Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 102 of 153
Found at i:32042457 original size:12 final size:12
Alignment explanation
Indices: 32042439--32042481 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
32042429 ACTTCATAGT
32042439 ATATAACTATTA
1 ATATAACTATTA
*
32042451 CTATAACTATTAA
1 ATATAACTATT-A
32042464 TATATAACTATTA
1 -ATATAACTATTA
*
32042477 TTATA
1 ATATA
32042482 TTATAGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 14 0.54
13 2 0.08
14 10 0.38
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATAACTATTA
Found at i:32042486 original size:17 final size:14
Alignment explanation
Indices: 32042438--32042482 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
32042428 CACTTCATAG
32042438 TATATAACTATT-A
1 TATATAACTATTAA
*
32042451 -CTATAACTATTAA
1 TATATAACTATTAA
*
32042464 TATATAACTATTAT
1 TATATAACTATTAA
32042478 TATAT
1 TATAT
32042483 TATAGATTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.37
13 1 0.04
14 16 0.59
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
TATATAACTATTAA
Found at i:32042785 original size:16 final size:17
Alignment explanation
Indices: 32042764--32042796 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
32042754 ATGACTAAAT
32042764 CTATTAATATA-TATAA
1 CTATTAATATATTATAA
*
32042780 CTATTACTATATTATAA
1 CTATTAATATATTATAA
32042797 ATTATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
CTATTAATATATTATAA
Found at i:32042944 original size:33 final size:33
Alignment explanation
Indices: 32042905--32042967 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
32042895 TTTTTATTAA
*
32042905 ATTGTATTT-TGAATTGAGTTTTAATTTTTACCG
1 ATTGTATTTGGGAATTGAG-TTTAATTTTTACCG
*
32042938 ATTGTATTTGGGTATTGAGTTTAATTTTTA
1 ATTGTATTTGGGAATTGAGTTTAATTTTTA
32042968 TTTATTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.56
Consensus pattern (33 bp):
ATTGTATTTGGGAATTGAGTTTAATTTTTACCG
Found at i:32045826 original size:26 final size:26
Alignment explanation
Indices: 32045797--32045848 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
32045787 AATATTGACA
*
32045797 TAAAAAATATTTATCTTAATGATAAT
1 TAAAAAATATTTATATTAATGATAAT
* *
32045823 TAAATAATATTTATATTTATGATAAT
1 TAAAAAATATTTATATTAATGATAAT
32045849 ATTATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (26 bp):
TAAAAAATATTTATATTAATGATAAT
Found at i:32045868 original size:21 final size:21
Alignment explanation
Indices: 32045825--32045881 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
32045815 ATGATAATTA
* * **
32045825 AATAATATTTATATTTATGAT
1 AATATTATTTATTTTTACAAT
32045846 AATATTATTTATTTTTACAAT
1 AATATTATTTATTTTTACAAT
* *
32045867 AATTTTATATATTTT
1 AATATTATTTATTTT
32045882 CATATTCTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
AATATTATTTATTTTTACAAT
Found at i:32051649 original size:27 final size:27
Alignment explanation
Indices: 32051630--32051800 Score: 218
Period size: 27 Copynumber: 6.3 Consensus size: 27
32051620 GGGTATAACA
*
32051630 ATCATTTTACCCTTCGGGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* * * * *
32051657 GTCATTTAATCTTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
32051684 ATCATTTTACTCTTCGAGGGTATTT-T
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
32051710 AGTCATTTTACCCTTTGAGGGTATTTCC
1 A-TCATTTTACCCTTCGAGGGTATTTCG
*
32051738 ATCATTTTACCCTTCGGGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
32051765 ATCATTCTACCCTTCGAGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
32051792 ATCATTTTA
1 ATCATTTTA
32051801 GGCCCATTAC
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.98
28 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (27 bp):
ATCATTTTACCCTTCGAGGGTATTTCG
Found at i:32055830 original size:19 final size:17
Alignment explanation
Indices: 32055797--32055834 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
32055787 TTAAAAATGT
32055797 ATTTAAAATAATTTAAA
1 ATTTAAAATAATTTAAA
32055814 ATTTAAAAATCAATTTAAA
1 ATTT-AAAAT-AATTTAAA
32055833 AT
1 AT
32055835 AGGGGTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTAAAATAATTTAAA
Found at i:32056262 original size:15 final size:16
Alignment explanation
Indices: 32056244--32056277 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32056234 TTTTTTCAAC
32056244 TTAA-TTTTATTTTAT
1 TTAATTTTTATTTTAT
*
32056259 TTAATTTTTATTTTTT
1 TTAATTTTTATTTTAT
32056275 TTA
1 TTA
32056278 GGGTTAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTAATTTTTATTTTAT
Found at i:32068632 original size:40 final size:40
Alignment explanation
Indices: 32068586--32068889 Score: 440
Period size: 40 Copynumber: 7.7 Consensus size: 40
32068576 ACTCCTCGTT
* *
32068586 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
32068626 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
32068666 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
32068706 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
32068746 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
32068786 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
32068825 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
32068866 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
32068890 CATCATTCAA
Statistics
Matches: 247, Mismatches: 11, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
38 2 0.01
39 49 0.20
40 187 0.76
41 9 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:32079959 original size:30 final size:30
Alignment explanation
Indices: 32079925--32079987 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
32079915 GAGAAGATAG
32079925 AACCTTTTTTGAATTATAAAAGTTTATTTC
1 AACCTTTTTTGAATTATAAAAGTTTATTTC
*
32079955 AACCTTTTTTGAATTATAGAAGTTTATTTC
1 AACCTTTTTTGAATTATAAAAGTTTATTTC
32079985 AAC
1 AAC
32079988 TAGAAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (30 bp):
AACCTTTTTTGAATTATAAAAGTTTATTTC
Found at i:32080401 original size:6 final size:6
Alignment explanation
Indices: 32080390--32080454 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
32080380 ATTTTTCAGG
* *
32080390 TCATTT TCATTTT TCTTTTT TCATTT TCATTT TCATTT TC-TTT TTA-TT
1 TCATTT TCA-TTT TC-ATTT TCATTT TCATTT TCATTT TCATTT TCATTT
32080438 T--TTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT T
32080455 GGAGAAAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
4 3 0.06
5 7 0.14
6 30 0.60
7 10 0.20
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (6 bp):
TCATTT
Found at i:32080410 original size:25 final size:25
Alignment explanation
Indices: 32080381--32080434 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
32080371 CATAAATTTA
32080381 TTTTTCA-GGTCATTTTCATTTTTCT
1 TTTTTCATGGTCATTTTCA-TTTTCT
**
32080406 TTTTTCATTTTCATTTTCATTTTCT
1 TTTTTCATGGTCATTTTCATTTTCT
32080431 TTTT
1 TTTT
32080435 ATTTTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTTCATGGTCATTTTCATTTTCT
Found at i:32080419 original size:26 final size:27
Alignment explanation
Indices: 32080390--32080454 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 27
32080380 ATTTTTCAGG
32080390 TCATTTTCATTTTTCTTTTT-TCATTT
1 TCATTTTCATTTTTCTTTTTATCATTT
**
32080416 TCATTTTCA-TTTTCTTTTTATTTTTT
1 TCATTTTCATTTTTCTTTTTATCATTT
32080442 TCATTTTCATTTT
1 TCATTTTCATTTT
32080455 GGAGAAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
25 10 0.29
26 22 0.63
27 3 0.09
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (27 bp):
TCATTTTCATTTTTCTTTTTATCATTT
Found at i:32080426 original size:32 final size:32
Alignment explanation
Indices: 32080390--32080454 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
32080380 ATTTTTCAGG
32080390 TCATTTTCATTTTT-CTTTTTTCATTTTCATTT
1 TCATTTTC-TTTTTACTTTTTTCATTTTCATTT
*
32080422 TCATTTTCTTTTTATTTTTTTCATTTTCATTT
1 TCATTTTCTTTTTACTTTTTTCATTTTCATTT
32080454 T
1 T
32080455 GGAGAAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.16
32 26 0.84
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (32 bp):
TCATTTTCTTTTTACTTTTTTCATTTTCATTT
Found at i:32110182 original size:6 final size:6
Alignment explanation
Indices: 32110171--32110341 Score: 342
Period size: 6 Copynumber: 28.5 Consensus size: 6
32110161 AGTATACTTC
32110171 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
32110219 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
32110267 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
32110315 TATACA TATACA TATACA TATACA TAT
1 TATACA TATACA TATACA TATACA TAT
32110342 GCATGTGCAT
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 165 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:32112224 original size:12 final size:12
Alignment explanation
Indices: 32112207--32112235 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
32112197 TTCTTTTCGG
32112207 TTTTAGTTTTTA
1 TTTTAGTTTTTA
32112219 TTTTAGTTTTTA
1 TTTTAGTTTTTA
32112231 TTTTA
1 TTTTA
32112236 CCAGGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTAGTTTTTA
Found at i:32124870 original size:8 final size:8
Alignment explanation
Indices: 32124857--32124881 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
32124847 TTTTAAATAA
32124857 TATTTTAT
1 TATTTTAT
32124865 TATTTTAT
1 TATTTTAT
32124873 TATTTTAT
1 TATTTTAT
32124881 T
1 T
32124882 GTTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:32127059 original size:49 final size:49
Alignment explanation
Indices: 32126978--32127078 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
32126968 ATGAGTACTT
* * * *
32126978 TCGGTAAGTGATATGTGATTCCGTATAGGACCATAGGTGGGCTATGGCA
1 TCGGTAAGTGATATGTGATTACATATAAGACCATAGGTGGACTATGGCA
* *
32127027 TCGGTATA-TGATATGTGATTACATGTAAGACCATAGTTGGACTATGGCA
1 TCGGTA-AGTGATATGTGATTACATATAAGACCATAGGTGGACTATGGCA
32127076 TCG
1 TCG
32127079 AGAAAACGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 44 0.98
50 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (49 bp):
TCGGTAAGTGATATGTGATTACATATAAGACCATAGGTGGACTATGGCA
Found at i:32130938 original size:26 final size:26
Alignment explanation
Indices: 32130909--32130959 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
32130899 GATGTCCCAG
* *
32130909 AAGATAGTCCTTGGCGAACTTTCCAA
1 AAGATAGTCCATGACGAACTTTCCAA
*
32130935 AAGATAGTCCATGACGGACTTTCCA
1 AAGATAGTCCATGACGAACTTTCCA
32130960 GATATGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (26 bp):
AAGATAGTCCATGACGAACTTTCCAA
Found at i:32141476 original size:41 final size:40
Alignment explanation
Indices: 32141430--32141518 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
32141420 AAATAGGCTT
* * *
32141430 TTAGCGGCG-TTTGGACAAAAAATGCCGCTAAAAATCGAGTA
1 TTAGCGGCGCTTT-GAC-AAAAACGCCGCTAAAAATAGAGCA
* * *
32141471 TTAGCGACGCTTTTACGAAAACGCCGCTAAAAATAGAGCA
1 TTAGCGGCGCTTTGACAAAAACGCCGCTAAAAATAGAGCA
32141511 TTAGCGGC
1 TTAGCGGC
32141519 ATTTTTCAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
40 27 0.68
41 10 0.25
42 3 0.08
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGCTTTGACAAAAACGCCGCTAAAAATAGAGCA
Found at i:32141680 original size:61 final size:61
Alignment explanation
Indices: 32141582--32141697 Score: 196
Period size: 61 Copynumber: 1.9 Consensus size: 61
32141572 GCGTTTTTGA
* *
32141582 AAAAGCGCCGCTAATGCTCTAGGCTTTAGCGGTGTTTTTGGAGAAGCGCCGCTAAAGACAG
1 AAAAGCGCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGGAGAAGCGCCACTAAAGACAG
* *
32141643 AAAAGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTTGGAGAAGCGCCACTAA
1 AAAAGCGCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGGAGAAGCGCCACTAA
32141698 TGCTCTGGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (61 bp):
AAAAGCGCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGGAGAAGCGCCACTAAAGACAG
Found at i:32141702 original size:41 final size:40
Alignment explanation
Indices: 32141645--32141793 Score: 181
Period size: 41 Copynumber: 3.6 Consensus size: 40
32141635 AAAGACAGAA
*
32141645 AAGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTTGGAG
1 AAGCGCCACTAATGCTCTGGG-TTTAGCGGCGTTTTTGGAG
32141686 AAGCGCCACTAATGCTCTGGGCTTTAGCGGCGTTTTTGGAG
1 AAGCGCCACTAATGCTCTGGG-TTTAGCGGCGTTTTTGGAG
* ** * * ** *
32141727 AAACGCCGTTAATGCTTTTGGGTTTAGCGGCATTTTTAAAA
1 AAGCGCCACTAATGC-TCTGGGTTTAGCGGCGTTTTTGGAG
32141768 AAGCGCCACTAATGCTCTGGGATTTA
1 AAGCGCCACTAATGCTCTGGG-TTTA
32141794 ATTAATTTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
40 5 0.05
41 82 0.89
42 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (40 bp):
AAGCGCCACTAATGCTCTGGGTTTAGCGGCGTTTTTGGAG
Found at i:32142081 original size:14 final size:14
Alignment explanation
Indices: 32142062--32142110 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
32142052 TATCACTATA
*
32142062 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
32142076 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
32142090 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
32142104 GTTTAGG
1 GTTTAGG
32142111 TGTTACCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:32142232 original size:20 final size:21
Alignment explanation
Indices: 32142187--32142238 Score: 79
Period size: 20 Copynumber: 2.4 Consensus size: 21
32142177 TTATGTGTTA
32142187 AGGGTTTATGGGTTTATAACTTT
1 AGGGTTTA--GGTTTATAACTTT
32142210 AGGGTTTAGGTTTATAA-TTT
1 AGGGTTTAGGTTTATAACTTT
32142230 AGGGTTTAG
1 AGGGTTTAG
32142239 ATTAACTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.41
21 9 0.31
23 8 0.28
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (21 bp):
AGGGTTTAGGTTTATAACTTT
Found at i:32143391 original size:9 final size:9
Alignment explanation
Indices: 32143377--32143409 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
32143367 AGTAAAACAT
32143377 GTTACAGAG
1 GTTACAGAG
*
32143386 GTTACATAG
1 GTTACAGAG
32143395 GTTACAGAG
1 GTTACAGAG
32143404 GTTACA
1 GTTACA
32143410 ACCATTGCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (9 bp):
GTTACAGAG
Found at i:32143539 original size:20 final size:19
Alignment explanation
Indices: 32143498--32143543 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
32143488 ACACTTATCT
*
32143498 TTTTTTTTATAGTAATTGA
1 TTTTTTTTATAGTAATTAA
**
32143517 TTTTTTTTATAGATTTTTAA
1 TTTTTTTTATAG-TAATTAA
32143537 TTTTTTT
1 TTTTTTT
32143544 AAATAGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTTTTATAGTAATTAA
Found at i:32144099 original size:44 final size:44
Alignment explanation
Indices: 32144036--32144121 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
32144026 GTAAAAGGGC
*
32144036 AAAATGTAATCCAACTTTTAGTACAGGCACTTCCATGATACTAA
1 AAAATGTAATCCAACTTTTAGTACAGGCACTTCCATCATACTAA
* *
32144080 AAAATGTAATCTAACTTTTAGTACAGGGACTTCCATCATACT
1 AAAATGTAATCCAACTTTTAGTACAGGCACTTCCATCATACT
32144122 TTTACCATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (44 bp):
AAAATGTAATCCAACTTTTAGTACAGGCACTTCCATCATACTAA
Found at i:32145942 original size:22 final size:22
Alignment explanation
Indices: 32145912--32145954 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
32145902 CGTTTGTGTG
32145912 AAAACCGCCGCTAAAAGCCTAA
1 AAAACCGCCGCTAAAAGCCTAA
*
32145934 AAAAGCGCCGCTAAAAGCCTA
1 AAAACCGCCGCTAAAAGCCTA
32145955 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAACCGCCGCTAAAAGCCTAA
Found at i:32147763 original size:11 final size:11
Alignment explanation
Indices: 32147747--32147771 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32147737 CCCCAAAATA
32147747 TTTTTTTCTTT
1 TTTTTTTCTTT
32147758 TTTTTTTCTTT
1 TTTTTTTCTTT
32147769 TTT
1 TTT
32147772 CTCTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:32148823 original size:27 final size:29
Alignment explanation
Indices: 32148793--32148846 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
32148783 TTAATATCCA
*
32148793 AATAAGTAAAAT-AAAAT-AAAATAAAGG
1 AATAAATAAAATAAAAATAAAAATAAAGG
*
32148820 AATAAATAAAGTAAAAATAAAAATAAA
1 AATAAATAAAATAAAAATAAAAATAAA
32148847 AATAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 5 0.22
29 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (29 bp):
AATAAATAAAATAAAAATAAAAATAAAGG
Found at i:32148842 original size:6 final size:6
Alignment explanation
Indices: 32148800--32148855 Score: 53
Period size: 6 Copynumber: 8.8 Consensus size: 6
32148790 CCAAATAAGT
32148800 AAAAT- AAAAT- AAAATA AAGGAATAA ATAAAGTA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AA--AAT-A A-AAA-TA AAAATA AAAATA AAAATA
32148851 AAAAT
1 AAAAT
32148856 TGGGTTGCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
5 10 0.22
6 21 0.47
7 3 0.07
8 7 0.16
9 3 0.07
10 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:32148850 original size:27 final size:25
Alignment explanation
Indices: 32148792--32148852 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
32148782 ATTAATATCC
*
32148792 AAATAAGTAAAATAAAATAAAATAA
1 AAATAAATAAAATAAAATAAAATAA
*
32148817 AGGAATAAATAAAGTAAAAATAAAAATAA
1 A--AATAAATAAAAT-AAAAT-AAAATAA
32148846 AAATAAA
1 AAATAAA
32148853 AATTGGGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 1 0.03
27 16 0.53
28 5 0.17
29 8 0.27
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (25 bp):
AAATAAATAAAATAAAATAAAATAA
Found at i:32149701 original size:24 final size:24
Alignment explanation
Indices: 32149665--32149710 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
32149655 AACTTTTACT
*
32149665 AGAACATCTTCAAGGACTCCTTCC
1 AGAACATCCTCAAGGACTCCTTCC
32149689 AGAACATCCTCAAGGACTCCTT
1 AGAACATCCTCAAGGACTCCTT
32149711 TTGGATGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (24 bp):
AGAACATCCTCAAGGACTCCTTCC
Found at i:32157636 original size:21 final size:21
Alignment explanation
Indices: 32157598--32157651 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
32157588 TGCTAGTTAC
*
32157598 TAATATCATGATTTAAA-TAAA
1 TAATATCAT-ATTCAAATTAAA
32157619 TAATATCATATCTCAAATTAAA
1 TAATATCATAT-TCAAATTAAA
*
32157641 TATACATCATA
1 TA-ATATCATA
32157652 AGAAAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 13 0.46
22 6 0.21
23 7 0.25
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATATCATATTCAAATTAAA
Found at i:32170281 original size:23 final size:23
Alignment explanation
Indices: 32170255--32170352 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
32170245 ATAAGTGCCA
32170255 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32170278 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
32170301 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
32170323 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32170346 CACTGAT
1 CACTGAT
32170353 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:32170320 original size:45 final size:45
Alignment explanation
Indices: 32170262--32170350 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
32170252 CCACACTGAT
* *
32170262 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
32170307 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
32170351 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:32175554 original size:222 final size:219
Alignment explanation
Indices: 32175168--32175575 Score: 531
Period size: 222 Copynumber: 1.8 Consensus size: 219
32175158 CTTTGACGAC
*
32175168 TAGTCAATTTGGGGAAAAAATACAATGACTGATTTATTGGGGTCAATTTTGAGAAAAAGGATTTT
1 TAGTCAATTTGGGGAAAAAATACAATGACTGATTTATGGGGGTCAATTTTGAGAAAAAGGATTTT
* * * * *
32175233 ATTAAGTTTATTAAACATGATGAAAATGGGAAAGGGGTTAAAGTTATTTGGTCGGTCATTGAAGA
66 AATAAGTTCATTAAACATGATGAAAATGGGAAAGGGGTCAAAGTTATTGGGTCGGTAATTGAAGA
*
32175298 AGAGGGTTTGGATAAGAAGGGCCATAGATGCGATTCTAGGCTT-GAGGCAGTCTGAAAATTTAGA
131 AGAGGGTTTGGATAAGAAGGGCCATAGATGCGATTCTAGGATTAGAGGCAGTCTGAAAATTTAGA
32175362 TTTTGGGCTTGGGGGTAGTCTGAA
196 TTTTGGGCTTGGGGGTAGTCTGAA
* * *
32175386 TAGTCAATTTGGGGAAAAAGA-AGATATGATGGCTGATTTATCGGGGGTCAATTTT-AGGAAAGG
1 TAGTCAATTTGGGGAAAAA-ATACA-ATGA---CTGATTTAT-GGGGGTCAATTTTGAGAAAAAG
* *
32175449 GAATTTTAATAAGTTCATTAAACATGATGGAAATGGGAAA-GGG-CAAAGGTTGTTGGG-CTGGT
60 G-ATTTTAATAAGTTCATTAAACATGATGAAAATGGGAAAGGGGTCAAA-GTTATTGGGTC-GGT
* ** * * *
32175511 AATTGAAGAAGGGGGTTTGGATAAGACTGGCCATTGGTGCGATTCTAGGATTAGGGGCAGTCTGA
122 AATTGAAGAAGAGGGTTTGGATAAGAAGGGCCATAGATGCGATTCTAGGATTAGAGGCAGTCTGA
32175576 TAATGTGGAT
Statistics
Matches: 162, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
218 21 0.13
219 5 0.03
221 4 0.02
222 74 0.46
223 58 0.36
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (219 bp):
TAGTCAATTTGGGGAAAAAATACAATGACTGATTTATGGGGGTCAATTTTGAGAAAAAGGATTTT
AATAAGTTCATTAAACATGATGAAAATGGGAAAGGGGTCAAAGTTATTGGGTCGGTAATTGAAGA
AGAGGGTTTGGATAAGAAGGGCCATAGATGCGATTCTAGGATTAGAGGCAGTCTGAAAATTTAGA
TTTTGGGCTTGGGGGTAGTCTGAA
Found at i:32182298 original size:24 final size:25
Alignment explanation
Indices: 32182255--32182305 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
32182245 AGATTTATTA
* *
32182255 TCATATATTTGTTTTTAAAATTTTG
1 TCATATATTTATTTTTAAAATGTTG
32182280 TCATATA-TTATTTTTAAAATGTTG
1 TCATATATTTATTTTTAAAATGTTG
32182304 TC
1 TC
32182306 TTATTACGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (25 bp):
TCATATATTTATTTTTAAAATGTTG
Found at i:32184623 original size:40 final size:39
Alignment explanation
Indices: 32184579--32184683 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
32184569 AGTGACCATA
*
32184579 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
32184619 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
32184657 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
32184684 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32184640 original size:39 final size:40
Alignment explanation
Indices: 32184539--32184683 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
32184529 TTGAATGATG
* *
32184539 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
32184579 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
32184618 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
32184658 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32184684 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:32184697 original size:40 final size:39
Alignment explanation
Indices: 32184540--32184702 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
32184530 TGAATGATGT
** * * *
32184540 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
32184580 CCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTATA-A
** *
32184620 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
32184659 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
32184699 CCGG
1 CCGG
32184703 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 60 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:32184702 original size:79 final size:80
Alignment explanation
Indices: 32184539--32184689 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
32184529 TTGAATGATG
*
32184539 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
32184604 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
32184619 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
32184681 TTGAACGAG
64 TTGAACGAG
32184690 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:32201477 original size:50 final size:50
Alignment explanation
Indices: 32201422--32202175 Score: 584
Period size: 50 Copynumber: 15.1 Consensus size: 50
32201412 TCCCAGGCGG
* * * *
32201422 TGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * ** * * **
32201472 TGCAGTTGAAAAGACTAAAGCTACAACAACGAATCTTATTTCCCTGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * *
32201522 TGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
** * * * * *
32201572 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TCCCAGGCAA
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * *
32201621 TGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
** * * * * **
32201671 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT-ATTTCCCTAGCGG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGA-CAT
* * *
32201721 TGCAGTGGAACAGATTAAGGCCACAAC-GACGAACCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAG-CGAATCTTGCTTCCCCGACAT
** * * * * *
32201771 TGCAGTTAAAAAGATTAAAGCTACAATAGTGAATCTTAC-TCCCCAGGCGA-
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCC-GAC-AT
* * * * *
32201821 TGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * ** * * * * **
32201871 TACAATTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* *
32201921 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * ** * * * * **
32201971 TACAATTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* *
32202021 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* ** * * * * **
32202071 TGTAGTTAAAAAGATTAAAGCCACAACAGCAAATCTTACTTCCCTGGCCG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* * * * * * *
32202121 TGCAAT-GAAACAGATTAAAGCTACGACGGCAAATCTTGTTTCCCCGACAC
1 TGCAGTGGAAA-AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
32202171 TGCAG
1 TGCAG
32202176 CCAGATAGAA
Statistics
Matches: 524, Mismatches: 170, Indels: 20
0.73 0.24 0.03
Matches are distributed among these distances:
49 53 0.10
50 458 0.87
51 13 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
Found at i:32201575 original size:100 final size:100
Alignment explanation
Indices: 32201402--32202175 Score: 1109
Period size: 100 Copynumber: 7.8 Consensus size: 100
32201392 GGTGAAGGAA
* * * *
32201402 GAATCTTATTTCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
* * *
32201467 GACATTGCAGTTGAAAAGACTAAAGCTACAACAAC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
* * * *
32201502 GAATCTTATTTCCCTGGCGGTGCAGTGGAACAGATTAACGCCACAACGGCGAACCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
32201567 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
* ** * *
32201602 GAATCTTAC-TCCCAGGCAATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
32201666 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
* * * ** *
32201701 GAATCTTATTTCCCTAGCGGTGCAGTGGAACAGATTAAGGCCACAACGACGAACCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
* *
32201766 GACATTGCAGTTAAAAAGATTAAAGCTACAATAGT
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
* * * * * *
32201801 GAATCTTACTCCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
* *
32201866 GACATTACAATTAAAAAGATTAAAGCTACAACAGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
*
32201901 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
* *
32201966 GACATTACAATTAAAAAGATTAAAGCTACAACAGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
*
32202001 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
* *
32202066 GACATTGTAGTTAAAAAGATTAAAGCCACAACAGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
* * * * * * ** *
32202101 AAATCTTACTTCCCTGGCCGTGCAATGAAACAGATTAAAGCTACGACGGCAAATCTTGTTTCCCC
1 GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
*
32202166 GACACTGCAG
66 GACATTGCAG
32202176 CCAGATAGAA
Statistics
Matches: 603, Mismatches: 70, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
99 90 0.15
100 513 0.85
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
GAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
Found at i:32208918 original size:12 final size:13
Alignment explanation
Indices: 32208900--32208937 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
32208890 TCGTAAAGAA
32208900 ATGATAAATTGAT
1 ATGATAAATTGAT
32208913 -TGATAAATTGAAT
1 ATGATAAATTG-AT
*
32208926 ATGGTAAATTGA
1 ATGATAAATTGA
32208938 AATTTGAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 10 0.45
13 3 0.14
14 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (13 bp):
ATGATAAATTGAT
Found at i:32208935 original size:14 final size:13
Alignment explanation
Indices: 32208901--32208938 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
32208891 CGTAAAGAAA
32208901 TGATAAATTG-AT
1 TGATAAATTGAAT
32208913 TGATAAATTGAAT
1 TGATAAATTGAAT
*
32208926 ATGGTAAATTGAA
1 -TGATAAATTGAA
32208939 ATTTGAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (13 bp):
TGATAAATTGAAT
Found at i:32212572 original size:27 final size:27
Alignment explanation
Indices: 32212542--32212601 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
32212532 CATCTCCTAG
*
32212542 GGGTATAACAGTCATTTTACCCTATAA
1 GGGTATAACAGTCATTTTAACCTATAA
** * *
32212569 GGGTATTTCGGTCATTTTAACCTATAG
1 GGGTATAACAGTCATTTTAACCTATAA
32212596 GGGTAT
1 GGGTAT
32212602 TTTGGTCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATAACAGTCATTTTAACCTATAA
Found at i:32212602 original size:27 final size:27
Alignment explanation
Indices: 32212552--32212800 Score: 196
Period size: 27 Copynumber: 9.3 Consensus size: 27
32212542 GGGTATAACA
*
32212552 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
32212579 GTCATTTTAACCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
32212606 GTCATTTTACCCTGTGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
** *** *
32212633 GTCATTCCATTTTAT-GGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * * * *
32212659 GTAATTCTGCCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
32212686 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * **
32212713 GTTATTCTACCCTATAGGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
32212740 GTCATTCTACCCTAT-GAGGGTAATTCT
1 GTCATTTTACCCTATAG-GGGTATTTCG
* * * *
32212767 GTCATTTTACCTTGTGGGGGTAATTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
32212794 ATCATTT
1 GTCATTT
32212801 ATTGACCTCT
Statistics
Matches: 181, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 22 0.12
27 158 0.87
28 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:32212802 original size:107 final size:107
Alignment explanation
Indices: 32212569--32212800 Score: 268
Period size: 107 Copynumber: 2.2 Consensus size: 107
32212559 TACCCTATAA
* * * * * *
32212569 GGGTATTTCGGTCATTTTAACCTATAGGGGTATTTTGGTCATTTTACCCTGTGGGGGTATTTTGG
1 GGGTATTTCGGTCATTTTATCCTATAGGGGTATTTCGGTCATTCTACCCTATAGGGGTATTTTAG
*** * *
32212634 TCATTCCATTTTATGGGGTATTTTGGTAATTCTGCCTTATGG
66 TCATTCCACCCTATGGGGTATTCTGGTAATTCTACCTTATGG
* *
32212676 GGGTATTTCGGTCATTTTATCCTATGGGGGTATTTCGGTTATTCTACCCTATAGGGGTATTTTAG
1 GGGTATTTCGGTCATTTTATCCTATAGGGGTATTTCGGTCATTCTACCCTATAGGGGTATTTTAG
* * * *
32212741 TCATTCTACCCTATGAGGGTAATTCT-GTCATTTTACCTTGTGG
66 TCATTCCACCCTATG-GGGT-ATTCTGGTAATTCTACCTTATGG
* *
32212784 GGGTAATTCGATCATTT
1 GGGTATTTCGGTCATTT
32212801 ATTGACCTCT
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
107 68 0.65
108 32 0.31
109 4 0.04
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.44
Consensus pattern (107 bp):
GGGTATTTCGGTCATTTTATCCTATAGGGGTATTTCGGTCATTCTACCCTATAGGGGTATTTTAG
TCATTCCACCCTATGGGGTATTCTGGTAATTCTACCTTATGG
Found at i:32213075 original size:16 final size:16
Alignment explanation
Indices: 32213054--32213084 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32213044 GGCCAACGTG
32213054 GCCCATTACGGCCCAA
1 GCCCATTACGGCCCAA
32213070 GCCCATTACGGCCCA
1 GCCCATTACGGCCCA
32213085 CACGAGCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.45, G:0.19, T:0.13
Consensus pattern (16 bp):
GCCCATTACGGCCCAA
Found at i:32218326 original size:30 final size:30
Alignment explanation
Indices: 32218277--32218371 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 30
32218267 TGTCGCATGG
* * * * *
32218277 CCGTGTGTCACTCACGGCTGAGGCACATGC
1 CCGTGTTTCACACATGGCTGAGACACACGC
32218307 CCGTGTTTCACACATGGCTGAGACACACGC
1 CCGTGTTTCACACATGGCTGAGACACACGC
* * *
32218337 CCATGTTTCACACATGACTAAGACACACGC
1 CCGTGTTTCACACATGGCTGAGACACACGC
32218367 CCGTG
1 CCGTG
32218372 GCAACATTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (30 bp):
CCGTGTTTCACACATGGCTGAGACACACGC
Found at i:32230250 original size:26 final size:26
Alignment explanation
Indices: 32230212--32230261 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
32230202 TGTGAGGAGC
*
32230212 CCATTTCGCAGCTCATGTGAGCAAAT
1 CCATTTCACAGCTCATGTGAGCAAAT
*
32230238 CCATTTCATAGCTCATGTGAGCAA
1 CCATTTCACAGCTCATGTGAGCAA
32230262 CGATGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (26 bp):
CCATTTCACAGCTCATGTGAGCAAAT
Found at i:32239593 original size:27 final size:27
Alignment explanation
Indices: 32239563--32239740 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32239553 ATATTGAGTC
* * * *
32239563 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32239590 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32239617 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32239645 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32239672 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32239699 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32239726 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32239741 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:32239702 original size:82 final size:81
Alignment explanation
Indices: 32239584--32239739 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32239574 TGCTATATAA
* *
32239584 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32239649 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32239666 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32239730 CACTTAGTGC
65 CACTTAGTGC
32239740 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:32247810 original size:16 final size:16
Alignment explanation
Indices: 32247789--32247845 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
32247779 CGAGTTTGGA
*
32247789 GCGAAGTGACGAGCTG
1 GCGAAGTGGCGAGCTG
* *
32247805 GCGAAGGGGCGAGCTA
1 GCGAAGTGGCGAGCTG
*
32247821 GCGAAGCGGCGAGCTG
1 GCGAAGTGGCGAGCTG
*
32247837 GTGAAGTGG
1 GCGAAGTGG
32247846 AACGAATAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.23, C:0.18, G:0.49, T:0.11
Consensus pattern (16 bp):
GCGAAGTGGCGAGCTG
Found at i:32248215 original size:6 final size:6
Alignment explanation
Indices: 32248206--32248231 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32248196 TAATAAATTC
32248206 AAATAT AAATAT AAATAT AAATAT AA
1 AAATAT AAATAT AAATAT AAATAT AA
32248232 TGTCTATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:32249259 original size:106 final size:106
Alignment explanation
Indices: 32249074--32249287 Score: 428
Period size: 106 Copynumber: 2.0 Consensus size: 106
32249064 CACATCTTGC
32249074 CATATACAATATCCAATTGGTGAAATCACTTAATTGAATTCAACTTCAACAATCATAATAAATCT
1 CATATACAATATCCAATTGGTGAAATCACTTAATTGAATTCAACTTCAACAATCATAATAAATCT
32249139 ATCACTTGAGTCTGAGTCCACGTAACACTTACCAACTTTGT
66 ATCACTTGAGTCTGAGTCCACGTAACACTTACCAACTTTGT
32249180 CATATACAATATCCAATTGGTGAAATCACTTAATTGAATTCAACTTCAACAATCATAATAAATCT
1 CATATACAATATCCAATTGGTGAAATCACTTAATTGAATTCAACTTCAACAATCATAATAAATCT
32249245 ATCACTTGAGTCTGAGTCCACGTAACACTTACCAACTTTGT
66 ATCACTTGAGTCTGAGTCCACGTAACACTTACCAACTTTGT
32249286 CA
1 CA
32249288 AATTAGTGAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (106 bp):
CATATACAATATCCAATTGGTGAAATCACTTAATTGAATTCAACTTCAACAATCATAATAAATCT
ATCACTTGAGTCTGAGTCCACGTAACACTTACCAACTTTGT
Found at i:32249968 original size:43 final size:43
Alignment explanation
Indices: 32249906--32250153 Score: 250
Period size: 43 Copynumber: 5.8 Consensus size: 43
32249896 GCGTCGCTAA
* *
32249906 CTTTAGC-GACGCTTTTCCCGCAAACGCCGCTAAAGGCCAAGAC
1 CTTTAGCAG-CGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * * *
32249949 CTTTAGCAGCGCTTCTCCCGCAAACGCCGCTATAGACCACGCC
1 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * *
32249992 CTTTA-CCGACGCTTTTCCCACAAACGCCGCTATAGACCACGAT
1 CTTTAGCAG-CGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * * * *
32250035 CTTTAACGGCGCTTTTACCACAAACGCCGCTATAGACCATGAT
1 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
** *
32250078 CTTTAGCAGCGCTTTTATCACAAACGCCGCTAAAGAACAA-AC
1 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
32250120 CTTTAGCGGCGCTTTTCGCAAAAACGCCGCTAAA
1 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAA
32250154 AATATAACCT
Statistics
Matches: 178, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
42 33 0.19
43 142 0.80
44 3 0.02
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (43 bp):
CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:32250059 original size:86 final size:84
Alignment explanation
Indices: 32249906--32250151 Score: 278
Period size: 86 Copynumber: 2.9 Consensus size: 84
32249896 GCGTCGCTAA
* * * * *
32249906 CTTTAGCGACGCTTTTCCCGCAAACGCCGCTAAAGGCCAAGACCTTTAGCAGCGCTTCTCCCGCA
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACC-AGACCTTTAGCGGCGCTT-TTCCACA
*
32249971 AACGCCGCTATAGACCACGCC
64 AACGCCGCTATAGACCACGAC
* * * *
32249992 CTTTACCGACGCTTTTCCCACAAACGCCGCTATAGACCACGATCTTTAACGGCGCTTTTACCACA
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCA-GACCTTTAGCGGCGCTTTT-CCACA
* *
32250057 AACGCCGCTATAGACCATGAT
64 AACGCCGCTATAGACCACGAC
** * * *
32250078 CTTTAGC-AGCGCTTTTATCACAAACGCCGCTAAAGAACAAACCTTTAGCGGCGCTTTTCGCAAA
1 CTTTAGCGA-CGCTTTTCCCACAAACGCCGCTAAAGACCAGACCTTTAGCGGCGCTTTTC-CACA
32250142 AACGCCGCTA
64 AACGCCGCTA
32250152 AAAATATAAC
Statistics
Matches: 135, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
84 1 0.01
85 32 0.24
86 102 0.76
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.22
Consensus pattern (84 bp):
CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAGACCTTTAGCGGCGCTTTTCCACAAA
CGCCGCTATAGACCACGAC
Found at i:32250517 original size:19 final size:19
Alignment explanation
Indices: 32250493--32250558 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
32250483 ACAGTAACAA
32250493 AAAATTAAACACCACACAT
1 AAAATTAAACACCACACAT
* * *
32250512 AAAATTACACAGACAGCAACAA
1 AAAATTAAACA-CCA-C-ACAT
32250534 AAAATTAAACACCACACAT
1 AAAATTAAACACCACACAT
32250553 AAAATT
1 AAAATT
32250559 TATCAAACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 19 0.50
20 3 0.08
21 3 0.08
22 13 0.34
ACGTcount: A:0.59, C:0.23, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAATTAAACACCACACAT
Found at i:32250524 original size:41 final size:41
Alignment explanation
Indices: 32250477--32250558 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
32250467 AAAAATTAGA
*
32250477 ACACAGACAGTAACAAAAAATTAAACACCACACATAAAATT
1 ACACAGACAGCAACAAAAAATTAAACACCACACATAAAATT
32250518 ACACAGACAGCAACAAAAAATTAAACACCACACATAAAATT
1 ACACAGACAGCAACAAAAAATTAAACACCACACATAAAATT
32250559 TATCAAACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.59, C:0.23, G:0.05, T:0.13
Consensus pattern (41 bp):
ACACAGACAGCAACAAAAAATTAAACACCACACATAAAATT
Found at i:32254517 original size:20 final size:20
Alignment explanation
Indices: 32254488--32254530 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32254478 AAATTATAAA
*
32254488 TTTTAGTTTTTTATTTCATT
1 TTTTAGTTTTGTATTTCATT
* *
32254508 TTTTATTTTTGTATTTTATT
1 TTTTAGTTTTGTATTTCATT
32254528 TTT
1 TTT
32254531 CTTATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTAGTTTTGTATTTCATT
Found at i:32254898 original size:7 final size:7
Alignment explanation
Indices: 32254878--32254925 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
32254868 AACCCTAAAT
32254878 CCCTAAC
1 CCCTAAC
* *
32254885 TCTTAAC
1 CCCTAAC
32254892 CCCTAAC
1 CCCTAAC
32254899 CCCTAAC
1 CCCTAAC
* * *
32254906 TCTTTAC
1 CCCTAAC
32254913 CCCTAAC
1 CCCTAAC
32254920 CCCTAA
1 CCCTAA
32254926 ATCTCAAACC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.27, C:0.48, G:0.00, T:0.25
Consensus pattern (7 bp):
CCCTAAC
Found at i:32254902 original size:21 final size:21
Alignment explanation
Indices: 32254878--32254925 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
32254868 AACCCTAAAT
32254878 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
*
32254899 CCCTAACTCTTTACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
32254920 CCCTAA
1 CCCTAA
32254926 ATCTCAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.48, G:0.00, T:0.25
Consensus pattern (21 bp):
CCCTAACTCTTAACCCCTAAC
Found at i:32255142 original size:24 final size:23
Alignment explanation
Indices: 32255115--32255169 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
32255105 TATATGAAAT
32255115 TATTTAATATATAAATTAAAAACA
1 TATTTAATATATAAATTAAAAA-A
*
32255139 TATTTAAAATATAAATTAAAAAA
1 TATTTAATATATAAATTAAAAAA
*
32255162 TAATTAAT
1 TATTTAAT
32255170 CTAAACCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TATTTAATATATAAATTAAAAAA
Found at i:32255303 original size:15 final size:15
Alignment explanation
Indices: 32255278--32255316 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
32255268 CTTAAACCAC
32255278 AATCCCT-AATCCAT
1 AATCCCTAAATCCAT
32255292 AATCCCTAAATCCAT
1 AATCCCTAAATCCAT
**
32255307 GCTCCCTAAA
1 AATCCCTAAA
32255317 CCTTAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.36, C:0.36, G:0.03, T:0.26
Consensus pattern (15 bp):
AATCCCTAAATCCAT
Found at i:32255936 original size:41 final size:41
Alignment explanation
Indices: 32255666--32255925 Score: 333
Period size: 41 Copynumber: 6.3 Consensus size: 41
32255656 TAAAATGTTT
*
32255666 TTAGCGGCGCTTTAT-CAAAAACGCCGCTAAATCCCCCAGCA
1 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAAGCCCCCAGCA
*
32255707 TTAGCGGTGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
*
32255748 TTAGCGGTGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
* * * *
32255789 TTAGCGGCGCTTTCCCAAAAATGCCGCTAAATCCCCTAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
* * * * * *
32255830 TTAGCGACACTTTTCAAAAAACGCCGCTAAAACACCGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
* ** ** *
32255871 TTAGCGGCACTTTTTTAAAAACGCCGCTAAAGCCCTGAGAA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
32255912 TTAGCGGCGCTTTT
1 TTAGCGGCGCTTTT
32255926 TTGAAAACGC
Statistics
Matches: 195, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 1 0.01
41 194 0.99
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
Found at i:32256918 original size:23 final size:23
Alignment explanation
Indices: 32256892--32257059 Score: 183
Period size: 23 Copynumber: 7.3 Consensus size: 23
32256882 ATAAGTGCCA
*
32256892 CACTGATATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
32256915 CACTGATACGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* **
32256938 CACTGAAATGTAGTTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
**
32256961 CACTGATATGTAGCCGTTGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
32256984 CACTAAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
32257007 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
32257030 CATTGAAATTTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
32257053 CATTGAT
1 CACTGAT
32257060 CAATAACACT
Statistics
Matches: 118, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 118 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:32256962 original size:46 final size:46
Alignment explanation
Indices: 32256892--32257059 Score: 228
Period size: 46 Copynumber: 3.7 Consensus size: 46
32256882 ATAAGTGCCA
* * * *
32256892 CACTGATATGTAGCCGAAGTTACCACTGATACGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
** *
32256938 CACTGAAATGTAGTTGAAGCTACCACTGATATGTAGCCGTTGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
* *
32256984 CACTAAAATGTAGCTGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
* * *
32257030 CATTGAAATTTAGCCGAAGCTACCATTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
32257060 CAATAACACT
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 107 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:32259047 original size:22 final size:23
Alignment explanation
Indices: 32259005--32259049 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
32258995 TTCAATTTAG
* *
32259005 TATTTATATAATTTAATAAAAAC
1 TATTAATATAATTTAAGAAAAAC
32259028 TATTAATATAA-TTAAGAAAAAC
1 TATTAATATAATTTAAGAAAAAC
32259050 ATTTGGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (23 bp):
TATTAATATAATTTAAGAAAAAC
Found at i:32263907 original size:17 final size:17
Alignment explanation
Indices: 32263885--32263918 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32263875 GGGGACAGAG
*
32263885 TAATTAGAATAAATAAA
1 TAATTAAAATAAATAAA
*
32263902 TAATTAAAATAATTAAA
1 TAATTAAAATAAATAAA
32263919 AAGAACCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAATTAAAATAAATAAA
Found at i:32267630 original size:23 final size:24
Alignment explanation
Indices: 32267596--32267647 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
32267586 CTTCTTTCCC
32267596 TTTTCCCCTTTA-TTTTCCTCTCA
1 TTTTCCCCTTTACTTTTCCTCTCA
* *
32267619 TTTTCCCTTTTATCTTTTTCTCTCA
1 TTTTCCCCTTTA-CTTTTCCTCTCA
32267644 TTTT
1 TTTT
32267648 TCTCCTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.44
25 14 0.56
ACGTcount: A:0.08, C:0.29, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTCCCCTTTACTTTTCCTCTCA
Found at i:32273725 original size:40 final size:39
Alignment explanation
Indices: 32273681--32273785 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
32273671 AGTGACCATA
*
32273681 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
32273721 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
32273759 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
32273786 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32273742 original size:39 final size:40
Alignment explanation
Indices: 32273641--32273804 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
32273631 TTGAATGATG
* *
32273641 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
32273681 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
32273720 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
32273760 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
32273800 TCCGG
1 TCCGG
32273805 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:32273804 original size:79 final size:80
Alignment explanation
Indices: 32273641--32273791 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
32273631 TTGAATGATG
*
32273641 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
32273706 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
32273721 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
32273783 TTGAACGAG
64 TTGAACGAG
32273792 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:32291551 original size:15 final size:16
Alignment explanation
Indices: 32291531--32291560 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32291521 TAATAACTAA
32291531 TATATAAT-TATATTT
1 TATATAATATATATTT
32291546 TATATAATATATATT
1 TATATAATATATATT
32291561 AATCGTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:32294184 original size:24 final size:24
Alignment explanation
Indices: 32294136--32294182 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
32294126 ACTGGTCATA
*
32294136 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
32294160 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
32294183 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:32295414 original size:27 final size:27
Alignment explanation
Indices: 32295296--32295414 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
32295286 CCCCAAAATA
** *
32295296 GGTAAAATGATAGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * * *
32295323 GATAAAATAACTGAAATA-CCCTCATAA
1 GGTAAAATGACCGAAATACCCCT-ATAG
* *
32295350 GGTAAAAT-AACGAAAATACCCTTATAG
1 GGTAAAATGACCG-AAATACCCCTATAG
32295377 GGTAAAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
32295404 GGTAAAATGAC
1 GGTAAAATGAC
32295415 TGTTATACCC
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
26 5 0.07
27 64 0.85
28 6 0.08
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:32295422 original size:27 final size:27
Alignment explanation
Indices: 32295365--32295448 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
32295355 AATAACGAAA
* * **
32295365 ATACCCTTATAGGGTAAAATGACCGAA
1 ATACCCCTATAGGGTAAAATGACTGTT
32295392 ATACCCCTATAGGGTAAAATGACTGTT
1 ATACCCCTATAGGGTAAAATGACTGTT
*
32295419 ATACCCC--TAGGAGATGAAATGACTGTT
1 ATACCCCTATAGG-G-TAAAATGACTGTT
32295446 ATA
1 ATA
32295449 ACCTTATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 4 0.08
26 1 0.02
27 45 0.90
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
ATACCCCTATAGGGTAAAATGACTGTT
Found at i:32295424 original size:54 final size:54
Alignment explanation
Indices: 32295309--32295411 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
32295299 AAAATGATAG
*
32295309 AAATACCCTTATAGGATAAAATAACTGAAATACCCTCATAAGGTAAAATAACGA
1 AAATACCCTTATAGGATAAAATAACCGAAATACCCTCATAAGGTAAAATAACGA
* * *
32295363 AAATACCCTTATAGGGTAAAATGACCGAAATACCC-CTATAGGGTAAAAT
1 AAATACCCTTATAGGATAAAATAACCGAAATACCCTC-ATAAGGTAAAAT
32295412 GACTGTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.02
54 43 0.98
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (54 bp):
AAATACCCTTATAGGATAAAATAACCGAAATACCCTCATAAGGTAAAATAACGA
Found at i:32306056 original size:6 final size:6
Alignment explanation
Indices: 32306045--32306075 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
32306035 TTAGATGTAC
32306045 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT A
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT A
32306076 ATTTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTAAT
Found at i:32311772 original size:3 final size:3
Alignment explanation
Indices: 32311764--32311799 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
32311754 ATTTCTAGAG
32311764 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
32311800 CTATTGAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32313521 original size:74 final size:74
Alignment explanation
Indices: 32313400--32313546 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
32313390 GTGAAGCGAT
32313400 CTCGTACTAAACGAAACGACTTTCACTTTCCATAAAAAAAATGAAAGAAAGTAAACCTATTCCTG
1 CTCGTACTAAACGAAACGACTTTCACTTTCCATAAAAAAAATGAAAGAAAGTAAACCTATTCCTG
32313465 CAATTGCGC
66 CAATTGCGC
* *
32313474 CTCGTACTAAATGAAATGACTTTCACTTTCCATAAAAAAAATGAAAGAAAGTAAACCTATTCCTG
1 CTCGTACTAAACGAAACGACTTTCACTTTCCATAAAAAAAATGAAAGAAAGTAAACCTATTCCTG
32313539 CAATTGCG
66 CAATTGCG
32313547 GTCAGTCTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (74 bp):
CTCGTACTAAACGAAACGACTTTCACTTTCCATAAAAAAAATGAAAGAAAGTAAACCTATTCCTG
CAATTGCGC
Found at i:32314587 original size:25 final size:25
Alignment explanation
Indices: 32314551--32314618 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
32314541 CGTTCCGACC
* *
32314551 CACAACTTGTGTGAGCATTCTTATT
1 CACAACTCGTGTGAGCATTCTAATT
*
32314576 CACAGCTCGTGTGAGCATTCTAATT
1 CACAACTCGTGTGAGCATTCTAATT
32314601 CACAACTCGTGTGAGCAT
1 CACAACTCGTGTGAGCAT
32314619 ACAGGTACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
CACAACTCGTGTGAGCATTCTAATT
Found at i:32315307 original size:20 final size:20
Alignment explanation
Indices: 32315255--32315307 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
32315245 TATTTAAGCT
*
32315255 AAAGAAAGAAAATGAAATGG
1 AAAGTAAGAAAATGAAATGG
32315275 AAAGTAATG-AAATGCAAAT-G
1 AAAGTAA-GAAAATG-AAATGG
32315295 AAAGTAAGAAAAT
1 AAAGTAAGAAAAT
32315308 TTGAAAGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
20 23 0.79
21 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.21, T:0.15
Consensus pattern (20 bp):
AAAGTAAGAAAATGAAATGG
Found at i:32315775 original size:15 final size:16
Alignment explanation
Indices: 32315755--32315784 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32315745 TGGTACCTTG
32315755 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
32315770 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
32315785 AGCATGTTTG
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:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:32321301 original size:30 final size:30
Alignment explanation
Indices: 32321267--32321323 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
32321257 AAACCTTTTT
*
32321267 ACTTTTCCCCTAAAACTTTTACTCTTTCCC
1 ACTTTTCCCCCAAAACTTTTACTCTTTCCC
32321297 ACTTTTCCCCCAAAACTTTTACTCTTT
1 ACTTTTCCCCCAAAACTTTTACTCTTT
32321324 TACTCCCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (30 bp):
ACTTTTCCCCCAAAACTTTTACTCTTTCCC
Found at i:32321335 original size:30 final size:30
Alignment explanation
Indices: 32321271--32321335 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
32321261 CTTTTTACTT
* * **
32321271 TTCCCCTAAAACTTTTACTCTTTCCCACTT
1 TTCCCCCAAAACTTTTACTCTTTCACACCC
* *
32321301 TTCCCCCAAAACTTTTACTCTTTTACTCCC
1 TTCCCCCAAAACTTTTACTCTTTCACACCC
32321331 TTCCC
1 TTCCC
32321336 TTCCCATCCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (30 bp):
TTCCCCCAAAACTTTTACTCTTTCACACCC
Found at i:32321494 original size:19 final size:19
Alignment explanation
Indices: 32321456--32321494 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32321446 AAAACCCTCA
* *
32321456 AAAATTTTTATTTTCCCCC
1 AAAATTTTTACTCTCCCCC
*
32321475 AAAATTTTTACTCTCTCCC
1 AAAATTTTTACTCTCCCCC
32321494 A
1 A
32321495 CTTTCCCCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATTTTTACTCTCCCCC
Found at i:32322994 original size:23 final size:22
Alignment explanation
Indices: 32322951--32322994 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
32322941 TTCTAAGTCG
32322951 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
32322974 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
32322995 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:32323159 original size:51 final size:52
Alignment explanation
Indices: 32323093--32323228 Score: 181
Period size: 50 Copynumber: 2.7 Consensus size: 52
32323083 TCGGTTCACA
* *
32323093 TAGTAGTCTGCACATAGTACTACACATGTAACCATTATCA-TCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTATCATTCCGATACACG
* *
32323144 TAGTAGCCTAG-ACATAGTACTACACATGCGACC--TATCATTCCGGTACACG
1 TAGTAGCCT-GCACATAGTACTACACATGTGACCATTATCATTCCGATACACG
* *
32323194 TAGTGGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
32323229 CACTTTCACT
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
49 6 0.08
50 38 0.52
51 28 0.38
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTATCATTCCGATACACG
Found at i:32326586 original size:48 final size:48
Alignment explanation
Indices: 32326525--32326671 Score: 230
Period size: 48 Copynumber: 3.1 Consensus size: 48
32326515 AATACCTTTT
* *
32326525 AGGATTTGGTCCAAATCCAAACCACCCTATAGACACATCCTTTATTTA
1 AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATTTG
*
32326573 AGGATTTGGTCCAAATTCAAACCACCCCATAGACACATCC----TTTG
1 AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATTTG
*
32326617 AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATCTG
1 AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATTTG
32326665 AGGATTT
1 AGGATTT
32326672 AGCTATTGGC
Statistics
Matches: 90, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
44 42 0.47
48 48 0.53
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (48 bp):
AGGATTTGGTCCAAATCCAAACCACCCCATAGACACATCCTTTATTTG
Found at i:32326638 original size:44 final size:44
Alignment explanation
Indices: 32326519--32326660 Score: 212
Period size: 44 Copynumber: 3.1 Consensus size: 44
32326509 TCAAATAATA
* *
32326519 CCTTTTAGGATTTGGTCCAAATCCAAACCACCCTATAGACACAT
1 CCTTTAAGGATTTGGTCCAAATCCAAACCACCCCATAGACACAT
*
32326563 CCTTTATTTAAGGATTTGGTCCAAATTCAAACCACCCCATAGACACAT
1 CC----TTTAAGGATTTGGTCCAAATCCAAACCACCCCATAGACACAT
*
32326611 CCTTTGAGGATTTGGTCCAAATCCAAACCACCCCATAGACACAT
1 CCTTTAAGGATTTGGTCCAAATCCAAACCACCCCATAGACACAT
32326655 CCTTTA
1 CCTTTA
32326661 TCTGAGGATT
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
44 47 0.53
48 41 0.47
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (44 bp):
CCTTTAAGGATTTGGTCCAAATCCAAACCACCCCATAGACACAT
Found at i:32329578 original size:25 final size:27
Alignment explanation
Indices: 32329535--32329587 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
32329525 TTTTTTTATC
*
32329535 ATATTTTATTATTTGTAC-TG-TTAAA
1 ATATTTTATTATTTATACTTGCTTAAA
32329560 ATATTTT-TTATTATATACTTGCTTAAA
1 ATATTTTATTATT-TATACTTGCTTAAA
32329587 A
1 A
32329588 ATTCATACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.21
25 11 0.46
26 2 0.08
27 6 0.25
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (27 bp):
ATATTTTATTATTTATACTTGCTTAAA
Found at i:32329675 original size:15 final size:15
Alignment explanation
Indices: 32329655--32329685 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32329645 ATCCTTTTGT
*
32329655 TATTATTTGAAAATA
1 TATTATTCGAAAATA
32329670 TATTATTCGAAAATA
1 TATTATTCGAAAATA
32329685 T
1 T
32329686 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (15 bp):
TATTATTCGAAAATA
Found at i:32332592 original size:23 final size:23
Alignment explanation
Indices: 32332564--32332609 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
32332554 GCTAGGGTTT
32332564 CTGTTA-AGTGTTTAGGTTTTGGG
1 CTGTTAGAGTGTTTA-GTTTTGGG
*
32332587 CTGTTAGAGTTTTTAGTTTTGGG
1 CTGTTAGAGTGTTTAGTTTTGGG
32332610 GGCTTGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.13, C:0.04, G:0.33, T:0.50
Consensus pattern (23 bp):
CTGTTAGAGTGTTTAGTTTTGGG
Found at i:32333174 original size:179 final size:179
Alignment explanation
Indices: 32332893--32333422 Score: 848
Period size: 179 Copynumber: 3.0 Consensus size: 179
32332883 TTTGATCCGC
* *
32332893 TCCAATGTAATTTCAGGGAGAAAAGACTTGTAGCTTCGATCTACT-TTGCTGCAACTTCAAGGAG
1 TCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCT-CTGCAACTTCAAGGAG
32332957 ATAAGAATTGGTAATTTCAA-CTCGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATATTTTT
65 ATAAGAATTGGTAATTTCAACCT-GCTCCACTACAACTTCAGGGAGATAAGGTTTGTATATTTTT
*
32333021 ATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTCGATCTGA
129 ATCCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGCTTCGATCTGA
* *
32333072 TCCAATATAATTTCAGGGAGAAGAGGCTTGTAGCTTCGATCTACTCCTCTGCAACTTCAAGGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCTCTGCAACTTCAAGGAGA
* * *
32333137 TAAGAATTGGTAATTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGGTTTGTATAATTTTAT
66 TAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATATTTTTAT
* *
32333202 CCTGCTCCACTACAACTTCAGGGGGATAAGGATTGTGGCTTCGATCTGC
131 CCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGCTTCGATCTGA
* * *
32333251 TCCAATGTAATTTCAGTGAGAAGAGACTTGTAGCTTCGATCTACTCCGCTGCTACTTCAAGGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCTCTGCAACTTCAAGGAGA
* * * *
32333316 TAAGAATTGGTAACTTCAACCTGCTCCATTACAACTTCAGGGAGATACGGTTTGTATATTTTTCT
66 TAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATATTTTTAT
* * *
32333381 CCTGCTCCATTTCAACTTCAGGGAGATAAGGATTGTGTCTTC
131 CCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGCTTC
32333423 AGTCTGTTCC
Statistics
Matches: 323, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
179 320 0.99
180 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (179 bp):
TCCAATGTAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCCTCTGCAACTTCAAGGAGA
TAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATATTTTTAT
CCTGCTCCACTACAACTTCAGGGAGATAAGGATTGTGGCTTCGATCTGA
Found at i:32333266 original size:44 final size:44
Alignment explanation
Indices: 32332886--32333453 Score: 304
Period size: 44 Copynumber: 12.7 Consensus size: 44
32332876 TTGGTGTTTT
* * * * *
32332886 GATCCGCTCCAATGTAATTTCAGGGAGA-AAAGACTTGTAGCTTC
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGGA-TTGTAGCTTC
* *** * * **
32332930 GATCTACTTTGCTGCAACTTCAAGGAGATAAGAATTGGTAATTTC
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTAGCTTC
* * * ** *
32332975 -AACTCGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATATTTT
1 GATCT-GCTCCACTGCAACTTCAGGGAGATAAGGATTGTA-GCTTC
* *
32333020 TATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTC
1 GAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTC
* * ** * *
32333065 GATCTGATCCAATATAATTTCAGGGAGA-AGAGGCTTGTAGCTTC
1 GATCTGCTCCACTGCAACTTCAGGGAGATA-AGGATTGTAGCTTC
* * * * **
32333109 GATCTACTCCTCTGCAACTTCAAGGAGATAAGAATTGGTAATTTC
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTAGCTTC
* * * * ** *
32333154 AACCTGTTCCACTGCAACTTCAGGGAGATAAGGTTTGTATAATTT
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTA-GCTTC
* * * *
32333199 TATCCTGCTCCACTACAACTTCAGGGGGATAAGGATTGTGGCTTC
1 GAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTC
* * * *
32333244 GATCTGCTCCAATGTAATTTCAGTGAG--AAGAGACTTGTAGCTTC
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAG-GA-TTGTAGCTTC
* * * * * *
32333288 GATCTACTCCGCTGCTACTTCAAGGAGATAAGAATTGGTAACTTC
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTAGCTTC
* * * * * * ** *
32333333 AACCTGCTCCATTACAACTTCAGGGAGATACGGTTTGTATATTTT
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTA-GCTTC
** * *
32333378 TCTCCTGCTCCATTTCAACTTCAGGGAGATAAGGATTGT-GTCTTC
1 GAT-CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAG-CTTC
* * * *
32333423 -AGTCTGTTCCGCCGCAACTTCAGGAAGATAA
1 GA-TCTGCTCCACTGCAACTTCAGGGAGATAA
32333454 TATTTGCCAT
Statistics
Matches: 387, Mismatches: 117, Indels: 40
0.71 0.22 0.07
Matches are distributed among these distances:
42 3 0.01
43 3 0.01
44 159 0.41
45 122 0.32
46 98 0.25
47 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
GATCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTC
Found at i:32333652 original size:143 final size:142
Alignment explanation
Indices: 32333437--32333895 Score: 598
Period size: 143 Copynumber: 3.2 Consensus size: 142
32333427 TGTTCCGCCG
* ** * *
32333437 CAACTTCAGGAAGATAATATTTGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACACCGGGG
1 CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCC-AGG
* * * *
32333502 GAATAAGATTTGTTGTCTTTAGTCTGCTCCGCTGCAACTTTAAGGAAATAAGGCTGGTGGCTTCA
65 GAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCA
32333567 ATCTGCTCCACTA
130 ATCTGCTCCACTA
* * *
32333580 CAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAGCGCCAGAG
1 CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGG
* * * *
32333645 AAGTAAGATTCGCTGTCTTCAATCTGCTCCGCTGTAAC-TTCAGCGAGATAAGGCTGGTGGCCTC
66 AA-TAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAAG-GAGATAAGGCTGGTGGCTTC
* *
32333709 AATCTGTTCCATTA
129 AATCTGCTCCACTA
* * *
32333723 CAACTTCAGGAAGATAAGATCCGTCATAATTTGTAGCTTTAATCTAGTT-CACTACAACGCAAGG
1 CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTA-TTCCACTGCAACGCCAGG
* * * * *
32333787 GAAATAAGATTCACTATCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTC
65 G-AATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTC
* *
32333852 AATCTACTCCACTT
129 AATCTGCTCCACTA
*
32333866 CAACTTCAGAAAGATAAGATCCGCCATAAT
1 CAACTTCAGGAAGATAAGATCCGCCATAAT
32333896 GACTTCAATC
Statistics
Matches: 272, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
142 8 0.03
143 258 0.95
144 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (142 bp):
CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGG
AATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAAGGAGATAAGGCTGGTGGCTTCAA
TCTGCTCCACTA
Found at i:32334783 original size:10 final size:11
Alignment explanation
Indices: 32334763--32334787 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32334753 TGGCCTCTTA
32334763 TTTTTGTTTTT
1 TTTTTGTTTTT
32334774 TTTTTGTTTTT
1 TTTTTGTTTTT
32334785 TTT
1 TTT
32334788 CTCTCACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:32335201 original size:1 final size:1
Alignment explanation
Indices: 32335191--32335265 Score: 69
Period size: 1 Copynumber: 75.0 Consensus size: 1
32335181 CTAGTAGAGG
* * * * * * * *
32335191 TTTTTGTTTTTCTGTTTTTTGTTTTTTTTTTATTTTTTTTTTATTTTTTTATTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
32335256 TGTTTTTTTT
1 TTTTTTTTTT
32335266 GCCTCCACAG
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:32335221 original size:11 final size:11
Alignment explanation
Indices: 32335205--32335265 Score: 77
Period size: 11 Copynumber: 5.4 Consensus size: 11
32335195 TGTTTTTCTG
*
32335205 TTTTTTGTTTT
1 TTTTTTATTTT
32335216 TTTTTTATTTT
1 TTTTTTATTTT
32335227 TTTTTTATTTT
1 TTTTTTATTTT
*
32335238 TTTATTTTTTTT
1 TTT-TTTATTTT
*
32335250 GTTTTTTGTTTT
1 -TTTTTTATTTT
32335262 TTTT
1 TTTT
32335266 GCCTCCACAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
11 28 0.62
12 14 0.31
13 3 0.07
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.90
Consensus pattern (11 bp):
TTTTTTATTTT
Found at i:32339539 original size:4 final size:4
Alignment explanation
Indices: 32339525--32339603 Score: 54
Period size: 4 Copynumber: 19.8 Consensus size: 4
32339515 GTTTAAAAAG
* * * *
32339525 AAAT CAAAT AAAT AAAT AAAT AAAT TATT AAAT AGAAT -ATT AAGT AAA-
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT
* ***
32339573 ACAT TTTT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
32339604 CAGTCGAGGA
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
3 4 0.07
4 46 0.81
5 7 0.12
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:32341142 original size:179 final size:178
Alignment explanation
Indices: 32340798--32341150 Score: 528
Period size: 179 Copynumber: 2.0 Consensus size: 178
32340788 ATTGGTGTTT
* *
32340798 CGATCTGCTCCAATATAATTTCAGGGAGAAGAGACTTGTAGCTTCGATCTACTCTCCTGCAACTT
1 CGATCTACTCCAATATAATTTCAGAGAGAAGAGACTTGTAGCTTCGATCTACTCTCCTGCAACTT
* * * * **
32340863 TAAGGAGATAAAATTGGTAATTTCAACCTGCTTCACTGTAACTTCAGGGAGATAAGGTTTGTATA
66 CAAGGAGATAAAATCGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATA
* * * *
32340928 TTTTTATCCTGCTCCAGTGCAACTTTAGGGAGATAAGGATTGTGGCTA
131 TTTTTATCCTGCTCCACTACAACTTAAGCGAGATAAGGATTGTGGCTA
* * * * *
32340976 CGATCTACTTCAATGTAATTTCATAGAGAAGTGATTTGTAGCTTCGATCTACTC-CGCTGCAACT
1 CGATCTACTCCAATATAATTTCAGAGAGAAGAGACTTGTAGCTTCGATCTACTCTC-CTGCAACT
32341040 TCAAGGAGATAAGAATCGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTA
65 TCAAGGAGATAA-AATCGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTA
32341105 TATTTTTATCCTGCTCCACTACAACTTAAGCGAGATAAGGATTGTG
129 TATTTTTATCCTGCTCCACTACAACTTAAGCGAGATAAGGATTGTG
32341151 TCTTCAGTCT
Statistics
Matches: 156, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
177 1 0.01
178 66 0.42
179 89 0.57
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (178 bp):
CGATCTACTCCAATATAATTTCAGAGAGAAGAGACTTGTAGCTTCGATCTACTCTCCTGCAACTT
CAAGGAGATAAAATCGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTATA
TTTTTATCCTGCTCCACTACAACTTAAGCGAGATAAGGATTGTGGCTA
Found at i:32341485 original size:143 final size:142
Alignment explanation
Indices: 32341115--32341485 Score: 456
Period size: 143 Copynumber: 2.6 Consensus size: 142
32341105 TATTTTTATC
* * * * * * **
32341115 CTGCTCCACTACAACTTAAGCGAGATAAGGATTGTGTCTTCAGTCTATTCCACTGCAACTTCTGG
1 CTGCTCCGCTACAACTTAAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCT-G
* * * * ** *
32341180 AAGATAAGATTCGCCATGAGTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGGAATAAGGTT
65 AAGATAAGATACGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGCAAATAAGATT
* *
32341245 TGTTGTCTTCAGT
130 CGTTGTCTTCAAT
* * *
32341258 CTGCTCCGTTGCAACTTTAA-GGAGATAAGGCTGGTGGCATCAATCTGCTCCACTGCAACTTTCT
1 CTGCTCCGCTACAAC-TTAAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAAC-TTCT
* *
32341322 GAAGATAAGATATGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACTAGGCAAATAAGAT
64 GAAGATAAGATACGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGCAAATAAGAT
32341387 TCGTTGTCTTCAAT
129 TCGTTGTCTTCAAT
* * * *
32341401 CTGGTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTTCAACTTCAGA
1 CTGCTCCGCTACAACTTAAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCTG-
*
32341466 AAGATAAGATCCGCCATAAT
65 AAGATAAGATACGCCATAAT
32341486 GACTTCAAAC
Statistics
Matches: 193, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
142 7 0.04
143 178 0.92
144 8 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (142 bp):
CTGCTCCGCTACAACTTAAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCTGA
AGATAAGATACGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGCAAATAAGATTC
GTTGTCTTCAAT
Found at i:32342865 original size:10 final size:10
Alignment explanation
Indices: 32342828--32342884 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
32342818 CCGGTAGAGG
32342828 TTTTTGTTTT
1 TTTTTGTTTT
32342838 TCTATTT-TTTGT
1 T-T-TTTGTTT-T
*
32342850 TCTTTGTTTT
1 TTTTTGTTTT
32342860 TTTTTGTTTTT
1 TTTTTG-TTTT
32342871 TTTTTGTTTT
1 TTTTTGTTTT
32342881 TTTT
1 TTTT
32342885 GCCTCCACTG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 18 0.45
11 17 0.43
12 5 0.12
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.86
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:32342869 original size:7 final size:7
Alignment explanation
Indices: 32342828--32342882 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
32342818 CCGGTAGAGG
32342828 TTTTTGT
1 TTTTTGT
*
32342835 TTTTCTAT
1 TTTT-TGT
32342843 TTTTTGT
1 TTTTTGT
*
32342850 TCTTTGT
1 TTTTTGT
32342857 TTTTT-T
1 TTTTTGT
*
32342863 TTGTTTTT
1 TT-TTTGT
32342871 TTTTTGT
1 TTTTTGT
32342878 TTTTT
1 TTTTT
32342883 TTGCCTCCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 3 0.08
7 28 0.70
8 9 0.22
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (7 bp):
TTTTTGT
Found at i:32342884 original size:15 final size:15
Alignment explanation
Indices: 32342828--32342884 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
32342818 CCGGTAGAGG
* *
32342828 TTTTTGTTTTTCTAT
1 TTTTTGTTTTTTTTT
32342843 TTTTTGTTCTTTGTTTT
1 TTTTTGTT-TTT-TTTT
32342860 TTTTTGTTTTTTTTT
1 TTTTTGTTTTTTTTT
32342875 TGTTTT-TTTT
1 T-TTTTGTTTT
32342885 GCCTCCACTG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 17 0.46
16 10 0.27
17 10 0.27
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.86
Consensus pattern (15 bp):
TTTTTGTTTTTTTTT
Found at i:32346521 original size:11 final size:11
Alignment explanation
Indices: 32346505--32346537 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
32346495 TGATGGTAAA
32346505 TATTTT-TTAAT
1 TATTTTATT-AT
32346516 TATTTTATTAT
1 TATTTTATTAT
32346527 TATTTTATTAT
1 TATTTTATTAT
32346538 ACTCTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 19 0.90
12 2 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:32350992 original size:16 final size:16
Alignment explanation
Indices: 32350973--32351003 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32350963 TTGGAAAGAG
32350973 AAAATAAAATTAAAAA
1 AAAATAAAATTAAAAA
32350989 AAAATAAAATTAAAA
1 AAAATAAAATTAAAA
32351004 TCCTCAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAAATTAAAAA
Found at i:32354010 original size:16 final size:14
Alignment explanation
Indices: 32353989--32354024 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
32353979 GTATACATCC
32353989 TTTTAAGTTAACTAT
1 TTTTAAGTTAA-TAT
32354004 TTGTTAAGTTAATAT
1 TT-TTAAGTTAATAT
32354019 TTTTAA
1 TTTTAA
32354025 AATTTTATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TTTTAAGTTAATAT
Found at i:32355354 original size:16 final size:15
Alignment explanation
Indices: 32355333--32355362 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
32355323 TTAAAATTAT
32355333 AAATAATATATATTTG
1 AAATAATAT-TATTTG
32355349 AAATAATATTATTT
1 AAATAATATTATTT
32355363 AAAAAAAATT
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
AAATAATATTATTTG
Found at i:32356723 original size:27 final size:26
Alignment explanation
Indices: 32356667--32356739 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 26
32356657 AAAAGGGTAC
* *
32356667 AAAATATATACATGTACATATATAAA
1 AAAATATATACATATACATAGATAAA
*
32356693 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TA-AA
*
32356722 AAAAGATAATTACATATA
1 AAAATAT-A-TACATATA
32356740 TATATAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 4 0.11
29 7 0.18
30 8 0.21
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATATATACATATACATAGATAAA
Found at i:32356723 original size:30 final size:30
Alignment explanation
Indices: 32356687--32356743 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32356677 CATGTACATA
*
32356687 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
32356717 TATAAAAAAGATAATTACATATATATA
1 TATAAAAAAGATAATTACATATATATA
32356744 TAAACAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:32356928 original size:17 final size:17
Alignment explanation
Indices: 32356906--32356940 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32356896 TAGGAAATAA
32356906 AAAATG-AATATGTATAT
1 AAAATGTAA-ATGTATAT
32356923 AAAATGTAAATGTATAT
1 AAAATGTAAATGTATAT
32356940 A
1 A
32356941 TATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
AAAATGTAAATGTATAT
Found at i:32357103 original size:20 final size:20
Alignment explanation
Indices: 32357078--32357145 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
32357068 TATATAGTAA
*
32357078 TAATAATAATAATAATAAAT
1 TAATAAAAATAATAATAAAT
* *
32357098 TAATAACAAGAA-AATCAAATT
1 TAATAAAAATAATAAT-AAA-T
32357119 TAATAAAAATAAATAATAAA-
1 TAATAAAAAT-AATAATAAAT
32357139 TAATAAA
1 TAATAAA
32357146 TAAAAAAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.08
20 20 0.50
21 9 0.22
22 5 0.12
23 3 0.08
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (20 bp):
TAATAAAAATAATAATAAAT
Found at i:32357138 original size:7 final size:7
Alignment explanation
Indices: 32357119--32357148 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
32357109 AAATCAAATT
32357119 TAATAAA
1 TAATAAA
32357126 -AATAAA
1 TAATAAA
32357132 TAATAAA
1 TAATAAA
32357139 TAATAAA
1 TAATAAA
32357146 TAA
1 TAA
32357149 AAAAAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:32357469 original size:19 final size:20
Alignment explanation
Indices: 32357445--32357489 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
32357435 CAGATCTTCG
32357445 AAGATTGC-ATATCATATCT
1 AAGATTGCAATATCATATCT
32357464 AAGATTGCATATATCATATCT
1 AAGATTGCA-ATATCATATCT
32357485 AAGAT
1 AAGAT
32357490 CATATCTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (20 bp):
AAGATTGCAATATCATATCT
Found at i:32357509 original size:14 final size:12
Alignment explanation
Indices: 32357476--32357501 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32357466 GATTGCATAT
32357476 ATCATATCTAAG
1 ATCATATCTAAG
32357488 ATCATATCTAAG
1 ATCATATCTAAG
32357500 AT
1 AT
32357502 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Done.