TTCCATTAGTTATTTTAGCAATGT
33661550 TTCCATTAGTTATTTTAGCAATGT
1 TTCCATTAGTTATTTTAGCAATGT
33661574 T
1 T
33661575 AAATACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (24 bp):
TTCCATTAGTTATTTTAGCAATGT
Found at i:33667583 original size:27 final size:27
Alignment explanation
Indices: 33667542--33667623 Score: 137
Period size: 27 Copynumber: 3.0 Consensus size: 27
33667532 CTAATAAGTT
* *
33667542 TGTCCTACACCAGACACATTAAAATTA
1 TGTCCTAAACTAGACACATTAAAATTA
33667569 TGTCCTAAACTAGACACATTAAAATTA
1 TGTCCTAAACTAGACACATTAAAATTA
*
33667596 TGTTCTAAACTAGACACATTAAAATTA
1 TGTCCTAAACTAGACACATTAAAATTA
33667623 T
1 T
33667624 ATTAATATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
TGTCCTAAACTAGACACATTAAAATTA
Found at i:33689478 original size:5 final size:5
Alignment explanation
Indices: 33689468--33689496 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
33689458 TAAATGTAAT
33689468 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
33689497 TTATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:33695132 original size:43 final size:41
Alignment explanation
Indices: 33695085--33695208 Score: 108
Period size: 41 Copynumber: 3.0 Consensus size: 41
33695075 AATGCCAACA
33695085 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACA-GTAATCACATATCGATGCCA-TG
* ** * * *
33695128 TCCCACACAG-GGTCTTACACAAATCAAATA-CAATGCTGATG
1 TCCCAGAC-GTGGTCTTACAGTAATCACATATCGATGC-CATG
* * *
33695169 TCCTAGACATGGTCTTACACGTAATCGCATATCGATGCCA
1 TCCCAGACGTGGTCTTACA-GTAATCACATATCGATGCCA
33695209 ACATGCTAGA
Statistics
Matches: 61, Mismatches: 15, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
41 22 0.36
42 17 0.28
43 21 0.34
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (41 bp):
TCCCAGACGTGGTCTTACAGTAATCACATATCGATGCCATG
Found at i:33697257 original size:32 final size:33
Alignment explanation
Indices: 33697219--33697292 Score: 105
Period size: 35 Copynumber: 2.2 Consensus size: 33
33697209 AAGAGTCAAT
*
33697219 ATTTAAAG-ATGATAATTATAACTTACATAAAC
1 ATTTAAAGTATGATAATCATAACTTACATAAAC
*
33697251 ATTTAAAGTTTATGATTATCATAACTTACATAAAC
1 ATTTAAAG--TATGATAATCATAACTTACATAAAC
33697286 ATTTAAA
1 ATTTAAA
33697293 AAATATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 8 0.22
35 29 0.78
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.38
Consensus pattern (33 bp):
ATTTAAAGTATGATAATCATAACTTACATAAAC
Found at i:33700030 original size:48 final size:48
Alignment explanation
Indices: 33699959--33700132 Score: 188
Period size: 48 Copynumber: 3.6 Consensus size: 48
33699949 GATGTGTGCT
* *
33699959 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCC
*
33700007 AGTGTAAGACCATGTCTGGGACATGGCATCGTCAATG-TAATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGAT-ATGAGAGCC
* * * * * * * * * * *
33700055 AATGTAGGACCATGTTTGGAATATGGGATCGATATTAAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCC
* *
33700103 AGTGTAAGACCATGTCTGAGACGTGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
33700133 AGCAATTCAC
Statistics
Matches: 101, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
47 1 0.01
48 100 0.99
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCC
Found at i:33705335 original size:14 final size:14
Alignment explanation
Indices: 33705316--33705345 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33705306 TCAAAACAAG
*
33705316 AATTAAGAACACAT
1 AATTAAGAACAAAT
33705330 AATTAAGAACAAAT
1 AATTAAGAACAAAT
33705344 AA
1 AA
33705346 AATATTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (14 bp):
AATTAAGAACAAAT
Found at i:33717196 original size:48 final size:48
Alignment explanation
Indices: 33717138--33717269 Score: 178
Period size: 48 Copynumber: 2.8 Consensus size: 48
33717128 TATGTGTGCT
* *
33717138 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCCATG-ATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CAATGTA-ACGAGAGCC
*
33717186 AGTGTAAGACCATGTCTAGGACATGGCATCGACAATGTAACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGTAACGAGAGCC
* * *
33717234 AGTGTAAGACCATGTTTGGAACATGACATCGACAAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAAT
33717270 TCACCCTCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 73 0.97
49 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGTAACGAGAGCC
Found at i:33720478 original size:40 final size:39
Alignment explanation
Indices: 33720318--33720480 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
33720308 TGTGTATGAA
*
33720318 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
33720357 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
33720396 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
33720435 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
33720475 TGTGCG
1 TGTGCG
33720481 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33720496 original size:40 final size:39
Alignment explanation
Indices: 33720318--33720511 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
33720308 TGTGTATGAA
* *
33720318 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
33720357 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
33720396 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
33720435 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
33720475 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
33720512 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33725271 original size:28 final size:28
Alignment explanation
Indices: 33725206--33725277 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
33725196 ATAGTGAATC
* *
33725206 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
33725235 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
33725263 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33725278 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:33733185 original size:28 final size:28
Alignment explanation
Indices: 33733120--33733191 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
33733110 ATAGTGAATC
* *
33733120 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
33733149 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
33733177 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33733192 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:33739421 original size:40 final size:39
Alignment explanation
Indices: 33739261--33739423 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
33739251 TGTGTATGAA
*
33739261 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
33739300 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
33739339 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
33739378 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
33739418 TGTGCG
1 TGTGCG
33739424 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33739439 original size:40 final size:39
Alignment explanation
Indices: 33739261--33739454 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
33739251 TGTGTATGAA
* *
33739261 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
33739300 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
33739339 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
33739378 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
33739418 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
33739455 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33743109 original size:28 final size:28
Alignment explanation
Indices: 33743075--33743343 Score: 223
Period size: 28 Copynumber: 9.5 Consensus size: 28
33743065 AACCGATCTT
*** *
33743075 GCACACACAGTGCTTGGTTATGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
33743103 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
* * *
33743132 GTACACACAATGCTCGATTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
33743160 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
*
33743189 GCACACACAGTGCTCAGTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
33743217 GCACACACAGTGCCTCAACAACAGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
** *
33743246 GCACACACAGTGCTCGGTTACGAAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
33743274 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
* **
33743303 GCACATACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
*
33743331 ACACACACAGTGC
1 GCACACACAGTGC
33743344 CTATGTTCAC
Statistics
Matches: 182, Mismatches: 55, Indels: 8
0.74 0.22 0.03
Matches are distributed among these distances:
28 98 0.54
29 84 0.46
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.17
Consensus pattern (28 bp):
GCACACACAGTGCTCAATTACGGAACTC
Found at i:33743138 original size:57 final size:57
Alignment explanation
Indices: 33743045--33743345 Score: 476
Period size: 57 Copynumber: 5.2 Consensus size: 57
33743035 GATCTCATTT
* * * *
33743045 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTATGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
33743104 CACACACAGTGCCTCAACAACCGATCTCGTACACACAATGCTCGATTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
33743161 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCAGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
33743218 CACACACAGTGCCTCAACAACAGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
33743275 CACACACAGTGCCTCAACAACCGATCTCGCACATACAGTGCTCGGTTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
33743332 CACACACAGTGCCT
1 CACACACAGTGCCT
33743346 ATGTTCACTT
Statistics
Matches: 224, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
57 217 0.97
59 7 0.03
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:33743192 original size:29 final size:29
Alignment explanation
Indices: 33743100--33743315 Score: 224
Period size: 29 Copynumber: 7.6 Consensus size: 29
33743090 GGTTATGGAA
33743100 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* * * ** * *
33743129 CTCGTACACACAATG-CTCGATTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
33743157 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
*** * *
33743186 CTCGCACACACAGTG-CTCAGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
33743214 CTCGCACACACAGTGCCTCAACAACAGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** *
33743243 CTCGCACACACAGTG-CTCGGTTA-CGAAA
1 CTCGCACACACAGTGCCTCAACAACCG-AT
33743271 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
33743300 CTCGCACATACAGTGC
1 CTCGCACACACAGTGC
33743316 TCGGTTACGG
Statistics
Matches: 146, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
27 1 0.01
28 64 0.44
29 79 0.54
30 2 0.01
ACGTcount: A:0.31, C:0.37, G:0.17, T:0.16
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:33753625 original size:43 final size:43
Alignment explanation
Indices: 33753564--33753658 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
33753554 ACTAAAAACG
* ** *
33753564 CCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGTGAAAAGCA
1 CCGCTAAAGATCATGTTCTTTAACGGAATTTGTGGGAAAAGCA
* * **
33753607 CCGCTAGAGGTCATGTTCTTTAACGGAATTTGTGGGAAAAGTT
1 CCGCTAAAGATCATGTTCTTTAACGGAATTTGTGGGAAAAGCA
33753650 CCGCTAAAG
1 CCGCTAAAG
33753659 GTTATGCTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CCGCTAAAGATCATGTTCTTTAACGGAATTTGTGGGAAAAGCA
Found at i:33757923 original size:40 final size:40
Alignment explanation
Indices: 33757788--33757972 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
33757778 TTCGAATGAT
* * * *
33757788 ATCCGGGCTAAGTCCCGAAGGC-TTTGTCCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
33757828 ATCCGGACTAAGAT-CC-AAGGCATTTGTGCGAGTTACT-A
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
33757866 ATCCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 AT-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
33757906 ATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
33757947 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
33757973 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
38 4 0.03
39 50 0.40
40 69 0.55
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:33757927 original size:79 final size:80
Alignment explanation
Indices: 33757790--33757972 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
33757780 CGAATGATAT
* *
33757790 CCGGGCTAAGTCCCGAAGGC-TTTGTCCTAAGTGACTATATCCGGACTAAGATCCAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTCCTAAGTGACTAAATCCGGACTAAGATCCAAGGCATTTA
*
33757854 TGCGAGTTACTA-ATC
66 TGCGAGTTACTATA-A
* * * **
33757869 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTCCTAAGTGACTAAATCCGGACTAAGAT-CC-AAGGCATT
33757931 TATGCGAGTTACTATAA
64 TATGCGAGTTACTATAA
*
33757948 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33757973 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 28 0.31
79 46 0.51
80 15 0.17
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTCCTAAGTGACTAAATCCGGACTAAGATCCAAGGCATTTA
TGCGAGTTACTATAA
Found at i:33757994 original size:79 final size:79
Alignment explanation
Indices: 33757844--33758005 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 79
33757834 ACTAAGATCC
* * **
33757844 AAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
*
33757909 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
*
33757923 AAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC-AA
1 AAGGCATTTATGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
*
33757985 TATCC-GGTTAAATTCCG
63 -ATCCGGGTTAAATCCCG
33758002 AAGG
1 AAGG
33758006 TACGTGATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
AAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:33763632 original size:48 final size:49
Alignment explanation
Indices: 33763561--33763689 Score: 147
Period size: 48 Copynumber: 2.7 Consensus size: 49
33763551 GCACATTAAA
* * * *
33763561 GTCGATGTCGTGTCCCAGACAGGTCTTACATTGACTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GT
* * * *
33763610 G-CTGATGCCATGTCCC-GACAGGTTTTACGCTGGCTCTCATCTATCGGT
1 GTC-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
33763658 GTCGATGCCATGTCCCAGACAGGTCTTACACT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACT
33763690 AGCTTGTATA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
47 1 0.02
48 39 0.59
49 26 0.39
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.30
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
Found at i:33763709 original size:97 final size:95
Alignment explanation
Indices: 33763561--33763783 Score: 229
Period size: 97 Copynumber: 2.3 Consensus size: 95
33763551 GCACATTAAA
* * * *
33763561 GTCGATGTCGTGTCCCAGACAGGTCTTACA-TTGACTTTCATATATCGAGGCTGATGCCATGTCC
1 GTCGATG-CATGTCCCAGACAGGTCTTACACTAGACTTTCATATACCAAGGCTGATG-CATGTCC
* * * **
33763625 C-GACAGGTTTTACGCTGGCTCTCATCTATCGGT
64 CAGACAGGTCTTACACTAGCTCTCATC--TCAAT
*
33763658 GTCGATGCCATGTCCCAGACAGGTCTTACACTAG-CTTGT-ATATCCCAAGGCTGATGCATGTCC
1 GTCGATG-CATGTCCCAGACAGGTCTTACACTAGACTT-TCATATACCAAGGCTGATGCATGTCC
* * *
33763721 CATACATGTCTTACACTAGCTCTCGTCTCAAT
64 CAGACAGGTCTTACACTAGCTCTCATCTCAAT
* *
33763753 GTCGATGCATGTCCTAGACATGTCTTACACT
1 GTCGATGCATGTCCCAGACAGGTCTTACACT
33763784 GGCTCACATG
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
94 22 0.21
95 10 0.09
96 8 0.07
97 64 0.60
98 3 0.03
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (95 bp):
GTCGATGCATGTCCCAGACAGGTCTTACACTAGACTTTCATATACCAAGGCTGATGCATGTCCCA
GACAGGTCTTACACTAGCTCTCATCTCAAT
Found at i:33763774 original size:46 final size:47
Alignment explanation
Indices: 33763657--33763792 Score: 143
Period size: 46 Copynumber: 2.9 Consensus size: 47
33763647 CATCTATCGG
* * *
33763657 TGTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCAA
1 TGTCGATG-CATGTCCCAGACATGTCTTACACTAGC-TCTACATCCCAA
* * * *
33763706 -GGCTGATGCATGTCCCATACATGTCTTACACTAGCTCT-CGTCTCAA
1 TGTC-GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCCCAA
* *
33763752 TGTCGATGCATGTCCTAGACATGTCTTACACTGGCTC-ACAT
1 TGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACAT
33763793 GCCACCCAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
46 37 0.51
47 4 0.06
48 27 0.38
49 4 0.06
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
TGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCCCAA
Found at i:33774146 original size:28 final size:28
Alignment explanation
Indices: 33774077--33774177 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33774067 GACAAGATTG
* * * *
33774077 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
33774107 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33774135 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
33774164 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33774178 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33774171 original size:29 final size:28
Alignment explanation
Indices: 33774106--33774177 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
33774096 AAAATTGTAC
*
33774106 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
33774134 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
33774163 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
33774178 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:33780920 original size:40 final size:40
Alignment explanation
Indices: 33780875--33781041 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
33780865 CGGAATATAA
33780875 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
33780915 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
33780955 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
33780995 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
33781034 CCGGATAT
1 CCGGATAT
33781042 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:33788912 original size:40 final size:40
Alignment explanation
Indices: 33788867--33789033 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
33788857 CGGAATATAA
33788867 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
33788907 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
33788947 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
33788987 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
33789026 CCGGATAT
1 CCGGATAT
33789034 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:33793155 original size:40 final size:38
Alignment explanation
Indices: 33793106--33793213 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
33793096 ATCACGATTT
*
33793106 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
33793146 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
33793186 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
33793214 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:33793173 original size:80 final size:80
Alignment explanation
Indices: 33793065--33793213 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33793055 TATGGTAACC
* * * *
33793065 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33793129 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
33793145 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33793210 CCGG
66 CCGG
33793214 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:33801221 original size:80 final size:80
Alignment explanation
Indices: 33801137--33801285 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33801127 TATGGTAACC
* * * *
33801137 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33801201 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
33801217 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33801282 CCGG
66 CCGG
33801286 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:33801227 original size:40 final size:38
Alignment explanation
Indices: 33801178--33801285 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
33801168 ATCACGATTT
*
33801178 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
33801218 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
33801258 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
33801286 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:33804800 original size:3 final size:3
Alignment explanation
Indices: 33804792--33804832 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
33804782 TGTAGTAATT
* *
33804792 ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG ATA ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
33804833 AATGTGACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:33804809 original size:12 final size:12
Alignment explanation
Indices: 33804787--33804832 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
33804777 GGAACTGTAG
*
33804787 TAATTATGATGA
1 TAATGATGATGA
*
33804799 TGATGATGATGA
1 TAATGATGATGA
33804811 TAATGATGATGA
1 TAATGATGATGA
33804823 TAATGATGAT
1 TAATGATGAT
33804833 AATGTGACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (12 bp):
TAATGATGATGA
Found at i:33804833 original size:9 final size:9
Alignment explanation
Indices: 33804787--33804847 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 9
33804777 GGAACTGTAG
*
33804787 TAATTATGA
1 TAATGATGA
*
33804796 TGATGATGA
1 TAATGATGA
* *
33804805 TGATGATAA
1 TAATGATGA
*
33804814 TGATGATGA
1 TAATGATGA
33804823 TAATGATGA
1 TAATGATGA
33804832 TAATG-TGA
1 TAATGATGA
*
33804840 CAATGATG
1 TAATGATG
33804848 TTTTTTGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
8 7 0.16
9 38 0.84
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (9 bp):
TAATGATGA
Found at i:33805131 original size:15 final size:16
Alignment explanation
Indices: 33805111--33805140 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33805101 AGGCAAATTA
33805111 AAATA-TTTAAAAAAT
1 AAATATTTTAAAAAAT
33805126 AAATATTTTAAAAAA
1 AAATATTTTAAAAAA
33805141 GAGGCATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATTTTAAAAAAT
Found at i:33813502 original size:79 final size:80
Alignment explanation
Indices: 33813350--33813566 Score: 185
Period size: 79 Copynumber: 2.7 Consensus size: 80
33813340 AAATCACATA
* * ** * * *
33813350 CCTTC-GGAGCTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATG
1 CCTTCGGGA-CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG
*
33813413 GTAACCCGCACCAAGG
65 ATAACCCGCACCAAGG
* *
33813429 CCTAT-GGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-
1 CCT-TCGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* * * *
33813490 GAATGACTCGCACGAATG
64 G-ATAACCCGCACCAAGG
* * * * *
33813508 CCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
33813567 TTATAATTTC
Statistics
Matches: 111, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
78 3 0.03
79 67 0.60
80 40 0.36
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGA
TAACCCGCACCAAGG
Found at i:33813511 original size:40 final size:40
Alignment explanation
Indices: 33813459--33813566 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
33813449 TATCACGATT
** *
33813459 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
33813499 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
33813539 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
33813567 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:33844568 original size:2 final size:2
Alignment explanation
Indices: 33844561--33844596 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
33844551 ATTGAAAGGG
* *
33844561 AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33844597 GTATTAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:33847624 original size:49 final size:49
Alignment explanation
Indices: 33847568--33847696 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
33847558 AGTTGATGTA
* * * * *
33847568 GTGTCCCAGACAGGTCTTACACTGACTTTCTTATATCGAG-GCCGATGCC
1 GTGTCCCAAATAGGTCTTACACTGACTCTCATATATAG-GTGCCGATGCC
* *
33847617 GTGTCCCAAATAGGTCTTACACTGGCTCTCATCTATAGGTGCCGATGCC
1 GTGTCCCAAATAGGTCTTACACTGACTCTCATATATAGGTGCCGATGCC
* *
33847666 ATGTCCCAAATAGGTCTTACACTGACACTCA
1 GTGTCCCAAATAGGTCTTACACTGACTCTCA
33847697 ACAAGCTAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GTGTCCCAAATAGGTCTTACACTGACTCTCATATATAGGTGCCGATGCC
Found at i:33847775 original size:48 final size:46
Alignment explanation
Indices: 33847709--33847829 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
33847699 AAGCTAACGC
* * *
33847709 CATGTCCCAGATAGGTCTTACACTAGCTTGTACAT-CTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATACT-GAGGCCGATG
* * *
33847757 CATGTCCCAGACATGTCTTACACTGGCTCTCATAGTGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATACTGAGGCCGATG
33847803 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
33847830 ACACATATCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 38 0.58
47 3 0.05
48 24 0.37
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATACTGAGGCCGATG
Found at i:33850378 original size:29 final size:29
Alignment explanation
Indices: 33850343--33850401 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
33850333 TGTTTAATGG
33850343 GATGATATATATATATAAATGAAATGTAT
1 GATGATATATATATATAAATGAAATGTAT
33850372 GATGATATATATATATAAATGAAATGTAT
1 GATGATATATATATATAAATGAAATGTAT
33850401 G
1 G
33850402 TGTATGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.37
Consensus pattern (29 bp):
GATGATATATATATATAAATGAAATGTAT
Found at i:33850578 original size:58 final size:58
Alignment explanation
Indices: 33850504--33850726 Score: 179
Period size: 58 Copynumber: 3.9 Consensus size: 58
33850494 TGCGGTGACG
* *
33850504 AGAT-TGGCACTAAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGA-GCTCGAA
* * **
33850561 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGAGCTCGAA
* * ** * * * * * *
33850619 GGGTATGGCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-A
1 AGATATGGCACTAAGTGTGCATGCTGAAAA-TATACGGCACTAAGTGTGCGAGCTCGAA
** * *
33850677 TTATATAGCACTAAGTGTGCGA-GTTGAATACATATA--GCACTAAGTGTGCG
1 AGATATGGCACTAAGTGTGC-ATGCTGAA-A-ATATACGGCACTAAGTGTGCG
33850727 GATTCACTAT
Statistics
Matches: 133, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
57 17 0.13
58 90 0.68
59 25 0.19
60 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGAGCTCGAA
Found at i:33850639 original size:29 final size:29
Alignment explanation
Indices: 33850508--33850638 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
33850498 GTGACGAGAT
*
33850508 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
33850537 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
33850566 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
33850595 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
33850624 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
33850639 GGGTTTAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:33850695 original size:28 final size:28
Alignment explanation
Indices: 33850626--33850726 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33850616 GAAGGGTATG
* * * *
33850626 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
33850656 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33850684 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
33850713 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33850727 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33858108 original size:27 final size:27
Alignment explanation
Indices: 33858078--33858130 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
33858068 TTTTTTAAAA
*
33858078 ATCAAATGATATAACTTTTGACTAATG
1 ATCAAAAGATATAACTTTTGACTAATG
* * *
33858105 ATCAAAAGATTTATCTTTTGATTAAT
1 ATCAAAAGATATAACTTTTGACTAAT
33858131 TACACCCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (27 bp):
ATCAAAAGATATAACTTTTGACTAATG
Found at i:33861425 original size:15 final size:15
Alignment explanation
Indices: 33861405--33861452 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
33861395 CTGGTGGATG
*
33861405 AAGGAGAAGAAACGA
1 AAGGAGAAGAAAAGA
33861420 AAGGAGAAGAAAAGA
1 AAGGAGAAGAAAAGA
*
33861435 AGAGAAGAAGAAGAAGA
1 A-AGGAGAAGAA-AAGA
33861452 A
1 A
33861453 GAAGGAGGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.52
16 9 0.31
17 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGGAGAAGAAAAGA
Found at i:33861430 original size:3 final size:3
Alignment explanation
Indices: 33861424--33861456 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
33861414 AAACGAAAGG
33861424 AGA AGA A-A AGA AG- AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
33861457 GAGGAGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:33861451 original size:9 final size:9
Alignment explanation
Indices: 33861424--33861456 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
33861414 AAACGAAAGG
33861424 AGAAGAA-A
1 AGAAGAAGA
33861432 AGAAG-AGA
1 AGAAGAAGA
33861440 AGAAGAAGA
1 AGAAGAAGA
33861449 AGAAGAAG
1 AGAAGAAG
33861457 GAGGAGGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.04
8 11 0.48
9 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
AGAAGAAGA
Found at i:33863553 original size:14 final size:14
Alignment explanation
Indices: 33863542--33863569 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33863532 ATTTCTAATG
33863542 ATACTATTCTAACA
1 ATACTATTCTAACA
33863556 ATACTATTCTAACA
1 ATACTATTCTAACA
33863570 TGTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
ATACTATTCTAACA
Found at i:33864442 original size:33 final size:33
Alignment explanation
Indices: 33864380--33864442 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
33864370 TATTCACTGT
* *
33864380 AGTACAGCATTCCTCCCGACCCGTATCCACTAC
1 AGTACAGCACTCCTCCCGACCAGTATCCACTAC
* * *
33864413 AGTACAGCACTCCTCTCGGCCAGTGTCCAC
1 AGTACAGCACTCCTCCCGACCAGTATCCAC
33864443 CACATTATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.21
Consensus pattern (33 bp):
AGTACAGCACTCCTCCCGACCAGTATCCACTAC
Found at i:33864976 original size:35 final size:35
Alignment explanation
Indices: 33864937--33865038 Score: 83
Period size: 35 Copynumber: 3.1 Consensus size: 35
33864927 TTGTAATTTA
33864937 AATTTTGTTATATAAATTAAATACATTACAACATT
1 AATTTTGTTATATAAATTAAATACATTACAACATT
* * * ** * *
33864972 AA--TT-TAAT-TGGAA--CAA-ACATTGTAATATA
1 AATTTTGTTATAT-AAATTAAATACATTACAACATT
33865001 AATTTTGTTATATAAATTAAATACATTACAACATT
1 AATTTTGTTATATAAATTAAATACATTACAACATT
33865036 AAT
1 AAT
33865039 CTAATTGGAA
Statistics
Matches: 45, Mismatches: 14, Indels: 16
0.60 0.19 0.21
Matches are distributed among these distances:
29 11 0.24
30 2 0.04
31 3 0.07
32 10 0.22
33 3 0.07
34 2 0.04
35 14 0.31
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (35 bp):
AATTTTGTTATATAAATTAAATACATTACAACATT
Found at i:33865006 original size:64 final size:64
Alignment explanation
Indices: 33864927--33865053 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
33864917 AAACTTAGTT
* *
33864927 TTGTAATTTAAATTTTGTTATATAAATTAAATACATTACAACATTAATTTAATTGGAACAAACA
1 TTGTAATATAAATTTTGTTATATAAATTAAATACATTACAACATTAATCTAATTGGAACAAACA
33864991 TTGTAATATAAATTTTGTTATATAAATTAAATACATTACAACATTAATCTAATTGGAACAAAC
1 TTGTAATATAAATTTTGTTATATAAATTAAATACATTACAACATTAATCTAATTGGAACAAAC
33865054 TATAACTGTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (64 bp):
TTGTAATATAAATTTTGTTATATAAATTAAATACATTACAACATTAATCTAATTGGAACAAACA
Found at i:33869727 original size:13 final size:13
Alignment explanation
Indices: 33869709--33869734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33869699 GCTCGACAAG
33869709 GACACGCCCGTGT
1 GACACGCCCGTGT
33869722 GACACGCCCGTGT
1 GACACGCCCGTGT
33869735 TGGATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:33897414 original size:14 final size:15
Alignment explanation
Indices: 33897365--33897414 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
33897355 GTATCTTGGG
*
33897365 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
33897380 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
33897395 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
33897409 TTTCTT
1 TTTCTT
33897415 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:33905027 original size:28 final size:29
Alignment explanation
Indices: 33904995--33905080 Score: 108
Period size: 29 Copynumber: 3.0 Consensus size: 29
33904985 TACATACATG
33904995 CATATGGCCCACTAGGCCC-AATC-TCATT
1 CATATGGCCCACTAGGCCCAAATCAT-ATT
*
33905023 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAAATCATATT
*
33905052 CATATGGCCCATCT-GGCCCGAATCA-ATT
1 CATATGGCCCA-CTAGGCCCAAATCATATT
33905080 C
1 C
33905081 CAAGCCATGT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
28 22 0.42
29 28 0.54
30 2 0.04
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCATATT
Found at i:33905321 original size:16 final size:16
Alignment explanation
Indices: 33905296--33905332 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
33905286 ATATCCAGAT
*
33905296 TTTCAGCTTTTCGGCA
1 TTTCAACTTTTCGGCA
33905312 TTTCAACTTTTCGGCA
1 TTTCAACTTTTCGGCA
33905328 TTTCA
1 TTTCA
33905333 GGATTTACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:33924901 original size:18 final size:19
Alignment explanation
Indices: 33924878--33924919 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
33924868 TTCCCAGTTG
33924878 ATAATCAATT-ATCAGCTC
1 ATAATCAATTAATCAGCTC
*
33924896 ATAATC-CTTAATCAGCTC
1 ATAATCAATTAATCAGCTC
33924914 -TAATCA
1 ATAATCA
33924920 TCTCCGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAATCAATTAATCAGCTC
Found at i:33929301 original size:49 final size:49
Alignment explanation
Indices: 33929245--33929342 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
33929235 ATAGTGTTGA
*
33929245 CAATGCTCCAATCGTCTTCCAATCTTCACAAGTCTTCTGGCTCTATAAG
1 CAATGCTCCAACCGTCTTCCAATCTTCACAAGTCTTCTGGCTCTATAAG
33929294 CAATGCTCCAACCGTCTTCCAATCTTCACAAGTCTTCTGGCTCTATAAG
1 CAATGCTCCAACCGTCTTCCAATCTTCACAAGTCTTCTGGCTCTATAAG
33929343 ACAAGGGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (49 bp):
CAATGCTCCAACCGTCTTCCAATCTTCACAAGTCTTCTGGCTCTATAAG
Found at i:33931119 original size:43 final size:43
Alignment explanation
Indices: 33931047--33931157 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
33931037 ATAGGATTTA
33931047 CGATATGTGATTGCGTGTAAGACCATGTCTAGGACA-TCGGCAT
1 CGATATGTGATTGCGTGTAAGACCATGTCTAGGACAGT-GGCAT
* * * *
33931090 CGTATATGTGATT-TGTGTAAGACCCTGTCTGGGATAGTGGCAT
1 CG-ATATGTGATTGCGTGTAAGACCATGTCTAGGACAGTGGCAT
* *
33931133 CGATATGTGATTACATGTAAGACCA
1 CGATATGTGATTGCGTGTAAGACCA
33931158 CATCTGGGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 10 0.17
43 37 0.64
44 11 0.19
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTGCGTGTAAGACCATGTCTAGGACAGTGGCAT
Found at i:33935865 original size:24 final size:24
Alignment explanation
Indices: 33935833--33935919 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
33935823 AATCTCAAAT
33935833 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
33935857 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
33935881 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
33935905 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
33935920 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:33935885 original size:48 final size:48
Alignment explanation
Indices: 33935833--33935941 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
33935823 AATCTCAAAT
** *
33935833 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
33935881 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
33935929 GCACTATGTGTGC
1 GCACTATGTGTGC
33935942 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:33935932 original size:24 final size:24
Alignment explanation
Indices: 33935833--33935941 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
33935823 AATCTCAAAT
*
33935833 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
33935857 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
33935881 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
33935905 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
33935929 GCACTATGTGTGC
1 GCACTATGTGTGC
33935942 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:33939796 original size:49 final size:49
Alignment explanation
Indices: 33939736--33940128 Score: 597
Period size: 49 Copynumber: 8.4 Consensus size: 49
33939726 TACATATGTG
* * * *
33939736 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
33939785 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
33939834 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
33939883 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
33939926 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
33939972 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
33940015 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
33940061 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
33940110 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
33940129 TAATGTAAAA
Statistics
Matches: 318, Mismatches: 8, Indels: 36
0.88 0.02 0.10
Matches are distributed among these distances:
40 66 0.21
41 4 0.01
42 2 0.01
43 4 0.01
44 4 0.01
45 4 0.01
46 4 0.01
47 2 0.01
48 4 0.01
49 224 0.70
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:33939939 original size:89 final size:89
Alignment explanation
Indices: 33939741--33940107 Score: 608
Period size: 89 Copynumber: 4.0 Consensus size: 89
33939731 ATGTGTGTGA
* * * *
33939741 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
*
33939806 ATGTGATGAATGTGAAAGTGGATGTATATG
66 ATGTGGTGAATGTGAAA---G-TG--TATG
33939836 TGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
1 T-A--AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
33939901 CCGATGTGGTGAATGTGAAAGTGTATG
63 CCGATGTGGTGAATGTGAAAGTGTATG
33939928 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
33939993 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
33940017 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
33940082 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
33940106 TA
1 TA
33940108 TATGTGATAA
Statistics
Matches: 264, Mismatches: 5, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
89 178 0.67
91 1 0.00
92 5 0.02
94 2 0.01
95 2 0.01
96 1 0.00
98 75 0.28
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:33940014 original size:138 final size:134
Alignment explanation
Indices: 33939741--33940128 Score: 525
Period size: 138 Copynumber: 2.8 Consensus size: 134
33939731 ATGTGTGTGA
* * * *
33939741 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAG-G-ATG-ATA-GTGATAAGGCCTAATGGCCG
* * *
33939806 ATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
62 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
33939871 AGTGTATGTATATGTG
127 A--G--TG--TA--TG
33939887 ATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA-G-TG-TA-TG-TAAGGCCTAATGGCCGATG
1 -TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGGATGATAGTGATAAGGCCTAATGGCCGATG
33939947 TGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGT
65 TGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGT
33940012 GTATG
130 GTATG
33940017 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAG-G-ATG-ATA-GTGATAAGGCCTAATGGCCG
33940082 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
62 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
33940129 TAATGTAAAA
Statistics
Matches: 225, Mismatches: 7, Indels: 27
0.87 0.03 0.10
Matches are distributed among these distances:
129 33 0.15
130 2 0.01
131 1 0.00
132 2 0.01
133 2 0.01
134 2 0.01
135 2 0.01
136 1 0.00
137 2 0.01
138 142 0.63
139 2 0.01
141 2 0.01
143 2 0.01
145 1 0.00
147 29 0.13
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (134 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGGATGATAGTGATAAGGCCTAATGGCCGATGT
GGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
TATG
Found at i:33940280 original size:37 final size:37
Alignment explanation
Indices: 33940230--33940314 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
33940220 GGAATATGTT
*
33940230 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
33940267 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
33940304 CCGGGTAAGAC
1 CCGGGTAAGAC
33940315 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:33943599 original size:27 final size:26
Alignment explanation
Indices: 33943545--33943611 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
33943535 TTAGCTTACC
* *
33943545 AAATTACTAAAATACCCCCAGTTGTA
1 AAATTACCAAAATACCCCCAGTTATA
* *
33943571 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAAATACCCCCAG-TTATA
* *
33943598 AAACTACCCAAATA
1 AAATTACCAAAATA
33943612 TCCTTGTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.24
Consensus pattern (26 bp):
AAATTACCAAAATACCCCCAGTTATA
Found at i:33943653 original size:53 final size:53
Alignment explanation
Indices: 33943596--33943746 Score: 142
Period size: 53 Copynumber: 2.8 Consensus size: 53
33943586 CCCCGGTTTA
* * * * *
33943596 TAAAACTACCCAAATATCCTTGTTTTGT-AAATTTATCGAAATACCGTCGATTG
1 TAAAACTACCCAAATACCCTCGATTTGTAAAATTT-CCGAAATACCATCGATTG
* ** * *
33943649 TAAAATTACTGAAATACCCTCGATTTGTAAAATTTCCGAAATATCATTGATTG
1 TAAAACTACCCAAATACCCTCGATTTGTAAAATTTCCGAAATACCATCGATTG
* ** * * *
33943702 TAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACC
1 TAAAACTACCCAAATACCCTCGATTTGTAAAATTTCCGAAATACC
33943747 CTTGTAGGGT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 76 0.93
54 6 0.07
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.34
Consensus pattern (53 bp):
TAAAACTACCCAAATACCCTCGATTTGTAAAATTTCCGAAATACCATCGATTG
Found at i:33943654 original size:27 final size:26
Alignment explanation
Indices: 33943620--33943735 Score: 94
Period size: 26 Copynumber: 4.4 Consensus size: 26
33943610 TATCCTTGTT
*
33943620 TTGT-AAATTTATCGAAATACCGTCGA
1 TTGTAAAATTTA-CGAAATACCATCGA
*
33943646 TTGTAAAA-TTACTGAAATACCCTCGA
1 TTGTAAAATTTAC-GAAATACCATCGA
* * *
33943672 TTTGTAAAATTTCCGAAATATCATTGA
1 -TTGTAAAATTTACGAAATACCATCGA
* * *
33943699 TTGTAAAA-TTACTAAAATACCCTCAA
1 TTGTAAAATTTAC-GAAATACCATCGA
33943725 TTTGTAAAATT
1 -TTGTAAAATT
33943736 ACCAAAATAC
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
25 4 0.06
26 35 0.49
27 29 0.40
28 4 0.06
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (26 bp):
TTGTAAAATTTACGAAATACCATCGA
Found at i:33943691 original size:80 final size:79
Alignment explanation
Indices: 33943545--33943748 Score: 198
Period size: 80 Copynumber: 2.6 Consensus size: 79
33943535 TTAGCTTACC
* * * * *
33943545 AAATTACTAAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAACTACCCAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTA-CAAAATACCCTCGATTTATAAAACTACCCAA
* *
33943609 ATATCCTTGTTTTGTA
65 ATATCATTG-ATTGTA
* * * * * * * * *
33943625 AATTTA-TCGAAATACCGTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTTCCGA
1 AAATTACT-AAAATACCCTCAATTTGTAAAATTAC-AAAATACCCTCGATTTATAAAACTACCCA
33943688 AATATCATTGATTGTA
64 AATATCATTGATTGTA
33943704 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCT
1 AAATTACTAAAATACCCTCAATTTGTAAAATTA-CAAAATACCCT
33943749 TGTAGGGTAG
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
79 22 0.22
80 74 0.75
81 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (79 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTACAAAATACCCTCGATTTATAAAACTACCCAAA
TATCATTGATTGTA
Found at i:33943736 original size:27 final size:27
Alignment explanation
Indices: 33943545--33943748 Score: 162
Period size: 27 Copynumber: 7.7 Consensus size: 27
33943535 TTAGCTTACC
* * *
33943545 AAATTACTAAAATACCC-CCAGTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
33943571 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * * *
33943598 AAACTACCCAAATATCCTTGTTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
33943625 AATTTATCGAAATACCGTCGA-TTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
**
33943651 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * * *
33943678 AAATTTCCGAAATATCATTGA-TTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
33943704 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
33943731 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
33943749 TGTAGGGTAG
Statistics
Matches: 136, Mismatches: 39, Indels: 5
0.76 0.22 0.03
Matches are distributed among these distances:
26 56 0.41
27 80 0.59
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:33943972 original size:27 final size:27
Alignment explanation
Indices: 33943732--33943981 Score: 302
Period size: 27 Copynumber: 9.3 Consensus size: 27
33943722 CAATTTGTAA
*
33943732 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
33943759 AAATACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
33943786 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
33943813 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
33943840 AAATACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
33943867 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * * *
33943894 AATTACTAAAATGCCCCTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
33943921 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
33943948 AATTACCGAGATACCCTTTTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
33943975 AATTACC
1 AATTACC
33943982 ATTTTGCCCC
Statistics
Matches: 194, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 194 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:33943973 original size:81 final size:81
Alignment explanation
Indices: 33943732--33943963 Score: 374
Period size: 81 Copynumber: 2.9 Consensus size: 81
33943722 CAATTTGTAA
* * *
33943732 AATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTAAAATACCCCTGTAGGATAGAAATACTGAAATACCCTTGTAGGGTAGAAATACCGAAA
33943797 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
*
33943813 AATTACTGAAATACCCCTGTAGGATAGAAATACTGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTAAAATACCCCTGTAGGATAGAAATACTGAAATACCCTTGTAGGGTAGAAATACCGAAA
33943878 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * * *
33943894 AATTACTAAAATGCCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAGA
1 AATTACTAAAATACCCCTGTAGGATAGAAATACTGAAATACCCTTGTAGGGTAGAAATACCGAAA
33943959 TACCC
66 TACCC
33943964 TTTTGGGGTA
Statistics
Matches: 140, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 140 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
AATTACTAAAATACCCCTGTAGGATAGAAATACTGAAATACCCTTGTAGGGTAGAAATACCGAAA
TACCCCTGTAGGGTAG
Found at i:33944461 original size:22 final size:22
Alignment explanation
Indices: 33944408--33944473 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
33944398 CTTAAAGCCT
* *
33944408 TCTGATTATGGCTTTGCGCCAA
1 TCTGATTATGGCTCTGTGCCAA
* *
33944430 CCT-ACATATGGCTCTGTGCCAA
1 TCTGA-TTATGGCTCTGTGCCAA
*
33944452 TCTGATTATGGCTGTGTGCCAA
1 TCTGATTATGGCTCTGTGCCAA
33944474 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (22 bp):
TCTGATTATGGCTCTGTGCCAA
Found at i:33944676 original size:26 final size:26
Alignment explanation
Indices: 33944633--33944710 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
33944623 TTCTGTTAAG
* * *
33944633 TGGCTTTGCCACATTATCTGTTCTGA
1 TGGCTCTGCTACAATATCTGTTCTGA
*
33944659 TGGCTCTGCTACAATATCTGTATCTGG
1 TGGCTCTGCTACAATATCTGT-TCTGA
*
33944686 TGACTCTG-TCACAATATCTGTTCTG
1 TGGCTCTGCT-ACAATATCTGTTCTG
33944711 GCAGCCATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (26 bp):
TGGCTCTGCTACAATATCTGTTCTGA
Found at i:33944692 original size:27 final size:26
Alignment explanation
Indices: 33944642--33944711 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
33944632 GTGGCTTTGC
* * *
33944642 CACATTATCTGTTCTGATGGCTCTG-
1 CACAATATCTGTTCTGGTGACTCTGT
33944667 CTACAATATCTGTATCTGGTGACTCTGT
1 C-ACAATATCTGT-TCTGGTGACTCTGT
33944695 CACAATATCTGTTCTGG
1 CACAATATCTGTTCTGG
33944712 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.03
26 15 0.38
27 22 0.56
28 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (26 bp):
CACAATATCTGTTCTGGTGACTCTGT
Found at i:33944870 original size:25 final size:25
Alignment explanation
Indices: 33944829--33944895 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
33944819 TTGCATTCAC
* * *
33944829 ATTCTGATTTTATTTCTGTTACCTA
1 ATTCTGATTCTAATTCTGTCACCTA
* *
33944854 ATAT-TGATTCTGATTCTGTCACCTG
1 AT-TCTGATTCTAATTCTGTCACCTA
33944879 ATTCTGATTCTAATTCT
1 ATTCTGATTCTAATTCT
33944896 CATTTTGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTGTCACCTA
Found at i:33947581 original size:40 final size:39
Alignment explanation
Indices: 33947537--33947686 Score: 183
Period size: 39 Copynumber: 3.8 Consensus size: 39
33947527 GTTCAAAACA
* * ** * *
33947537 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
33947577 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
33947617 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
33947656 CCTTCGGGCTTAGCCCGGATATCATAGCTCG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCG
33947687 TGTGACAGCC
Statistics
Matches: 97, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 57 0.59
40 40 0.41
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:33947648 original size:39 final size:39
Alignment explanation
Indices: 33947567--33947686 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
33947557 TATGGTAACC
* * * *
33947567 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
33947607 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
33947646 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
33947685 CG
1 CG
33947687 TGTGACAGCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
39 57 0.77
40 17 0.23
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:33949434 original size:39 final size:40
Alignment explanation
Indices: 33949376--33949476 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 40
33949366 AAATTGAATG
* *
33949376 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * * *
33949415 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
33949455 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
33949477 GCATTCGTGC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 28 0.55
40 23 0.45
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:33949469 original size:40 final size:40
Alignment explanation
Indices: 33949376--33949518 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 40
33949366 AAATTGAATG
* * * * *
33949376 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
33949415 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
33949455 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
*
33949495 AAATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
33949519 GTTTGTGCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.35
40 57 0.65
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:33949541 original size:40 final size:39
Alignment explanation
Indices: 33949416--33949558 Score: 151
Period size: 40 Copynumber: 3.6 Consensus size: 39
33949406 GCTGAAATTT
* * *
33949416 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAG-TA
* *
33949456 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAG-TA
* * * *
33949496 AATCCGGGCTAAGACCCGAAGGCGTTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGT-A
* * *
33949536 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
33949559 CTTGGTGCGG
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 86 0.99
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTA
Found at i:33951044 original size:39 final size:39
Alignment explanation
Indices: 33951001--33951077 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
33950991 GGGGTGTTAC
33951001 AGCTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCAT
1 AGCTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCAT
33951040 AGCTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCA
1 AGCTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCA
33951078 CTCGAACATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.25
Consensus pattern (39 bp):
AGCTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCAT
Found at i:33959139 original size:77 final size:77
Alignment explanation
Indices: 33959019--33959208 Score: 335
Period size: 77 Copynumber: 2.5 Consensus size: 77
33959009 TATGGTAACC
* *
33959019 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
33959084 CGGTATCATAGCT
65 CGGTATCATAGCT
* *
33959097 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
33959162 GGTATCATAGCT
66 GGTATCATAGCT
33959174 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
33959209 TCGAACATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 90 0.84
78 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (77 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGTATCATAGCT
Found at i:33959141 original size:39 final size:39
Alignment explanation
Indices: 33959019--33959207 Score: 319
Period size: 38 Copynumber: 4.9 Consensus size: 39
33959009 TATGGTAACC
* * * *
33959019 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
33959059 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
33959097 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
33959136 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
33959174 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
33959208 CTCGAACATT
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 74 0.52
39 52 0.36
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:33962733 original size:40 final size:39
Alignment explanation
Indices: 33962568--33962751 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
33962558 AAATTGAATG
* * *
33962568 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
33962608 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
33962648 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
33962688 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
33962727 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
33962752 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:33962734 original size:80 final size:80
Alignment explanation
Indices: 33962612--33962760 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33962602 GAAATTATAA
* * * *
33962612 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
33962677 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
33962692 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
33962756 GTGCG
65 GTGCG
33962761 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:33962776 original size:80 final size:81
Alignment explanation
Indices: 33962608--33962789 Score: 181
Period size: 80 Copynumber: 2.3 Consensus size: 81
33962598 GCTGGAAATT
* * * *
33962608 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
33962673 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
33962689 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
33962752 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* *
33962768 ATAACCGGGCTATGTCCCGAAG
1 ATAACCGGGCTAAGACCCGAAG
33962790 CGATTGATCG
Statistics
Matches: 81, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 79 0.98
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:33973020 original size:21 final size:21
Alignment explanation
Indices: 33972996--33973045 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
33972986 TCGAGTAGTA
33972996 TTTTCCAGCCAGAATTCAGCT
1 TTTTCCAGCCAGAATTCAGCT
33973017 TTTTCCAGCCAGAATTCAGCT
1 TTTTCCAGCCAGAATTCAGCT
33973038 TTTTCCAG
1 TTTTCCAG
33973046 ATCATCAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (21 bp):
TTTTCCAGCCAGAATTCAGCT
Found at i:33974889 original size:33 final size:33
Alignment explanation
Indices: 33974851--33974964 Score: 140
Period size: 33 Copynumber: 3.5 Consensus size: 33
33974841 GGTGTACATT
**
33974851 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
* *
33974884 CCTTTTCATGTGGTATACACAAAGTATACCTAA
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
** * *
33974917 CCTTACCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
*
33974949 CCTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTAC
33974965 CACTTGGGTA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
32 27 0.40
33 41 0.60
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACCTAA
Found at i:33981430 original size:43 final size:42
Alignment explanation
Indices: 33981323--33981433 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
33981313 ATAGGATTTA
* *
33981323 CGATATGTGATTGCGTGTAAGGCCATGTCTGGGACATCGACAT
1 CGATATGTGATT-CGTGTAAGACCATATCTGGGACATCGACAT
* * * *
33981366 CGTATACGTGATTCGTCTAAGACCCTATCTGGGACAGT-GGCAT
1 CG-ATATGTGATTCGTGTAAGACCATATCTGGGACA-TCGACAT
*
33981409 CGATATGTGATTACATGTAAGACCA
1 CGATATGTGATT-CGTGTAAGACCA
33981434 CGTCTAGGAC
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
42 9 0.16
43 36 0.65
44 10 0.18
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
CGATATGTGATTCGTGTAAGACCATATCTGGGACATCGACAT
Found at i:33982991 original size:28 final size:22
Alignment explanation
Indices: 33982939--33982985 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
33982929 TTGATTTAGT
33982939 TATTTTATTAAGGTTAAGGTAA
1 TATTTTATTAAGGTTAAGGTAA
33982961 TATTTTATTAAGGTTAAGGTAA
1 TATTTTATTAAGGTTAAGGTAA
33982983 TAT
1 TAT
33982986 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (22 bp):
TATTTTATTAAGGTTAAGGTAA
Found at i:33987680 original size:28 final size:28
Alignment explanation
Indices: 33987640--33987709 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
33987630 ATAGTAAGTC
*
33987640 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
33987668 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
33987696 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33987710 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:33988274 original size:2 final size:2
Alignment explanation
Indices: 33988267--33988294 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33988257 GGCATACATT
33988267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33988295 GCCGAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33991724 original size:27 final size:27
Alignment explanation
Indices: 33991686--33991737 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
33991676 GATAATAGTC
*
33991686 CATTTCTAACAATATCAAATTTATTGT
1 CATTTCTAACAATATCAAATATATTGT
33991713 CATTTCTAACAATATCAAATATATT
1 CATTTCTAACAATATCAAATATATT
33991738 AAAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.42
Consensus pattern (27 bp):
CATTTCTAACAATATCAAATATATTGT
Found at i:33991786 original size:26 final size:26
Alignment explanation
Indices: 33991755--33991807 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
33991745 TTTACAAGAT
33991755 AACATTCTCAATAATCTAAACATAAA
1 AACATTCTCAATAATCTAAACATAAA
33991781 AACATTCTCAATAATCTAAACATAAA
1 AACATTCTCAATAATCTAAACATAAA
33991807 A
1 A
33991808 CTTACTAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (26 bp):
AACATTCTCAATAATCTAAACATAAA
Found at i:33991872 original size:25 final size:23
Alignment explanation
Indices: 33991817--33991861 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
33991807 ACTTACTAAC
* *
33991817 AAATCACAATAAACAAAATATAA
1 AAATAACACTAAACAAAATATAA
*
33991840 AAATAACACTAAACAAACTATA
1 AAATAACACTAAACAAAATATA
33991862 TAATACTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.18
Consensus pattern (23 bp):
AAATAACACTAAACAAAATATAA
Found at i:33991949 original size:41 final size:41
Alignment explanation
Indices: 33991903--33991986 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
33991893 ATCTATTATA
33991903 TTTGAAAATAACAATAAGAAAATTACATTTTCTTTTCTTTC
1 TTTGAAAATAACAATAAGAAAATTACATTTTCTTTTCTTTC
33991944 TTTGAAAATAACAATAAGAAAATTACATTTTCTTTTCTTTC
1 TTTGAAAATAACAATAAGAAAATTACATTTTCTTTTCTTTC
33991985 TT
1 TT
33991987 CTCTTTTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (41 bp):
TTTGAAAATAACAATAAGAAAATTACATTTTCTTTTCTTTC
Found at i:33992000 original size:18 final size:18
Alignment explanation
Indices: 33991971--33992014 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33991961 GAAAATTACA
33991971 TTTTCTTTTCTTTCTTCTC
1 TTTTC-TTTCTTTCTTCTC
33991990 TTTTCTTTCTTTCTTCTC
1 TTTTCTTTCTTTCTTCTC
*
33992008 TTCTCTT
1 TTTTCTT
33992015 CTCTCTCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCTTTCTTTCTTCTC
Found at i:33992015 original size:5 final size:5
Alignment explanation
Indices: 33991974--33992025 Score: 56
Period size: 5 Copynumber: 10.8 Consensus size: 5
33991964 AATTACATTT
* *
33991974 TCTTT TCTT- TCTTC TCTTT TCTT- TCTT- TCTTC TCTTC TCTTC TCTCTC
1 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCT-TC
33992022 TCTT
1 TCTT
33992026 GTTCTATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
4 12 0.28
5 26 0.60
6 5 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
TCTTC
Found at i:33992171 original size:27 final size:27
Alignment explanation
Indices: 33992123--33992203 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
33992113 TAGGTACAAT
* *
33992123 TGGTGCCGCCTTTGACAACCCCTCCAC
1 TGGTGCCGCCTCTGACATCCCCTCCAC
* *
33992150 TGGTGCCGCCTCTGATATCCCCTCTAC
1 TGGTGCCGCCTCTGACATCCCCTCCAC
* * * *
33992177 TAGTGTCACCTCTAACATCCCCTCCAC
1 TGGTGCCGCCTCTGACATCCCCTCCAC
33992204 CTAGGCCATG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.16, C:0.43, G:0.15, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCTCTGACATCCCCTCCAC
Found at i:34016471 original size:23 final size:24
Alignment explanation
Indices: 34016427--34016472 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
34016417 ATAAAAACTA
*
34016427 AACCTCGAAAACCCAAAAACAAAG
1 AACCTCGAAAACACAAAAACAAAG
* *
34016451 AACCTC-AAAACATAAACACAAA
1 AACCTCGAAAACACAAAAACAAA
34016473 ATTCTCTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.61, C:0.28, G:0.04, T:0.07
Consensus pattern (24 bp):
AACCTCGAAAACACAAAAACAAAG
Found at i:34049371 original size:28 final size:28
Alignment explanation
Indices: 34049306--34049404 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
34049296 CATGAGATTG
* * *
34049306 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
* *
34049335 GGACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* * *
34049363 GCACTAAGTGTACGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
34049391 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34049405 GGCTTATTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.71
29 16 0.27
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:34051663 original size:27 final size:28
Alignment explanation
Indices: 34051607--34051676 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
34051597 AAATTTGTAC
34051607 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
34051635 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
34051662 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34051677 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:34051687 original size:27 final size:27
Alignment explanation
Indices: 34051607--34051688 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
34051597 AAATTTGTAC
* *
34051607 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
34051635 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
34051662 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
34051689 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:34059469 original size:27 final size:28
Alignment explanation
Indices: 34059413--34059482 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
34059403 AAATTTGTAC
34059413 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
34059441 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
34059468 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34059483 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:34059493 original size:27 final size:27
Alignment explanation
Indices: 34059413--34059494 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
34059403 AAATTTGTAC
* *
34059413 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
34059441 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
34059468 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
34059495 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:34066575 original size:16 final size:16
Alignment explanation
Indices: 34066549--34066583 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
34066539 TCCTATATAG
34066549 TCTCGTATCTTGGGATT
1 TCTCGTATCTT-GGATT
34066566 TCTC-TATCTTGGATT
1 TCTCGTATCTTGGATT
34066581 TCT
1 TCT
34066584 TTACTTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.51
Consensus pattern (16 bp):
TCTCGTATCTTGGATT
Found at i:34066581 original size:15 final size:15
Alignment explanation
Indices: 34066549--34066597 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
34066539 TCCTATATAG
34066549 TCTCGTATCTTGGGATT
1 TCTC-TATCTT-GGATT
34066566 TCTCTATCTTGGATT
1 TCTCTATCTTGGATT
* *
34066581 TCTTTA-CTTGGTTT
1 TCTCTATCTTGGATT
34066595 TCT
1 TCT
34066598 TGTTATCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 10 0.33
15 10 0.33
16 6 0.20
17 4 0.13
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.55
Consensus pattern (15 bp):
TCTCTATCTTGGATT
Found at i:34071309 original size:40 final size:40
Alignment explanation
Indices: 34071254--34071401 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
34071244 TGAACGATAC
* * * * *
34071254 CCGGGTTAAGCCCCGAAGGCATTTATGCTAG-CGAATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-ATATAT
*
34071294 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
* *
34071334 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
* *
34071374 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
34071402 TTGTGGTCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 96 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
Found at i:34071414 original size:80 final size:80
Alignment explanation
Indices: 34071254--34071421 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
34071244 TGAACGATAC
* * * * *
34071254 CCGGGTTAAGCCCCGAAGGCATTTATGCTAGCGAATATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGCGAATATACCCGGGCTAAGACCCGAAGGCAATTG
* *
34071319 TGCGAGTTGTTATAT
66 TGCGAGTGGTCATAT
* * * *
34071334 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-CGAATATACCCGGGCTAAGACCCGAAGGCAATT
**
34071398 GTGCTTGTGGTCATAT
65 GTGCGAGTGGTCATAT
34071414 CC-GGCTAA
1 CCGGGCTAA
34071422 ATTCCGAAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 67 0.91
81 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGCGAATATACCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTCATAT
Found at i:34078457 original size:40 final size:40
Alignment explanation
Indices: 34078398--34078645 Score: 298
Period size: 40 Copynumber: 6.2 Consensus size: 40
34078388 CAATTGAATG
* * * * *
34078398 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * * * *
34078438 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * **
34078478 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
*
34078518 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* *
34078558 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * * **
34078598 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
34078638 ATATCCGG
1 ATATCCGG
34078646 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
Done.